Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 15 of 427
Found at i:4191621 original size:29 final size:30
Alignment explanation
Indices: 4191574--4191639 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
4191564 CAAGCTATAT
* * *
4191574 AGAATGAAAGTAAATGGACTAAATTGA-ACA
1 AGAAT-AAAGTAAAAGGACTAAACTGATAAA
4191604 AGAATAAAGTAAAAGGACTAAACTGATAAA
1 AGAATAAAGTAAAAGGACTAAACTGATAAA
4191634 AGAATA
1 AGAATA
4191640 GTTCAAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (30 bp):
AGAATAAAGTAAAAGGACTAAACTGATAAA
Found at i:4194821 original size:59 final size:58
Alignment explanation
Indices: 4194752--4194865 Score: 183
Period size: 58 Copynumber: 1.9 Consensus size: 58
4194742 CGATATTATA
* *
4194752 AAAGACATGAATGAAATAATAAAGCCCGAAAAATATATTTGGACAAATATTTGATTAAT
1 AAAGACATGAATAAAATAATAAAACCCG-AAAATATATTTGGACAAATATTTGATTAAT
* *
4194811 AAAGATATGAATAAAATAATAAAACCCGAAAATATATTTGGATAAATATTTGATT
1 AAAGACATGAATAAAATAATAAAACCCGAAAATATATTTGGACAAATATTTGATT
4194866 CATTAACTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 26 0.51
59 25 0.49
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (58 bp):
AAAGACATGAATAAAATAATAAAACCCGAAAATATATTTGGACAAATATTTGATTAAT
Found at i:4195077 original size:133 final size:133
Alignment explanation
Indices: 4194929--4195204 Score: 527
Period size: 133 Copynumber: 2.1 Consensus size: 133
4194919 TGTACAAAAA
4194929 AATGAAAAAAAGAAAATATAACTTTAAACTTTTTAATAATCAAAGTCTAAGTTCTAAATTCAACT
1 AATGAAAAAAAGAAAATATAACTTTAAACTTTTTAATAATCAAAGTCTAAGTTCTAAATTCAACT
*
4194994 TGTTTTTGAATTTATAATGTTTTTATTTCTATTTTATGATTTATTACACATTAAAATTAAATACA
66 TGTTTTTGAATTTATAATGTTTTTATTTCTATTATATGATTTATTACACATTAAAATTAAATACA
4195059 GAT
131 GAT
4195062 AATGAAAAAAAGAAAATATAACTTTAAACTTTTTAATAATCAAAGTCTAAGTTCTAAATTCAACT
1 AATGAAAAAAAGAAAATATAACTTTAAACTTTTTAATAATCAAAGTCTAAGTTCTAAATTCAACT
4195127 TGTTTTTGAATTTATAATGTTTTTATTTCTATTATATGATTTATTACACATTAAAATTAAATACA
66 TGTTTTTGAATTTATAATGTTTTTATTTCTATTATATGATTTATTACACATTAAAATTAAATACA
4195192 GAT
131 GAT
*
4195195 -ATCAAAAAAA
1 AATGAAAAAAA
4195205 TCTTATATTG
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
132 9 0.06
133 132 0.94
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (133 bp):
AATGAAAAAAAGAAAATATAACTTTAAACTTTTTAATAATCAAAGTCTAAGTTCTAAATTCAACT
TGTTTTTGAATTTATAATGTTTTTATTTCTATTATATGATTTATTACACATTAAAATTAAATACA
GAT
Found at i:4197219 original size:26 final size:25
Alignment explanation
Indices: 4197171--4197219 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4197161 AAAAAAGAAA
* *
4197171 AAAAAAATGAAGAAATAAGATAATT
1 AAAAAAATGAAAAAATAAAATAATT
*
4197196 AAAATAATGAAAAAAGTAAAATAA
1 AAAAAAATGAAAAAA-TAAAATAA
4197220 CTTGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.18
Consensus pattern (25 bp):
AAAAAAATGAAAAAATAAAATAATT
Found at i:4202846 original size:14 final size:14
Alignment explanation
Indices: 4202827--4202853 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4202817 AAATTTAACA
4202827 AATACCTTTAAAAT
1 AATACCTTTAAAAT
4202841 AATACCTTTAAAA
1 AATACCTTTAAAA
4202854 GATTAACACC
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:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (14 bp):
AATACCTTTAAAAT
Found at i:4206306 original size:6 final size:6
Alignment explanation
Indices: 4206295--4206349 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
4206285 AGCACTATGG
* * * * *
4206295 TGGTGA TGGTGA TGGTGG TGGTGA TGGTGG TGGTGG TGGTGG TGATGA
1 TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA TGGTGA
*
4206343 TGATGA T
1 TGGTGA T
4206350 TACTGTGGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.13, C:0.00, G:0.53, T:0.35
Consensus pattern (6 bp):
TGGTGA
Found at i:4206313 original size:3 final size:3
Alignment explanation
Indices: 4206292--4206338 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
4206282 ATCAGCACTA
* * *
4206292 TGG TGG TGA TGG TGA TGG TGG TGG TGA TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
4206339 ATGATGATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.06, C:0.00, G:0.60, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:4206316 original size:12 final size:12
Alignment explanation
Indices: 4206295--4206344 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
4206285 AGCACTATGG
*
4206295 TGGTGATGGTGA
1 TGGTGGTGGTGA
4206307 TGGTGGTGGTGA
1 TGGTGGTGGTGA
*
4206319 TGGTGGTGGTGG
1 TGGTGGTGGTGA
*
4206331 TGGTGGTGATGA
1 TGGTGGTGGTGA
4206343 TG
1 TG
4206345 ATGATTACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.10, C:0.00, G:0.56, T:0.34
Consensus pattern (12 bp):
TGGTGGTGGTGA
Found at i:4207666 original size:169 final size:168
Alignment explanation
Indices: 4207478--4207782 Score: 436
Period size: 169 Copynumber: 1.8 Consensus size: 168
4207468 ATAAATAACT
* *
4207478 ACAACAATTATTATATGAATGCAGAGATTAATAACCAAATTGATACATCAAAAATAATTCTCAAA
1 ACAACAATGATTATATGAATGCAGAGATCAATAACCAAATTGATACATCAAAAATAATTCTCAAA
* * *
4207543 CCAATACCGATGACAAGTACTT-ATATGCAA-TATACGTGACATAACATCCAATAG-TAATTGAT
66 CCAACACCGATAACAAGTA-TTCATATACAACT-TACGTGACATAACATCCAAT-GCTAA-TGAT
4207605 CTATGAAATGCTGAACAATTCAGTCAGAAAACCGTATAAACA
127 CTATGAAATGCTGAACAATTCAGTCAGAAAACCGTATAAACA
* * * * *
4207647 ACAACAATGGTTATATGAATGTAGAGATCAATAACCAAGTTGATACATCAAATATAATTCTGAAA
1 ACAACAATGATTATATGAATGCAGAGATCAATAACCAAATTGATACATCAAAAATAATTCTCAAA
* * *
4207712 CCAACACCGATAACATGTATTCATATACAACTTATGTGACATAACTTCCAATGCTAATGATCTAT
66 CCAACACCGATAACAAGTATTCATATACAACTTACGTGACATAACATCCAATGCTAATGATCTAT
4207777 GAAATG
131 GAAATG
4207783 TTTAACAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
168 17 0.14
169 102 0.85
170 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (168 bp):
ACAACAATGATTATATGAATGCAGAGATCAATAACCAAATTGATACATCAAAAATAATTCTCAAA
CCAACACCGATAACAAGTATTCATATACAACTTACGTGACATAACATCCAATGCTAATGATCTAT
GAAATGCTGAACAATTCAGTCAGAAAACCGTATAAACA
Found at i:4209162 original size:13 final size:13
Alignment explanation
Indices: 4209144--4209173 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4209134 TTTGGGATTT
4209144 TTTTATTTTTTAA
1 TTTTATTTTTTAA
4209157 TTTTATTTTTTAA
1 TTTTATTTTTTAA
4209170 TTTT
1 TTTT
4209174 TACAGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:4210177 original size:2 final size:2
Alignment explanation
Indices: 4210170--4210211 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4210160 GCCCTCAAGA
4210170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4210212 CTAAATAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4211981 original size:3 final size:3
Alignment explanation
Indices: 4211973--4212003 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4211963 GATTAAATCA
4211973 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4212004 AGGAGTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4215540 original size:11 final size:11
Alignment explanation
Indices: 4215524--4215548 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4215514 TATTAATCAT
4215524 AAAAAATTATA
1 AAAAAATTATA
4215535 AAAAAATTATA
1 AAAAAATTATA
4215546 AAA
1 AAA
4215549 GCACTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:4217583 original size:8 final size:8
Alignment explanation
Indices: 4217551--4217600 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
4217541 TTATATTTTA
4217551 TAATATTT
1 TAATATTT
*
4217559 ATAA-GTTT
1 -TAATATTT
4217567 T-ATATTTT
1 TAATA-TTT
4217575 TAATATTTT
1 TAATA-TTT
4217584 TAATATTT
1 TAATATTT
4217592 TAATATTT
1 TAATATTT
4217600 T
1 T
4217601 TCTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 1 0.03
7 1 0.03
8 19 0.53
9 15 0.42
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TAATATTT
Found at i:4217584 original size:17 final size:17
Alignment explanation
Indices: 4217538--4217601 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
4217528 TTATTAGATT
4217538 TTTTTATATTTTATAATA
1 TTTTTATATTTT-TAATA
* *
4217556 TTTATA-AGTTTT-ATA
1 TTTTTATATTTTTAATA
4217571 TTTTTAATATTTTTAATA
1 TTTTT-ATATTTTTAATA
*
4217589 TTTTAATATTTTT
1 TTTTTATATTTTT
4217602 CTTTTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 7 0.18
16 2 0.05
17 17 0.45
18 12 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATATTTTTAATA
Found at i:4217601 original size:9 final size:9
Alignment explanation
Indices: 4217537--4217601 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
4217527 ATTATTAGAT
*
4217537 TTTTTTATA
1 TTTTTAATA
4217546 TTTTATAATA
1 TTTT-TAATA
*
4217556 TTTAT-A-A
1 TTTTTAATA
*
4217563 GTTTT-ATA
1 TTTTTAATA
4217571 TTTTTAATA
1 TTTTTAATA
4217580 TTTTTAATA
1 TTTTTAATA
4217589 -TTTTAATA
1 TTTTTAATA
4217597 TTTTT
1 TTTTT
4217602 CTTTTTTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
7 5 0.11
8 14 0.30
9 21 0.45
10 7 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:4217613 original size:23 final size:25
Alignment explanation
Indices: 4217564--4217644 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 25
4217554 TATTTATAAG
*
4217564 TTTT-ATATTT-TTAATATTTTTAATA
1 TTTTAATATTTGTTAAT-TTTTT-TTA
*
4217589 TTTTAATATTT-TT-CTTTTTTTTA
1 TTTTAATATTTGTTAATTTTTTTTA
* *
4217612 TTCTAAT-TTTGTTAATTTTTTTGA
1 TTTTAATATTTGTTAATTTTTTTTA
4217636 TGTTTAATA
1 T-TTTAATA
4217645 ATTTCTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.07
23 10 0.22
24 14 0.31
25 10 0.22
26 8 0.18
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTAATATTTGTTAATTTTTTTTA
Found at i:4218948 original size:24 final size:24
Alignment explanation
Indices: 4218921--4218985 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 24
4218911 TGTTATTAGT
*
4218921 TCTCATGAGCATCCCGATATTGGC
1 TCTCATAAGCATCCCGATATTGGC
* * * *
4218945 TCTCTTAATCTTCCTGATATATGGC
1 TCTCATAAGCATCCCGATAT-TGGC
* *
4218970 TCTCACAAGCTTCCCG
1 TCTCATAAGCATCCCG
4218986 TTAATAGCTC
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
24 15 0.48
25 16 0.52
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.34
Consensus pattern (24 bp):
TCTCATAAGCATCCCGATATTGGC
Found at i:4218982 original size:25 final size:24
Alignment explanation
Indices: 4218936--4218983 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
4218926 TGAGCATCCC
** *
4218936 GATATTGGCTCTCTTAATCTTCCT
1 GATATTGGCTCTCACAAGCTTCCT
4218960 GATATATGGCTCTCACAAGCTTCC
1 GATAT-TGGCTCTCACAAGCTTCC
4218984 CGTTAATAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.38
Consensus pattern (24 bp):
GATATTGGCTCTCACAAGCTTCCT
Found at i:4219122 original size:25 final size:25
Alignment explanation
Indices: 4219048--4219122 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
4219038 ACACACCGCA
* * *
4219048 GCTCTTATGAGCGTCCCGATTAATA
1 GCTCTTATGAGCTTCCTGATTAATG
*** * *
4219073 GCTCTCCGGAGCTTCCTAATAAATG
1 GCTCTTATGAGCTTCCTGATTAATG
*
4219098 GCTCTTATGAGCTTTCTGATTAATG
1 GCTCTTATGAGCTTCCTGATTAATG
4219123 ATTCTCGGGA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCTGATTAATG
Found at i:4219164 original size:24 final size:24
Alignment explanation
Indices: 4219137--4219187 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
4219127 TCGGGAACTA
4219137 CCCAA-TATTGGCTCGCATGAGCTT
1 CCCAATTA-TGGCTCGCATGAGCTT
**
4219161 CCCAATTATGGCTCTTATGAGCTT
1 CCCAATTATGGCTCGCATGAGCTT
4219185 CCC
1 CCC
4219188 GTTACAAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (24 bp):
CCCAATTATGGCTCGCATGAGCTT
Found at i:4221047 original size:23 final size:23
Alignment explanation
Indices: 4221011--4221058 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4221001 AAAGTTGAAA
*
4221011 AAAAAAACTTAAGTATCAAATTG
1 AAAAAAACTTAAGTACCAAATTG
*
4221034 AAAAAAA-TTCAAGTACCAATTTG
1 AAAAAAACTT-AAGTACCAAATTG
4221057 AA
1 AA
4221059 TATTGAAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (23 bp):
AAAAAAACTTAAGTACCAAATTG
Found at i:4222642 original size:79 final size:79
Alignment explanation
Indices: 4222511--4222675 Score: 294
Period size: 79 Copynumber: 2.1 Consensus size: 79
4222501 ATAGAGAGAC
*
4222511 AAATTTAGGTAAATAACTTTAAAATTATGTTACAGATTCTATTTTGAATTTTAACCACCGACCTC
1 AAATTTAGGTAAATAACTTTAAAATTATGTTACAGATTCTATTTCGAATTTTAACCACCGACCTC
*
4222576 TTATTCACCGGTAA
66 TTATTCACCGATAA
4222590 AAATTTAGGTAAATAACTTTAAAATTATGTTACAGATTCTATTTCGAATTTTAACCACCGACCTC
1 AAATTTAGGTAAATAACTTTAAAATTATGTTACAGATTCTATTTCGAATTTTAACCACCGACCTC
*
4222655 TTATTTACCGATAA
66 TTATTCACCGATAA
4222669 AACATTT
1 AA-ATTT
4222676 TAACTTTTAT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
79 78 0.95
80 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (79 bp):
AAATTTAGGTAAATAACTTTAAAATTATGTTACAGATTCTATTTCGAATTTTAACCACCGACCTC
TTATTCACCGATAA
Found at i:4224435 original size:141 final size:146
Alignment explanation
Indices: 4224263--4224624 Score: 398
Period size: 151 Copynumber: 2.5 Consensus size: 146
4224253 CGAATAATGT
* *
4224263 GAATAATGTGACGTGCCTTCATAACTTATGTTACTTAAACTTACGTGTATGTTGAATATGAATAT
1 GAATAATGTGACATGCCTTCATAACTTATGTTACTTAAACTTAAGTG--TGTTGAATATGAATAT
*
4224328 GTAT-C-C-GATAC-A-A-GAG-TATTCTAAAGCCTTTCATTAAATGATGGGTCCTTTGAGA-CA
64 GTATCCACAGATACAATACGAGATATTCTAAAGCCTTTCATTAAATGAAGGGTCCTTTGAGATC-
4224385 ATATTCTCATATCATATGC
128 ATATTCTCATATCATATGC
* * ** * *
4224404 GAATAATGTAACATGCCTTCATAACTTATGTTGCTCGAACTTAAGTGTGTTGGATATGGATATGT
1 GAATAATGTGACATGCCTTCATAACTTATGTTACTTAAACTTAAGTGTGTTGAATATGAATATGT
* * *
4224469 ATCCGATACAGATACAGATACGAGACTTTTCTAAGGCTTTTCATTAAATGAAGGGTCCTTTGAGA
66 ATCC---ACAGATACA-ATACGAGA-TATTCTAAAGCCTTTCATTAAATGAAGGGTCCTTTGAGA
* *
4224534 TCATATTCTCGTATCTTATGC
126 TCATATTCTCATATCATATGC
* * **** * *
4224555 GAATAATGTGACATACTTTCATAACTTATGTTACTTGGGTTTAAGTGTGTTGGATATGGATATGT
1 GAATAATGTGACATGCCTTCATAACTTATGTTACTTAAACTTAAGTGTGTTGAATATGAATATGT
4224620 ATCCA
66 ATCCA
4224625 ATATGGATAT
Statistics
Matches: 186, Mismatches: 22, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
139 18 0.10
140 1 0.01
141 41 0.22
144 1 0.01
145 5 0.03
147 1 0.01
148 2 0.01
149 3 0.02
151 113 0.61
152 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (146 bp):
GAATAATGTGACATGCCTTCATAACTTATGTTACTTAAACTTAAGTGTGTTGAATATGAATATGT
ATCCACAGATACAATACGAGATATTCTAAAGCCTTTCATTAAATGAAGGGTCCTTTGAGATCATA
TTCTCATATCATATGC
Found at i:4224525 original size:151 final size:151
Alignment explanation
Indices: 4224346--4224623 Score: 423
Period size: 151 Copynumber: 1.8 Consensus size: 151
4224336 TACAAGAGTA
*
4224346 TTCTAAAGCCTTTCATTAAATGATGGGTCCTTTGAGA-CAATATTCTCATATCATATGCGAATAA
1 TTCTAAAGCCTTTCATTAAATGAAGGGTCCTTTGAGATC-ATATTCTCATATCATATGCGAATAA
* *
4224410 TGTAACATGCCTTCATAACTTATGTTGCTCGAACTTAAGTGTGTTGGATATGGATATGTATCCGA
65 TGTAACATACCTTCATAACTTATGTTACTCGAACTTAAGTGTGTTGGATATGGATATGTATCCGA
4224475 TACAGATACAGATACGAGACTT
130 TACAGATACAGATACGAGACTT
* * * *
4224497 TTCTAAGGCTTTTCATTAAATGAAGGGTCCTTTGAGATCATATTCTCGTATCTTATGCGAATAAT
1 TTCTAAAGCCTTTCATTAAATGAAGGGTCCTTTGAGATCATATTCTCATATCATATGCGAATAAT
* * * ***
4224562 GTGACATACTTTCATAACTTATGTTACTTGGGTTTAAGTGTGTTGGATATGGATATGTATCC
66 GTAACATACCTTCATAACTTATGTTACTCGAACTTAAGTGTGTTGGATATGGATATGTATCC
4224624 AATATGGATA
Statistics
Matches: 113, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
151 112 0.99
152 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (151 bp):
TTCTAAAGCCTTTCATTAAATGAAGGGTCCTTTGAGATCATATTCTCATATCATATGCGAATAAT
GTAACATACCTTCATAACTTATGTTACTCGAACTTAAGTGTGTTGGATATGGATATGTATCCGAT
ACAGATACAGATACGAGACTT
Found at i:4229743 original size:102 final size:101
Alignment explanation
Indices: 4229567--4229772 Score: 245
Period size: 102 Copynumber: 2.0 Consensus size: 101
4229557 AATATAGTTA
* * * * * *
4229567 CCAAATTGCTTCATACTATACACACACAGACACATATAGGGTTCAAATTTGGTACACTGCCAATG
1 CCAAATCGCTTCACACTATACACACACACACACATATAGGGTTCAAATTCGGTACACAGCCAATA
* * * *
4229632 GAATTTTTTAACTCCATAATGGAG-TAAAAAAACTG
66 CAATCTTTTAACTCCACAAAGGAGTTAAAAAAACTG
* * *
4229667 CCAAATCGCTTCACACTATACACGCACACACATATATATAGGGTTCGAATTCGGTACACCAG-CA
1 CCAAATCGCTTCACACTATACA--CACACACACACATATAGGGTTCAAATTCGGTACA-CAGCCA
*
4229731 ATACAATCTTTTAATTCCACAAAGGAGTTAAAAAAACTG
63 ATACAATCTTTTAACTCCACAAAGGAGTTAAAAAAACTG
4229770 CCA
1 CCA
4229773 CATGTCCTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
100 20 0.23
102 52 0.59
103 16 0.18
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (101 bp):
CCAAATCGCTTCACACTATACACACACACACACATATAGGGTTCAAATTCGGTACACAGCCAATA
CAATCTTTTAACTCCACAAAGGAGTTAAAAAAACTG
Found at i:4232442 original size:2 final size:2
Alignment explanation
Indices: 4232435--4232468 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4232425 TTAAAATTAC
4232435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4232469 GCTGATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4234741 original size:156 final size:157
Alignment explanation
Indices: 4234453--4234748 Score: 357
Period size: 156 Copynumber: 1.9 Consensus size: 157
4234443 CTATTGGCAG
* *
4234453 TGCCTTTATTTAGTTTCCAGTAACTTAATTAGCTTAGATTTCTCCAAATCGTTGAGAAAACGAAG
1 TGCCTTTATTTAGTTTCCAGGAACTTAATTAGCTTAGAGTTCTCCAAATCGTTGAGAAAACGAAG
* * * *
4234518 TCACGAATCAATTTGATTTGTATGAAATGAAAAACGGCGGTGGGGAAGACTCGGTGCATAAACCT
66 TCACGAATCAATTTGATTTGTATGAAATGAAAAACGACGATGGGCAAGACTAGGTGCATAAACCT
4234583 AGGGTTTTGATTTGAATTTATTAGCGT
131 AGGGTTTTGATTTGAATTTATTAGCGT
* * * * * *
4234610 TGCCTTTATTTAGATTT-TAGGAACTTTAATTAGTTTAGGGTTCTCTAAATTGTTGAG-AATCGA
1 TGCCTTTATTTAG-TTTCCAGGAAC-TTAATTAGCTTAGAGTTCTCCAAATCGTTGAGAAAACGA
** * * * * *
4234673 AGTGTCG-ATCAATTTGATTTGTGTGATATGGAAGACGACGATGGGCAAGACTATGTAG-ATAAA
64 AGTCACGAATCAATTTGATTTGTATGAAATGAAAAACGACGATGGGCAAGACTAGGT-GCATAAA
*
4234736 TCTAGGGTTTTGA
128 CCTAGGGTTTTGA
4234749 ATGTGCCGCC
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
156 57 0.49
157 29 0.25
158 30 0.26
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (157 bp):
TGCCTTTATTTAGTTTCCAGGAACTTAATTAGCTTAGAGTTCTCCAAATCGTTGAGAAAACGAAG
TCACGAATCAATTTGATTTGTATGAAATGAAAAACGACGATGGGCAAGACTAGGTGCATAAACCT
AGGGTTTTGATTTGAATTTATTAGCGT
Found at i:4245692 original size:22 final size:22
Alignment explanation
Indices: 4245667--4245708 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4245657 AATAAATAAA
4245667 TAAATAAA-TTAAAATAAAATTT
1 TAAA-AAATTTAAAATAAAATTT
*
4245689 TAAAAAATTTAAATTAAAAT
1 TAAAAAATTTAAAATAAAAT
4245709 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAAAATTTAAAATAAAATTT
Found at i:4259237 original size:20 final size:21
Alignment explanation
Indices: 4259212--4259250 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4259202 GTTTGTATTT
*
4259212 TTTTTTCT-ATTTTTTTAAAA
1 TTTTTTCTGAATTTTTTAAAA
4259232 TTTTTTCTGAATTTTTTAA
1 TTTTTTCTGAATTTTTTAA
4259251 TCTTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTTTTCTGAATTTTTTAAAA
Found at i:4259555 original size:12 final size:13
Alignment explanation
Indices: 4259538--4259566 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4259528 ATTTGTTCGA
4259538 TTTTGCTTT-ATT
1 TTTTGCTTTGATT
4259550 TTTTGCTTTGATT
1 TTTTGCTTTGATT
4259563 TTTT
1 TTTT
4259567 ATTTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTTGCTTTGATT
Found at i:4268331 original size:70 final size:70
Alignment explanation
Indices: 4268248--4268380 Score: 212
Period size: 70 Copynumber: 1.9 Consensus size: 70
4268238 ACATTTTAAA
* * *
4268248 AGCACGGTTAAGTGTTGGGTAATGGGTTTAGTGGTAAGTCATATTGAAGTCGTATTCATATTTAA
1 AGCACAGTTAAGTGTTGGGTAATGAGTTTAGTGGTAAGTCATATTGAAGTCGTATTCAAATTTAA
4268313 ATTTT
66 ATTTT
* * *
4268318 AGCACAGTTAAGTGTTGGGTATTGAGTTTAGTGGTGAGTCATATTGAATTCGTATTCAAATTT
1 AGCACAGTTAAGTGTTGGGTAATGAGTTTAGTGGTAAGTCATATTGAAGTCGTATTCAAATTT
4268381 TAGAAGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.40
Consensus pattern (70 bp):
AGCACAGTTAAGTGTTGGGTAATGAGTTTAGTGGTAAGTCATATTGAAGTCGTATTCAAATTTAA
ATTTT
Found at i:4270720 original size:11 final size:12
Alignment explanation
Indices: 4270695--4270723 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
4270685 TCAAACTTTT
4270695 TATTTTAATATA
1 TATTTTAATATA
4270707 TATTTTAA-ATA
1 TATTTTAATATA
4270718 TATTTT
1 TATTTT
4270724 TTATTAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTTTAATATA
Found at i:4273762 original size:2 final size:2
Alignment explanation
Indices: 4273725--4273749 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4273715 GGAGAATTAT
4273725 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 T
4273750 TTTACATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4280838 original size:23 final size:23
Alignment explanation
Indices: 4280812--4280856 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4280802 AAAAATTATA
4280812 ATTTCTTTACAATT-TTTATTTTT
1 ATTTCTTTA-AATTATTTATTTTT
* *
4280835 ATTTTTTTAGATTATTTATTTT
1 ATTTCTTTAAATTATTTATTTT
4280857 GAAATTCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
ATTTCTTTAAATTATTTATTTTT
Found at i:4281820 original size:26 final size:26
Alignment explanation
Indices: 4281791--4281850 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
4281781 ATAATATTAC
*
4281791 ATTCAAATAACTATAAT-AAAATCTAT
1 ATTCAAA-AACTAGAATAAAAATCTAT
* *
4281817 ATTCAAAAAGTAGAATAAAAATCTAA
1 ATTCAAAAACTAGAATAAAAATCTAT
*
4281843 ATTTAAAA
1 ATTCAAAA
4281851 GTAACTTCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.30
Consensus pattern (26 bp):
ATTCAAAAACTAGAATAAAAATCTAT
Found at i:4285429 original size:2 final size:2
Alignment explanation
Indices: 4285424--4285454 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4285414 TTTGGAAAAA
4285424 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4285455 AAATTGTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4291031 original size:26 final size:26
Alignment explanation
Indices: 4290994--4291129 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
4290984 TGATATAAAT
* *
4290994 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4291020 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
4291046 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4291072 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4291098 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
4291124 TGATAA
1 TGATAA
4291130 GAATATCATT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:4294069 original size:15 final size:15
Alignment explanation
Indices: 4294049--4294080 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4294039 CTGACCCTTC
4294049 TTCACTAAAAATAAA
1 TTCACTAAAAATAAA
4294064 TTCACTAAAAATAAA
1 TTCACTAAAAATAAA
4294079 TT
1 TT
4294081 ATCTCTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACTAAAAATAAA
Found at i:4297038 original size:12 final size:13
Alignment explanation
Indices: 4297021--4297049 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4297011 AGAAACTGGT
4297021 ATGATTCTGT-AA
1 ATGATTCTGTGAA
4297033 ATGATTCTGTGAA
1 ATGATTCTGTGAA
4297046 ATGA
1 ATGA
4297050 ATGTAGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (13 bp):
ATGATTCTGTGAA
Found at i:4300182 original size:46 final size:46
Alignment explanation
Indices: 4300132--4300307 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
4300122 TGGTTGAGCA
4300132 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
4300178 TCCGAACTCGTTGAGTTGAATCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
4300223 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
4300271 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4300308 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:4300288 original size:93 final size:93
Alignment explanation
Indices: 4300129--4300299 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
4300119 GGATGGTTGA
* * *
4300129 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
4300194 TGAATCCGAGTTCATGAGATGTAACTAG
66 TGAATCCGAGTTCATGAGATGTAACTAG
*
4300222 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
*
4300287 TGAGTCCGAGTTC
66 TGAATCCGAGTTC
4300300 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCATGAGATGTAACTAG
Found at i:4307308 original size:69 final size:69
Alignment explanation
Indices: 4307216--4307459 Score: 251
Period size: 69 Copynumber: 3.6 Consensus size: 69
4307206 GTGAACTCCA
* * * * *
4307216 TATATTGCCATAGCCAAGCTATGGTTTTGCACATCATGT-TTCATGTTTAATGTCCTGACAGAAT
1 TATATTGCCATAGCCGAGCTATGGTCTTACACATTAT-TACTCATGTTTAATGTCCTGACAGAAT
*
4307280 CTTTC
65 CTCTC
** * * * * * * *** *
4307285 TATATTGCCATAGTTGAGTTATGGTCTTAGACATTATTCCCCATG-CTAATGACCTGGGGGACTC
1 TATATTGCCATAGCCGAGCTATGGTCTTACACATTATTACTCATGTTTAATGTCCTGACAGAATC
4307349 TCTC
66 TCTC
* *
4307353 TATGTTGCCATAGCCGAGCTATGGTCTTACACATTATTACTCATGTTTAATGTCATGACA-AACT
1 TATATTGCCATAGCCGAGCTATGGTCTTACACATTATTACTCATGTTTAATGTCCTGACAGAA-T
4307417 CTCTC
65 CTCTC
**
4307422 TATATTGCCATAGTTGAGCTATGGTCTTACACATTATT
1 TATATTGCCATAGCCGAGCTATGGTCTTACACATTATT
4307460 CCCCATTACA
Statistics
Matches: 138, Mismatches: 34, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
68 56 0.41
69 82 0.59
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (69 bp):
TATATTGCCATAGCCGAGCTATGGTCTTACACATTATTACTCATGTTTAATGTCCTGACAGAATC
TCTC
Found at i:4310518 original size:22 final size:23
Alignment explanation
Indices: 4310475--4310518 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4310465 TAAAGAAATA
**
4310475 CACCGAAGTGCCACTATCACTAG
1 CACCGAAGTGCCAAAATCACTAG
4310498 CACCGAAGTG-CAAAATCACTA
1 CACCGAAGTGCCAAAATCACTA
4310519 AATTGTACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (23 bp):
CACCGAAGTGCCAAAATCACTAG
Found at i:4312730 original size:53 final size:53
Alignment explanation
Indices: 4312645--4312758 Score: 219
Period size: 53 Copynumber: 2.2 Consensus size: 53
4312635 GTCATTGTTC
*
4312645 AATGATTTATGTAACACATTTTCTCTCTTACATTTCTTTTTTTGATTTGATAT
1 AATGCTTTATGTAACACATTTTCTCTCTTACATTTCTTTTTTTGATTTGATAT
4312698 AATGCTTTATGTAACACATTTTCTCTCTTACATTTCTTTTTTTGATTTGATAT
1 AATGCTTTATGTAACACATTTTCTCTCTTACATTTCTTTTTTTGATTTGATAT
4312751 AATGCTTT
1 AATGCTTT
4312759 TCGTATTTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (53 bp):
AATGCTTTATGTAACACATTTTCTCTCTTACATTTCTTTTTTTGATTTGATAT
Found at i:4314910 original size:12 final size:13
Alignment explanation
Indices: 4314893--4314922 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4314883 TTAATGTAAT
4314893 AAAAAT-AAAATA
1 AAAAATAAAAATA
4314905 AAAAATAAAAATA
1 AAAAATAAAAATA
4314918 AAAAA
1 AAAAA
4314923 CAAGCACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:4316415 original size:2 final size:2
Alignment explanation
Indices: 4316410--4316434 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4316400 ATACTTAATA
4316410 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 A
4316435 CACACCAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4318168 original size:3 final size:3
Alignment explanation
Indices: 4318160--4318202 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
4318150 ATACCCTTTT
*
4318160 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4318203 AATGTAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4325383 original size:33 final size:33
Alignment explanation
Indices: 4325341--4325406 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4325331 TATAAATGTG
4325341 GAATTGTATTCATATTGAGATGAATTATGCTAT
1 GAATTGTATTCATATTGAGATGAATTATGCTAT
4325374 GAATTGTATTCATATTGAGATGAATTATGCTAT
1 GAATTGTATTCATATTGAGATGAATTATGCTAT
4325407 CATATGCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (33 bp):
GAATTGTATTCATATTGAGATGAATTATGCTAT
Found at i:4325851 original size:7 final size:7
Alignment explanation
Indices: 4325841--4325869 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4325831 AAAAATAACA
4325841 GTGAAAT
1 GTGAAAT
4325848 GTGAAAT
1 GTGAAAT
4325855 GTGAAAT
1 GTGAAAT
4325862 GTGAAAT
1 GTGAAAT
4325869 G
1 G
4325870 AAATATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (7 bp):
GTGAAAT
Found at i:4332547 original size:46 final size:47
Alignment explanation
Indices: 4332489--4332705 Score: 329
Period size: 46 Copynumber: 4.7 Consensus size: 47
4332479 CCATAGTGTT
* * * *
4332489 TTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTATC
* *
4332535 TTTCAACCATGGTCTTGA-TCA-TTTCATATCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTT-ACACATTTTCATATCAGGTTGCCATGGTATC
4332581 TTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTATC
4332627 TTTCAACCATGGTCTTACACATTTT-ATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTATC
4332673 TTTCAACCATGGTCTTACACATTTT-ATATCAGG
1 TTTCAACCATGGTCTTACACATTTTCATATCAGG
4332706 AGCACACTCC
Statistics
Matches: 162, Mismatches: 5, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
45 5 0.03
46 153 0.94
47 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TTTCAACCATGGTCTTACACATTTTCATATCAGGTTGCCATGGTATC
Found at i:4334855 original size:11 final size:11
Alignment explanation
Indices: 4334839--4334890 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
4334829 TATACTAAAT
4334839 AAATAATAATA
1 AAATAATAATA
*
4334850 AAATAAT-ATT
1 AAATAATAATA
* *
4334860 AAATATCTCATA
1 AAATA-ATAATA
*
4334872 AAATATTAATA
1 AAATAATAATA
4334883 AAATAATA
1 AAATAATA
4334891 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:4337791 original size:46 final size:47
Alignment explanation
Indices: 4337731--4337958 Score: 331
Period size: 46 Copynumber: 5.0 Consensus size: 47
4337721 TTTGACATGA
* * * * * *
4337731 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*** *
4337777 TGCCATGGTATCTTTCAACCATGGTCTTGTTCA-TTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
4337823 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
4337869 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
4337915 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-ATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
4337959 AGAGCACACT
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 4 0.02
46 162 0.96
47 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:4340107 original size:11 final size:11
Alignment explanation
Indices: 4340091--4340142 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
4340081 TATACTAAAT
4340091 AAATAATAATA
1 AAATAATAATA
*
4340102 AAATAAT-ATT
1 AAATAATAATA
* *
4340112 AAATATCTCATA
1 AAATA-ATAATA
*
4340124 AAATATTAATA
1 AAATAATAATA
4340135 AAATAATA
1 AAATAATA
4340143 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:4341890 original size:20 final size:20
Alignment explanation
Indices: 4341861--4341899 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4341851 TCAACCATCG
4341861 GTCAACCGTTAAAGTTAACT
1 GTCAACCGTTAAAGTTAACT
*
4341881 GTCAATCGTTAAAGTTAAC
1 GTCAACCGTTAAAGTTAAC
4341900 GGTAAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (20 bp):
GTCAACCGTTAAAGTTAACT
Found at i:4342102 original size:90 final size:89
Alignment explanation
Indices: 4341930--4342105 Score: 246
Period size: 90 Copynumber: 2.0 Consensus size: 89
4341920 GCATTTTGAT
* * *
4341930 AATTGAGTGCAAAAAATAAGCAGGGACTTAATTGCTTTTTTGAAAAAGTTTGAGGGACTTTTTGA
1 AATTGAGTGCAAAAAAAAAACAAGGACTTAATTGCTTTTTTGAAAAAGTTTGAGGGACTTTTTGA
** *
4341995 TGTATTTTGGCAATTCAAGTACCC
66 TACACTTTGGCAATTCAAGTACCC
* * *
4342019 AATTGAGTGCAAAAAAAAAACAATGAGTTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTG
1 AATTGAGTGCAAAAAAAAAACAAGGACTTAATTGC-TTTTTTGAAAAAGTTTGAGGGACTTTTTG
4342084 ATACACTTT-GCAAGTTCAAGTA
65 ATACACTTTGGCAA-TTCAAGTA
4342106 TTCAATGTGA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
89 34 0.45
90 42 0.55
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (89 bp):
AATTGAGTGCAAAAAAAAAACAAGGACTTAATTGCTTTTTTGAAAAAGTTTGAGGGACTTTTTGA
TACACTTTGGCAATTCAAGTACCC
Found at i:4342122 original size:89 final size:88
Alignment explanation
Indices: 4341957--4342122 Score: 210
Period size: 90 Copynumber: 1.9 Consensus size: 88
4341947 AAGCAGGGAC
** *
4341957 TTAATTGCTTTTTTGAAAAAGTTTGAGGGACTTTTTGATGTATTTTGGCAATTCAAGTACCCAAT
1 TTAATTGCTTTTTTGAAAAAGTTTGAGGGACTTTTTGATACACTTTGGCAATTCAAGTACCCAAT
**
4342022 TGAGTGCAAAAAAAAAACAATGAG
66 TGAG-AAAAAAAAAAAACAATGAG
* **
4342046 TTAATTGCTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATACACTTT-GCAAGTTCAAGTATTCA
1 TTAATTGC-TTTTTTGAAAAAGTTTGAGGGACTTTTTGATACACTTTGGCAA-TTCAAGTACCCA
*
4342110 A-TGTGAAAAAAAA
64 ATTGAGAAAAAAAA
4342123 TTGAGTGCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
88 6 0.09
89 15 0.23
90 45 0.68
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (88 bp):
TTAATTGCTTTTTTGAAAAAGTTTGAGGGACTTTTTGATACACTTTGGCAATTCAAGTACCCAAT
TGAGAAAAAAAAAAAACAATGAG
Found at i:4342954 original size:18 final size:18
Alignment explanation
Indices: 4342931--4342966 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4342921 CCCCTAGTTG
4342931 AATGGTTTAATTATTATT
1 AATGGTTTAATTATTATT
4342949 AATGGTTTAATTATTATT
1 AATGGTTTAATTATTATT
4342967 TAAGTGCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (18 bp):
AATGGTTTAATTATTATT
Found at i:4351362 original size:38 final size:38
Alignment explanation
Indices: 4351311--4351388 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
4351301 TGGCTATTCC
4351311 ATTGCCAACTATTTTACTTAAATTCATCACATATATAT
1 ATTGCCAACTATTTTACTTAAATTCATCACATATATAT
4351349 ATTGCCAACTATTTTACTTAAATTCATCACATATATAT
1 ATTGCCAACTATTTTACTTAAATTCATCACATATATAT
4351387 AT
1 AT
4351389 ATAACTGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (38 bp):
ATTGCCAACTATTTTACTTAAATTCATCACATATATAT
Found at i:4366290 original size:3 final size:3
Alignment explanation
Indices: 4366282--4366307 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4366272 AGTTTGATCG
4366282 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4366308 TTTACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4371028 original size:17 final size:18
Alignment explanation
Indices: 4370997--4371030 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4370987 CATTAACATA
4370997 ATTTAGGTATATATAATT
1 ATTTAGGTATATATAATT
*
4371015 ATTTA-GTATGTATAAT
1 ATTTAGGTATATATAAT
4371031 GAGGGGCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (18 bp):
ATTTAGGTATATATAATT
Found at i:4371335 original size:2 final size:2
Alignment explanation
Indices: 4371330--4371364 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4371320 ATATAAAAAG
4371330 AT AT AT AT 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 AT AT AT AT A
4371365 ATGTGTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4371840 original size:41 final size:42
Alignment explanation
Indices: 4371792--4371875 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
4371782 CGTTTTAGTC
*
4371792 AATATTTCTATTAAAAA-AACAATAAATTAACTCTTTTTGAA
1 AATATTTCTATTAAAAACAACAACAAATTAACTCTTTTTGAA
* *
4371833 AATATTTCTATTAAAAACATCAACAATTTAACTCTTTTTGAA
1 AATATTTCTATTAAAAACAACAACAAATTAACTCTTTTTGAA
4371875 A
1 A
4371876 GATTTATGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 17 0.44
42 22 0.56
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (42 bp):
AATATTTCTATTAAAAACAACAACAAATTAACTCTTTTTGAA
Found at i:4375326 original size:20 final size:20
Alignment explanation
Indices: 4375301--4375340 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4375291 TTTGGATGAC
4375301 TAAAATAAAAATTCTCTAAA
1 TAAAATAAAAATTCTCTAAA
4375321 TAAAATAAAAATTCTCTAAA
1 TAAAATAAAAATTCTCTAAA
4375341 AGTTGGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAATAAAAATTCTCTAAA
Found at i:4376239 original size:6 final size:6
Alignment explanation
Indices: 4376228--4376257 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
4376218 TACATGGTGA
4376228 CTATAT CTATAT CTATAT CTATAT CTATAT
1 CTATAT CTATAT CTATAT CTATAT CTATAT
4376258 GTGTGTATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
CTATAT
Found at i:4380762 original size:12 final size:13
Alignment explanation
Indices: 4380730--4380765 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
4380720 CAAACATTAT
4380730 AAAAATTAAATAA
1 AAAAATTAAATAA
4380743 AAATAATTAAAT-A
1 AAA-AATTAAATAA
4380756 AAAAATTAAA
1 AAAAATTAAA
4380766 CTTTCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 7 0.32
14 8 0.36
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAATTAAATAA
Found at i:4382570 original size:12 final size:12
Alignment explanation
Indices: 4382553--4382583 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4382543 TTTGGATGCC
4382553 GAGAAAATGAAA
1 GAGAAAATGAAA
4382565 GAGAAAATGAAA
1 GAGAAAATGAAA
4382577 GAGAAAA
1 GAGAAAA
4382584 CTCAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (12 bp):
GAGAAAATGAAA
Found at i:4387461 original size:21 final size:20
Alignment explanation
Indices: 4387437--4387479 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4387427 TAAATGATGG
4387437 TATTAGAAATATACGATATAA
1 TATTAGAAATATAC-ATATAA
* *
4387458 TATTAGAAGTATACATGTAA
1 TATTAGAAATATACATATAA
4387478 TA
1 TA
4387480 GTATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
TATTAGAAATATACATATAA
Found at i:4387546 original size:26 final size:25
Alignment explanation
Indices: 4387499--4387585 Score: 79
Period size: 26 Copynumber: 3.4 Consensus size: 25
4387489 AATATAACTA
*
4387499 ATAATATTAAAAAATATGTATAAAAT
1 ATAATATTAAAAAAT-TATATAAAAT
*
4387525 ATAATATTAAAAAACTTATAT-ACAT
1 ATAATATTAAAAAA-TTATATAAAAT
* * *
4387550 A-ACATATATAAAAAAATACATATAAT
1 ATA-ATAT-TAAAAAATTATATAAAAT
4387576 ATAATATTAA
1 ATAATATTAA
4387586 GACATTTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
24 1 0.02
25 15 0.30
26 32 0.64
27 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (25 bp):
ATAATATTAAAAAATTATATAAAAT
Found at i:4387756 original size:13 final size:14
Alignment explanation
Indices: 4387738--4387768 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4387728 ATGTATGAAT
4387738 ATATACATATA-TA
1 ATATACATATATTA
4387751 ATATACATATATTA
1 ATATACATATATTA
4387765 ATAT
1 ATAT
4387769 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:4388494 original size:8 final size:9
Alignment explanation
Indices: 4388483--4388550 Score: 62
Period size: 8 Copynumber: 8.3 Consensus size: 9
4388473 TTTTATTTTG
4388483 TATTATAT-
1 TATTATATA
4388491 TATTAT-T-
1 TATTATATA
4388498 T-TTATATA
1 TATTATATA
*
4388506 TTTTAGTATA
1 TATTA-TATA
4388516 TA-TATATA
1 TATTATATA
4388524 TA-TATATA
1 TATTATATA
4388532 TA-TATATA
1 TATTATATA
4388540 TA-TATATA
1 TATTATATA
4388548 TAT
1 TAT
4388551 GGGAAAATAG
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
6 4 0.07
7 3 0.06
8 37 0.69
9 5 0.09
10 5 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (9 bp):
TATTATATA
Found at i:4388517 original size:2 final size:2
Alignment explanation
Indices: 4388512--4388550 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4388502 TATATTTTAG
4388512 TA TA TA TA TA 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 TA TA TA TA TA T
4388551 GGGAAAATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4389283 original size:50 final size:51
Alignment explanation
Indices: 4389206--4389334 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
4389196 GACCATGGCA
4389206 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
4389257 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
4389307 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
4389335 CTAATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:4389348 original size:31 final size:31
Alignment explanation
Indices: 4389310--4389458 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
4389300 ACAAATGACA
* *
4389310 AGTGAAAAGTGGTAGCTTCAGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4389341 AGTGAAAAGTGATAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
*
4389372 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4389403 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
4389434 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
4389459 AAGTGACAAG
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 2 0.02
31 106 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:4389629 original size:42 final size:43
Alignment explanation
Indices: 4389576--4389691 Score: 164
Period size: 42 Copynumber: 2.7 Consensus size: 43
4389566 ATATGTGATT
* *
4389576 TGTGTAAGACCATAGCTGGACTATAGCATCGA-TATATGAATA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
* *
4389618 TGTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
* *
4389660 TGTGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGACTATGGCATCGA
4389692 GAAAACGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGACTATGGCATCGATTATATGAAGA
Found at i:4396673 original size:2 final size:2
Alignment explanation
Indices: 4396666--4396715 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
4396656 TCTATCTATC
4396666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4396708 TA TT TA TA
1 TA TA TA TA
4396716 AGAATCTAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4399572 original size:29 final size:30
Alignment explanation
Indices: 4399513--4399580 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
4399503 AATAGTTTAT
* * *
4399513 ATTTTTATAAATTTTAAAGGATTAAATTAA
1 ATTTTTATCAATTTTAAAGGATCAAAGTAA
* *
4399543 ATTTTTATCATTTTTAGAGGA-CAAAGTAA
1 ATTTTTATCAATTTTAAAGGATCAAAGTAA
*
4399572 AATTTTATC
1 ATTTTTATC
4399581 TTCACTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (30 bp):
ATTTTTATCAATTTTAAAGGATCAAAGTAA
Found at i:4402789 original size:28 final size:26
Alignment explanation
Indices: 4402758--4402809 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
4402748 TTTTTTTATG
4402758 TAAACAAAAATTGTGCTAATTTTATTTT
1 TAAA-AAAAA-TGTGCTAATTTTATTTT
* *
4402786 TAAAAAGAATGTGTTAATTTTATT
1 TAAAAAAAATGTGCTAATTTTATT
4402810 GATGTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 4 0.18
28 4 0.18
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (26 bp):
TAAAAAAAATGTGCTAATTTTATTTT
Found at i:4408718 original size:43 final size:44
Alignment explanation
Indices: 4408670--4408756 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
4408660 TACTAATTGA
4408670 GATAAACACACAACCTAGTA-TTTCTAGCCATGTTTCATGTTTC
1 GATAAACACACAACCTAGTATTTTCTAGCCATGTTTCATGTTTC
*
4408713 GATAAACACACAACCTAGTATTTTCTGGCCATGTTTCATGTTTC
1 GATAAACACACAACCTAGTATTTTCTAGCCATGTTTCATGTTTC
4408757 CTACCATACC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 20 0.48
44 22 0.52
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (44 bp):
GATAAACACACAACCTAGTATTTTCTAGCCATGTTTCATGTTTC
Found at i:4410387 original size:18 final size:19
Alignment explanation
Indices: 4410364--4410403 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4410354 TGCCTTTAAG
4410364 AAATACT-TTTGAGACAAA
1 AAATACTGTTTGAGACAAA
*
4410382 AAATACTGTTTGAGATAAA
1 AAATACTGTTTGAGACAAA
4410401 AAA
1 AAA
4410404 AAATTACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (19 bp):
AAATACTGTTTGAGACAAA
Found at i:4410886 original size:22 final size:22
Alignment explanation
Indices: 4410861--4410929 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
4410851 TAATAGATTC
4410861 AAATTTAAATATTCATTATTTG
1 AAATTTAAATATTCATTATTTG
* * * *
4410883 AAA-TT-AAT-TGGCTAATAGATTC
1 AAATTTAAATAT-TC-ATTA-TTTG
4410905 AAATTTAAATATTCATTATTTG
1 AAATTTAAATATTCATTATTTG
4410927 AAA
1 AAA
4410930 GTGTTTTATT
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
19 1 0.03
20 4 0.12
21 5 0.15
22 13 0.39
23 5 0.15
24 4 0.12
25 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.43
Consensus pattern (22 bp):
AAATTTAAATATTCATTATTTG
Found at i:4410892 original size:44 final size:44
Alignment explanation
Indices: 4410842--4410929 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
4410832 TTCGTCTTAC
4410842 TTAATTGGCTAATAGATTCAAATTTAAATATTCATTATTTGAAA
1 TTAATTGGCTAATAGATTCAAATTTAAATATTCATTATTTGAAA
4410886 TTAATTGGCTAATAGATTCAAATTTAAATATTCATTATTTGAAA
1 TTAATTGGCTAATAGATTCAAATTTAAATATTCATTATTTGAAA
4410930 GTGTTTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (44 bp):
TTAATTGGCTAATAGATTCAAATTTAAATATTCATTATTTGAAA
Found at i:4413409 original size:17 final size:17
Alignment explanation
Indices: 4413389--4413422 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4413379 TAAAAATTAT
4413389 AAAAAATAAAAAAAATA
1 AAAAAATAAAAAAAATA
* *
4413406 AAAAAATCATAAAAATA
1 AAAAAATAAAAAAAATA
4413423 TTTAAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAAAAAATA
Found at i:4416399 original size:13 final size:13
Alignment explanation
Indices: 4416381--4416407 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4416371 TATGCCCTTG
4416381 AATTTTAGTAGAC
1 AATTTTAGTAGAC
4416394 AATTTTAGTAGAC
1 AATTTTAGTAGAC
4416407 A
1 A
4416408 TCTAAGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
AATTTTAGTAGAC
Found at i:4417515 original size:16 final size:16
Alignment explanation
Indices: 4417490--4417524 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4417480 CAAGATTTTT
4417490 ATTCAAATTATTTTAG
1 ATTCAAATTATTTTAG
* *
4417506 ATTCAGATTATTTTGG
1 ATTCAAATTATTTTAG
4417522 ATT
1 ATT
4417525 TGACTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (16 bp):
ATTCAAATTATTTTAG
Found at i:4421799 original size:99 final size:99
Alignment explanation
Indices: 4421628--4423751 Score: 3157
Period size: 99 Copynumber: 21.6 Consensus size: 99
4421618 TTCGAGTAAT
* * *
4421628 GTTGGTTACGGTTTGAACTTTGGGATATTACCGAAAGGAGAACCCACTCCACCATCTG-CCTCTG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
* *
4421692 GAAAACGTATAAATACGCCACCACCACTGCATCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
*
4421727 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCAACTCCACCATCTGCCCTCGG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
4421792 AAAACGTATAAATACGCCACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* * *
4421826 GTTGGTCACAGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCCCGA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
*
4421891 AAAACGTATAAATACACCACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
4421925 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
*
4421990 AAAACGTATAAATATGCCACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* *
4422024 GTTGGTCACGGTTTGAACTTTGGGATATTACTGAAGGGGAGAGCCCACTCCACCATCTGCCCCCG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAA-GGGAGAGCCCACTCCACCATCTGCCCTCG
* * *
4422089 AAAAACGTATAAATACACCACCACCACTGCGTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
* * *
4422124 GTTGGTCACGGTTTGAACTTTAGGATATTACCGAAGGGAGAGCCCACTCCACCATCTTCCCCCGG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
*
4422189 AAAACGTATAAATACGCCACCACCACCGCTTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* *
4422223 ATTGGTCACGGTTTGAACTTTGGGATGTTACCGAAGGGAGAGCCCACTCCACCATCTGCCC-CTG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
*
4422287 GAAAACGTAAAAATACGCCACCACCACCGCGTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
* * *
4422322 GTTGGTCACGGTTTGAACTTTGGGATATTACTGAAGGGAGAGCCCATTCCACCATCTGACCCT-A
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTG-CCCTCG
*
4422386 GAAAACGTATAAATATGCCACCACCACCGCGTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
* * ** * *
4422421 GTTGGTCAGGGTTTGAACTTTGGGATATTACCAAAGGGAGAGCCC-CTGGA-AAAC-G---T---
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
**
4422477 AAAA---ATACGT-C---ACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* * *
4422504 GTTGGTCACGGTTTGAACTTTGAGATATTACTGAAGGGAGAGCCCACTCCACCATCTGCCC-CTA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
*
4422568 GAAAACGTATAAATACGCCACTACCACCGCGTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
* * *
4422603 GTTGGTCAGGGTTTGAACTTTGGGATATTACCAAAGGGAGAGCCCACTCCACCATCTGCCC-CTA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
* *
4422667 GAAAACGTATAAATACGGCACCACCACCGCTTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
*
4422702 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTACCC-CTG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
* *
4422766 GAAAATGTATAAATACGCCACCACCACCGCTTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
*
4422801 GTTGGTCACGGTTTGAACTTTGGAATATTACCGAAGGGAGAGCCCACTCCACCATCTGCTCCT-G
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGC-CCTCG
* * *
4422865 GAAAACGTACAAATACGCCACCACCATCGTGTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
* *
4422900 GTTGGTCACGGTTTGAACTTTGAGATATTACCGAAGGGAGAGCCCACTCCACCATGTGCCCTCGG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
*
4422965 AAAACGTATAAATACGCCACCACCACCGCGTGAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* * * * * *
4422999 GTTAGTCACGATTTGAACTTTGGGATATTACTGAAGGCAGAGCCCACTCCACCATCTGCCCCCGA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
*
4423064 AAAACGTATAAATACGCCACCACCACCGCATCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* *
4423098 GTTGGTCACGGTTTGAACTTTGGGATATTATCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
*
4423163 AAAACGTATAAATACTCCACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* * * *
4423197 GTTGGTCACAGTTTGAACTTTGGGATATTACCGAAAGGAGAGCCCACTCCACTATCTGCCCTCGA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
4423262 AAAACGTATAAATACGCCACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* * * *
4423296 GTTAGTCACGGTTTAAACTTTGAGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCCCGG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
* * *
4423361 AAAACGTATAAATACACCATCACCACCGTGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* *
4423395 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAA-GGAGAACCCACTCCACCATCTGCCC-CTA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
* *
4423458 AAAAACGTATAAATACGCCACCACCACCGCATCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
* * * **
4423493 GTTGGTTACGGTTTGAACTTTGGGATATTACTGAAGGGAGAGACCACTCCACCATCTGCCCTTAG
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
* *
4423558 AAAATGAATAAATACGCCACCACCACCGCGTCAA
66 AAAACGTATAAATACGCCACCACCACCGCGTCAA
* *
4423592 GTTGGTCAGGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCC-CTA
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTC-G
* * *
4423656 GAAAACGTATAAATACGCCACCATCATCGCTTCAA
65 GAAAACGTATAAATACGCCACCACCACCGCGTCAA
4423691 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCC
1 GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCC
4423752 CTGAAAAACG
Statistics
Matches: 1841, Mismatches: 155, Indels: 58
0.90 0.08 0.03
Matches are distributed among these distances:
83 57 0.03
84 3 0.00
85 2 0.00
86 1 0.00
87 4 0.00
90 4 0.00
92 5 0.00
95 4 0.00
96 2 0.00
97 3 0.00
98 93 0.05
99 1562 0.85
100 101 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (99 bp):
GTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCCTCGG
AAAACGTATAAATACGCCACCACCACCGCGTCAA
Found at i:4422525 original size:83 final size:83
Alignment explanation
Indices: 4422381--4422548 Score: 264
Period size: 83 Copynumber: 2.0 Consensus size: 83
4422371 CACCATCTGA
* * * *
4422381 CCCTAGAAAACGTATAAATATGCCACCACCACCGCGTCAAGTTGGTCAGGGTTTGAACTTTGGGA
1 CCCTAGAAAACGTAAAAATACGCCACCACCACCGCGTCAAGTTGGTCACGGTTTGAACTTTGAGA
4422446 TATTACCAAAGGGAGAGC
66 TATTACCAAAGGGAGAGC
* *
4422464 CCCTGGAAAACGTAAAAATACGTCACCACCACCGCGTCAAGTTGGTCACGGTTTGAACTTTGAGA
1 CCCTAGAAAACGTAAAAATACGCCACCACCACCGCGTCAAGTTGGTCACGGTTTGAACTTTGAGA
**
4422529 TATTACTGAAGGGAGAGC
66 TATTACCAAAGGGAGAGC
4422547 CC
1 CC
4422549 ACTCCACCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (83 bp):
CCCTAGAAAACGTAAAAATACGCCACCACCACCGCGTCAAGTTGGTCACGGTTTGAACTTTGAGA
TATTACCAAAGGGAGAGC
Found at i:4423818 original size:79 final size:80
Alignment explanation
Indices: 4423687--4423838 Score: 261
Period size: 79 Copynumber: 1.9 Consensus size: 80
4423677 CATCATCGCT
* * *
4423687 TCAAGTTGGTCACGGTTTGAACTTTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTGCCC
1 TCAAGTTAGTCACGGTTTGAACTTCGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTACCC
4423752 CT-GAAAAACGTACG
66 CTAGAAAAACGTACG
*
4423766 TCAAGTTAGTCACGGTTTGAACTTCGGGATATTACCGAAGGGAGAGCCCACTCCACCATTTACCC
1 TCAAGTTAGTCACGGTTTGAACTTCGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTACCC
4423831 CTAGAAAA
66 CTAGAAAA
4423839 GGTATAAATC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
79 63 0.93
80 5 0.07
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (80 bp):
TCAAGTTAGTCACGGTTTGAACTTCGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTACCC
CTAGAAAAACGTACG
Found at i:4423956 original size:108 final size:107
Alignment explanation
Indices: 4423765--4424014 Score: 333
Period size: 108 Copynumber: 2.3 Consensus size: 107
4423755 AAAAACGTAC
* *
4423765 GTCAAGTTAGTCAC-GGTTTGAAC-TTCGGGATATTACCGAAGGGAGAGCCCACTCCACCATTTA
1 GTCAAGTTGGTC-CTGGTTTGAACATT-GGGATATTACCGAAGGGAGAGCCCACTCCACCATCTA
* *
4423828 CCCCTAGAAAAGGTATAAATCAAGTTCCGCCACCATCTCAAGTAA
64 CCCCTAGAAAAGGTAGAAATCAAGTTCCGCCA-CATCTCAAGGAA
* * * * *
4423873 GTCAAGTTGGTCCTGGTTTAAACATTGGGATGTTACCGAAGGGAGGGTCCACTCCACCATCTGCC
1 GTCAAGTTGGTCCTGGTTTGAACATTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTACC
* * *
4423938 CCTGGAAAAGGTGGAAATCAAGTTCCGCCACATCTCATGGAA
66 CCTAGAAAAGGTAGAAATCAAGTTCCGCCACATCTCAAGGAA
* *
4423980 GTCAAGTTGGTCCTAGTTTGAACATTGAGATATTA
1 GTCAAGTTGGTCCTGGTTTGAACATTGGGATATTA
4424015 TTGAAAGGAC
Statistics
Matches: 124, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
107 42 0.34
108 80 0.65
109 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (107 bp):
GTCAAGTTGGTCCTGGTTTGAACATTGGGATATTACCGAAGGGAGAGCCCACTCCACCATCTACC
CCTAGAAAAGGTAGAAATCAAGTTCCGCCACATCTCAAGGAA
Found at i:4424054 original size:107 final size:108
Alignment explanation
Indices: 4423793--4424042 Score: 279
Period size: 107 Copynumber: 2.3 Consensus size: 108
4423783 TGAACTTCGG
* * * **
4423793 GATATTACCGAAGGGA-GAGCCCACTCCACCATTTACCCCTAGAAAAGGTATAAATCAAGTTCCG
1 GATATTACCGAAAGGACGA-CCCACTCCACAATCTACCCCTAGAAAAGGTGGAAATCAAGTTCCG
* * *
4423857 CCACCATCTCAAGTAAGTCAAGTTGGTCCTGGTTTAAACATTGG
65 CCACCATCTCAAGGAAGTCAAGTTGGTCCTAGTTTAAACATTGA
* * * ** * * *
4423901 GATGTTACCGAAGGGAGGGTCCACTCCACCATCTGCCCCTGGAAAAGGTGGAAATCAAGTTCCGC
1 GATATTACCGAAAGGACGACCCACTCCACAATCTACCCCTAGAAAAGGTGGAAATCAAGTTCCGC
* *
4423966 CA-CATCTCATGGAAGTCAAGTTGGTCCTAGTTTGAACATTGA
66 CACCATCTCAAGGAAGTCAAGTTGGTCCTAGTTTAAACATTGA
** * *
4424008 GATATTATTGAAAGGACGACCCACTCTAGAATCTA
1 GATATTACCGAAAGGACGACCCACTCCACAATCTA
4424043 TTTTTAGAAA
Statistics
Matches: 117, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
107 59 0.50
108 57 0.49
109 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (108 bp):
GATATTACCGAAAGGACGACCCACTCCACAATCTACCCCTAGAAAAGGTGGAAATCAAGTTCCGC
CACCATCTCAAGGAAGTCAAGTTGGTCCTAGTTTAAACATTGA
Found at i:4424551 original size:46 final size:47
Alignment explanation
Indices: 4424486--4424805 Score: 352
Period size: 46 Copynumber: 7.0 Consensus size: 47
4424476 TTATCTTTGA
* * * * * *
4424486 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
** *
4424532 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*** *** ***
4424578 CACACTGCCATGGT-TCTTTCAACCATGGTCTTATTTA-TTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
4424623 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* * *
4424669 CA-GGTGCCATGGTATCTTTCAACCATGGTTTTACAC-GTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
* *
4424714 CAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
*
4424760 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
4424806 TAGAGAGCAC
Statistics
Matches: 244, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
45 86 0.35
46 158 0.65
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATAT
Found at i:4424625 original size:91 final size:91
Alignment explanation
Indices: 4424491--4424801 Score: 399
Period size: 91 Copynumber: 3.4 Consensus size: 91
4424481 TTTGACATGA
* * * *
4424491 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
** * *
4424556 CATGGTCTTATTCATTTCATGTCACAC
66 CATGGTCTTACACATTTCATATCA-GC
* * *
4424583 TGCCATGGT-TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* *
4424647 CATGGTCTTACACGTTTCATATCAGG
66 CATGGTCTTACACATTTCATATCAGC
* * * * * * *
4424673 TGCCATGGTATCTTTCAACCATGGTTTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
4424738 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCA-GC
*
4424765 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
4424802 ATATTAGAGA
Statistics
Matches: 191, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
90 9 0.05
91 138 0.72
92 44 0.23
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCAGC
Found at i:4424755 original size:137 final size:137
Alignment explanation
Indices: 4424486--4424805 Score: 410
Period size: 137 Copynumber: 2.3 Consensus size: 137
4424476 TTATCTTTGA
* * * * * * *
4424486 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGGTGCCATGGTATCT
** * ***
4424550 TTCAACCATGGTCTTATTCATTTCATGTCACACTGCCATGGTTCTTTCAACCATGGTCTTATTTA
65 TTCAACCATGGTCTTACACATTTCATATCACACTGCCATGGTTCTTTCAACCATGGTCTTACACA
* *
4424615 TTTCCCGT
130 TTTCACAT
*
4424623 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCA-GGTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGGTGCCATGGTATCTT
* * **
4424687 TCAACCATGGTTTTACACGTTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACATTTCATATCACACTGCCATGGT-TCTTTCAACCATGGTCTTACACA
*
4424752 TTTCATAT
130 TTTCACAT
*
4424760 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
4424806 TAGAGAGCAC
Statistics
Matches: 158, Mismatches: 23, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
136 53 0.34
137 105 0.66
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (137 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGGTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATATCACACTGCCATGGTTCTTTCAACCATGGTCTTACACAT
TTCACAT
Found at i:4426128 original size:40 final size:40
Alignment explanation
Indices: 4426084--4426164 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
4426074 TCAAATACAT
4426084 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
4426124 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
4426164 T
1 T
4426165 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:4426173 original size:20 final size:19
Alignment explanation
Indices: 4426150--4426227 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 19
4426140 AACAATACAC
4426150 AAATTGAAAATATATAATAA
1 AAATTGAAAATATA-AATAA
** *
4426170 AAATTGATTATATTAAAATTA
1 AAATTGAAAATA-T-AAATAA
4426191 AAATT-AAAATATAAAT-A
1 AAATTGAAAATATAAATAA
*
4426208 TAATT-AAAA-ATAAA-AA
1 AAATTGAAAATATAAATAA
4426224 AAAT
1 AAAT
4426228 ATATATTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.19
17 9 0.19
18 4 0.08
19 1 0.02
20 14 0.29
21 10 0.21
22 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATTGAAAATATAAATAA
Found at i:4426215 original size:23 final size:21
Alignment explanation
Indices: 4426186--4426230 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
4426176 ATTATATTAA
*
4426186 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAA-A-AAATAT
4426209 AATTAAAAATAAAAAAAATAT
1 AATTAAAAATAAAAAAAATAT
4426230 A
1 A
4426231 TATTTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 1 0.05
23 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATTAAAAATAAAAAAAATAT
Found at i:4427556 original size:18 final size:20
Alignment explanation
Indices: 4427541--4427577 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4427531 TAATAATAAA
*
4427541 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
4427561 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
4427578 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:4429361 original size:19 final size:19
Alignment explanation
Indices: 4429333--4429380 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
4429323 GTTGCAATAG
* *
4429333 ATAAATAAAT-AAGTAAACA
1 ATAAAAAAATAAAATAAA-A
4429352 ATAAAAAAATAAAATAAAA
1 ATAAAAAAATAAAATAAAA
4429371 ATAAAAAAAT
1 ATAAAAAAAT
4429381 CCCATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
ATAAAAAAATAAAATAAAA
Found at i:4430802 original size:11 final size:11
Alignment explanation
Indices: 4430778--4430822 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
4430768 TTAAAATATT
4430778 AAAA-ATTA-A
1 AAAATATTATA
4430787 AAAATATTATA
1 AAAATATTATA
*
4430798 AAAATA-TATG
1 AAAATATTATA
4430808 AAAATAATTATA
1 AAAAT-ATTATA
4430820 AAA
1 AAA
4430823 TCTAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 4 0.13
10 12 0.40
11 8 0.27
12 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AAAATATTATA
Found at i:4434581 original size:129 final size:131
Alignment explanation
Indices: 4434424--4434716 Score: 312
Period size: 129 Copynumber: 2.2 Consensus size: 131
4434414 TGATTGACAA
* * * * * * *
4434424 TTCGGGAATCATGCCCTATCGTGCTGGGTTGTGAC-TTCTCGTTTGCTCAAAACAATCGAATATT
1 TTCGAGAATCGTGCCCTATCGTGCTGGGTTGTG-CTTTCTCATTCGCCCAAAACAATCGAAGATC
* * * *
4434488 CCTT-TAGGTTTTCACTCATGTTTAT-TAAAAA-CCTTTCAAAA-CAAAGGA-TGTTCGATGTTT
65 CCTTCGAAG-TTTCACTCACGTTT-TCTAAAAACCCTTT-AAAATCAAAGAAGTGTTCGATGTTT
4434548 GGC-G
127 GGCAG
* * * *
4434552 ATTTGAGAATCGTGCCCTATCGTGCTGGGTTGCGCTTTTTCATTCGCCCTAAACAATCGAAGATC
1 -TTCGAGAATCGTGCCCTATCGTGCTGGGTTGTGCTTTCTCATTCGCCCAAAACAATCGAAGATC
* *
4434617 CCTTCGAAGTTTCATTCACGTTTTCTAAAAACCCTTTAAAATGAAAGAAGTGTTCGATGTTTGGC
65 CCTTCGAAGTTTCACTCACGTTTTCTAAAAACCCTTTAAAATCAAAGAAGTGTTCGATGTTTGGC
4434682 AG
130 AG
* *
4434684 TTCGGGAAATAGTGCCCTATCGTGCTGGGTTGT
1 TTCGAG-AATCGTGCCCTATCGTGCTGGGTTGT
4434717 AATCTCCCGT
Statistics
Matches: 135, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
128 2 0.01
129 77 0.57
130 12 0.09
131 19 0.14
132 25 0.19
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (131 bp):
TTCGAGAATCGTGCCCTATCGTGCTGGGTTGTGCTTTCTCATTCGCCCAAAACAATCGAAGATCC
CTTCGAAGTTTCACTCACGTTTTCTAAAAACCCTTTAAAATCAAAGAAGTGTTCGATGTTTGGCA
G
Found at i:4447472 original size:40 final size:40
Alignment explanation
Indices: 4447413--4447581 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
4447403 CGGGACTTTA
* * *
4447413 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
4447453 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
4447493 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
4447533 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
4447573 CCCGGATAT
1 CCCGGATAT
4447582 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:4459121 original size:40 final size:40
Alignment explanation
Indices: 4459062--4459192 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
4459052 CGGGACTTTA
* * *
4459062 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
4459102 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
4459142 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
4459182 CCCGGATATAA
1 CCCGGATATAA
4459193 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:4459225 original size:39 final size:40
Alignment explanation
Indices: 4459079--4459229 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
4459069 ATCACGATTT
* * * *
4459079 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
4459119 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
4459159 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
4459198 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
4459230 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:4467130 original size:40 final size:40
Alignment explanation
Indices: 4467071--4467201 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
4467061 CGGGACTTTA
* * *
4467071 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
4467111 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
4467151 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
4467191 CCCGGATATAA
1 CCCGGATATAA
4467202 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:4467234 original size:39 final size:40
Alignment explanation
Indices: 4467088--4467238 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
4467078 ATCACGATTT
* * * *
4467088 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
4467128 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
4467168 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
4467207 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
4467239 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:4469330 original size:44 final size:44
Alignment explanation
Indices: 4469237--4469585 Score: 456
Period size: 44 Copynumber: 8.0 Consensus size: 44
4469227 GGTAAATCCT
* *
4469237 GCAGATTTGGCATCTCTGTATTGG-AGGGAGCAGATTGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
* **
4469280 GTAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGATTGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
*
4469324 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGA-TCAAGGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAA-GATA
*
4469368 GCAGATTTGGCGTCTCTTTATTGGCAGAGAGCAGATTGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
* **
4469412 GCAGATTTAGC--CTCTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
* ** **
4469454 GCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
* * *
4469498 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGAT-
1 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
* *
4469541 GACAGATTTGGCGTCTCTGTGATTGACAGAGAGCAAATTGAAGAT
1 G-CAGATTTGGCGTCTCTGT-ATTGGCAGAGAGCAGATTGAAGAT
4469586 GACGAACCTT
Statistics
Matches: 275, Mismatches: 24, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
42 38 0.14
43 26 0.09
44 188 0.68
45 23 0.08
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTGAAGATA
Found at i:4469471 original size:130 final size:131
Alignment explanation
Indices: 4469237--4469575 Score: 477
Period size: 130 Copynumber: 2.6 Consensus size: 131
4469227 GGTAAATCCT
* *
4469237 GCAGATTTGGCATCTCTGTATTGG-AGGGAGCAGATTGAAGATAGTAGATTTGGCGTCTCTGTAT
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAGCAGATTTGGCG-CTCTGTAT
** ** * *
4469301 TGGTGGAGAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAGGA
65 TGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGA
4469366 TA
130 TA
* * *
4469368 GCAGATTTGGCGTCTCTTTATTGGCAGAGAGCAGATTGAAGATAGCAGATTTAGC-CTCTGTATT
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAGCAGATTTGGCGCTCTGTATT
**
4469432 GGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCAAAGAT
66 GGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
4469497 A
131 A
* *
4469498 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGAT-GACAGATTTGGCGTCTCTGTG
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAG-CAGATTTGGCG-CTCTGT-
*
4469562 ATTGACAGAGAGCA
63 ATTGGCAGAGAGCA
4469576 AATTGAAGAT
Statistics
Matches: 184, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
129 1 0.01
130 115 0.62
131 22 0.12
132 33 0.18
133 13 0.07
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (131 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATAGCAGATTTGGCGCTCTGTATT
GGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
A
Found at i:4469554 original size:174 final size:174
Alignment explanation
Indices: 4469250--4469585 Score: 516
Period size: 174 Copynumber: 1.9 Consensus size: 174
4469240 GATTTGGCAT
* ** * *
4469250 CTCTGTATTGGAGGGAGCAGATTGAAGATAGTAGATTTGGCGTCTCTGTATTGGTGGAGAGCAGA
1 CTCTGTATTGGAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGA
** *
4469315 TTGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCAAGGATAGCAGATTTGGCG
66 TCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAGGATAGCAGATTTGGCG
* * *
4469380 TCTCT-TTATTGGCAGAGAGCAGATTGAAGATAGCAGATTTAGC
131 TCTCTGTGATTGACAGAGAGCAAATTGAAGATAGCAGATTTAGC
4469423 CTCTGTATTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGTGGAGAGCAG
1 CTCTGTATTGG-AGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGTGGAGAGCAG
*
4469488 ATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAA-GAT-GACAGATTTG
65 ATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AAGGATAG-CAGATTTG
4469551 GCGTCTCTGTGATTGACAGAGAGCAAATTGAAGAT
128 GCGTCTCTGTGATTGACAGAGAGCAAATTGAAGAT
4469586 GACGAACCTT
Statistics
Matches: 147, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
173 12 0.08
174 110 0.75
175 25 0.17
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (174 bp):
CTCTGTATTGGAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGA
TCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAGGATAGCAGATTTGGCG
TCTCTGTGATTGACAGAGAGCAAATTGAAGATAGCAGATTTAGC
Found at i:4472372 original size:129 final size:132
Alignment explanation
Indices: 4472203--4472482 Score: 297
Period size: 129 Copynumber: 2.1 Consensus size: 132
4472193 GGGAATCATG
* * * * * * * *
4472203 CCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTT-TAGGTTTTC
1 CCCTATCGTGCTGGGTTGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAG-TTTC
* * * *
4472267 ACTCATGTTTAT-TAAAA-ACCTTTCAAAAC-AAAGGA-TGTTTGATGTTTGGC-GATTTGA-GA
65 ACTCACGTTT-TCTAAAAGACCTTT-AAAACGAAAGAAGTGTTCGATGTTTGGCAG-TTCGAGGA
*
4472326 ATCGTA
127 ATAGTA
* *
4472332 CCCTATCGTGCTGGGTTGCG-CTTTTTCATTCGCCCTAAACAATCGAAGATCCCTTCGAAGTTTC
1 CCCTATCGTGCTGGGTTGCGAC-TTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAGTTTC
* *
4472396 ATTCACGTTTTCTAAAAGCCCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCGAGGAATA
65 ACTCACGTTTTCTAAAAGACCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCGAGGAATA
*
4472461 GTG
130 GTA
4472464 CCCTATCGTGCTGGGTTGC
1 CCCTATCGTGCTGGGTTGC
4472483 AATCTCCCGT
Statistics
Matches: 125, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
128 2 0.02
129 67 0.54
130 12 0.10
131 18 0.14
132 26 0.21
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (132 bp):
CCCTATCGTGCTGGGTTGCGACTTCTCATTCGCCCAAAACAATCGAAGATCCCTTCGAAGTTTCA
CTCACGTTTTCTAAAAGACCTTTAAAACGAAAGAAGTGTTCGATGTTTGGCAGTTCGAGGAATAG
TA
Found at i:4477454 original size:21 final size:21
Alignment explanation
Indices: 4477428--4477468 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4477418 ATCTGCTCAA
* *
4477428 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4477449 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4477469 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4483325 original size:25 final size:25
Alignment explanation
Indices: 4483296--4483347 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
4483286 TTATTAAAGT
4483296 AAAAATATTTTGTGAATTTGATGAG
1 AAAAATATTTTGTGAATTTGATGAG
4483321 AAAAATATTTTGTGAATTTGATGAG
1 AAAAATATTTTGTGAATTTGATGAG
4483346 AA
1 AA
4483348 CAGTTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (25 bp):
AAAAATATTTTGTGAATTTGATGAG
Found at i:4488704 original size:3 final size:3
Alignment explanation
Indices: 4488696--4488728 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
4488686 ATATATGCAT
4488696 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4488729 TCTACAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4488843 original size:37 final size:37
Alignment explanation
Indices: 4488772--4488843 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
4488762 AAAAATATAT
* *
4488772 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
4488809 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
4488844 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:4490485 original size:87 final size:88
Alignment explanation
Indices: 4490293--4490697 Score: 385
Period size: 88 Copynumber: 4.6 Consensus size: 88
4490283 GTGATCCTGA
** * * * * * * * **
4490293 GCTCAACTCATTTCTCGCAATATGAATTGACTTTT-AAAAACTAGACATTAAAAACAAAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC-AGAAATTGAAAATAGATTTTG-
* * * **
4490357 AAAATAGCTCAGCACGTGAGCAAAG
64 AAAATACCTCAGCATGTGACCCGAG
* * * *
4490382 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTGA-AAACAGAATTTGCCAAATAGATTTTGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG-AAAATAGATTTTGA
**
4490445 AAATACCTTGGCATGTGACCCGAG
65 AAATACCTCAGCATGTGACCCGAG
* * * *
4490469 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA-AAAGCATAAATTGAAAAAACATTAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAAATAGATT--TT
4490533 GAAAATACCTCAGC--GTG-CCTCGAG
63 GAAAATACCTCAGCATGTGACC-CGAG
* **
4490557 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG-AAAATAGATTTTGA
* *
4490621 AAAGACCTCAGCATGTGAGCCGAG
65 AAATACCTCAGCATGTGACCCGAG
* *
4490645 GCTCAACTCACCTCTCACGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
4490698 TTACCTCAGC
Statistics
Matches: 263, Mismatches: 40, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
86 15 0.06
87 66 0.25
88 114 0.43
89 55 0.21
90 13 0.05
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAATAGATTTTGAA
AATACCTCAGCATGTGACCCGAG
Found at i:4490875 original size:165 final size:165
Alignment explanation
Indices: 4490529--4491095 Score: 727
Period size: 165 Copynumber: 3.4 Consensus size: 165
4490519 AAAAAACATT
* *
4490529 AATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT
1 AATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
* * ** * *
4490590 TGACGAACAGAAATTGAAAAATAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTC
65 TGAAGAGCAGAAATTGAAAAGCAGAAATTGAAAATACCTCAG--TGTG-CCCTGAGGCTCAACTC
* *
4490654 ACCTCTCACGATATGAGTTGA---TTTTTGACAAACAGA
127 ACCTCTCGCAATATGAGTTGATTTTTTTTGACAAACAGA
*
4490690 AATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCACAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
* *
4490755 GAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCT
66 GAAGAGCAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCT
*
4490820 CTCGCAATATGAGTTGATTTTTTTTGACAAACATA
131 CTCGCAATATGAGTTGATTTTTTTTGACAAACAGA
4490855 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
* * **
4490920 GAAAAGCAGAAATTGAAAAGCATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCT
66 GAAGAGCAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCT
* *
4490985 CTCGCAATATGAGCTGATTTTTGAAAAACATAAATTGAAGAAAACAGA
131 CTCGCAATATGAGTTGATTTTT--------T---TTG-A-CAAACAGA
* *
4491033 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
4491096 GAAAAACAGA
Statistics
Matches: 359, Mismatches: 26, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
161 53 0.15
162 38 0.11
164 38 0.11
165 158 0.44
173 1 0.00
176 3 0.01
177 1 0.00
178 67 0.19
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (165 bp):
AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
GAAGAGCAGAAATTGAAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCT
CTCGCAATATGAGTTGATTTTTTTTGACAAACAGA
Found at i:4490885 original size:76 final size:75
Alignment explanation
Indices: 4490771--4490938 Score: 257
Period size: 76 Copynumber: 2.2 Consensus size: 75
4490761 CAGAAATTGG
* * *
4490771 AAAGCAGAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
4490836 ATTTTTTTTGA
66 A-TTTTTTTGA
* * *
4490847 CAAA-CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
1 -AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
4490911 GATTTTTTTGA
65 GATTTTTTTGA
4490922 AAAGCAGAAATTGAAAA
1 AAAGCAGAAATTGAAAA
4490939 GCATAAATTG
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
74 3 0.04
75 20 0.24
76 56 0.68
77 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (75 bp):
AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
ATTTTTTTGA
Found at i:4490937 original size:14 final size:14
Alignment explanation
Indices: 4490918--4490952 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4490908 GTTGATTTTT
4490918 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
4490932 TTGAAAAGCATAAA
1 TTGAAAAGCAGAAA
4490946 TTGAAAA
1 TTGAAAA
4490953 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:4490970 original size:89 final size:87
Alignment explanation
Indices: 4490843--4491108 Score: 399
Period size: 89 Copynumber: 3.0 Consensus size: 87
4490833 TTGATTTTTT
* *
4490843 TTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGACAAACATAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
4490908 GTTGATTTTTTTGAAAAGCAGAAA
66 GTTGA--TTTTTGAAAAACAGAAA
* *
4490932 TTGA-AAAGCATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAA-CATAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
4490996 AGCTGATTTTTGAAAAACATAAA
65 AGTTGATTTTTGAAAAACAGAAA
* *
4491019 TTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-A-CAAACATAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
4491084 GAGTTGATTTTTGAAAAACAGAAA
64 GAGTTGATTTTTGAAAAACAGAAA
4491108 T
1 T
4491109 AAAACATCAG
Statistics
Matches: 161, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
87 18 0.11
88 4 0.02
89 136 0.84
90 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (87 bp):
TTGACAAACATAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAA
Found at i:4491030 original size:16 final size:16
Alignment explanation
Indices: 4491009--4491039 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4490999 TGATTTTTGA
*
4491009 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
4491025 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
4491040 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:4494404 original size:136 final size:137
Alignment explanation
Indices: 4494160--4494445 Score: 547
Period size: 136 Copynumber: 2.1 Consensus size: 137
4494150 TATTGGGCCT
**
4494160 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4494225 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
4494289 CATATGC
131 CATATGC
4494296 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
4494361 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
4494426 CATATGC
131 CATATGC
4494433 AAGCCCATTTGGG
1 AAGCCCATTTGGG
4494446 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 125 0.85
137 22 0.15
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Done.