Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 23 of 37
Found at i:4010202 original size:59 final size:58
Alignment explanation
Indices: 4010109--4010241 Score: 151
Period size: 59 Copynumber: 2.3 Consensus size: 58
4010099 AGCTAGCCCT
* * *
4010109 ATGGCAAGCCTAGTGAAGTTGCCCTATATAAAGAGAGTCAAGCCCAATGTAGCTACT-AC
1 ATGGTAAGCCTAGTGAAATTGCCCTATA-CAA-AGAGTCAAGCCCAATGTAGCTACTCAC
* *** * *
4010168 ATGGTAAGCCTAGTGAAATTGCCCTATACCAAGAGTCAAGCGTGATGTAGCTAGTCAT
1 ATGGTAAGCCTAGTGAAATTGCCCTATACAAAGAGTCAAGCCCAATGTAGCTACTCAC
*
4010226 ATGGTAAACCTAGTGA
1 ATGGTAAGCCTAGTGA
4010242 CGTTGGCCCA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 20 0.32
58 17 0.27
59 26 0.41
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (58 bp):
ATGGTAAGCCTAGTGAAATTGCCCTATACAAAGAGTCAAGCCCAATGTAGCTACTCAC
Found at i:4010492 original size:28 final size:27
Alignment explanation
Indices: 4010445--4010542 Score: 70
Period size: 28 Copynumber: 3.5 Consensus size: 27
4010435 ATTCAAGTGA
* *
4010445 AAGCCCACACTGGCTAGCACATAAGTTG
1 AAGCCCACACTAGC-GGCACATAAGTTG
* * **
4010473 AAGCCCACACTAGCGCGCACTTGAGTCA
1 AAGCCCACACTAGCG-GCACATAAGTTG
* * *
4010501 AAGCCCACATTAGTTGGCATATAAGTTG
1 AAGCCCACACTAG-CGGCACATAAGTTG
* *
4010529 AAACCCACATTAGC
1 AAGCCCACACTAGC
4010543 TAGTATTTGA
Statistics
Matches: 53, Mismatches: 15, Indels: 5
0.73 0.21 0.07
Matches are distributed among these distances:
28 52 0.98
29 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (27 bp):
AAGCCCACACTAGCGGCACATAAGTTG
Found at i:4010561 original size:84 final size:84
Alignment explanation
Indices: 4010405--4010603 Score: 199
Period size: 84 Copynumber: 2.4 Consensus size: 84
4010395 ACATCAACTA
* * *
4010405 GCACTCGAGTCAAAGACCACATTAGTTGGCATTCAAGTGAAAGCCCACACTGGCTAGCACATAAG
1 GCACTTGAGTCAAAGCCCACATTAGTTGGCATTCAAGTGAAAGCCCACACTAGCTAGCACATAAG
**
4010470 TTGAAGCCCACACTAG-CG
66 TCAAAGCCCACACTAGTCG
* * **
4010488 CGCACTTGAGTCAAAGCCCACATTAGTTGGCATAT-AAGTTGAAA-CCCACATTAGCTAGTATTT
1 -GCACTTGAGTCAAAGCCCACATTAGTTGGCAT-TCAAG-TGAAAGCCCACACTAGCTAGCACAT
* *
4010551 GAA-TCAAAGCCCACATTAGTTG
63 -AAGTCAAAGCCCACACTAGTCG
* * * *
4010573 GCACTTGAGTCGAAGCTCATATTAGCTGGCA
1 GCACTTGAGTCAAAGCCCACATTAGTTGGCA
4010604 CTTAAGTCAA
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
84 87 0.91
85 9 0.09
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (84 bp):
GCACTTGAGTCAAAGCCCACATTAGTTGGCATTCAAGTGAAAGCCCACACTAGCTAGCACATAAG
TCAAAGCCCACACTAGTCG
Found at i:4010566 original size:56 final size:56
Alignment explanation
Indices: 4010465--4010575 Score: 159
Period size: 56 Copynumber: 2.0 Consensus size: 56
4010455 TGGCTAGCAC
* * *
4010465 ATAAGTTGAAGCCCACACTAGCGCGCACTTGAGTCAAAGCCCACATTAGTTGGCAT
1 ATAAGTTGAAACCCACACTAGCGAGCACTTGAATCAAAGCCCACATTAGTTGGCAT
* * * *
4010521 ATAAGTTGAAACCCACATTAGCTAGTATTTGAATCAAAGCCCACATTAGTTGGCA
1 ATAAGTTGAAACCCACACTAGCGAGCACTTGAATCAAAGCCCACATTAGTTGGCA
4010576 CTTGAGTCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (56 bp):
ATAAGTTGAAACCCACACTAGCGAGCACTTGAATCAAAGCCCACATTAGTTGGCAT
Found at i:4010580 original size:28 final size:28
Alignment explanation
Indices: 4010473--4010614 Score: 96
Period size: 28 Copynumber: 5.1 Consensus size: 28
4010463 ACATAAGTTG
* *
4010473 AAGCCCACACTAGC-GCGCACTTGAGTCA
1 AAGCCCACATTAGCTG-GCACTTGAATCA
* *
4010501 AAGCCCACATTAGTTGGCA-TAT-AAGTTGA
1 AAGCCCACATTAGCTGGCACT-TGAA--TCA
* * *
4010530 AA-CCCACATTAGCTAGTATTTGAATCA
1 AAGCCCACATTAGCTGGCACTTGAATCA
* * *
4010557 AAGCCCACATTAGTTGGCACTTGAGTCG
1 AAGCCCACATTAGCTGGCACTTGAATCA
* *
4010585 AAGCTCATATTAGCTGGCACTT-AAGTCA
1 AAGCCCACATTAGCTGGCACTTGAA-TCA
4010613 AA
1 AA
4010615 ATCTGCACTA
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
27 7 0.08
28 72 0.83
29 8 0.09
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (28 bp):
AAGCCCACATTAGCTGGCACTTGAATCA
Found at i:4010614 original size:56 final size:56
Alignment explanation
Indices: 4010421--4010614 Score: 142
Period size: 56 Copynumber: 3.5 Consensus size: 56
4010411 GAGTCAAAGA
* * * * * * * * * *
4010421 CCACATTAGTTGGCA-TTCAAGTGAAAGCCCACACTGGCTAGCACATAAGTTGAAGC
1 CCACATTAGCTAGCACTT-AAGTCAAAGCCCACATTAGTTGGCATATAAGTCGAAAC
* ** * *
4010477 CCACACTAGCGCGCACTTGAGTCAAAGCCCACATTAGTTGGCATATAAGTTGAAAC
1 CCACATTAGCTAGCACTTAAGTCAAAGCCCACATTAGTTGGCATATAAGTCGAAAC
* * * *
4010533 CCACATTAGCTAGTATTTGAA-TCAAAGCCCACATTAGTTGGCACT-TGAGTCGAAGC
1 CCACATTAGCTAGCACTT-AAGTCAAAGCCCACATTAGTTGGCA-TATAAGTCGAAAC
* * *
4010589 TCATATTAGCTGGCACTTAAGTCAAA
1 CCACATTAGCTAGCACTTAAGTCAAA
4010615 ATCTGCACTA
Statistics
Matches: 108, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
55 2 0.02
56 102 0.94
57 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (56 bp):
CCACATTAGCTAGCACTTAAGTCAAAGCCCACATTAGTTGGCATATAAGTCGAAAC
Found at i:4011164 original size:2 final size:2
Alignment explanation
Indices: 4011157--4011187 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4011147 TAAAAGGTTT
4011157 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 T
4011188 TAAAAAAAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4016310 original size:2 final size:2
Alignment explanation
Indices: 4016303--4016328 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4016293 ATTCATACTG
4016303 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
4016329 GTTATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4019060 original size:20 final size:20
Alignment explanation
Indices: 4019035--4019108 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
4019025 CACCTAAATT
* *
4019035 TATCGATACATTTTTTAATG
1 TATCGATACATTCTTCAATG
* * * *
4019055 TATCGATAAATGCATGAATG
1 TATCGATACATTCTTCAATG
4019075 TATCGATACATTCTTCAATG
1 TATCGATACATTCTTCAATG
4019095 TATCGATACATTCT
1 TATCGATACATTCT
4019109 GTCTTTTTAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCTTCAATG
Found at i:4021471 original size:97 final size:95
Alignment explanation
Indices: 4021304--4021545 Score: 351
Period size: 96 Copynumber: 2.5 Consensus size: 95
4021294 TTATTTATCA
* * *
4021304 GGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACACATCCAAGTTT
1 GGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTA
4021369 AAATCTTATTCTCACTTAAATTGTCACCATC
66 AAATC-TATTCTCACTTAAATTGTCACCATC
* *
4021400 GAGGATACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACGCATCAAAGTT
1 G-GGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTT
**
4021465 AAAATCTATTCTCACTTAAATTGTCATTATC
65 AAAATCTATTCTCACTTAAATTGTCACCATC
* * *
4021496 GGAGACACTCCAA-CCTCATTCCTCCGAGGGGATACTCCAACTCCGTTTTT
1 GG-GATACTCCAACCCT-ATTCCTCCGAGGGGATACTCCAACCCCGCTTTT
4021546 CAATAAAAAA
Statistics
Matches: 132, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
95 4 0.03
96 64 0.48
97 64 0.48
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (95 bp):
GGGATACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTA
AAATCTATTCTCACTTAAATTGTCACCATC
Found at i:4022522 original size:13 final size:13
Alignment explanation
Indices: 4022504--4022560 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4022494 CATAAAGTGT
4022504 TGTATCGATACAA
1 TGTATCGATACAA
4022517 TGTATCGATACATAA
1 TGTATCGATAC--AA
4022532 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4022549 TGTATCGATACA
1 TGTATCGATACA
4022561 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4022539 original size:32 final size:32
Alignment explanation
Indices: 4022484--4022581 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
4022474 TTCAACGATT
4022484 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
4022517 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4022549 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4022581 T
1 T
4022582 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4022541 original size:19 final size:18
Alignment explanation
Indices: 4022482--4022579 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
4022472 ATTTCAACGA
4022482 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
4022501 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4022517 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4022533 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4022549 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4022565 TTTTGTATCGATACA
1 -TTTGTATCGATACA
4022580 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4022638 original size:13 final size:13
Alignment explanation
Indices: 4022620--4022646 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4022610 ACATTACTCA
4022620 ATTGTATCGATAC
1 ATTGTATCGATAC
4022633 ATTGTATCGATAC
1 ATTGTATCGATAC
4022646 A
1 A
4022647 CTGATCTTTG
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:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:4022699 original size:52 final size:52
Alignment explanation
Indices: 4022655--4022832 Score: 311
Period size: 52 Copynumber: 3.4 Consensus size: 52
4022645 CACTGATCTT
* * *
4022655 TGTATCAATACATGCAGGCAAATTTGTCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
4022707 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4022759 TGTATCGATGCATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
4022811 TGTATCGATACATGCAGGCAAA
1 TGTATCGATACATGCAGGCAAA
4022833 ATTTCATATT
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 120 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4024617 original size:36 final size:37
Alignment explanation
Indices: 4024548--4024621 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 37
4024538 AAGTTTGACA
4024548 CACAAAGAAATTGAGGATGAACATGTTGACGACATGATG
1 CACAAAGAAATTGAGGAT--ACATGTTGACGACATGATG
4024587 CACAAAGAAATTGAGG-T-CTATGTTGACGACATGAT
1 CACAAAGAAATTGAGGATAC-ATGTTGACGACATGAT
4024622 TGCCAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 1 0.03
36 16 0.47
38 1 0.03
39 16 0.47
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (37 bp):
CACAAAGAAATTGAGGATACATGTTGACGACATGATG
Found at i:4027262 original size:1 final size:1
Alignment explanation
Indices: 4027258--4027375 Score: 65
Period size: 1 Copynumber: 118.0 Consensus size: 1
4027248 GGCGTCCTCT
* ** * * * * * * * *
4027258 AAAAAAAAAACAAAACGAAAGAAAAAAAAACAAAAAAAAAACAACAAGAAAAAAACAAAACAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
4027323 AAACAAACAAACAAAAAAACAAAAAACAAAAAAACAAAAAACAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4027376 GGGTCCGGAT
Statistics
Matches: 80, Mismatches: 37, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.84, C:0.14, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:4027294 original size:8 final size:8
Alignment explanation
Indices: 4027258--4027374 Score: 102
Period size: 8 Copynumber: 14.9 Consensus size: 8
4027248 GGCGTCCTCT
4027258 AAAAAAA-
1 AAAAAAAC
4027265 AAACAAAAC
1 AAA-AAAAC
* *
4027274 GAAAGAA-
1 AAAAAAAC
4027281 AAAAAAAC
1 AAAAAAAC
4027289 -AAAAAA-
1 AAAAAAAC
*
4027295 AAAACAAC
1 AAAAAAAC
4027303 AAGAAAAA-
1 AA-AAAAAC
*
4027311 AACAAAAC
1 AAAAAAAC
*
4027319 AAACAAAC
1 AAAAAAAC
*
4027327 AAACAAAC
1 AAAAAAAC
4027335 AAAAAAAC
1 AAAAAAAC
4027343 -AAAAAAC
1 AAAAAAAC
4027350 AAAAAAAC
1 AAAAAAAC
4027358 AAAAAACAAC
1 -AAAAA-AAC
4027368 AAAAAAA
1 AAAAAAA
4027375 AGGGTCCGGA
Statistics
Matches: 90, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
7 30 0.33
8 41 0.46
9 16 0.18
10 3 0.03
ACGTcount: A:0.84, C:0.14, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:4027296 original size:31 final size:30
Alignment explanation
Indices: 4027258--4027375 Score: 127
Period size: 31 Copynumber: 3.9 Consensus size: 30
4027248 GGCGTCCTCT
4027258 AAAAAAAAAACAAAACGAAAGAAAAAAAAAC
1 AAAAAAAAAACAAAACGAAA-AAAAAAAAAC
*
4027289 AAAAAAAAAACAACAA-GAAAAAAACAAAAC
1 AAAAAAAAAACAA-AACGAAAAAAAAAAAAC
* *
4027319 AAACAAACAAAC-AAACAAAAAAACAAAAAAC
1 AAA-AAAAAAACAAAACGAAAAAA-AAAAAAC
* *
4027350 AAAAAAACAA-AAAAC-AACAAAAAAAA
1 AAAAAAAAAACAAAACGAAAAAAAAAAA
4027376 GGGTCCGGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
28 5 0.07
29 7 0.09
30 28 0.37
31 33 0.44
32 2 0.03
ACGTcount: A:0.84, C:0.14, G:0.03, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAACAAAACGAAAAAAAAAAAAC
Found at i:4028840 original size:30 final size:30
Alignment explanation
Indices: 4028805--4028980 Score: 184
Period size: 30 Copynumber: 6.0 Consensus size: 30
4028795 TCAACCTTCA
*
4028805 AAAGCCCACAAGTTAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTC
* *
4028835 AAAGCCCACAAATCAGTGGCA-AC--TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTC
4028862 AAAAGCCCACAAGTCAGTGGCACCCTTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTTC
* * *
4028893 AAAGCTCACAAATCAGTGGCA-AC--TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTC
* *
4028920 AAAAACCCATAAGTCAGTGGCACCCTTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTTC
* * * *
4028951 GAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTTC
4028981 CTTCTAAGCC
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
27 8 0.07
28 37 0.31
29 4 0.03
30 62 0.52
31 8 0.07
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTTC
Found at i:4028878 original size:28 final size:28
Alignment explanation
Indices: 4028796--4028941 Score: 143
Period size: 28 Copynumber: 5.1 Consensus size: 28
4028786 AGACATTCCT
* *
4028796 CAACCTTCAAAAGCCCACAAGTTAGTGG
1 CAACTTTCAAAAGCCCACAAGTCAGTGG
* *
4028824 CACCCTTTTTC-AAAGCCCACAAATCAGTGG
1 CA-AC--TTTCAAAAGCCCACAAGTCAGTGG
4028854 CAACTTTCAAAAGCCCACAAGTCAGTGG
1 CAACTTTCAAAAGCCCACAAGTCAGTGG
* * *
4028882 CACCCTTTTTC-AAAGCTCACAAATCAGTGG
1 CA-AC--TTTCAAAAGCCCACAAGTCAGTGG
* *
4028912 CAACTTTCAAAAACCCATAAGTCAGTGG
1 CAACTTTCAAAAGCCCACAAGTCAGTGG
4028940 CA
1 CA
4028942 CCCTTTTTCG
Statistics
Matches: 96, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
27 8 0.08
28 39 0.41
29 4 0.04
30 38 0.40
31 7 0.07
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.21
Consensus pattern (28 bp):
CAACTTTCAAAAGCCCACAAGTCAGTGG
Found at i:4028891 original size:58 final size:58
Alignment explanation
Indices: 4028796--4028971 Score: 280
Period size: 58 Copynumber: 3.0 Consensus size: 58
4028786 AGACATTCCT
* *
4028796 CAACCTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGG
1 CAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGG
*
4028854 CAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCTCACAAATCAGTGG
1 CAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGG
* * * * *
4028912 CAACTTTCAAAAACCCATAAGTCAGTGGCACCCTTTTTCGAAGCCCACAACTCCGTGG
1 CAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGG
4028970 CA
1 CA
4028972 CTCTTTTTCC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 109 1.00
ACGTcount: A:0.32, C:0.31, G:0.15, T:0.22
Consensus pattern (58 bp):
CAACTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAATCAGTGG
Found at i:4029040 original size:34 final size:34
Alignment explanation
Indices: 4028952--4029022 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
4028942 CCCTTTTTCG
4028952 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
*
4028986 AAGCCCACAACTCCGTGGCACTTTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
4029020 AAG
1 AAG
4029023 TCCATGAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
Found at i:4029112 original size:43 final size:43
Alignment explanation
Indices: 4029047--4029379 Score: 207
Period size: 43 Copynumber: 7.1 Consensus size: 43
4029037 GCACCCTTAT
* *
4029047 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
4029090 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-----C
* * * * *
4029138 ATCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCATATTAGCACTTTC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
4029187 ATCTTTAAGTCCAATGTAGCTGGCCATGAATCAGCACATTGTCATTTTTGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG--------GCAC
** * *
4029240 CTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* * *
4029287 ATCTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 --C-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* ** * *
4029333 TTTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCGC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
4029376 CTTT
1 CTTT
4029380 GTCATCTTTA
Statistics
Matches: 235, Mismatches: 33, Indels: 44
0.75 0.11 0.14
Matches are distributed among these distances:
43 81 0.34
46 1 0.00
47 1 0.00
48 1 0.00
49 41 0.17
50 73 0.31
51 33 0.14
53 1 0.00
57 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:4029165 original size:50 final size:50
Alignment explanation
Indices: 4029090--4029491 Score: 428
Period size: 52 Copynumber: 8.1 Consensus size: 50
4029080 ACATTGGCAC
* * *
4029090 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* * * *
4029140 CTTTAAGACCAATGTTGCTGGCCTTGAATCAGCATATTAGCA-CTTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* * * * * ** *
4029189 CTTTAAGTCCAATGTAGCTGGCCATGAATCAGCACATTGTCATTTTTGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-CAT
** *
4029240 CTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-CTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* * *
4029289 CTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-----C-T
1 C-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
* *
4029334 -TTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-TCAT
* * *
4029385 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-ACCTT-TCAT
* *
4029437 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
4029486 CTTTAA
1 CTTTAA
4029492 CATTCCTAAG
Statistics
Matches: 295, Mismatches: 44, Indels: 27
0.81 0.12 0.07
Matches are distributed among these distances:
43 36 0.12
45 1 0.00
46 1 0.00
49 55 0.19
50 79 0.27
51 39 0.13
52 83 0.28
53 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (50 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTCAT
Found at i:4029310 original size:150 final size:144
Alignment explanation
Indices: 4029045--4029491 Score: 507
Period size: 150 Copynumber: 3.1 Consensus size: 144
4029035 TGGCACCCTT
* *
4029045 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG----GCACCTTTAAGTCCAATATA
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGCTTTGCACCTTTAAGTCCAATATC
* *
4029106 GTTGGCCTTGAATCAGCATATTGGCACCCTTCATCTTTAAGACCAATGTTGCTGGCCTTGAATCA
66 GCTGGCCTTGAATCAGCATATTGGCACCC-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCA
* *
4029171 GCATATTAGCACTTTC
130 GCACATTGGCAC-TTC
* **
4029187 ATCTTTAAGTCCAATGTAGCTGGCCATGAATCAGCACATTGTCATTTTTGCACCTCCAAGTCCAA
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG-C---TTTGCACCTTTAAGTCCAA
*
4029252 TATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCTGGCCTTGA
62 TATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATC-TTTAAGACCAATGTCGCTGGCCTTGA
4029317 ATCAGCACATTGGCA---C
126 ATCAGCACATTGGCACTTC
*** * * *
4029333 -T-TTTAAGTCCAATACCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGCCCA
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT---G-CTTTG-CACCTTTAAGTCCA
* ** *
4029396 ATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCT
61 ATATCGCTGGCCTTGAATCAGCATATTGGC-AC--CCTCATCTTTAAGACCAATGTCGCTGGCCT
4029461 TGAATCAGCACATTGGCACCTTC
123 TGAATCAGCACATTGGCA-CTTC
4029484 ATCTTTAA
1 ATCTTTAA
4029492 CATTCCTAAG
Statistics
Matches: 259, Mismatches: 24, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
142 39 0.15
144 36 0.14
145 41 0.16
146 2 0.01
147 42 0.16
148 5 0.02
149 5 0.02
150 82 0.32
151 1 0.00
152 1 0.00
153 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (144 bp):
ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGCTTTGCACCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
CACATTGGCACTTC
Found at i:4030303 original size:13 final size:13
Alignment explanation
Indices: 4030285--4030341 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4030275 CATAAAGTGT
4030285 TGTATCGATACAA
1 TGTATCGATACAA
4030298 TGTATCGATACATAA
1 TGTATCGATAC--AA
4030313 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4030330 TGTATCGATACA
1 TGTATCGATACA
4030342 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4030320 original size:32 final size:32
Alignment explanation
Indices: 4030265--4030362 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
4030255 TTCAACGATT
4030265 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
4030298 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4030330 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4030362 T
1 T
4030363 TTAAGCAACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4030322 original size:19 final size:18
Alignment explanation
Indices: 4030263--4030360 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
4030253 ATTTCAACGA
4030263 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
4030282 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4030298 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4030314 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
4030330 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
4030346 TTTTGTATCGATACA
1 -TTTGTATCGATACA
4030361 ATTTAAGCAA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:4030421 original size:13 final size:13
Alignment explanation
Indices: 4030403--4030427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4030393 ATTACTCAAC
4030403 TGTATCGATACAT
1 TGTATCGATACAT
4030416 TGTATCGATACA
1 TGTATCGATACA
4030428 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4030480 original size:52 final size:50
Alignment explanation
Indices: 4030416--4030561 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 50
4030406 ATCGATACAT
*
4030416 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
*
4030468 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
4030520 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAA
4030562 ATTTCATATT
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:4033869 original size:233 final size:232
Alignment explanation
Indices: 4033413--4033853 Score: 568
Period size: 233 Copynumber: 1.9 Consensus size: 232
4033403 CTCAAGACAT
* *
4033413 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGCGAGTCCAAAATTTTGGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGACGACTCCAAAATTTTGGT
* * *
4033478 CACTTTGTAGTGACTATTAAAGATCAATTAGATGGGCGATTCATCTACTGATCTTCCCTCTTTAA
66 CACTTTGTAGTGACCATCAAAGATCAATTAGATAGGCGATTCATCTACTGATCTTCCCTCTTT-A
* *
4033543 TCAACACACTTCCCATCATGCCATAGAAATCCCCAATCACGAGGGGTACTAAGTCGAGGATGCCT
130 TCAACACACTTCCCACCATGCCATAGAAATCCCCAATCACGAGGGATACTAAGTCGAGGATGCCT
4033608 CATTTGCCCTATCGCCAGGGTCGAGCACACGTTACGAC
195 CATTTGCCCTATCGCCAGGGTCGAGCACACGTTACGAC
* *
4033646 AGGTTTCAATAGGCATTCGATTATGCCTAGCCCGAAATGATCGGTGACGACTCCAAAATTTTGGT
1 AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGACGACTCCAAAATTTTGGT
* * * * *** *
4033711 CA-TTTCGTGGTGACCGTCGAGGATTGGTTAGATAGGCGATTTATCTACTGATCTTCCC-CTTT-
66 CACTTT-GTAGTGACCATCAAAGATCAATTAGATAGGCGATTCATCTACTGATCTTCCCTCTTTA
* * * * * * * *
4033773 TTAGCATA-TATCTCTTACCATGCCGTAGAAATCCCCAATCACGAGGGATATTAAGT-TAGGCGT
130 TCAACACACT-TC-C-CACCATGCCATAGAAATCCCCAATCACGAGGGATACTAAGTCGAGG-AT
4033836 GCCTCATTTGCCCTATCG
191 GCCTCATTTGCCCTATCG
4033854 TCGGGTTTCG
Statistics
Matches: 178, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
229 1 0.01
230 7 0.04
231 4 0.02
232 62 0.35
233 104 0.58
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (232 bp):
AGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGACGACTCCAAAATTTTGGT
CACTTTGTAGTGACCATCAAAGATCAATTAGATAGGCGATTCATCTACTGATCTTCCCTCTTTAT
CAACACACTTCCCACCATGCCATAGAAATCCCCAATCACGAGGGATACTAAGTCGAGGATGCCTC
ATTTGCCCTATCGCCAGGGTCGAGCACACGTTACGAC
Found at i:4042563 original size:19 final size:20
Alignment explanation
Indices: 4042520--4042572 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
4042510 ATTTCAACGA
4042520 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
*
4042540 GTTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAGT
4042559 TTTGTATCGATACA
1 TTTGTATCGATACA
4042573 ATGTAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:4042649 original size:52 final size:52
Alignment explanation
Indices: 4042614--4042742 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
4042604 CACTGATCTT
*
4042614 TGTATCGATACATGCATGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4042666 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4042718 TGTACCGATACATGGAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
4042743 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4043626 original size:20 final size:20
Alignment explanation
Indices: 4043581--4043628 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
4043571 GTTAACAGCC
* *
4043581 CATGATTCATGCATTTTAAG
1 CATGTTTCATGCATTTTAAA
4043601 CTATGTTTCATGCA-TTTACAA
1 C-ATGTTTCATGCATTTTA-AA
4043622 CATGTTT
1 CATGTTT
4043629 AGCACCTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (20 bp):
CATGTTTCATGCATTTTAAA
Found at i:4048156 original size:10 final size:9
Alignment explanation
Indices: 4048134--4048189 Score: 67
Period size: 9 Copynumber: 5.9 Consensus size: 9
4048124 CTTCATACCT
4048134 AAAAAAAAC
1 AAAAAAAAC
**
4048143 AAAAAAGCC
1 AAAAAAAAC
4048152 AAAAAAAAC
1 AAAAAAAAC
4048161 AAAAAAAAC
1 AAAAAAAAC
4048170 AAAAAACAACC
1 AAAAAA-AA-C
4048181 AAGAAAAAA
1 AA-AAAAAA
4048190 ATAACAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
9 29 0.73
10 2 0.05
11 5 0.12
12 4 0.10
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:4048174 original size:34 final size:34
Alignment explanation
Indices: 4048136--4048201 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
4048126 TCATACCTAA
*
4048136 AAAAAACAAAAAAGCCAAAAAA-AACAAAAAAAAC
1 AAAAAACAAAAAAG-AAAAAAATAACAAAAAAAAC
**
4048170 AAAAAACAACCAAGAAAAAAATAACAAAAAAA
1 AAAAAACAAAAAAGAAAAAAATAACAAAAAAA
4048202 CAGAAAGGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 6 0.21
34 22 0.79
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.02
Consensus pattern (34 bp):
AAAAAACAAAAAAGAAAAAAATAACAAAAAAAAC
Found at i:4048189 original size:16 final size:15
Alignment explanation
Indices: 4048134--4048201 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 15
4048124 CTTCATACCT
4048134 AAAAAAAACAAAAAA
1 AAAAAAAACAAAAAA
4048149 GCCAAAAAAAACAAAAAA
1 ---AAAAAAAACAAAAAA
4048167 AACAAAAAACAACCAAGAA
1 AA-AAAAAACAA--AA-AA
*
4048186 AAAAATAACAAAAAA
1 AAAAAAAACAAAAAA
4048201 A
1 A
4048202 CAGAAAGGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 5 0.11
16 11 0.24
18 25 0.56
19 4 0.09
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.01
Consensus pattern (15 bp):
AAAAAAAACAAAAAA
Found at i:4049461 original size:28 final size:28
Alignment explanation
Indices: 4049420--4051199 Score: 1900
Period size: 28 Copynumber: 62.1 Consensus size: 28
4049410 CGTTCATCTC
* * *
4049420 TTCAAAGCTCATAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4049448 TTCAAAGCCTATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4049476 TTCAAAGCCTACAAGTCAATGCCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4049504 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
4049533 TTCAAAGCCCACAAGTCACTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4049561 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4049589 TTCAAAGCCCACAAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4049617 TTCAAAGCCCACATAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCAC--AAGTCAGTGGC-AC-CCT
* *
4049649 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4049677 TTTAAAGCCCACGAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4049705 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
4049734 TTCAAAGCCCACAAGTCAGTGGCA-TCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4049761 TTCCAAAGCCCACACAAGTCGGTAGCAACTCTT
1 TT-CAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* * *
4049794 TTCAAAGCTCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4049822 TTCAAAGCCCACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * *
4049852 TTCAAAGCCCACAAGTCGGTGGAAACTCAT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* * * * * *
4049882 TTTAAAGCTCAGAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
4049910 TTCAAAACCCACGAGTTAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4049938 TTCAAAGCTCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
4049967 TTCAAAGCCCACAAGTCACTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4049995 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050023 TTCAAAGCCCACAAGTCACTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050051 TTCAAAGCCCACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4050079 TTCAAAGCCCACAAGTCAATGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050107 TTCAAAGCCCACATAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCAC--AAGTCAGTGGC-AC-CCT
*
4050139 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050167 TTTAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
4050197 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050225 TTCAAAGCCGACATGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
4050257 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050285 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* ***
4050313 TTCAAAGCCCACAAGTCAATGGCATGTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050341 TTCAAAGCCCACATGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
4050373 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050401 TTCAAAGCCCACGAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050429 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
4050458 TTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4050486 TTCAAAGCCCACACAAGTCGGTAGCAACTCTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* *
4050518 TTCAAAGCCCACAAGTCAATGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4050546 TTCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
4050576 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050604 TTCAAAGCCCACAAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* * * * * *
4050634 TTTAAAGCTCAGAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050662 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050690 TTCAAAGCCCAC----CAGT--TACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050712 TTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4050740 TTAAAAGCTCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050768 TTTAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
4050798 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4050826 TTCAAAGCCGACATGAGTTAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
* *
4050858 TTCAAAGCCCACAACTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050886 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050914 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
4050943 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050971 TTCAAAGCCCACAAGTCAGTTGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
4050999 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
4051027 TTTAAAGCCCACAAGTAAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4051055 TTTAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
4051084 TTCAAAGCCGACAAGTTAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
4051112 TTTAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
4051141 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
4051170 TTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
4051198 TT
1 TT
4051200 ATTAGCCCAA
Statistics
Matches: 1494, Mismatches: 204, Indels: 108
0.83 0.11 0.06
Matches are distributed among these distances:
22 17 0.01
24 4 0.00
26 4 0.00
27 3 0.00
28 862 0.58
29 224 0.15
30 277 0.19
31 10 0.01
32 90 0.06
33 3 0.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:4049698 original size:116 final size:113
Alignment explanation
Indices: 4049420--4051199 Score: 2014
Period size: 116 Copynumber: 15.5 Consensus size: 113
4049410 CGTTCATCTC
* * * * * * *
4049420 TTCAAAGCTCATAAGTTAGTGGCACCCTTTCAAAGCCTATAAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * * * *
4049485 TACAAGTCAATGCCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
66 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4049533 TTCAAAGCCCACAAGTCACTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
4049598 CACAAGTCAATGGCATCTTTTCAAAGCCCACATAAGTCGGTGGCAACTCTT
66 CACAAGTCAGTGGCATCTTTTCAAAGCCCAC--AAGTCAGTGGC-ACTCTT
* * *
4049649 TTCAAAGCCCACAAGTCAGTGGCATCTTTTTAAAGCCCACGAGTTAGTGGCACCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
4049714 CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTT
66 CACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * * *
4049762 TCCAAAGCCCACACAAGTCGGTAGCAACTCTTTTCAAAGCTCACAAGTCAATGGCATCCTTTCAA
1 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * *
4049827 AGCCCACAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCGGTGGAAACTCATT
62 AGCCCACAAGTCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGG-CACTC-TT
* * * * * * * *
4049883 TT-AAAGCTCAGAAGTTAGTGGCATCTTTTCAAAACCCACGAGTTAGTGGCACTCTTTCAAAGCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
4049947 CACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCACTGGCA-TCCT
66 CACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
4049995 TTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCACTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* * *
4050060 CACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCA-TCTT
66 CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4050107 TTCAAAGCCCACATAAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTTAA
1 TTCAAAGCCCAC--AAGTCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* *
4050172 AGCCCACGCAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTT
62 AGCCCA--CAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4050225 TTCAAAGCCGACATGAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAA
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * * * *
4050290 AGCCCACGAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCA-TGTT
62 AGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
4050341 TTCAAAGCCCACATGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAA
1 TTCAAAGCCCACA--AGTCAGTGGC-A-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* *
4050406 AGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
62 AGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
4050458 TTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACACAAGTCGGTAGCAACTCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAA
* * * *
4050523 AGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACGAGTCGGTGGCAACTCTT
62 AGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC-ACTCTT
* * * * *
4050576 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCGGTGGCAACTCTTTTTAAAG
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGC-AC-CCTTTCAAAG
* * * * *
4050641 CTCAGAAGTTAGTGGCATCTTTTCAAAGCCCACGAGTCAGTGGCAC-CCT
64 CCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * * *
4050690 TTCAAAGCCCAC----CAGT--TACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTAAAAGCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
* *
4050749 CACAAGTCAGTGGCACCCTTTT-AAAGCCCACGCAAGTCAGTGGCAC-CCT
66 CACAAGTCAGTGGCA-TCTTTTCAAAGCCCA--CAAGTCAGTGGCACTCTT
* * *
4050798 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCGACATGAGTTAGTGGCAACTCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CCTTTCAA
* * * *
4050863 AGCCCACAACTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCAC-CCT
62 AGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
4050914 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* * *
4050979 CCACAAGTCAGTTGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTT
65 CCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
4051028 TT-AAAGCCCACAAGTAAGTGGCACTCTTTT-AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
* * * *
4051091 CCGACAAGTTAGTGGCACCTTTTTAAAGCCCACAAGTCAGTGGCACTCTT
64 CCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
4051141 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
4051200 ATTAGCCCAA
Statistics
Matches: 1462, Mismatches: 157, Indels: 95
0.85 0.09 0.06
Matches are distributed among these distances:
106 30 0.02
107 7 0.00
108 54 0.04
110 3 0.00
112 74 0.05
113 294 0.20
114 84 0.06
115 111 0.08
116 428 0.29
117 155 0.11
118 211 0.14
119 2 0.00
120 6 0.00
121 3 0.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (113 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:4053869 original size:18 final size:18
Alignment explanation
Indices: 4053846--4053884 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4053836 ATATTTTTAA
*
4053846 ATCGATCCTTATCGAGTC
1 ATCGATCCTCATCGAGTC
4053864 ATCGATCCTCATCGAGTC
1 ATCGATCCTCATCGAGTC
4053882 ATC
1 ATC
4053885 TTTTGAACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (18 bp):
ATCGATCCTCATCGAGTC
Found at i:4054292 original size:97 final size:97
Alignment explanation
Indices: 4054171--4054413 Score: 364
Period size: 97 Copynumber: 2.5 Consensus size: 97
4054161 TTATTTATCG
* * *
4054171 GGGATACTCCAACCCTATTCCTCCGAGGGGATACTCTAACCCCGTTTTTAAACACATCAAAGTTT
1 GGGACACTTCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGTTTTTAAACACATCAAAGTTT
4054236 AAA-TCTTATTCTCACTTAAATTGTCACCATCA
66 AAATTC-TATTCTCACTTAAATTGTCACCATCA
**
4054268 GGGACACTTCAACCCCATTCCTCCGAGGGGATACTCTAACCCCACTTTTAAACACATCAAAGTTT
1 GGGACACTTCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGTTTTTAAACACATCAAAGTTT
*
4054333 AAATTCTATTCTCACTTAAATTGTCATCATCA
66 AAATTCTATTCTCACTTAAATTGTCACCATCA
* * * *
4054365 GGGACAC-TCTAACCCCATTCCTCCTAGAGAATACTCCAACCCCGTTTTT
1 GGGACACTTC-AACCCCATTCCTCCGAGGGGATACTCTAACCCCGTTTTT
4054414 CAATAAAAGA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
96 2 0.02
97 128 0.97
98 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (97 bp):
GGGACACTTCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGTTTTTAAACACATCAAAGTTT
AAATTCTATTCTCACTTAAATTGTCACCATCA
Found at i:4055836 original size:23 final size:23
Alignment explanation
Indices: 4055805--4055851 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
4055795 AAAAGAAAGA
* *
4055805 ATAAGAAAACTCCCCTTTTGATG
1 ATAAAAAAACTCCCCTCTTGATG
4055828 ATAAAAAAACTCCCCTCTTGATG
1 ATAAAAAAACTCCCCTCTTGATG
4055851 A
1 A
4055852 AGAAATCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (23 bp):
ATAAAAAAACTCCCCTCTTGATG
Found at i:4057172 original size:21 final size:21
Alignment explanation
Indices: 4057146--4057201 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
4057136 TTTTTATCCA
4057146 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
4057167 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
4057188 AATGTATCGATACA
1 AATGTATCGATACA
4057202 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:4057263 original size:19 final size:18
Alignment explanation
Indices: 4057236--4057302 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 18
4057226 AATTTCAAAC
4057236 AGTTTGTATCGATACATA
1 AGTTTGTATCGATACATA
4057254 AGTGTTGTATCGATAC--A
1 AGT-TTGTATCGATACATA
*
4057271 A---TGTATTGATACATA
1 AGTTTGTATCGATACATA
4057286 AGTTTTGTATCGATACA
1 AG-TTTGTATCGATACA
4057303 CTGTATCGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
13 10 0.25
15 2 0.05
17 2 0.05
18 3 0.08
19 23 0.57
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (18 bp):
AGTTTGTATCGATACATA
Found at i:4057282 original size:32 final size:32
Alignment explanation
Indices: 4057240--4057310 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
4057230 TCAAACAGTT
4057240 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
4057272 TGTATTGATACATAAGTTTTGTATCGATACAC
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4057304 TGTATCG
1 TGTATCG
4057311 CTACGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4057353 original size:21 final size:21
Alignment explanation
Indices: 4057327--4057368 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4057317 AGCTACTGCC
4057327 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4057348 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
4057369 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:4057373 original size:13 final size:13
Alignment explanation
Indices: 4057355--4057380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4057345 ATTAAGGAAA
4057355 TGTATCGATACAT
1 TGTATCGATACAT
4057368 TGTATCGATACAT
1 TGTATCGATACAT
4057381 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4059870 original size:28 final size:27
Alignment explanation
Indices: 4059800--4059874 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
4059790 ATTTTTCACA
4059800 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
4059827 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
4059853 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
4059875 TGGTTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.52
28 17 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:4059901 original size:108 final size:107
Alignment explanation
Indices: 4059751--4059956 Score: 288
Period size: 108 Copynumber: 1.9 Consensus size: 107
4059741 TTTCATAATC
* *
4059751 GGGGATACTCCAACTCTGATTTTATTTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
*
4059816 CCCCGTTAATCATC-GGGGATACTCCAACCCCGTTATTTTCGA
66 CCCCATTAATC-TCAGGGGATACTCCAACCCCGTTATTTTCGA
* * * * *
4059858 GGGGATACTCCAACCCCTGGTTTTATTTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCA
1 GGGGATACTCCAA-CCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCA
* *
4059923 ACCCCATTATTCTCGAGGGGATACTCGAACCCCG
65 ACCCCATTAATCTC-AGGGGATACTCCAACCCCG
4059957 GTTTTATTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 15 0.17
108 54 0.63
109 17 0.20
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
CCCCATTAATCTCAGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:4060200 original size:79 final size:78
Alignment explanation
Indices: 4060068--4060302 Score: 265
Period size: 79 Copynumber: 3.0 Consensus size: 78
4060058 GTTATTTCAT
** * *
4060068 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GTTTTATATCCAAAATAT
*
4060133 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * * *
4060147 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAATCCCGATTTTATATCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-TTTTATATCCAAAAT-A
* * *
4060211 TCGATTTTTCACAAC
64 TTGATTTCTCATAAC
* * * *
4060226 CGGGGATACTCCAACCCCCTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGTT-TTATATCCAAAATAT
*
4060291 TAAATTTCTCAT
65 T-GATTTCTCAT
4060303 CGAGACATAT
Statistics
Matches: 127, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 6 0.05
79 111 0.87
80 10 0.08
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGTTTTATATCCAAAATATT
GATTTCTCATAAC
Found at i:4072686 original size:1 final size:1
Alignment explanation
Indices: 4072680--4072782 Score: 62
Period size: 1 Copynumber: 103.0 Consensus size: 1
4072670 CTTCTTTTCT
* * * * * * * * * * *
4072680 AAAAAAAACAAAAAACAAAAACAAAAACAAAACAACAAAAAAACAAAACAACAAAAAAACAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
4072745 AAAAAATAAAGAAAAAACAAAGAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4072783 GAATCTGCTT
Statistics
Matches: 70, Mismatches: 32, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:4072705 original size:11 final size:10
Alignment explanation
Indices: 4072680--4072782 Score: 86
Period size: 11 Copynumber: 9.9 Consensus size: 10
4072670 CTTCTTTTCT
*
4072680 AAAAAAAACAA
1 AAAAAAAA-AC
4072691 AAAACAAAAAC
1 AAAA-AAAAAC
4072702 AAAAACAAAAC
1 AAAAA-AAAAC
4072713 AACAAAAAAAC
1 AA-AAAAAAAC
*
4072724 --AAAACAAC
1 AAAAAAAAAC
4072732 AAAAAAACAAC
1 AAAAAAA-AAC
4072743 AAAAAAAATA-
1 AAAAAAAA-AC
*
4072753 AAGAAAAAAC
1 AAAAAAAAAC
*
4072763 AAAGAAAAAAG
1 AAA-AAAAAAC
4072774 AAAAAAAAA
1 AAAAAAAAA
4072783 GAATCTGCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
8 7 0.09
9 1 0.01
10 21 0.27
11 41 0.53
12 7 0.09
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:4072711 original size:27 final size:26
Alignment explanation
Indices: 4072681--4072782 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 26
4072671 TTCTTTTCTA
4072681 AAAAAAACAAAAAACAAAAACAAAAAC
1 AAAAAAACAAAAAA-AAAAACAAAAAC
*
4072708 AAAACAACAAAAAAACAAAACAACAAA-
1 AAAAAAACAAAAAAA-AAAACAA-AAAC
* *
4072735 AAAACAACAAAAAAAATAAAGAAAAAAC
1 AAAAAAACAAAAAAAA-AAA-CAAAAAC
4072763 AAAGAAAA-AAGAAAAAAAAA
1 AAA-AAAACAA-AAAAAAAAA
4072783 GAATCTGCTT
Statistics
Matches: 65, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
26 2 0.03
27 41 0.63
28 13 0.20
29 9 0.14
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.01
Consensus pattern (26 bp):
AAAAAAACAAAAAAAAAAACAAAAAC
Found at i:4072723 original size:16 final size:16
Alignment explanation
Indices: 4072681--4072770 Score: 87
Period size: 16 Copynumber: 5.4 Consensus size: 16
4072671 TTCTTTTCTA
*
4072681 AAAAAAACAAAAAACAAA
1 AAAAAAAC--AAAACAAC
4072699 AACAAAAACAAAACAAC
1 AA-AAAAACAAAACAAC
4072716 AAAAAAACAAAACAAC
1 AAAAAAACAAAACAAC
4072732 AAAAAAACAACAA-AA-
1 AAAAAAACAA-AACAAC
*
4072747 AAAATAAAGAAAA-AAC
1 AAAA-AAACAAAACAAC
4072763 AAAGAAAA
1 AAA-AAAA
4072771 AAGAAAAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
15 8 0.12
16 37 0.57
17 12 0.18
18 2 0.03
19 6 0.09
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.01
Consensus pattern (16 bp):
AAAAAAACAAAACAAC
Found at i:4073911 original size:55 final size:55
Alignment explanation
Indices: 4073842--4075007 Score: 1245
Period size: 55 Copynumber: 20.3 Consensus size: 55
4073832 CCCTTTAGTA
* *
4073842 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * * * * *
4073897 CTCAAAGAGTAGGACGTCTTTCAAAGCCCACATAAGTCGGTGGCA-TTTTCCACTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTC
* * * * *
4073952 TTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
*
4074007 CTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTC
1 CTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTC
* *
4074068 CTCAAAGAGCAGGACACCTTTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTCAAAGAGCAGGAC-GC-----CT-TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* *
4074131 CTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
*
4074186 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTC
* *
4074241 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTCGGTGGCA-TTTTCCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTC
* * *
4074296 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* *
4074351 TTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTC
1 CTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTC
* * *
4074412 CTTAAAGAGCAGGACACCTTTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTCAAAGAGCAGGACGCC----T---TTT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* *
4074475 CTCAAAGAGCAGGACGCCTTTTAAATCCCACACGAGTTGGTGGCA-TTTTCTAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTC
* *
4074530 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * *
4074585 CTCAAAGAGCAGGACACCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
1 CTCAAAGAGCAGGACGCC--T--TTT--AAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* *
4074646 CTCAAAAAGCAGGACGCCTTTCGCTTTCAAAGCCCACACAAGTTGCTGGCA-TTTTCCAGTC
1 CTCAAAGAGCAGGACGCC--T---TTT-AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTC
*
4074707 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTC
1 CTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTC
*
4074768 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAAC-TTTCAGTC
1 CTCAAAGAGCAGGACGC-----CTTTT-AAAGCCCACACAAGTTGGTGGC-ACTTTTCAGTC
* * * *
4074829 CCCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTC
* * *
4074884 CTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
* * *
4074939 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTC
1 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
*
4074994 CTCAAAGAGTAGGA
1 CTCAAAGAGCAGGA
4075008 TGCACTTTAT
Statistics
Matches: 973, Mismatches: 82, Indels: 112
0.83 0.07 0.10
Matches are distributed among these distances:
54 14 0.01
55 517 0.53
56 23 0.02
57 3 0.00
58 3 0.00
59 5 0.01
60 3 0.00
61 286 0.29
62 32 0.03
63 85 0.09
64 1 0.00
66 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (55 bp):
CTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTC
Found at i:4074469 original size:344 final size:343
Alignment explanation
Indices: 4073834--4075007 Score: 1698
Period size: 344 Copynumber: 3.4 Consensus size: 343
4073824 TCCTTTCACC
* *
4073834 CTTT-AGTACTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCA-CTTCTCAGTC
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-CAGTC
* * * * *
4073897 CTCAAAGAGTAGGACGTCTTTCAAAGCCCACATAAGTCGGTGGCATTTTCCACTCTTCAAAGAGC
65 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTCCAGTCCTCAAAGAGC
*
4073962 AGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATGCCTT
130 AGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATGCCTT
4074027 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTC
195 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTC
*
4074092 TCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAA
260 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAA
4074157 CCCACACAAGTTGGTGGCA
325 CCCACACAAGTTGGTGGCA
* **
4074176 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* *
4074241 CTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTCGGTGGCATTTTCCAGTCCTCAAAGAGC
65 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTCCAGTCCTCAAAGAGC
*
4074306 AGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTCTTCAAAGAGCAGGATGCCTT
130 AGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATGCCTT
*
4074371 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAGAGCAGGACACCTTTTTC
195 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTC
*
4074436 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAT
260 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAA
*
4074501 CCCACACGAGTTGGTGGCA
325 CCCACACAAGTTGGTGGCA
*
4074520 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
1 CTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* * **
4074585 CTCAAAGAGCAGGACACCTTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCA
65 CTCAAAGAGCAGG--A-C--GCCTTT-CAAAGCCCACACAAGTCGGTGGCATTTTCCAGTCCTCA
* * * *
4074650 AAAAGCAGGACGCCTTTCGCTTTCAAAGCCCACACAAGTTGCTGGCA-TTTTCCAGTCCTCAAAG
124 AAGAGCAGGACG-----C-CTTTCAAAGCCCACACGAGTTGGTGGCACTTCT-CAGTCCTCAAAG
* *
4074714 AGCAGGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAG
182 AGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAG
** * * *
4074777 CAGGA-TGCTTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCAACTTTCAGTCCCCAAAGAGCA
245 CAGGACACCTTTTTCCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCA
* * * *
4074840 AGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
310 GGACGCCTTTTAAAACCCACACAAGTTGGTGGCA
* * * *
4074874 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* * *
4074939 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAG
65 CTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTCCAGTCCTCAAAGAG
*
4075003 TAGGA
129 CAGGA
4075008 TGCACTTTAT
Statistics
Matches: 758, Mismatches: 53, Indels: 35
0.90 0.06 0.04
Matches are distributed among these distances:
343 8 0.01
344 388 0.51
345 3 0.00
346 1 0.00
347 1 0.00
348 39 0.05
349 12 0.02
350 44 0.06
351 1 0.00
352 1 0.00
354 149 0.20
355 24 0.03
356 87 0.11
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (343 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCC
TCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATTTTCCAGTCCTCAAAGAGCA
GGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTCTCAGTCCTCAAAGAGCAGGATGCCTTT
TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCC
CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAAC
CCACACAAGTTGGTGGCA
Found at i:4075839 original size:19 final size:18
Alignment explanation
Indices: 4075815--4075877 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4075805 AAACAGAAAA
4075815 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
4075834 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
4075847 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
4075866 TGTATCGATACA
1 TGTATCGATACA
4075878 ATGTATTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:4075852 original size:13 final size:13
Alignment explanation
Indices: 4075834--4075858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4075824 ACATAAGTGT
4075834 TGTATCGATACAA
1 TGTATCGATACAA
4075847 TGTATCGATACA
1 TGTATCGATACA
4075859 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4075854 original size:32 final size:32
Alignment explanation
Indices: 4075813--4075883 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
4075803 ACAAACAGAA
4075813 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
4075845 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
4075877 AATGTAT
1 AATGTAT
4075884 TGCTACGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:4075948 original size:13 final size:13
Alignment explanation
Indices: 4075930--4075957 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4075920 ATTAAGGAAA
4075930 TGTATCGATACAT
1 TGTATCGATACAT
4075943 TGTATCGATACAT
1 TGTATCGATACAT
4075956 TG
1 TG
4075958 ATCTGTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4078366 original size:52 final size:52
Alignment explanation
Indices: 4078299--4078541 Score: 188
Period size: 52 Copynumber: 4.6 Consensus size: 52
4078289 GTAAGTTTCT
*
4078299 CAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * * * * *** * *
4078351 TAATTTTTCACAATCGGGGATACTCAAACCCCG--TTAATCATCGGGGATACTC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAAACAC
** ** * *
4078403 CAACCTCGTT-ATTTTCGAGGGCATACTCCAACCCTCGGTTTTATTTTC-AAAACAC
1 CAA--TTTTTCATAATCG-GGG-ATACTCCAACCC-CGATTTTATTTCCAAAAACAC
* * *
4078458 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* *
4078511 CAATTTTTCACAATCAGGGATACTCCAACCC
1 CAATTTTTCATAATCGGGGATACTCCAACCC
4078542 GGTTAATCAT
Statistics
Matches: 140, Mismatches: 39, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
50 4 0.03
51 2 0.01
52 64 0.46
53 32 0.23
54 9 0.06
55 22 0.16
56 2 0.01
57 1 0.01
58 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (52 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:4078575 original size:160 final size:160
Alignment explanation
Indices: 4078299--4078647 Score: 549
Period size: 160 Copynumber: 2.2 Consensus size: 160
4078289 GTAAGTTTCT
* *
4078299 CAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAA
1 CAATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAA
* * *
4078364 TCGGGGATACTCAAACCCCGTTAATCATCGGGGATACTCCAACCTCGTTATTTTCGAGGGCATAC
66 TCAGGGATACTCAAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCAAGGGCATAC
*
4078429 TCCAA-CCCTCGGTTTTATTTTC-AAAACAC
131 TCCAACCCCT-GGGTTTATTTTCTAAAACAC
*
4078458 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACA
1 CAATTTTCC-ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACA
* * *
4078523 ATCAGGGATACTCCAACCCGGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATA
65 ATCAGGGATACTCAAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCAAGGGCATA
* *
4078588 CTCCAACCCCTGGGTTTCTTTTCTAAAACAT
130 CTCCAACCCCTGGGTTTATTTTCTAAAACAC
*
4078619 CAATTTTTCATAATCGGGGATACTCCAAC
1 CAATTTTCCATAATCGGGGATACTCCAAC
4078648 CTCATTATTC
Statistics
Matches: 173, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
159 8 0.05
160 147 0.85
161 18 0.10
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (160 bp):
CAATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAA
TCAGGGATACTCAAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCAAGGGCATAC
TCCAACCCCTGGGTTTATTTTCTAAAACAC
Found at i:4078585 original size:28 final size:27
Alignment explanation
Indices: 4078527--4078597 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
4078517 TTCACAATCA
* *
4078527 GGGATACTCCAACCCGGTTAATCATCG
1 GGGATACTCCAACCCCGTTAATCATAG
*
4078554 GGGATACTCCAACCCCGTTATTTTCA-AG
1 GGGATACTCCAACCCCGTTA--ATCATAG
4078582 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
4078598 TGGGTTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 19 0.49
28 17 0.44
29 3 0.08
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTAATCATAG
Found at i:4078923 original size:79 final size:78
Alignment explanation
Indices: 4078791--4079014 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
4078781 GTTATTTCAT
** * * *
4078791 CGGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCC-GTTTTATATCCAAAATAT
* *
4078856 TGATTTCTAATAAT
65 TGATTTCTAACAAC
* * *
4078870 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATATCC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-TTTTATATCCAAAAT-A
* * *
4078934 TCGATTTTTCACAAC
64 TTGATTTCTAACAAC
* * **
4078949 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTACCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGTT-TTATATCCAAAATAT
4079014 T
65 T
4079015 AAATTTCTCA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
78 6 0.05
79 111 0.93
80 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGTTTTATATCCAAAATATT
GATTTCTAACAAC
Found at i:4080356 original size:169 final size:168
Alignment explanation
Indices: 4080021--4080445 Score: 546
Period size: 169 Copynumber: 2.5 Consensus size: 168
4080011 AATTTTTTAA
* * * * *
4080021 ATTATTTATTTTATATTAAATC--AATTTTAAAAAATTCCTTCATTTTCTTTAGTTTTTGAATTT
1 ATTATTTATTTCATATTAAATCTTATTTTTCAAAAATTCATTCA-TTTCATTAGTTTTTGAATTT
* *** *
4080084 TTT-CTTGAAATTTTCTTATTTTCGAAATACGGTGTTTTCTACTCCATAAATTTTTTCGGCAGGA
65 TTTCCTTGAAATTTTCTTATTTTTGAAATACAAAGTTTTCTACTCCATAAATTTTTTAGGCAGGA
*
4080148 TTTTTCTTGCTTTTTAATTTTTTTAAATTCATCAAATATT
130 TTTTTCTTGCTTTTTAA-TTTTTTAAATTCATAAAATATT
*
4080188 ATTATTTATTTCATATTAAATCTTTTTTTTCAAAAATTCATTCACTTTCATTAGTTTTTGAATTT
1 ATTATTTATTTCATATTAAATCTTATTTTTCAAAAATTCATTCA-TTTCATTAGTTTTTGAA-TT
* * * *
4080253 TTTTCCTTGAAGTTTTTTTATTTTTGAAATACAAAGTTTTCTACTCTATAAATTTTTTTAAGG-G
64 TTTTCCTTGAAATTTTCTTATTTTTGAAATACAAAGTTTTCTACTCCATAAA-TTTTTT-AGGCA
*
4080317 GGA-TTTTCTTGGTTTTTAA-TTTTTAAATTCATAAAATATT
127 GGATTTTTCTTGCTTTTTAATTTTTTAAATTCATAAAATATT
*
4080357 ATTATTTATTTCATATTAAA--TTATTTTTCAAAAATTCATTCATGTTCATGAGTTTTTG-ATTT
1 ATTATTTATTTCATATTAAATCTTATTTTTCAAAAATTCATTCAT-TTCATTAGTTTTTGAATTT
*
4080419 TTTCCTTAAAATTTTCTT-TTTTTGAAA
65 TTTCCTTGAAATTTTCTTATTTTTGAAA
4080446 AATCGAGTTT
Statistics
Matches: 228, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
164 9 0.04
165 18 0.08
166 2 0.01
167 55 0.24
169 72 0.32
170 6 0.03
171 55 0.24
172 9 0.04
173 2 0.01
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (168 bp):
ATTATTTATTTCATATTAAATCTTATTTTTCAAAAATTCATTCATTTCATTAGTTTTTGAATTTT
TTCCTTGAAATTTTCTTATTTTTGAAATACAAAGTTTTCTACTCCATAAATTTTTTAGGCAGGAT
TTTTCTTGCTTTTTAATTTTTTAAATTCATAAAATATT
Found at i:4082992 original size:155 final size:154
Alignment explanation
Indices: 4082710--4083694 Score: 1034
Period size: 155 Copynumber: 6.5 Consensus size: 154
4082700 CTATAAATCC
* * * *
4082710 TTTAAGTCCTTTAAGGGTATCGAGCACTTCTACGTCAAAAGTATCCTCTAGGGGCATTTTGATAA
1 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGATAA
* * * * * * * *
4082775 TTTTTTAAAATCGAGTCTTCGGTTGTCACCAAGTTTGCTTTTATGCTGAAAGTAAATATTTAAGA
66 -TTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGA
* *
4082840 TAGGTTCATTCATTTTAAAATCCTT
130 TAGGTTCATCCCTTTTAAAATCCTT
* * *
4082865 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTGGATCCCCCAAGGGCATTTTAAT
1 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGT--ATCCCCTAGGGGCATTTTGAT
* * * * *
4082930 AATTTTTAAAATCAAGTCTTAGGTTGTCACTAGGTCTAC-TTTATGCCGAAGGTAGATATTTAAG
64 AATTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGG
*
4082994 ATCGGTTCATCCCTTTTAAAATCCTT
129 ATAGGTTCATCCCTTTTAAAATCCTT
* * * * * ** *
4083020 TTTAAGTACTTTAAGGCTATCGGGCACTTCTATGTTAAAGGTATCCCCTAGGGGCATTGTGATAA
1 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGATAA
* * * *
4083085 TTTTCTAGAATCGAGTCCTAGGTTGTCACCAAGTCTGCTTTTATACTGAAGGTAGATATTTAGGA
66 TTTT-TAAAATCGAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGA
*
4083150 TAGGTTCAGCCCTTTTAAAATCCTT
130 TAGGTTCATCCCTTTTAAAATCCTT
* * * * *
4083175 TTTAAGTACTTTAGGGGTATC-AGACACTTCTACATAGAAGGTATCTCCTAGGGGCATTTTGCTA
1 TTTAAGTCCTTTAGGGGTATCGAG-CACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGAT-
* * * * *
4083239 AATTTTTTAAAATCTAGTCCTAGGTTATCATCGGGTCTGCTTTTATGCCGAAAGTAGATATTTAG
64 AA-TTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAG
*
4083304 GATAGGTTTATCCCTTTTAAAATCC--
128 GATAGGTTCATCCCTTTTAAAATCCTT
* * * * ** *
4083329 TTTAAGTCCTTTAGGGGTATTGAGAACTTCTACATCGAAGGTATCCCGTAAAGGCATTTTGGTAA
1 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGATAA
* **
4083394 TTTTCTAAAATCGAGTCCTAGGTTGTCACCGGGTCT--TTTTATATCGAAGGTAGATATTTAGGA
66 TTTT-TAAAATCGAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGA
4083457 TAGGTTCATCCCTTTT--AA-----
130 TAGGTTCATCCCTTTTAAAATCCTT
* * * * * * *
4083475 ---AA-TCCTTTAGGGGTATCGAGCACTTTTACATCAAAGGTATCTCTTAGGGGTATTTTGGTAA
1 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGATAA
* * **
4083536 TTTTTAAAA-CTGAGTCCTAGGTTGTCATCGGGTCTGCTTTTATGTTGAAGGTAGATATTTAGGA
66 TTTTTAAAATC-GAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGA
* * * *
4083600 TAGTTTCATCTCATTTATAATCCTT
130 TAGGTTCATCCCTTTTAAAATCCTT
* ** * * * * * *
4083625 CTTAAGTTATTTACGAGTATCGGGCACTTCTACGTCGAAGGTATCTCCTGGGGGCATTTTCATAA
1 TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGATAA
4083690 TTTTT
66 TTTTT
4083695 CTTGAACTTA
Statistics
Matches: 701, Mismatches: 106, Indels: 47
0.82 0.12 0.06
Matches are distributed among these distances:
140 1 0.00
141 28 0.04
142 54 0.08
143 40 0.06
145 2 0.00
149 2 0.00
151 39 0.06
152 4 0.01
153 55 0.08
154 130 0.19
155 218 0.31
156 105 0.15
157 23 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (154 bp):
TTTAAGTCCTTTAGGGGTATCGAGCACTTCTACGTCGAAGGTATCCCCTAGGGGCATTTTGATAA
TTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAGGTAGATATTTAGGAT
AGGTTCATCCCTTTTAAAATCCTT
Found at i:4085691 original size:47 final size:47
Alignment explanation
Indices: 4085622--4085715 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
4085612 TTAATAAGTG
4085622 CAATTGTTTCAAACTCACCAAATTTATTCTTTTTTGACAAGATTTCT
1 CAATTGTTTCAAACTCACCAAATTTATTCTTTTTTGACAAGATTTCT
4085669 CAATTGTTTCAAACTCACCAAATTTATTCTTTTTTGACAAGATTTCT
1 CAATTGTTTCAAACTCACCAAATTTATTCTTTTTTGACAAGATTTCT
4085716 TTCATAAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (47 bp):
CAATTGTTTCAAACTCACCAAATTTATTCTTTTTTGACAAGATTTCT
Found at i:4087530 original size:52 final size:51
Alignment explanation
Indices: 4087465--4087649 Score: 253
Period size: 51 Copynumber: 3.6 Consensus size: 51
4087455 GAAATAACGA
* * * *
4087465 GGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACCGG
* * * *
4087517 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * *
4087569 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
4087620 GGTTGGAGTATCCCCGATTATGAAAAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
4087650 AGAAACTTAA
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
51 54 0.47
52 50 0.43
53 11 0.10
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:4087530 original size:80 final size:78
Alignment explanation
Indices: 4087261--4087534 Score: 300
Period size: 79 Copynumber: 3.4 Consensus size: 78
4087251 AAATTTAATA
* * **
4087261 TTTTGGAGATAATAA-CGGGGTTGGAGTATCCCC-TTGAAAATAACGGGGTTGGAGTATCCCCGG
1 TTTTGGAAATAA-AATC-GGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCAA
4087324 TTGTGAAAAATTGATG
63 TTGTGAAAAATTGATG
* * *** *
4087340 ATTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCTAATT
1 TTTTGGAAATAAAATCGGG-TTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCAATT
* * ** *
4087405 ATGAGAAATCAATA
65 GTGAAAAATTGATG
* *
4087419 TTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCAATT
1 TTTTGGAAATAAAATC-GGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCAATT
*
4087484 GTGAAAAATTGGTG
65 GTGAAAAATTGATG
*
4087498 TTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGAT
1 -TTTTGGAAATAAAATCG-GGTTGGAGTATCCCCGAT
4087535 TAAAGGAAAA
Statistics
Matches: 160, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
78 5 0.03
79 119 0.74
80 36 0.22
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (78 bp):
TTTTGGAAATAAAATCGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCAATTG
TGAAAAATTGATG
Found at i:4090024 original size:13 final size:13
Alignment explanation
Indices: 4090006--4090031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4089996 ACAAAGATCG
4090006 ATGTATCGATACA
1 ATGTATCGATACA
4090019 ATGTATCGATACA
1 ATGTATCGATACA
4090032 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4090042 original size:21 final size:21
Alignment explanation
Indices: 4090018--4090059 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4090008 GTATCGATAC
4090018 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
4090039 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
4090060 CGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:4091795 original size:11 final size:10
Alignment explanation
Indices: 4091742--4091803 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
4091732 AATTTAAATG
*
4091742 TAAAT-AAAG
1 TAAATAAAAA
*
4091751 TAAATAAAAC
1 TAAATAAAAA
*
4091761 TAATTTAAAAA
1 TAA-ATAAAAA
* *
4091772 TTACTAAAAA
1 TAAATAAAAA
4091782 TAAATAAAATA
1 TAAATAAAA-A
4091793 TAAATAAAAA
1 TAAATAAAAA
4091803 T
1 T
4091804 GTCTAAGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
9 5 0.12
10 21 0.49
11 17 0.40
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (10 bp):
TAAATAAAAA
Found at i:4092151 original size:3 final size:3
Alignment explanation
Indices: 4092143--4092179 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4092133 AGTCAAAAGC
4092143 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4092180 TTATATACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4092280 original size:20 final size:20
Alignment explanation
Indices: 4092255--4092294 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4092245 CTTTATATTT
4092255 AATAT-ATTTAATTTTTTTAA
1 AATATAATTT-ATTTTTTTAA
4092275 AATATAATTTATTTTTTTAA
1 AATATAATTTATTTTTTTAA
4092295 GTCTTGATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATATAATTTATTTTTTTAA
Found at i:4093954 original size:29 final size:30
Alignment explanation
Indices: 4093899--4093964 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
4093889 CTTGATCATC
** *
4093899 ATAATATTATTCAATATTTTAATTTTTACTA
1 ATAATATTATTCAATATAATAACTTTT-CTA
*
4093930 ATAAT-TTA-TCAATATAATAACTTTTTTA
1 ATAATATTATTCAATATAATAACTTTTCTA
4093958 ATAATAT
1 ATAATAT
4093965 AAAAATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 7 0.23
29 15 0.50
30 3 0.10
31 5 0.17
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (30 bp):
ATAATATTATTCAATATAATAACTTTTCTA
Found at i:4094511 original size:17 final size:17
Alignment explanation
Indices: 4094489--4094523 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4094479 ATAGATAAAA
4094489 ATTAATCCATATTCGTG
1 ATTAATCCATATTCGTG
*
4094506 ATTAATCCGTATTCGTG
1 ATTAATCCATATTCGTG
4094523 A
1 A
4094524 AACACATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (17 bp):
ATTAATCCATATTCGTG
Found at i:4094730 original size:16 final size:16
Alignment explanation
Indices: 4094709--4094755 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
4094699 CGTGTGGCAA
4094709 ATAATTATAATATTTT
1 ATAATTATAATATTTT
*
4094725 ATAATTATTATA-TTT
1 ATAATTATAATATTTT
* *
4094740 ATATTTATATTATTTT
1 ATAATTATAATATTTT
4094756 TTATGTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTATAATATTTT
Found at i:4095001 original size:17 final size:17
Alignment explanation
Indices: 4094979--4095030 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
4094969 CAATTAAACT
*
4094979 ATAATTTTAAACATA-AA
1 ATAATTATAAA-ATATAA
4094996 ATAATTATAAAATATAA
1 ATAATTATAAAATATAA
* *
4095013 ATATAATATAAAAAATAA
1 ATA-ATTATAAAATATAA
4095031 TTAAAATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.10
17 15 0.50
18 12 0.40
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATTATAAAATATAA
Found at i:4095022 original size:18 final size:18
Alignment explanation
Indices: 4094991--4095030 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4094981 AATTTTAAAC
*
4094991 ATAAAATAATTATAAAAT
1 ATAAAATAATTATAAAAA
4095009 ATAAATATAA-TATAAAAA
1 ATAAA-ATAATTATAAAAA
4095027 ATAA
1 ATAA
4095031 TTAAAATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAATAATTATAAAAA
Found at i:4095106 original size:11 final size:11
Alignment explanation
Indices: 4095090--4095114 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4095080 TATAACAAAA
4095090 ATAATTTAAAT
1 ATAATTTAAAT
4095101 ATAATTTAAAT
1 ATAATTTAAAT
4095112 ATA
1 ATA
4095115 TTAAATAAAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATTTAAAT
Found at i:4095418 original size:19 final size:18
Alignment explanation
Indices: 4095394--4095547 Score: 117
Period size: 18 Copynumber: 8.6 Consensus size: 18
4095384 TTGATAATTT
*
4095394 TAAATATAATTATATAATA
1 TAAATATAA-TATATAAAA
4095413 TAAATATAATATA-AAAA
1 TAAATATAATATATAAAA
4095430 T-AATATAATATA-AAAA
1 TAAATATAATATATAAAA
4095446 T-AATATTAATATATTAAAA
1 TAAATA-TAATATA-TAAAA
* *
4095465 -ATATATAAATATATAATA
1 TAAATAT-AATATATAAAA
** * *
4095483 TTTATATAATATTTTAAA
1 TAAATATAATATATAAAA
4095501 TATAA-ATAATATA-AAAA
1 TA-AATATAATATATAAAA
*
4095518 TTAAATATAATATAAATAAA
1 -TAAATATAATATATA-AAA
4095538 TAAATA-AATA
1 TAAATATAATA
4095548 CTCAAATCTA
Statistics
Matches: 113, Mismatches: 11, Indels: 23
0.77 0.07 0.16
Matches are distributed among these distances:
16 20 0.18
17 16 0.14
18 39 0.35
19 35 0.31
20 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATAATATATAAAA
Found at i:4095421 original size:11 final size:11
Alignment explanation
Indices: 4095394--4095539 Score: 81
Period size: 11 Copynumber: 13.0 Consensus size: 11
4095384 TTGATAATTT
4095394 TAAATATAATTA
1 TAAATATAA-TA
4095406 TATAATATAA-A
1 TA-AATATAATA
4095417 TATAATATAA-A
1 TA-AATATAATA
*
4095428 AATAATATAATA
1 TA-AATATAATA
*
4095440 TAAAAATAATA
1 TAAATATAATA
* *
4095451 TTAATATATTA
1 TAAATATAATA
*
4095462 AAAATAT-ATA
1 TAAATATAATA
4095472 -AATATATAATA
1 TAA-ATATAATA
**
4095483 TTTATATAATA
1 TAAATATAATA
4095494 TTTTAAATATAA-A
1 ---TAAATATAATA
*
4095507 T-AATATAAAAA
1 TAAATAT-AATA
4095518 TTAAATATAATA
1 -TAAATATAATA
4095530 TAAATA-AATA
1 TAAATATAATA
4095540 AATAAATACT
Statistics
Matches: 108, Mismatches: 14, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
9 7 0.06
10 13 0.12
11 60 0.56
12 8 0.07
13 13 0.12
14 7 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATATAATA
Found at i:4095525 original size:68 final size:68
Alignment explanation
Indices: 4095397--4095543 Score: 165
Period size: 70 Copynumber: 2.1 Consensus size: 68
4095387 ATAATTTTAA
* *
4095397 ATATAATTATATAATATAAATATAATATAAAAATAATATAATATAAAAATAATATTAATATATTA
1 ATATAAATATATAATATAAATATAATATAAAAATAATATAATATAAAAAT-ATA-TAATATAATA
4095462 AAAAT
64 AAAAT
** *
4095467 ATATAAATATATAATATTTATATAATATTTTAAATATAA-ATAATATAAAAAT-TA-AATATAAT
1 ATATAAATATATAATATAAATATAATA---TAAAAATAATATAATATAAAAATATATAATATAAT
*
4095529 ATAAAT
63 AAAAAT
*
4095535 AAATAAATA
1 ATATAAATA
4095544 AATACTCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
68 20 0.30
70 26 0.39
72 13 0.19
73 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (68 bp):
ATATAAATATATAATATAAATATAATATAAAAATAATATAATATAAAAATATATAATATAATAAA
AAT
Found at i:4100274 original size:17 final size:18
Alignment explanation
Indices: 4100243--4100286 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
4100233 AACCAAGTAA
*
4100243 AAATTA-TTTTAGATT-T
1 AAATTATTTTTTGATTGT
4100259 AAATTATTTTTTGATTGT
1 AAATTATTTTTTGATTGT
4100277 -AATT-TTTTTT
1 AAATTATTTTTT
4100287 ATTATTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 12 0.48
17 12 0.48
18 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (18 bp):
AAATTATTTTTTGATTGT
Found at i:4100503 original size:32 final size:31
Alignment explanation
Indices: 4100451--4100528 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
4100441 TATTTTATGT
*
4100451 TATTTCATATTTATATAAATTTTAAAATATTAA
1 TATTT-ATA-TTATATAAATTTCAAAATATTAA
* *
4100484 TAATTTATATTATTTAAATTTCAAAATATTTA
1 T-ATTTATATTATATAAATTTCAAAATATTAA
4100516 TA-TTATATTATAT
1 TATTTATATTATAT
4100529 TTTAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 10 0.25
31 1 0.03
32 21 0.52
33 4 0.10
34 4 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
TATTTATATTATATAAATTTCAAAATATTAA
Found at i:4100552 original size:24 final size:25
Alignment explanation
Indices: 4100510--4100556 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
4100500 AATTTCAAAA
*
4100510 TATTTATATTATATTATATTTTAAT
1 TATTTATATAATATTATATTTTAAT
4100535 TATTT-TATAATATTATATTTTA
1 TATTTATATAATATTATATTTTA
4100557 TATACTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTTATATAATATTATATTTTAAT
Found at i:4100555 original size:15 final size:15
Alignment explanation
Indices: 4100535--4100579 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
4100525 ATATTTTAAT
4100535 TATTTTATAATATTA
1 TATTTTATAATATTA
4100550 TATTTTAT-ATACTTA
1 TATTTTATAATA-TTA
* *
4100565 TATTTAATATTATTA
1 TATTTTATAATATTA
4100580 AATATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 3 0.12
15 21 0.81
16 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATAATATTA
Found at i:4102537 original size:21 final size:21
Alignment explanation
Indices: 4102504--4102544 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4102494 CTAAGTAAAA
4102504 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
4102525 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
4102545 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:4102610 original size:21 final size:20
Alignment explanation
Indices: 4102581--4102637 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
4102571 AAAACCCTGA
**
4102581 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
4102601 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
4102622 ATAGTATCGATACACA
1 AAAGTATCGATACACA
4102638 CAAATATGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:4102708 original size:53 final size:53
Alignment explanation
Indices: 4102625--4102761 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
4102615 AGATTGCATA
*
4102625 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAATAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACACTGGCAATAGCCAAATTT
* *
4102679 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACACTGGCAATAGCCAAATTT
* *
4102732 GTATCGATATACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
4102762 TTGGTAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 64 0.82
54 14 0.18
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACACTGGCAATAGCCAAATTT
Found at i:4102804 original size:10 final size:10
Alignment explanation
Indices: 4102785--4102815 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4102775 AATCTCATTT
4102785 TCACTGTTCA
1 TCACTGTTCA
*
4102795 TCACTATTCA
1 TCACTGTTCA
4102805 TCACTGTTCA
1 TCACTGTTCA
4102815 T
1 T
4102816 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:4102837 original size:21 final size:22
Alignment explanation
Indices: 4102803--4102858 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
4102793 CATCACTATT
4102803 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
4102825 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
4102846 CATCACTGTTCAT
1 CATCACTGTTCAT
4102859 AGATCACTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:4102876 original size:23 final size:23
Alignment explanation
Indices: 4102849--4102894 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4102839 ATCGATACAT
4102849 CACTGTTCATAG-ATCACTGTTCA
1 CACTGTTCA-AGTATCACTGTTCA
*
4102872 CACTGTTCACGTATCACTGTTCA
1 CACTGTTCAAGTATCACTGTTCA
4102895 TGTATCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (23 bp):
CACTGTTCAAGTATCACTGTTCA
Found at i:4102947 original size:13 final size:13
Alignment explanation
Indices: 4102929--4102953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4102919 TCACTATTCA
4102929 TGTATCGATACAG
1 TGTATCGATACAG
4102942 TGTATCGATACA
1 TGTATCGATACA
4102954 TCATAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4105606 original size:14 final size:15
Alignment explanation
Indices: 4105589--4105622 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
4105579 AAAGTTAACA
4105589 TTATAATTA-TTAAT
1 TTATAATTAGTTAAT
4105603 TTATAATTATGTTAAT
1 TTATAATTA-GTTAAT
4105619 TTAT
1 TTAT
4105623 TTTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTATAATTAGTTAAT
Found at i:4105611 original size:20 final size:20
Alignment explanation
Indices: 4105567--4105612 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
4105557 TTAAATCAGT
4105567 TAATT-TAATTATAAAGTTA
1 TAATTATAATTATAAAGTTA
* *
4105586 -ACATTATAATTATTAATTTA
1 TA-ATTATAATTATAAAGTTA
4105606 TAATTAT
1 TAATTAT
4105613 GTTAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.05
19 3 0.14
20 17 0.77
21 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATTATAATTATAAAGTTA
Found at i:4106540 original size:33 final size:33
Alignment explanation
Indices: 4106498--4106562 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
4106488 CACACCTAAA
*
4106498 TGTATCGATACAAATTGCTAAGTATCGATACAT
1 TGTATCGATACAAATTGCTAAGTATCAATACAT
*
4106531 TGTATCGATACAAATTGCTTAGTATCAATACA
1 TGTATCGATACAAATTGCTAAGTATCAATACA
4106563 CCATAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAATTGCTAAGTATCAATACAT
Found at i:4106704 original size:43 final size:43
Alignment explanation
Indices: 4106656--4106741 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
4106646 GTATTGATAT
* * *
4106656 ATGTGGCTCAATGACTATAATTTCAAATGCATTGTATCAATAC
1 ATGTGGCCCAACGACTATAATTTCAAATGCATTATATCAATAC
* *
4106699 ATGTGGCCCAACGACTATAATTTTAAATGCATTATATCGATAC
1 ATGTGGCCCAACGACTATAATTTCAAATGCATTATATCAATAC
4106742 TTTATGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (43 bp):
ATGTGGCCCAACGACTATAATTTCAAATGCATTATATCAATAC
Found at i:4107232 original size:20 final size:20
Alignment explanation
Indices: 4107207--4107324 Score: 73
Period size: 20 Copynumber: 5.8 Consensus size: 20
4107197 ATACATGTTC
4107207 ATTGTATCGATACATACACA
1 ATTGTATCGATACATACACA
*
4107227 ATTGTATCGATACAT-GA-A
1 ATTGTATCGATACATACACA
* * * * *
4107245 ATTGGCAGTAGCTACCCTACCACTG
1 ATT-GTA-TCGATA-CATA-CAC-A
*
4107270 TTTGTATCGATACATGACAC-
1 ATTGTATCGATACAT-ACACA
*
4107290 ATTGTATCGATACATGA-AGA
1 ATTGTATCGATACAT-ACACA
4107310 ATTGTATCGATACAT
1 ATTGTATCGATACAT
4107325 TATCCCAAAC
Statistics
Matches: 75, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
18 4 0.05
19 4 0.05
20 50 0.67
21 2 0.03
22 5 0.07
23 6 0.08
24 2 0.03
25 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (20 bp):
ATTGTATCGATACATACACA
Found at i:4130219 original size:21 final size:21
Alignment explanation
Indices: 4130190--4130234 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4130180 AAGTTTTCAT
*
4130190 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4130210 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4130232 TTT
1 TTT
4130235 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4132470 original size:13 final size:13
Alignment explanation
Indices: 4132452--4132477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4132442 CAATTTTTTG
4132452 TGTATCGATACAT
1 TGTATCGATACAT
4132465 TGTATCGATACAT
1 TGTATCGATACAT
4132478 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4133869 original size:20 final size:20
Alignment explanation
Indices: 4133844--4133898 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
4133834 AAAACCCTTA
4133844 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
4133864 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
4133884 AAAGTATCGATACAC
1 AAAGTATCGATACAC
4133899 CAAAAAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGTATCGATACACAATTC
Found at i:4134048 original size:20 final size:22
Alignment explanation
Indices: 4134017--4134060 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
4134007 GCTATATTTT
4134017 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
4134038 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
4134059 CA
1 CA
4134061 CGGGAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:4143198 original size:20 final size:19
Alignment explanation
Indices: 4143172--4143245 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
4143162 ACTGCCAGTT
4143172 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
4143191 TCCATGTATAGATACAATGA
1 T-CATGTATCGATACAATGA
* *
4143211 TCATGTATCAATACAAAGCA
1 TCATGTATCGATACAATG-A
* *
4143231 TAATGTATCAATACA
1 TCATGTATCGATACA
4143246 TCTAGGTGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.36
20 30 0.64
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:4149450 original size:13 final size:13
Alignment explanation
Indices: 4149432--4149456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4149422 CAAAGATCAG
4149432 TGTATCGATACAA
1 TGTATCGATACAA
4149445 TGTATCGATACA
1 TGTATCGATACA
4149457 CTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4149513 original size:33 final size:33
Alignment explanation
Indices: 4149476--4149542 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
4149466 AGTAGCTTAA
*
4149476 ATTGTATTGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4149509 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4149542 A
1 A
4149543 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4149516 original size:13 final size:13
Alignment explanation
Indices: 4149498--4149522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4149488 CAAAAAAATA
4149498 TGTATCGATACAT
1 TGTATCGATACAT
4149511 TGTATCGATACA
1 TGTATCGATACA
4149523 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4150441 original size:67 final size:68
Alignment explanation
Indices: 4150319--4150445 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
4150309 ATTGGGTTTT
* * * *
4150319 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCTAGCAATATTGGACTTAAAGATGAAGATA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATA
4150384 CGA
66 CGA
* * * *
4150387 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
4150446 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATA
CGA
Found at i:4150495 original size:55 final size:52
Alignment explanation
Indices: 4150395--4150966 Score: 447
Period size: 49 Copynumber: 11.7 Consensus size: 52
4150385 GAAAAGTGAT
* * * * * * **
4150395 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
4150449 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4150502 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
4150545 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4150595 --AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * *
4150643 -AAGGTGCCAATGTACTGAGTCAAGGCCATCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
4150691 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
4150740 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT--AG-T-GA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4150788 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
4150835 ---GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATT-AGACTTAAAGGT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGA-ACTTAAAGATGGA
* * *
4150882 --AGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
4150930 -AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
4150967 GGCTTAGAAG
Statistics
Matches: 449, Mismatches: 45, Indels: 53
0.82 0.08 0.10
Matches are distributed among these distances:
43 74 0.16
44 1 0.00
45 1 0.00
46 4 0.01
47 1 0.00
48 92 0.20
49 196 0.44
51 1 0.00
52 32 0.07
53 6 0.01
54 5 0.01
55 36 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:4150667 original size:49 final size:49
Alignment explanation
Indices: 4150458--4150972 Score: 671
Period size: 49 Copynumber: 10.7 Consensus size: 49
4150448 AAAAGGATGT
*
4150458 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
4150510 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
4150553 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
4150601 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
4150650 CAATGTACTGAGTCAAGGCCATCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
4150699 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* ** *
4150748 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAGTGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
4150797 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
4150840 CAATGTGCTGAGTCAAGGCCAGCTACATTAGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
4150888 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
4150937 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
4150973 GAAGGGTTGC
Statistics
Matches: 409, Mismatches: 41, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
43 76 0.19
45 1 0.00
46 3 0.01
48 93 0.23
49 204 0.50
52 32 0.08
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:4150733 original size:98 final size:98
Alignment explanation
Indices: 4150392--4150972 Score: 704
Period size: 98 Copynumber: 6.0 Consensus size: 98
4150382 TACGAAAAGT
* * * * * *
4150392 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG-TG
* * *
4150457 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
60 CCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
4150496 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCA
*
4150555 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
63 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * *
4150591 GGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
* *
4150655 TACTGAGTCAAGGCCATCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* *
4150688 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
**
4150753 TGCTGAGTCAAGGCCAGCTACATTGGACTTAGT
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
4150786 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT---GGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
*
4150845 TGCTGAGTCAAGGCCAGCTACATTAGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * * * *
4150878 GGT-GAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
* * * *
4150942 TGCTGATTCAGGGCCAGCTATATTGGGCTTA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTA
4150973 GAAGGGTTGC
Statistics
Matches: 420, Mismatches: 41, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
91 77 0.18
92 42 0.10
93 1 0.00
94 2 0.00
95 43 0.10
96 4 0.01
97 79 0.19
98 131 0.31
103 1 0.00
104 3 0.01
107 37 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
Found at i:4151016 original size:33 final size:31
Alignment explanation
Indices: 4150965--4151100 Score: 166
Period size: 33 Copynumber: 4.3 Consensus size: 31
4150955 CCAGCTATAT
*
4150965 TGGGC-TTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAGAGTTGCCACCGACTTGTG
* *
4150995 TGGGCTTTAGAGAGTGGTTGCCACCAACTTGTG
1 TGGGCTTTAGA-AG-AGTTGCCACCGACTTGTG
* *
4151028 TGGGCTTTGGAAGAAAGCTGCCACCGACTTGTG
1 TGGGCTTTAGAAG--AGTTGCCACCGACTTGTG
*
4151061 TGGGCTTTAGGAAGAGTTGCCATCGACTTGTG
1 TGGGCTTTA-GAAGAGTTGCCACCGACTTGTG
4151093 TGGGCTTT
1 TGGGCTTT
4151101 GGGAAGGGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
30 5 0.05
31 5 0.05
32 28 0.30
33 50 0.54
34 4 0.04
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (31 bp):
TGGGCTTTAGAAGAGTTGCCACCGACTTGTG
Found at i:4151106 original size:66 final size:66
Alignment explanation
Indices: 4150980--4151102 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
4150970 TTAGAAGGGT
*
4150980 TGCCACCGACTTGTGTGGGCTTTAGAGAGTGGTTGCCACCAACTTGTGTGGGCTTTGGAAGAAAG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAGTAGTTGCCACCAACTTGTGTGGGCTTTGGAAGAAAG
4151045 C
66 C
* *
4151046 TGCCACCGACTTGTGTGGGCTTTAG-GAAG-AGTTGCCATCGACTTGTGTGGGCTTTGG
1 TGCCACCGACTTGTGTGGGCTTTAGAG-AGTAGTTGCCACCAACTTGTGTGGGCTTTGG
4151103 GAAGGGAGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
65 26 0.49
66 27 0.51
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (66 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAGTAGTTGCCACCAACTTGTGTGGGCTTTGGAAGAAAG
C
Found at i:4151191 original size:33 final size:32
Alignment explanation
Indices: 4151123--4151832 Score: 684
Period size: 34 Copynumber: 22.0 Consensus size: 32
4151113 AGATGCCATA
*
4151123 GAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACG
1 GAGTTGTGGGCTTAAAA--GAAAAAG-GTGCCACG
4151158 GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACG
1 GAGTTGTGGGC-TTAAAAGAAAAAGGTGCCACG
4151191 GAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACG
1 GAGTTGTGGGC-TT-AAAA--GAAAAAG-GTGCCACG
4151228 GAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACG
1 GAGTTGTGGGC-TTAAAAGAAAAAGGTGCCACG
4151261 GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACG
1 GAGTTGTGGGC-TT-AAAAGAAAAAGGTGCCACG
* *
4151295 GAGTTGTGGGCTTAGAAGGAGAAAGGTGCCACG
1 GAGTTGTGGGCTTA-AAAGAAAAAGGTGCCACG
*
4151328 GAGTTGTGGGCTTAAAAG-----GGTGCCACA
1 GAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
* * *
4151355 GAGTTGTGGACTTAAAGATGAAAAAAGTGCCATG
1 GAGTTGTGGGCTTAAA-A-GAAAAAGGTGCCACG
4151389 GAGTTGTGGGCTTAAAAG-----GGTGCCACG
1 GAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
* * *
4151416 GAGTTGTGGACTTAAAGATGAAAAAAGTGCCATG
1 GAGTTGTGGGCTTAAA-A-GAAAAAGGTGCCACG
4151450 GAGTTGTGGGCTTAAAAG-----GGTGCCACG
1 GAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
* *
4151477 GAGTTGTGGACTTAAAGATGAAAAAAGTGCCACG
1 GAGTTGTGGGCTTAAA-A-GAAAAAGGTGCCACG
4151511 GAGTTGTGGGCTTAAAAG-----GGTGCCACG
1 GAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
4151538 GAGTTGTGGGCTTTGAAAAGGAAAAA-GTGCCACG
1 GAGTTGTGGGC-TT-AAAA-GAAAAAGGTGCCACG
* * * *
4151572 GAGTTGTAGGCTTAGAATGAGAAAGATGCCACG
1 GAGTTGTGGGCTTA-AAAGAAAAAGGTGCCACG
4151605 GAGTTGTGGGCTTAAAAAAGAAAAA-GTGCCACG
1 GAGTTGTGGGCTT--AAAAGAAAAAGGTGCCACG
* *
4151638 GAGTGGTGGGCTTTGAGAAGAAAAAGGTTGCCACG
1 GAGTTGTGGGC-TT-AAAAGAAAAAGG-TGCCACG
*
4151673 GAATTGTGGGCTTTAAAAG-----GGTGCCACG
1 GAGTTGTGGGC-TTAAAAGAAAAAGGTGCCACG
* *
4151701 GAGTTGTGGACTTAAAAGGAACAAGGTGCCACG
1 GAGTTGTGGGCTTAAAA-GAAAAAGGTGCCACG
* *
4151734 GAGTTGTGGACTTAAAAGGGAAAAAAGTGCCACG
1 GAGTTGTGGGCTTAAAA--GAAAAAGGTGCCACG
*
4151768 AAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACG
1 GAGTTGTGGGC-TT-AAAAGAAAAAGGTGCCACG
*
4151802 GAGTTGTGGGCTTTAAAG-AAAAGGATGCCAC
1 GAGTTGTGGGCTTAAAAGAAAAAGG-TGCCAC
4151833 TAAGTCGTGG
Statistics
Matches: 577, Mismatches: 45, Indels: 109
0.79 0.06 0.15
Matches are distributed among these distances:
27 92 0.16
28 22 0.04
29 9 0.02
30 1 0.00
31 6 0.01
32 23 0.04
33 156 0.27
34 193 0.33
35 32 0.06
36 21 0.04
37 22 0.04
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.21
Consensus pattern (32 bp):
GAGTTGTGGGCTTAAAAGAAAAAGGTGCCACG
Found at i:4151398 original size:61 final size:61
Alignment explanation
Indices: 4151281--4151785 Score: 494
Period size: 61 Copynumber: 8.1 Consensus size: 61
4151271 CTTTAAAAAG
* * * *
4151281 AAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG--GAGAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTA-AAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
* *
4151341 AAAAGGGTGCCACAGAGTTGTGGACTTAAAGATGAAAAAAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
*
4151402 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
4151463 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
* * *
4151524 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAA-A-GGAAAAAGTGCCACGGAGTTGTAGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
* * * * *
4151585 AGAATGAGAAAGATGCCACGGAGTTGTGGGCTTAAAAAAG-AAAAAGTGCCACGGAGTGGTGGGC
1 A-AA--AG---GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGC
4151649 TTT
60 -TT
* * * ** *
4151652 GAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTT-----T-AAAAGGGTGCCACGGAGTTGTGGA
1 -------AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGG
4151711 CTT
59 CTT
* *
4151714 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAA-AGGGAAAAAAGTGCCACGAAGTTGTGGG
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAGA-TGAAAAAAGTGCCACGGAGTTGTGGG
4151778 CTTT
59 C-TT
4151782 AAAA
1 AAAA
4151786 AGAAAAAGGT
Statistics
Matches: 382, Mismatches: 29, Indels: 60
0.81 0.06 0.13
Matches are distributed among these distances:
55 4 0.01
56 1 0.00
59 3 0.01
60 25 0.07
61 215 0.56
62 7 0.02
63 23 0.06
64 2 0.01
65 3 0.01
66 25 0.07
67 43 0.11
68 26 0.07
71 2 0.01
73 2 0.01
74 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:4151405 original size:25 final size:26
Alignment explanation
Indices: 4151376--4151546 Score: 117
Period size: 27 Copynumber: 5.8 Consensus size: 26
4151366 TTAAAGATGA
* * *
4151376 AAAAAGTGCCATGGAGTTGTGGGCTT
1 AAAAGGTGCCACGGAGTTGTGGACTT
4151402 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAA-GGTGCCACGGAGTTGTGGACTT
* *
4151429 AAAGATGAAAAAAGTGCCATGGAGTTGTGGGCTT
1 AAA-A-G------GTGCCACGGAGTTGTGGACTT
4151463 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAA-GGTGCCACGGAGTTGTGGACTT
*
4151490 AAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAA-A-G------GTGCCACGGAGTTGTGGACTT
4151524 AAAAGGGTGCCACGGAGTTGTGG
1 AAAA-GGTGCCACGGAGTTGTGG
4151547 GCTTTGAAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
26 4 0.03
27 61 0.52
28 4 0.03
33 4 0.03
34 45 0.38
ACGTcount: A:0.30, C:0.12, G:0.36, T:0.22
Consensus pattern (26 bp):
AAAAGGTGCCACGGAGTTGTGGACTT
Found at i:4151469 original size:122 final size:121
Alignment explanation
Indices: 4151214--4151820 Score: 554
Period size: 122 Copynumber: 4.8 Consensus size: 121
4151204 TGAAAAGGGA
* * *
4151214 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGC-TT-A
* *
4151277 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAGAAG-GAGAAAGGTGCCACGGAGTTGTGGGCTT
63 AAAG-----GGTGCCACGGAGTTGTGGGCTTA-AAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT
* *
4151341 AAAAGGGTGCCACAGAGTTGTGGACTTAAAGATGAAAAAAGTGCCATGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAA
* *
4151406 GGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCATGGAGTTGTGGGCTT
66 GGGTGCCACGGAGTTGTGGGCTTAAAGA-GAAAAAAGTGCCACGGAGTTGTGGGCTT
4151463 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAA
* *
4151528 GGGTGCCACGGAGTTGTGGGCTTTGAAA-AGGAAAAAGTGCCACGGAGTTGTAGGCTT
66 GGGTGCCACGGAGTTGTGGGC-TT-AAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT
* * * * *
4151585 AGAATGAGAAAGATGCCACGGAGTTGTGGGCTTAAAAAAG-AAAAAGTGCCACGGAGTGGTGGGC
1 A-AA--AG---GGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGC
* * *
4151649 TTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTTAAA-AG-----GGTGCCACGGAGTTGT
60 -TT-------AAAAGGGTGCCACGGAGTTGTGGGC-TTAAAGAGAAAAAAGTGCCACGGAGTTGT
*
4151708 GGACTT
116 GGGCTT
* *
4151714 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAA-AGGGAAAAAAGTGCCACGAAGTTGTGGG
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAGA-TGAAAAAAGTGCCACGGAGTTGTGGG
4151778 CTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
59 C-TT-AAAAG-----GGTGCCACGGAGTTGTGGGC-TTAAAGA
4151821 AAAGGATGCC
Statistics
Matches: 416, Mismatches: 33, Indels: 59
0.82 0.06 0.12
Matches are distributed among these distances:
120 3 0.01
121 22 0.05
122 134 0.32
123 5 0.01
124 9 0.02
125 2 0.00
126 11 0.03
127 49 0.12
128 54 0.13
129 70 0.17
130 26 0.06
134 5 0.01
135 26 0.06
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.21
Consensus pattern (121 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTAAAA
GGGTGCCACGGAGTTGTGGGCTTAAAGAGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:4151930 original size:31 final size:31
Alignment explanation
Indices: 4151827--4151951 Score: 148
Period size: 31 Copynumber: 4.0 Consensus size: 31
4151817 AAGAAAAGGA
* *
4151827 TGCCACTAAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
4151857 TGCCACTGAGTCGTGGACTTTCAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGAAGA-GAT
*
4151889 TGTCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
4151920 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
4151951 T
1 T
4151952 TGAAGAATTG
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
30 23 0.28
31 39 0.47
32 20 0.24
33 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:4159696 original size:20 final size:20
Alignment explanation
Indices: 4159671--4159740 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
4159661 TTAAATTGTG
***
4159671 TCGATACAAAAAAATATGTA
1 TCGATACAAAACTTTATGTA
*
4159691 TCGATACAACACTTTATGTA
1 TCGATACAAAACTTTATGTA
*
4159711 TCGATACAACACTTTATGTA
1 TCGATACAAAACTTTATGTA
4159731 TCGATACAAA
1 TCGATACAAA
4159741 TCGTTGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (20 bp):
TCGATACAAAACTTTATGTA
Done.