Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 308 of 344
Found at i:101720453 original size:15 final size:14
Alignment explanation
Indices: 101720435--101720476 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
101720425 TTATTTTAAG
101720435 GTTTATGGATTATGA
1 GTTTATGG-TTATGA
*
101720450 GTTTAGGGTTTATGA
1 GTTTATGG-TTATGA
101720465 -TTTATGGTTATG
1 GTTTATGGTTATG
101720477 TAAGAGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
GTTTATGGTTATGA
Found at i:101720683 original size:22 final size:25
Alignment explanation
Indices: 101720647--101720692 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
101720637 CATATTTCAG
101720647 TTAAAAAAATCAAT-ATT-CAAAAT
1 TTAAAAAAATCAATAATTCCAAAAT
101720670 TTAAAAAAAT-AATAATTCCAAAA
1 TTAAAAAAATCAATAATTCCAAAA
101720693 AATAATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 13 0.62
24 5 0.24
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (25 bp):
TTAAAAAAATCAATAATTCCAAAAT
Found at i:101720686 original size:16 final size:16
Alignment explanation
Indices: 101720667--101720706 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
101720657 CAATATTCAA
*
101720667 AATTTAAAAAAATAAT
1 AATTCAAAAAAATAAT
*
101720683 AATTCCAAAAAATAAT
1 AATTCAAAAAAATAAT
101720699 AATCTCAA
1 AAT-TCAA
101720707 CACAAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (16 bp):
AATTCAAAAAAATAAT
Found at i:101721295 original size:21 final size:21
Alignment explanation
Indices: 101721271--101721311 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
101721261 TTTAAATCTA
* *
101721271 TATTCAAATCTTAATTATTTT
1 TATTCAAATATAAATTATTTT
*
101721292 TATTCTAATATAAATTATTT
1 TATTCAAATATAAATTATTT
101721312 AATTTCTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTCAAATATAAATTATTTT
Found at i:101725199 original size:21 final size:21
Alignment explanation
Indices: 101725173--101725213 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
101725163 ACTTAGAGCG
101725173 GAGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
101725194 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
101725214 GGAGTAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.54, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:101725566 original size:43 final size:42
Alignment explanation
Indices: 101725510--101725645 Score: 218
Period size: 42 Copynumber: 3.2 Consensus size: 42
101725500 ACTGGGCAAC
* *
101725510 TTAGAGGCGTTTTTTAAAAAGCGCCGCGAAAAGTCCTCGTCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCGAAAAGTCCTGGTCT
* *
101725552 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCGAAAAGTCCTGGTCT
*
101725594 TTAGCGGCGTTTTTTAAAAAAGCACCGCGAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTT-AAAAAGCGCCGCGAAAAGTCCTGGTCT
101725637 TTAGCGGCG
1 TTAGCGGCG
101725646 GTGTATATAG
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 53 0.62
43 33 0.38
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCGAAAAGTCCTGGTCT
Found at i:101727233 original size:41 final size:41
Alignment explanation
Indices: 101727138--101727266 Score: 170
Period size: 41 Copynumber: 3.2 Consensus size: 41
101727128 AATAACCAAC
* * *
101727138 CAAAATAATTAACAAATATAATTAATCATC-AACAATCCAT
1 CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
*
101727178 CAAAATAATTAACAAATATAACTAATTATCAAATAATCCAT
1 CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
** * *
101727219 CAAAATAACCAACAATTATAACTAATAATCAAATAAACCAT
1 CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
*
101727260 AAAAATA
1 CAAAATA
101727267 TTGGATTAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 28 0.35
41 51 0.65
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (41 bp):
CAAAATAATTAACAAATATAACTAATAATCAAATAATCCAT
Found at i:101729139 original size:11 final size:11
Alignment explanation
Indices: 101729123--101729149 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
101729113 TTTCACCAAT
101729123 AAAAAAAGAAA
1 AAAAAAAGAAA
101729134 AAAAAAAGAAA
1 AAAAAAAGAAA
101729145 AAAAA
1 AAAAA
101729150 GAAAGGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:101729674 original size:32 final size:32
Alignment explanation
Indices: 101729635--101729702 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
101729625 ACAACTTAAA
101729635 AAAAAACAAT-TCCATAATTCTCATAATCAATT
1 AAAAAACAATAT-CATAATTCTCATAATCAATT
*
101729667 AAAAAACAATATCATAATTCTCATCATCAATT
1 AAAAAACAATATCATAATTCTCATAATCAATT
101729699 AAAA
1 AAAA
101729703 TAACGTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (32 bp):
AAAAAACAATATCATAATTCTCATAATCAATT
Found at i:101735960 original size:16 final size:16
Alignment explanation
Indices: 101735939--101735970 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
101735929 TGTCATGTCA
101735939 CCTCATCTCATGTTTT
1 CCTCATCTCATGTTTT
101735955 CCTCATCTCATGTTTT
1 CCTCATCTCATGTTTT
101735971 ATTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.31, G:0.06, T:0.50
Consensus pattern (16 bp):
CCTCATCTCATGTTTT
Found at i:101747491 original size:27 final size:27
Alignment explanation
Indices: 101747450--101747577 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
101747440 TACAGAGTTT
* *
101747450 GCCACACAGGTTATTCTTTCATATTTC
1 GCCACAAAGGCTATTCTTTCATATTTC
* *
101747477 GCTACAAAGGCTATTTTTTCATATTTC
1 GCCACAAAGGCTATTCTTTCATATTTC
* * *
101747504 GCCACAAAGGCAATTCTTTCGTATTCC
1 GCCACAAAGGCTATTCTTTCATATTTC
** *
101747531 GCCACAAAGATTACTCTTTCATATTTC
1 GCCACAAAGGCTATTCTTTCATATTTC
*
101747558 GCCACAAAGGCTACTCTTTC
1 GCCACAAAGGCTATTCTTTC
101747578 CTGACGTGTT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 84 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.36
Consensus pattern (27 bp):
GCCACAAAGGCTATTCTTTCATATTTC
Found at i:101750033 original size:99 final size:100
Alignment explanation
Indices: 101749877--101750080 Score: 374
Period size: 99 Copynumber: 2.0 Consensus size: 100
101749867 GCAAGGCTAT
*
101749877 TGATCCATTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAAT-GGGGGGAGAAT
1 TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGGAGAAT
101749941 TCATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
66 TCATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
*
101749976 TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATTGTTTTTTTCATGTCAATGGGGGGGAGAAT
1 TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGGAGAAT
*
101750041 TCATTAGTAGGTTAGGCTTAAACTGCAATGGATTA
66 TCATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
101750076 TGATC
1 TGATC
101750081 TAGAAGATGA
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
99 51 0.50
100 50 0.50
ACGTcount: A:0.27, C:0.09, G:0.28, T:0.36
Consensus pattern (100 bp):
TGATCCAGTATTGGGATTTAATTTGGAAGGGAGATCGTTTTTTTCATGTCAATGGGGGGGAGAAT
TCATTAGTAGGTTAGGCTTAAACTGCAATGGATCA
Found at i:101756733 original size:16 final size:17
Alignment explanation
Indices: 101756702--101756734 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
101756692 TTCATAAGTA
101756702 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
101756719 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
101756735 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:101757081 original size:46 final size:46
Alignment explanation
Indices: 101757016--101757427 Score: 574
Period size: 46 Copynumber: 9.0 Consensus size: 46
101757006 TTATCTTTGA
* * * * * **
101757016 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-CGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
*** *
101757062 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** *
101757108 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * ** ***
101757154 AATGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
101757200 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
101757246 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
101757292 CATGTTGCTATGGTATCTGTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
101757338 CATGTTGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
101757384 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
101757428 TTCAGAAAGC
Statistics
Matches: 337, Mismatches: 28, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 333 0.99
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:101761617 original size:11 final size:11
Alignment explanation
Indices: 101761601--101761648 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
101761591 CTTTATATAC
101761601 TAATAAAATAA
1 TAATAAAATAA
*
101761612 TAATAAAATATCT
1 TAATAAAATA--A
* *
101761625 TATTAAAATAT
1 TAATAAAATAA
101761636 TAATAAAATAA
1 TAATAAAATAA
101761647 TA
1 TA
101761649 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:101763557 original size:3 final size:3
Alignment explanation
Indices: 101763551--101763605 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
101763541 TATTCTATGG
* * * *
101763551 TTA TTA TTA TTA TCA TTG TCA -GA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
101763598 TTA TTA TT
1 TTA TTA TT
101763606 TTACATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:101765472 original size:28 final size:27
Alignment explanation
Indices: 101765420--101765503 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 27
101765410 TTTAAAATGT
*
101765420 ATAA-ATATAAATTTTTAAAACTTAAA
1 ATAATATATAAATTTTTAAAAATTAAA
101765446 ATAATATATAATATTTTTAAAAATTAAA
1 ATAATATATAA-ATTTTTAAAAATTAAA
* * *
101765474 AAAAGTATTTAAATTTTAAAAAATTGAAA
1 ATAA-TATATAAATTTTTAAAAATT-AAA
101765503 A
1 A
101765504 AAGAAAACTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 4 0.08
27 6 0.12
28 30 0.60
29 10 0.20
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (27 bp):
ATAATATATAAATTTTTAAAAATTAAA
Found at i:101765713 original size:22 final size:20
Alignment explanation
Indices: 101765688--101765743 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
101765678 GTTTATATAT
101765688 TATTTTGAAATTTTAAAATTCA
1 TATTTT-AAATTTTAAAATT-A
*
101765710 TATTTATATATTTTAAAATTA
1 TATTT-TAAATTTTAAAATTA
101765731 T-TTTTAAAATTTT
1 TATTTT-AAATTTT
101765744 TTTGAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 2 0.07
22 17 0.57
23 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TATTTTAAATTTTAAAATTA
Found at i:101765745 original size:22 final size:22
Alignment explanation
Indices: 101765697--101765743 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
101765687 TTATTTTGAA
*
101765697 ATTTTAAAATTCATATTTATAT
1 ATTTTAAAATTCATATTTAAAT
*
101765719 ATTTTAAAATT-ATTTTTAAA-
1 ATTTTAAAATTCATATTTAAAT
101765739 ATTTT
1 ATTTT
101765744 TTTGAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 7 0.30
22 11 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAAATTCATATTTAAAT
Found at i:101766358 original size:27 final size:29
Alignment explanation
Indices: 101766328--101766400 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
101766318 CAAAAAAATG
*
101766328 ATAAAAAAT-AAAAATTA-TTAAATTTTA
1 ATAAAAAATAAAAAAATATTTAAATTTTA
101766355 AT-AAAAATAAAAAAATATTTAAATTTTA
1 ATAAAAAATAAAAAAATATTTAAATTTTA
* * *
101766383 TTAAAAATTCAAAAAATA
1 ATAAAAAATAAAAAAATA
101766401 AAAATTGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.15
27 9 0.23
28 11 0.28
29 13 0.33
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAAAAAATAAAAAAATATTTAAATTTTA
Found at i:101766370 original size:28 final size:29
Alignment explanation
Indices: 101766328--101766399 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
101766318 CAAAAAAATG
*
101766328 ATAAAAA-ATAAAAATTA-TTAAATTTTA
1 ATAAAAATAAAAAAATTATTTAAATTTTA
101766355 ATAAAAATAAAAAAA-TATTTAAATTTTA
1 ATAAAAATAAAAAAATTATTTAAATTTTA
* *
101766383 TTAAAAATTCAAAAAAT
1 ATAAAAA-TAAAAAAAT
101766400 AAAAATTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 9 0.24
28 22 0.58
29 7 0.18
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
ATAAAAATAAAAAAATTATTTAAATTTTA
Found at i:101766487 original size:9 final size:9
Alignment explanation
Indices: 101766321--101766493 Score: 58
Period size: 9 Copynumber: 19.0 Consensus size: 9
101766311 CATATGACAA
*
101766321 AAAAATGAT
1 AAAAATTAT
101766330 AAAAA--AT
1 AAAAATTAT
101766337 AAAAATTATT
1 AAAAATTA-T
**
101766347 AAATTTTAAT
1 AAAAATT-AT
*
101766357 AAAAA-TAA
1 AAAAATTAT
*
101766365 AAAAATATTT
1 AAAAAT-TAT
**
101766375 AAATTTTATT
1 AAAAATTA-T
*
101766385 AAAAATT-C
1 AAAAATTAT
101766393 AAAAA--AT
1 AAAAATTAT
*
101766400 AAAAATTGT
1 AAAAATTAT
*
101766409 AAAAAATTGT
1 -AAAAATTAT
*
101766419 AAAATTTGAT
1 AAAAATT-AT
101766429 -AAAATCCTA-
1 AAAAAT--TAT
101766438 AGAAAATTAT
1 A-AAAATTAT
*
101766448 AAAAAATAT
1 AAAAATTAT
*
101766457 AAAAA-AAT
1 AAAAATTAT
*
101766465 ATAAAATTCGT
1 A-AAAATT-AT
101766476 AAAAATTAT
1 AAAAATTAT
101766485 AAAAATTAT
1 AAAAATTAT
101766494 CATACCAAAA
Statistics
Matches: 121, Mismatches: 23, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
7 12 0.10
8 14 0.12
9 47 0.39
10 39 0.32
11 9 0.07
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:101766489 original size:19 final size:18
Alignment explanation
Indices: 101766321--101766493 Score: 58
Period size: 19 Copynumber: 9.5 Consensus size: 18
101766311 CATATGACAA
*
101766321 AAAAATGATAAAAA--AT
1 AAAAATTATAAAAATTAT
**
101766337 AAAAATTATTAAATTTTAAT
1 AAAAATTA-TAAAAATT-AT
* *
101766357 AAAAA-TAAAAAAATATTT
1 AAAAATTATAAAAAT-TAT
** *
101766375 AAATTTTATTAAAAATT-C
1 AAAAATTA-TAAAAATTAT
*
101766393 AAAAA--ATAAAAATTGT
1 AAAAATTATAAAAATTAT
* *
101766409 AAAAAATTGTAAAATTTGAT
1 -AAAAATTATAAAAATT-AT
101766429 -AAAATCCTA-AGAAAATTAT
1 AAAAAT--TATA-AAAATTAT
* *
101766448 AAAAAATATAAAAA-AAT
1 AAAAATTATAAAAATTAT
*
101766465 ATAAAATTCGTAAAAATTAT
1 A-AAAATT-ATAAAAATTAT
101766485 AAAAATTAT
1 AAAAATTAT
101766494 CATACCAAAA
Statistics
Matches: 112, Mismatches: 25, Indels: 38
0.64 0.14 0.22
Matches are distributed among these distances:
15 8 0.07
16 8 0.07
17 12 0.11
18 28 0.25
19 29 0.26
20 27 0.24
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATTATAAAAATTAT
Found at i:101767850 original size:19 final size:18
Alignment explanation
Indices: 101767815--101767881 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 18
101767805 TTTTGATGCA
101767815 TTTTATAAATTATTTTATGAT
1 TTTTATAAA--ATTTTAT-AT
*
101767836 ATTTATAAAATTTTATAT
1 TTTTATAAAATTTTATAT
*
101767854 TTTTATTAAAATTTAATAAT
1 TTTTA-TAAAATTTTAT-AT
101767874 TTTTATAA
1 TTTTATAA
101767882 TTTTTTTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 6 0.15
19 20 0.49
20 7 0.17
21 8 0.20
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TTTTATAAAATTTTATAT
Found at i:101768970 original size:3 final size:3
Alignment explanation
Indices: 101768962--101769018 Score: 62
Period size: 3 Copynumber: 18.0 Consensus size: 3
101768952 AATAGGGGTG
*
101768962 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA
101769010 ATA ATA ATA
1 ATA ATA ATA
101769019 GTCAGAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 37 0.76
4 11 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:101769157 original size:24 final size:24
Alignment explanation
Indices: 101769088--101769172 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 24
101769078 GAGATGGTAT
* *
101769088 ATATAATATAATAATATAAATAATA
1 ATATAA-ATAATAGTAAAAATAATA
101769113 ATAT--ATACATGAG-AAATAATAATA
1 ATATAAATA-AT-AGTAAA-AATAATA
101769137 ATATAAATAATAGTAAAAATAATA
1 ATATAAATAATAGTAAAAATAATA
* *
101769161 AAATAAAAAATA
1 ATATAAATAATA
101769173 AAACAAAGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.06
23 4 0.08
24 31 0.62
25 9 0.18
26 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (24 bp):
ATATAAATAATAGTAAAAATAATA
Found at i:101769174 original size:12 final size:13
Alignment explanation
Indices: 101769126--101769175 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
101769116 TATACATGAG
101769126 AAATAATAATAATA
1 AAATAATAA-AATA
**
101769140 TAAATAATAGTA-A
1 -AAATAATAAAATA
101769153 AAATAATAAAATA
1 AAATAATAAAATA
101769166 AAA-AATAAAA
1 AAATAATAAAA
101769176 CAAAGCTCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 16 0.53
13 5 0.17
14 1 0.03
15 8 0.27
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:101769707 original size:30 final size:30
Alignment explanation
Indices: 101769666--101769757 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
101769656 CTTCTCCATT
* *
101769666 TGATGGTGTAGGTGCAAGTGGGAGATAAGG
1 TGATGGAGTAGGTGCAAGTGGGAGACAAGG
* *
101769696 TGGTGGAGTAGGTGCAAGTGGGAGGCAAGG
1 TGATGGAGTAGGTGCAAGTGGGAGACAAGG
101769726 TGATGGAGTAGGTGCAAGTGGGA-AGCAAGG
1 TGATGGAGTAGGTGCAAGTGGGAGA-CAAGG
101769756 TG
1 TG
101769758 GCTAGGGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.26, C:0.05, G:0.49, T:0.20
Consensus pattern (30 bp):
TGATGGAGTAGGTGCAAGTGGGAGACAAGG
Found at i:101772430 original size:38 final size:36
Alignment explanation
Indices: 101772333--101772444 Score: 170
Period size: 36 Copynumber: 3.0 Consensus size: 36
101772323 TCCTCCATAT
*
101772333 CAAATAAAGCCAAAGTCTATCTATTCTTCGCCAGGGA
1 CAAA-AAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
101772370 CAAAAAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
1 CAAAAAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
* *
101772406 CAAAAAAGAGTCAAAGTCTATCTATTCTCTGCCAGGGA
1 C-AAAAA-AGCCAAAGTCTATCTATTCTCCGCCAGGGA
101772444 C
1 C
101772445 GAAATTTTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
36 32 0.46
37 9 0.13
38 29 0.41
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (36 bp):
CAAAAAAGCCAAAGTCTATCTATTCTCCGCCAGGGA
Found at i:101773591 original size:42 final size:42
Alignment explanation
Indices: 101773532--101773616 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
101773522 AAATCAATTA
101773532 CCATTTAATTAAACTTCGATATCTTTCAAAACGTTACCTATT
1 CCATTTAATTAAACTTCGATATCTTTCAAAACGTTACCTATT
101773574 CCATTTAATTAAACTTCGATATCTTTCAAAACGTTACCTATT
1 CCATTTAATTAAACTTCGATATCTTTCAAAACGTTACCTATT
101773616 C
1 C
101773617 ATCTTTTGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (42 bp):
CCATTTAATTAAACTTCGATATCTTTCAAAACGTTACCTATT
Found at i:101775873 original size:3 final size:3
Alignment explanation
Indices: 101775865--101776117 Score: 114
Period size: 3 Copynumber: 85.0 Consensus size: 3
101775855 TTGAACATTT
* * * *
101775865 TTA TTA TTAA TTA TT- TTA ATA ATA TTA CTA TT- GTA TTCA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * * * *
101775910 TTA TTA TATG TTA CTA TTA -CA TTCA TTA TTT TTA CTT- TTA TTA TTC
1 TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA
* ** * * * * * * *
101775956 TTT TTA TTA AAA TTA TTT TTA CTA TTA TTT TTA -TA CTA TAA TCA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
101776003 TTA TTA ATA -TA TTA TTA TT- TT- TCTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
101776045 TTA TTA TTA TTA TTAA TGTA TTA TTA TTG TTA TTT TCTA CT- TTA TTA
1 TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
101776092 TTA TT- GTA TTA TCA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
101776118 CCATATCATT
Statistics
Matches: 185, Mismatches: 46, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
2 17 0.09
3 148 0.80
4 19 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:101776034 original size:17 final size:17
Alignment explanation
Indices: 101776012--101776096 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 17
101776002 CTTATTAATA
101776012 TATTATTATTTTTCTAT
1 TATTATTATTTTTCTAT
* *
101776029 TATTATTATTATTATAT
1 TATTATTATTTTTCTAT
*
101776046 TATTATTATTATTAATGTAT
1 TATTATTATT-TT--TCTAT
*
101776066 TATTATTGTTATTTTCTACTT
1 TATTATT-AT-TTTTCTA--T
101776087 TATTATTATT
1 TATTATTATT
101776097 GTATTATCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
17 25 0.46
18 1 0.02
19 4 0.07
20 12 0.22
21 11 0.20
22 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTATTATTTTTCTAT
Found at i:101776037 original size:20 final size:20
Alignment explanation
Indices: 101776012--101776096 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
101776002 CTTATTAATA
101776012 TATTATTATTTTTCTATTAT
1 TATTATTATTTTTCTATTAT
*
101776032 TATTATTA---TTATATTAT
1 TATTATTATTTTTCTATTAT
** *
101776049 TATTATTATTAATGTATTAT
1 TATTATTATTTTTCTATTAT
* *
101776069 TATTGTTA-TTTTCTACT-T
1 TATTATTATTTTTCTATTAT
101776087 TATTATTATT
1 TATTATTATT
101776097 GTATTATCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
17 16 0.31
18 8 0.15
19 6 0.12
20 22 0.42
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTATTATTTTTCTATTAT
Found at i:101783829 original size:24 final size:24
Alignment explanation
Indices: 101783784--101783830 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
101783774 ATATTAAAAG
*
101783784 ATATATATATAAAATGTATACATA
1 ATATATATATAAAATATATACATA
*
101783808 ATATA-ATATTAAAATATTTACAT
1 ATATATATA-TAAAATATATACAT
101783831 GGTATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATATATATAAAATATATACATA
Found at i:101784378 original size:39 final size:39
Alignment explanation
Indices: 101784352--101784492 Score: 176
Period size: 39 Copynumber: 3.6 Consensus size: 39
101784342 CCCATGCTAC
* * *
101784352 TTTGTTTTATTATTAATCAAAACCAC-TCCCAATGCCAT
1 TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
* ** *
101784390 TTTGTTTTATTGTTAATTAAAATTACTTCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
* * * *
101784429 TTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCGT
1 TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
101784468 TTTGTTTTATTATTAATTAAAACCA
1 TTTGTTTTATTATTAATTAAAACCA
101784493 TACTTTATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 22 0.25
39 67 0.75
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.48
Consensus pattern (39 bp):
TTTGTTTTATTATTAATTAAAACCACTTCCCCATACCAT
Found at i:101785864 original size:15 final size:14
Alignment explanation
Indices: 101785844--101785877 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
101785834 ATATATGCCT
*
101785844 ATATATATATTAAAG
1 ATATATATA-TAAAC
101785859 ATATATATATAAAC
1 ATATATATATAAAC
101785873 ATATA
1 ATATA
101785878 CTAATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATATATAAAC
Found at i:101786076 original size:22 final size:20
Alignment explanation
Indices: 101786027--101786076 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
101786017 CATAACATTA
101786027 AAAAT-ATATATAATAATAT
1 AAAATAATATATAATAATAT
*
101786046 ACACA-AATATATAATATATATT
1 A-AAATAATATATAATA-ATA-T
101786068 AAAATAATA
1 AAAATAATA
101786077 ATATGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 5 0.21
22 6 0.25
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAATATATAATAATAT
Found at i:101786839 original size:16 final size:16
Alignment explanation
Indices: 101786818--101786860 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
101786808 AAAAAAAGAA
101786818 AGAAGGGAGAGAGGGG
1 AGAAGGGAGAGAGGGG
*
101786834 AGAAGGAAGAGAGGGG
1 AGAAGGGAGAGAGGGG
101786850 A-AAGGG-GAGAG
1 AGAAGGGAGAGAG
101786861 CTCCGGCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.20
15 4 0.16
16 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (16 bp):
AGAAGGGAGAGAGGGG
Found at i:101788744 original size:45 final size:44
Alignment explanation
Indices: 101788671--101788755 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
101788661 CGATATCTGC
* *
101788671 TATCTTTGATCTGCCCCCGTCTACTACAGAAACGCCAAATCTAT
1 TATCTTCGATCTGCCCCCGTCTAATACAGAAACGCCAAATCTAT
*
101788715 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
1 TATCTTCGATCTGC-CCCCGTCTAATACAGAAACGCCAAAT
101788756 TTGCTTCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 13 0.35
45 24 0.65
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (44 bp):
TATCTTCGATCTGCCCCCGTCTAATACAGAAACGCCAAATCTAT
Found at i:101788765 original size:44 final size:45
Alignment explanation
Indices: 101788665--101788774 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 45
101788655 GGAAGGCGAT
* *
101788665 ATCTGCTATCTTTGATCTGC-CCCCGTCTACTACAGAAACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAAACGCCAA
** *
101788709 ATCTATTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAAACGCCAA
* *
101788754 ATTTGCT-TCTTCAATCTGCTC
1 ATCTGCTATCTTCGATCTGCTC
101788775 ATTGCAAACT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 30 0.54
45 26 0.46
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAAACGCCAA
Found at i:101788855 original size:44 final size:44
Alignment explanation
Indices: 101788665--101788886 Score: 134
Period size: 44 Copynumber: 5.1 Consensus size: 44
101788655 GGAAGGCGAT
* * *
101788665 ATCTGCTATCTTTGATCTGC-CCCCGTCTACTACAGAAACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTCAAC-ACAGAAACGCCAA
** * * *
101788709 ATCTATTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTC-AACACAGAAACGCCAA
* * ** * * *
101788754 ATTTGCT-TCTTCAATCTGCTCATTG-CAAACTCATG--ACTGCTAT
1 ATCTGCTATCTTCGATCTGCTCCCTGTC-AACACA-GAAAC-GCCAA
* * *
101788797 GT-TGATATCTTCGATCTGCTCTCTGTCGAACACAGAAACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTC-AACACAGAAACGCCAA
* * * * *
101788841 ATCTGCT-TCTTCGATTTGTTCCCTGACAATACAGAAATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTCAACACAGAAACGCCAA
101788884 ATC
1 ATC
101788887 ATCTTAGATT
Statistics
Matches: 134, Mismatches: 35, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
42 5 0.04
43 42 0.31
44 58 0.43
45 28 0.21
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCCCTGTCAACACAGAAACGCCAA
Found at i:101789237 original size:210 final size:209
Alignment explanation
Indices: 101788972--101789818 Score: 1158
Period size: 210 Copynumber: 4.1 Consensus size: 209
101788962 GATGCCAAAC
* * ** * *
101788972 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTGTGTGTCTG-CTCTCCACC
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCATC
* * *
101789036 AAAGCT-AAGATGCCAAACTTTGATTCATTCTCTGACAATACAGAGACGACAAATTATCTTAGAT
65 AAAG-TGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* * * *
101789100 TTGCTTCATTGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCGAATAC
128 TTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAC
101789165 AGAGAGATAAGATCTGT
193 AGAGAGATAAGATCTGT
* *
101789182 CATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
* *
101789247 AAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
66 AAGT-GAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
*
101789312 GCTTCATCGGAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAG
130 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAG
101789377 AGAGATAAGATCTGT
195 AGAGATAAGATCTGT
* *
101789392 CATCTTGGATCTGTTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
1 CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
* *
101789457 AAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
66 AAGT-GAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
* * * * * * ** *
101789522 GTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACACA-
130 GCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAG
*
101789585 AGGATGCTAA-A-C---
195 A-GA-GATAAGATCTGT
* * *
101789597 CATATTGGAT-TCGCTTCAGCATAAACATCTGAAGGTCAGATCTGCTATATGTCTG-CTCTCCAT
1 CATCTTGGATCT-GCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCAT
* *
101789660 CAAAGTGAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAAAGACGACAAATCATCTTAGAT
64 CAAAGTGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGAT
* * *
101789725 TTGCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCTCCCCGCCGAATAC
128 TTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATAC
101789790 AGAGAGATAAGATCTGT
193 AGAGAGATAAGATCTGT
*
101789807 CATCTTAGATCT
1 CATCTTGGATCT
101789819 ACCCCGATGA
Statistics
Matches: 568, Mismatches: 53, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
204 6 0.01
205 163 0.29
206 8 0.01
207 2 0.00
208 2 0.00
209 9 0.02
210 373 0.66
211 5 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (209 bp):
CATCTTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCA
AAGTGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTG
CTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGA
GAGATAAGATCTGT
Found at i:101789765 original size:415 final size:418
Alignment explanation
Indices: 101788972--101789818 Score: 1194
Period size: 415 Copynumber: 2.0 Consensus size: 418
101788962 GATGCCAAAC
* * *
101788972 CATCTTGGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTGTGTGTCTGCTCTCCACCA
1 CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTCTCCACCA
* *
101789037 AAGCTAAGATGCCAAACTTTGATTCATTCTCTGACAATACAGAGACGACAAATTATCTTAGATTT
66 AAGCTAAGATGCCAAACTTCGATTCATTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
** * *
101789102 GCTTCATTGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCGAATACAG
131 GCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCAAACACAG
* * * *
101789167 AGAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGT
196 AGAGATAAGATC--TCATATTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATAT
* * *
101789232 GTCTGCCTTCCATCAAAGTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACA
259 GTCTGCCTTCCATCAAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAAAGACGACA
* *
101789297 AATCATCTTAGATTTGCTTCATCGGAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCT
324 AATCATCTTAGATTTGCTTCATCGGAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCT
*
101789362 CCCTGCCGAATACAGAGAGATAAGATCTGT
389 CCCCGCCGAATACAGAGAGATAAGATCTGT
* * * * *
101789392 CATCTTGGATCTGTTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGC-CTTCCATC
1 CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTC-TCCACC
* **
101789456 AAAG-TGGAA-ATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGA
65 AAAGCT--AAGATGCCAAACTTCGATTCATTCTCTGACAATACAGAGACGACAAATCATCTTAGA
* * * * *
101789519 TTTGTTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACA
128 TTTGCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCAAACA
* *
101789583 CA-AGGATGCTAA-A-C-CATATTGGAT-TCGCTTCAGCATAAACATCTGAAGGTCAGATCTGCT
193 CAGA-GA-GATAAGATCTCATATTGGATCT-GCTTCAGCATAAACATCTGAAGGTAAGATCTGCT
*
101789643 ATATGTCTG-CTCTCCATCAAAGT-GAAGATGCCAAACTTTGATTCGTTCTCTGACAATACAAAG
255 ATATGTCTGCCT-TCCATCAAAGTGGAA-ATGCCAAACTTCGATTCGTTCTCTGACAATACAAAG
*
101789706 ACGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGA
318 ACGACAAATCATCTTAGATTTGCTTCATCGGAAACACGTGAAAGCCAAATCAACTATATCTTCGA
101789771 TATGCTCCCCGCCGAATACAGAGAGATAAGATCTGT
383 TATGCTCCCCGCCGAATACAGAGAGATAAGATCTGT
*
101789807 CATCTTAGATCT
1 CATCTTGGATCT
101789819 ACCCCGATGA
Statistics
Matches: 382, Mismatches: 37, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
414 6 0.02
415 199 0.52
418 2 0.01
419 10 0.03
420 163 0.43
421 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (418 bp):
CATCTTGGATCTGCTTCAGCATAAACATCCGAAGGCAAGATCTGCTATGTGTCTGCTCTCCACCA
AAGCTAAGATGCCAAACTTCGATTCATTCTCTGACAATACAGAGACGACAAATCATCTTAGATTT
GCTTCAACGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCTTGCCAAACACAG
AGAGATAAGATCTCATATTGGATCTGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATATGT
CTGCCTTCCATCAAAGTGGAAATGCCAAACTTCGATTCGTTCTCTGACAATACAAAGACGACAAA
TCATCTTAGATTTGCTTCATCGGAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCTCC
CCGCCGAATACAGAGAGATAAGATCTGT
Found at i:101797792 original size:14 final size:14
Alignment explanation
Indices: 101797775--101797801 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101797765 CAGATTTTCT
101797775 TTTCTACCTCTCTC
1 TTTCTACCTCTCTC
101797789 TTTCTACCTCTCT
1 TTTCTACCTCTCT
101797802 GGAAAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTCTACCTCTCTC
Found at i:101797886 original size:15 final size:14
Alignment explanation
Indices: 101797844--101797893 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
101797834 TATAACCTTA
*
101797844 ATGCAAATGATGTG
1 ATGCAAATGATGAG
101797858 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
101797873 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
101797887 ATGCAAA
1 ATGCAAA
101797894 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:101801759 original size:24 final size:26
Alignment explanation
Indices: 101801712--101801760 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
101801702 ATATTAAAAG
*
101801712 ATATATATATATAAAATGTATACATA
1 ATATATATATATAAAATATATACATA
*
101801738 ATATA-ATAT-TAAAATATTTACAT
1 ATATATATATATAAAATATATACAT
101801761 GGTATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATATATATATAAAATATATACATA
Found at i:101802318 original size:38 final size:39
Alignment explanation
Indices: 101802266--101802423 Score: 194
Period size: 39 Copynumber: 4.1 Consensus size: 39
101802256 AAAGCTGATT
* * * *
101802266 CCACTTCCCTCATGCTACTTTGTTTTATTATTAATCAAAA
1 CCACTTCCC-CATACCATTTTGTTTTATTATTAATTAAAA
*
101802306 CCAC-TCCCCATGCCATTTTGTTTTATTATTAATTAAAA
1 CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
* * * *
101802344 CTACTTCCCCATACTATTTTCTTTTATTGTTAATTAAAA
1 CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
* *
101802383 CTACTTCCTCATACCATTTTG-TTTATTATTAATTAAAA
1 CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
101802421 CCA
1 CCA
101802424 TACTTTATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
38 48 0.46
39 52 0.50
40 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (39 bp):
CCACTTCCCCATACCATTTTGTTTTATTATTAATTAAAA
Found at i:101802369 original size:39 final size:39
Alignment explanation
Indices: 101802284--101802421 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
101802274 CTCATGCTAC
* * *
101802284 TTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCCAT
1 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
*
101802322 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
* * *
101802361 TTTCTTTTATTGTTAATTAAAACTACTTCCTCATACCAT
1 TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
101802400 TTTG-TTTATTATTAATTAAAAC
1 TTTGTTTTATTATTAATTAAAAC
101802422 CATACTTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 41 0.46
39 48 0.54
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (39 bp):
TTTGTTTTATTATTAATTAAAACTACTTCCCCATACCAT
Found at i:101802377 original size:77 final size:78
Alignment explanation
Indices: 101802268--101802421 Score: 213
Period size: 77 Copynumber: 2.0 Consensus size: 78
101802258 AGCTGATTCC
* * *
101802268 ACTTCCCTCATGCTACTTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCCATTTTGTTTTAT
1 ACTTCCCTCATACTACTTTCTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTG-TTTAT
101802332 TATTAATTAAAACT
65 TATTAATTAAAACT
* * * * *
101802346 ACTTCCC-CATACTATTTTCTTTTATTGTTAATTAAAACTACTTCCTCATACCATTTTGTTTATT
1 ACTTCCCTCATACTACTTTCTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTATT
101802410 ATTAATTAAAAC
66 ATTAATTAAAAC
101802422 CATACTTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 46 0.69
78 21 0.31
ACGTcount: A:0.29, C:0.21, G:0.04, T:0.45
Consensus pattern (78 bp):
ACTTCCCTCATACTACTTTCTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTATT
ATTAATTAAAACT
Found at i:101826839 original size:20 final size:19
Alignment explanation
Indices: 101826798--101826844 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
101826788 TTAAAATTTT
101826798 ATTTTAA-TTTATTTATAC
1 ATTTTAATTTTATTTATAC
101826816 ATTTTAATTTTA-TTATGCAC
1 ATTTTAATTTTATTTAT--AC
101826836 ATTTTAATT
1 ATTTTAATT
101826845 GTATATCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 11 0.42
19 4 0.15
20 11 0.42
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTTAATTTTATTTATAC
Found at i:101827146 original size:20 final size:20
Alignment explanation
Indices: 101827121--101827159 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
101827111 CACACGCCCG
101827121 TGTGGCCTGGGACATGGCCA
1 TGTGGCCTGGGACATGGCCA
*
101827141 TGTGGCTTGGGACATGGCC
1 TGTGGCCTGGGACATGGCC
101827160 GTGGGGCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.41, T:0.23
Consensus pattern (20 bp):
TGTGGCCTGGGACATGGCCA
Found at i:101830991 original size:3 final size:3
Alignment explanation
Indices: 101830983--101831102 Score: 64
Period size: 3 Copynumber: 39.7 Consensus size: 3
101830973 AGTTTTATAT
* * * *
101830983 TTA TTA TTA -TA TTTA TTA TTA TT- TCTG TTA TTA TTG TTA CTA CTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * * * *
101831028 TTA TTA TTA TTA TTT TTCA CTA CTG TCA TTA TTA TTA TTA GTA CTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
101831074 TTA TTA CTA ATA TTT TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
101831103 TTTTTAAAAC
Statistics
Matches: 89, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
2 3 0.03
3 82 0.92
4 4 0.04
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:101830994 original size:12 final size:12
Alignment explanation
Indices: 101830977--101831004 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
101830967 AATTTGAGTT
101830977 TTATATTTATTA
1 TTATATTTATTA
101830989 TTATATTTATTA
1 TTATATTTATTA
101831001 TTAT
1 TTAT
101831005 TTCTGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATATTTATTA
Found at i:101831058 original size:25 final size:24
Alignment explanation
Indices: 101831010--101831066 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
101831000 ATTATTTCTG
*
101831010 TTATTATTGTTACTACTATTATTA
1 TTATTATTGTTACTACTATCATTA
* *
101831034 TTATTATTTTTCACTACTGTCATTA
1 TTATTATTGTT-ACTACTATCATTA
101831059 TTATTATT
1 TTATTATT
101831067 AGTACTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (24 bp):
TTATTATTGTTACTACTATCATTA
Found at i:101831253 original size:23 final size:21
Alignment explanation
Indices: 101831203--101831254 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
101831193 TGTTATTTCA
*
101831203 TTTATTATTTTATTTATGTCG
1 TTTATTATTTTATTTATGTCC
101831224 TTT-TTATTTTATTCT-TGTCC
1 TTTATTATTTTATT-TATGTCC
101831244 TCATTATTATT
1 T--TTATTATT
101831255 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 15 0.58
21 4 0.15
22 2 0.08
23 5 0.19
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATTTATGTCC
Found at i:101831269 original size:15 final size:14
Alignment explanation
Indices: 101831241--101831279 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
101831231 TTTATTCTTG
101831241 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
101831256 TCTTATTATATATTA
1 TCCTATTAT-TATTA
101831271 TCCTATTAT
1 TCCTATTAT
101831280 GTACCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:101842991 original size:134 final size:134
Alignment explanation
Indices: 101842691--101843040 Score: 374
Period size: 134 Copynumber: 2.6 Consensus size: 134
101842681 ACAAATTTTG
* *
101842691 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAGGCTAAAGATTGTAGATCTTATCTCTCTG-A
1 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
*
101842755 GATAGCAGTGGAGCAGATCAAATACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
66 G-TAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTT
101842820 AAGCT
130 AAGCT
*
101842825 ACAAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
1 ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
* * * *** *
101842890 GTAGCAGTAGAGTAGATCGAAGACGGTGAATCTTATC-T-CC-ATGTAGC-GGCAATGGAGCAGA
66 GTAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGG----GGAGCAGA
101842951 TTTAAG-T
127 TTTAAGCT
* * * * ** * * * *
101842958 CACCAGTCTTATCTCCCTGAAGTTGCAGCGGAGC-AGACTGAAGATAG-CGAGTCTTATCTCCTT
1 -ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAG-CTAAAGATTGTAGA-TCTTATCTCCCT
*
101843021 GAAGTTGCAGTGGAGCAGAT
63 GAAGTAGCAGTGGAGCAGAT
101843041 TGAAAATAGC
Statistics
Matches: 183, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
130 2 0.01
131 6 0.03
132 2 0.01
133 6 0.03
134 165 0.90
135 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (134 bp):
ACCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCAAGCTAAAGATTGTAGATCTTATCTCCCTGAA
GTAGCAGTGGAGCAGATCAAAGACGACAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTA
AGCT
Found at i:101843001 original size:89 final size:90
Alignment explanation
Indices: 101842872--101843107 Score: 226
Period size: 89 Copynumber: 2.6 Consensus size: 90
101842862 TAAAGATTGT
* ** * * * *
101842872 AGATCTTATCTCCCTGAAGTAGCAGTAGAGTAGATCGAAGACGGTGAATCTTATCTCCATGTAGC
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGAAGC
* *
101842937 GGCAATGGAGCAGATT-TAAGTCACC
66 GGCAATGGAGCAGATTGAAAAT-ACC
* * *
101842962 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAGTCTTATCTCCTTGAAG
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATC-GAAGACAGCGAATCTTATCTCCATGAAG
** * *
101843025 TTGCAGTGGAGCAGATTGAAAATAGC
65 CGGCAATGGAGCAGATTGAAAATACC
* * * * * * *
101843051 AGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCAAACCTTATCTC
1 AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTC
101843108 TTTGAAGTTG
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.56
90 50 0.42
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (90 bp):
AGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGACAGCGAATCTTATCTCCATGAAGC
GGCAATGGAGCAGATTGAAAATACC
Found at i:101843017 original size:45 final size:45
Alignment explanation
Indices: 101842962--101843306 Score: 191
Period size: 45 Copynumber: 7.8 Consensus size: 45
101842952 TTAAGTCACC
*
101842962 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
* * *
101843007 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAAATAGC-
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
* * * ** *
101843051 AGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCA
1 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** ** * * * **
101843097 AACCTTATCTCTTTGAAGTTGCAG-AGAGCAGGTTGAAGTTATAG
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** * * ** *
101843141 A-TCCCATCTCCCTAAAGTTGTAGCGGAGCAGATCAAAGATAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** * * * * * * *
101843185 AACCTTGTCTCTCTGAAGTTACTG-AGAGCAGGTTGAAGTTA-C-
1 AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
** * * * * *
101843227 ATGTCACATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAG-T
1 A-GTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
* * * * *
101843272 AGATCTTATTTCCTTAAAGTTGCAGTGGAACAGAT
1 AG-TCTTATCTCCCTGAAGTTGCAGCGGAGCAGAT
101843307 CGAAAATGGC
Statistics
Matches: 214, Mismatches: 77, Indels: 18
0.69 0.25 0.06
Matches are distributed among these distances:
42 1 0.00
43 32 0.15
44 52 0.24
45 128 0.60
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAAGATAGCG
Found at i:101843174 original size:88 final size:89
Alignment explanation
Indices: 101842968--101843258 Score: 329
Period size: 88 Copynumber: 3.3 Consensus size: 89
101842958 CACCAGTCTT
* * ** *
101842968 ATCTCCCTGAAGTTGCAGCGGAGCAGA-CTGAAGATAGCGAGTCTTATCTCCTTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATC-AAAGATAGCAAACCTTATCTCTTTGAAGTTGCAG-
* * ** *
101843032 GGAGCAGATTGAAAATAGCAGATCTC
64 AGAGCAGGTTGAAGTTAGCAGATCCC
* *
101843058 ATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
*
101843123 AGCAGGTTGAAGTTA-TAGATCCC
66 AGCAGGTTGAAGTTAGCAGATCCC
* * * * * *
101843146 ATCTCCCTAAAGTTGTAGCGGAGCAGATCAAAGATAGCAAACCTTGTCTCTCTGAAGTTACTGAG
1 ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
*
101843211 AGCAGGTTGAAGTTA-CATG-TCAC
66 AGCAGGTTGAAGTTAGCA-GATCCC
* *
101843234 ATCTCTCTGAAGTTGCAGTGGAGCA
1 ATCTCCCTGAAGTTGCAGCGGAGCA
101843259 AACTGAAGAT
Statistics
Matches: 172, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
88 103 0.60
89 14 0.08
90 54 0.31
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (89 bp):
ATCTCCCTGAAGTTGCAGCGGAGCAGATCAAAGATAGCAAACCTTATCTCTTTGAAGTTGCAGAG
AGCAGGTTGAAGTTAGCAGATCCC
Found at i:101843371 original size:133 final size:131
Alignment explanation
Indices: 101842967--101843372 Score: 356
Period size: 133 Copynumber: 3.1 Consensus size: 131
101842957 TCACCAGTCT
* * *
101842967 TATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAG-CGAGTCTTATCTCCTTGAAGTTGCAG
1 TATCTCTCTGAAGTTGCAG-GGAGCAGACTGAAGATAGTAGA-TCTTATCTCCTTAAAGTTGCAG
* * * * * * * * ** *
101843031 TGGAGCAGATTGAAAATAGCAGATCTCATTTCCCTGAAGTTGCAGCGGAGTAGATCAAAGATAGC
64 TGGAGCAGATCGAAAATAGCAAACCTTATCTCTCTGAAGTTGCAG-AGAGCAG-TTGAAGTTA-C
*
101843096 AA-ACC
126 AATTCC
* * ** * ** * * *
101843101 TTATCTCTTTGAAGTTGCAGAGAGCAGGTTGAAGTTA-TAGATCCCATCTCCCTAAAGTTGTAGC
1 -TATCTCTCTGAAGTTGCAGGGAGCAGACTGAAGATAGTAGATCTTATCTCCTTAAAGTTGCAGT
* * *
101843165 GGAGCAGATC-AAAGATAGCAAACCTTGTCTCTCTGAAGTTACTGAGAGCAGGTTGAAGTTAC-A
65 GGAGCAGATCGAAA-ATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCA-GTTGAAGTTACAA
101843228 TGTCAC
128 T-TC-C
* *
101843234 -ATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTAGATCTTATTTCCTTAAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAG-GGAGCAGACTGAAGATAGTAGATCTTATCTCCTTAAAGTTGCAGT
* * * *
101843298 GGAACAGATCGAAAATGGCACACCTTATCTCTCTAAAGTTGCAGAGAGCATGTTGAAGTTACAAT
65 GGAGCAGATCGAAAATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCA-GTTGAAGTTACAAT
101843363 TCC
129 TCC
101843366 TATCTCT
1 TATCTCT
101843373 GAATCAGCAA
Statistics
Matches: 212, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
130 1 0.00
131 18 0.08
132 27 0.13
133 129 0.61
134 20 0.09
135 17 0.08
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (131 bp):
TATCTCTCTGAAGTTGCAGGGAGCAGACTGAAGATAGTAGATCTTATCTCCTTAAAGTTGCAGTG
GAGCAGATCGAAAATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAGCAGTTGAAGTTACAATTC
C
Found at i:101843655 original size:24 final size:24
Alignment explanation
Indices: 101843609--101843660 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
101843599 AAATTAAATA
101843609 CCCAAACAAAAACCAAAGACCTAGG
1 CCCAAACAAAAACCAAAGACCTA-G
*
101843634 CCCAAAC-ACAACCAAA-ACCCTAG
1 CCCAAACAAAAACCAAAGA-CCTAG
101843657 CCCA
1 CCCA
101843661 CTTAGCACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 12 0.48
25 7 0.28
ACGTcount: A:0.48, C:0.40, G:0.08, T:0.04
Consensus pattern (24 bp):
CCCAAACAAAAACCAAAGACCTAG
Found at i:101844634 original size:3 final size:3
Alignment explanation
Indices: 101844626--101844787 Score: 98
Period size: 3 Copynumber: 54.7 Consensus size: 3
101844616 AGTTTTATAT
* *
101844626 TTA TTA TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * *
101844670 TCTG TTA TTA CTG TTA CTA CTA TTT TTA TTA GTA TTG TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
101844716 TTA TT- TTA TCA CTA CTG TCA TTA TTA -TA GTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
101844762 TTA CTA TTA TTT TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
101844788 TTTTTAAATC
Statistics
Matches: 119, Mismatches: 34, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
2 7 0.06
3 109 0.92
4 3 0.03
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:101844641 original size:18 final size:18
Alignment explanation
Indices: 101844620--101844669 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
101844610 AAATTAAGTT
101844620 TTATATTTATTATTATTA
1 TTATATTTATTATTATTA
*
101844638 TTATATTTATTATTATTT
1 TTATATTTATTATTATTA
101844656 TTAGTA-TTATTATT
1 TTA-TATTTATTATT
101844670 TCTGTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATATTTATTATTATTA
Found at i:101844937 original size:23 final size:21
Alignment explanation
Indices: 101844887--101844938 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
101844877 TGTTATTTCA
*
101844887 TTTATTATTTTATTTATGTCG
1 TTTATTATTTTATTTATGTCC
101844908 TTT-TTATTTTA-TTATTGTCC
1 TTTATTATTTTATTTA-TGTCC
101844928 TCATTATTATT
1 T--TTATTATT
101844939 ATCTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 3 0.12
22 2 0.08
23 5 0.19
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTATTTATGTCC
Found at i:101844953 original size:15 final size:14
Alignment explanation
Indices: 101844916--101844963 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
101844906 CGTTTTTATT
*
101844916 TTATTATTGTCCTCA
1 TTATTATTATCCT-A
*
101844931 TTATTATTATCTTA
1 TTATTATTATCCTA
101844945 TTATATATTATCCTA
1 TTAT-TATTATCCTA
101844960 TTAT
1 TTAT
101844964 GTACCTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATTATTATCCTA
Found at i:101852102 original size:25 final size:25
Alignment explanation
Indices: 101852052--101852103 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
101852042 TAATTATTTG
* *
101852052 TTTGATAATATATTAATTTTTTATT
1 TTTGAAAATATATTAATTTTTAATT
*
101852077 TTTGAAAATTTATT-ATTTTATAATT
1 TTTGAAAATATATTAATTTT-TAATT
101852102 TT
1 TT
101852104 AATGTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTGAAAATATATTAATTTTTAATT
Found at i:101854583 original size:20 final size:20
Alignment explanation
Indices: 101854547--101854589 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
101854537 TATTCTTTAA
*
101854547 ATTATTATTTTAATATTATT
1 ATTATTATTTTAATATTACT
*
101854567 ATTATT-TTTTCATTATTACT
1 ATTATTATTTT-AATATTACT
101854587 ATT
1 ATT
101854590 TTCTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTATTATTTTAATATTACT
Found at i:101854821 original size:3 final size:3
Alignment explanation
Indices: 101854797--101854890 Score: 59
Period size: 3 Copynumber: 31.0 Consensus size: 3
101854787 TTTTGCTGTA
* * *
101854797 ATT ATT CTT ATT AAT A-T ATT ATT ATTT CTT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* * * * *
101854841 ATT ATT CTT ATT AATGT AGT ATT ATT GTT ATT TTCT ACT -TT ATT ATT
1 ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
101854888 ATT
1 ATT
101854891 GTATTATCAC
Statistics
Matches: 69, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
2 5 0.07
3 57 0.83
4 6 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:101854838 original size:24 final size:23
Alignment explanation
Indices: 101854804--101854853 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
101854794 GTAATTATTC
101854804 TTATTAATATATTATTATTTCTTA
1 TTATTAATATATTATTA-TTCTTA
*
101854828 TTATTATTATATTATTATTCTTA
1 TTATTAATATATTATTATTCTTA
101854851 TTA
1 TTA
101854854 ATGTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TTATTAATATATTATTATTCTTA
Found at i:101854851 original size:17 final size:16
Alignment explanation
Indices: 101854813--101854897 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 16
101854803 CTTATTAATA
*
101854813 TATTATTATTTCTTAT
1 TATTATTATTTATTAT
101854829 TATTATTATATTATTAT
1 TATTATTAT-TTATTAT
* * *
101854846 TCTTATTAATGTAGTAT
1 TATTATT-ATTTATTAT
*
101854863 TATTGTTATTT-TCTACTT
1 TATTATTATTTAT-TA--T
101854881 TATTATTATTGTATTAT
1 TATTATTATT-TATTAT
101854898 CACTATCATT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 14 0.26
17 23 0.43
18 12 0.23
19 3 0.06
20 1 0.02
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (16 bp):
TATTATTATTTATTAT
Found at i:101854908 original size:23 final size:24
Alignment explanation
Indices: 101854860--101854911 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
101854850 ATTAATGTAG
* *
101854860 TATTATTGTTATTTTCTACTTTAT
1 TATTATTGTTATTATCTACTTCAT
101854884 TATTATTG-TATTATC-ACTATCAT
1 TATTATTGTTATTATCTACT-TCAT
101854907 TATTA
1 TATTA
101854912 CCATATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 14 0.56
24 8 0.32
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.60
Consensus pattern (24 bp):
TATTATTGTTATTATCTACTTCAT
Found at i:101857085 original size:26 final size:26
Alignment explanation
Indices: 101857056--101857114 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
101857046 TTTACCAGGG
*
101857056 GTAAAATTGTCAAAAATTTATCGGGC
1 GTAAAATCGTCAAAAATTTATCGGGC
* * *
101857082 GTAAAATCGTCAAAATTTTATTGGGG
1 GTAAAATCGTCAAAAATTTATCGGGC
101857108 GTAAAAT
1 GTAAAAT
101857115 ATGGATGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (26 bp):
GTAAAATCGTCAAAAATTTATCGGGC
Found at i:101859637 original size:26 final size:26
Alignment explanation
Indices: 101859601--101859654 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
101859591 GAGTGTTGTA
101859601 AATATTTTATAAGTGGATGTCCTTTC
1 AATATTTTATAAGTGGATGTCCTTTC
101859627 AATATTTTATAAGTGGATGTCCTTTC
1 AATATTTTATAAGTGGATGTCCTTTC
101859653 AA
1 AA
101859655 CTCTCACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (26 bp):
AATATTTTATAAGTGGATGTCCTTTC
Found at i:101868000 original size:23 final size:23
Alignment explanation
Indices: 101867974--101868020 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
101867964 ATTCCAAGTT
*
101867974 TCCCATC-TTGTGTCTTATTATTC
1 TCCCATCTTTGT-TCTTACTATTC
101867997 TCCCATCTTTGTTCTTACTATTC
1 TCCCATCTTTGTTCTTACTATTC
101868020 T
1 T
101868021 ATTATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.13, C:0.28, G:0.06, T:0.53
Consensus pattern (23 bp):
TCCCATCTTTGTTCTTACTATTC
Found at i:101875067 original size:5 final size:5
Alignment explanation
Indices: 101875057--101875081 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
101875047 TTTAATCTAC
101875057 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
101875082 CATAAAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:101883041 original size:56 final size:57
Alignment explanation
Indices: 101882930--101883041 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 57
101882920 GTCATGTCCT
* * *
101882930 TTTGGTGGATAAGTGCATTGTATTGTAATCACTGACATTCATTTGCAAAATCTTAACAA
1 TTTGGTGGATAAGTGCAATGAATTGGAATCAC--ACATTCATTTGCAAAATCTTAACAA
101882989 TTTGGT-GATTAAGTGCAATGAATTGGAATCAC-CATTCATTTGCAAAATCTTAA
1 TTTGGTGGA-TAAGTGCAATGAATTGGAATCACACATTCATTTGCAAAATCTTAA
101883042 TTTGGATTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 21 0.43
58 2 0.04
59 26 0.53
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (57 bp):
TTTGGTGGATAAGTGCAATGAATTGGAATCACACATTCATTTGCAAAATCTTAACAA
Found at i:101883111 original size:33 final size:33
Alignment explanation
Indices: 101883047--101883112 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
101883037 CTTAATTTGG
* *
101883047 ATTGTATCGGAATCACCATTCATTTGCAAAATC
1 ATTGTATCGGAATCACCAGTCATTTACAAAATC
* *
101883080 ATTGTATTGGAATCACCAGTCATTTATAAAATC
1 ATTGTATCGGAATCACCAGTCATTTACAAAATC
101883113 TTAGTACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGGAATCACCAGTCATTTACAAAATC
Found at i:101885136 original size:18 final size:19
Alignment explanation
Indices: 101885098--101885140 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
101885088 TAAATTCGAA
*
101885098 AAATAATTTGAGTTGACTC
1 AAATAATTTGAGTTAACTC
101885117 AAATAATTTGA-TTAACTC
1 AAATAATTTGAGTTAACTC
101885135 AAATAA
1 AAATAA
101885141 CTCGATTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (19 bp):
AAATAATTTGAGTTAACTC
Found at i:101885147 original size:18 final size:18
Alignment explanation
Indices: 101885113--101885147 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101885103 ATTTGAGTTG
* *
101885113 ACTCAAATAATTTGATTA
1 ACTCAAATAACTCGATTA
101885131 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
101885148 CGTTTAACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:101887477 original size:24 final size:24
Alignment explanation
Indices: 101887409--101887497 Score: 74
Period size: 26 Copynumber: 3.6 Consensus size: 24
101887399 TTAGCTCTTA
*
101887409 TGAGCTTCCTC-ATTATGGCTCTTCG
1 TGAGCTTCC-CGA-TATGGCTCTTTG
* * *
101887434 TGTGCTTCTCGTTAATTGGCTCTTTG
1 TGAGCTTCCCGAT-A-TGGCTCTTTG
**
101887460 TGAGCTTCCCGATATGGCTCGCT-
1 TGAGCTTCCCGATATGGCTCTTTG
101887483 TGAGCTTCCCGATAT
1 TGAGCTTCCCGATAT
101887498 ATGGCTATCC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
23 15 0.29
24 9 0.17
25 9 0.17
26 19 0.37
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.39
Consensus pattern (24 bp):
TGAGCTTCCCGATATGGCTCTTTG
Found at i:101887561 original size:24 final size:24
Alignment explanation
Indices: 101887534--101887601 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
101887524 TGGCTCTTTG
*
101887534 GAGCTACCTATTATATGCTCGTAC
1 GAGCTTCCTATTATATGCTCGTAC
* *
101887558 GAGCTTCCTA-AATATTGCTCTTAC
1 GAGCTTCCTATTATA-TGCTCGTAC
* *
101887582 AAGCTTCCTATTTTA-GCTCG
1 GAGCTTCCTATTATATGCTCG
101887602 AATAAGCTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 7 0.20
24 26 0.74
25 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (24 bp):
GAGCTTCCTATTATATGCTCGTAC
Found at i:101887824 original size:10 final size:10
Alignment explanation
Indices: 101887809--101887834 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
101887799 TATATGAAAA
101887809 ATATTTCTTG
1 ATATTTCTTG
101887819 ATATTTCTTG
1 ATATTTCTTG
101887829 ATATTT
1 ATATTT
101887835 ATATGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (10 bp):
ATATTTCTTG
Found at i:101895286 original size:29 final size:29
Alignment explanation
Indices: 101895244--101895325 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
101895234 ATGATTGGAT
*
101895244 AATATTTATTTAATAATATTAATTTATAC
1 AATAATTATTTAATAATATTAATTTATAC
101895273 AATAATTATTTAATAATATTAATTTATAC
1 AATAATTATTTAATAATATTAATTTATAC
* *
101895302 AACAATTATTCAATAATATTAATT
1 AATAATTATTTAATAATATTAATT
101895326 ATAAAATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
AATAATTATTTAATAATATTAATTTATAC
Found at i:101899615 original size:23 final size:24
Alignment explanation
Indices: 101899568--101899618 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
101899558 AATTTAATAA
101899568 TTTTTCGTATTAAACTTAAATTTT
1 TTTTTCGTATTAAACTTAAATTTT
101899592 TTTTTCGTATTAAACTTAAATTTT
1 TTTTTCGTATTAAACTTAAATTTT
101899616 TTT
1 TTT
101899619 GTCCGAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTTCGTATTAAACTTAAATTTT
Found at i:101900220 original size:19 final size:19
Alignment explanation
Indices: 101900196--101900235 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
101900186 TTATTATCAG
101900196 TATTATTTATAAATTTATT
1 TATTATTTATAAATTTATT
* *
101900215 TATTATTTATTATTTTATT
1 TATTATTTATAAATTTATT
101900234 TA
1 TA
101900236 ATAATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTATTTATAAATTTATT
Found at i:101903388 original size:21 final size:22
Alignment explanation
Indices: 101903359--101903405 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101903349 CAGAAGGAGT
*
101903359 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101903381 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101903402 GAGT
1 GAGT
101903406 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:101907104 original size:129 final size:129
Alignment explanation
Indices: 101906874--101907131 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
101906864 GCACATGGGA
101906874 GTTGCAGAAGTGGAGCTTGGCCTAGCTAATCTTTTGTACAAGTTTGATTGGGAAATGCCGAATGG
1 GTTGCAGAAGTGGAGCTTGGCCTAGCTAATCTTTTGTACAAGTTTGATTGGGAAATGCCGAATGG
101906939 GATGAACAGGGAAGACTTAGATTTTGATGCCGTAAATGGTCTCACTACACACAAGAAAAATGCT
66 GATGAACAGGGAAGACTTAGATTTTGATGCCGTAAATGGTCTCACTACACACAAGAAAAATGCT
101907003 GTTGCAGAAGTGGAGCTTGGCCTAGCTAATCTTTTGTACAAGTTTGATTGGGAAATGCCGAATGG
1 GTTGCAGAAGTGGAGCTTGGCCTAGCTAATCTTTTGTACAAGTTTGATTGGGAAATGCCGAATGG
101907068 GATGAACAGGGAAGACTTAGATTTTGATGCCGTAAATGGTCTCACTACACACAAGAAAAATGCT
66 GATGAACAGGGAAGACTTAGATTTTGATGCCGTAAATGGTCTCACTACACACAAGAAAAATGCT
101907132 CTTATCCTTC
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (129 bp):
GTTGCAGAAGTGGAGCTTGGCCTAGCTAATCTTTTGTACAAGTTTGATTGGGAAATGCCGAATGG
GATGAACAGGGAAGACTTAGATTTTGATGCCGTAAATGGTCTCACTACACACAAGAAAAATGCT
Found at i:101908427 original size:21 final size:22
Alignment explanation
Indices: 101908403--101908444 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
101908393 TAAAATTGCT
*
101908403 TAATTAATATT-TTGAAAAAAA
1 TAATTAATATTAGTGAAAAAAA
*
101908424 TAATTAGTATTAGTGAAAAAA
1 TAATTAATATTAGTGAAAAAA
101908445 TTATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATTAATATTAGTGAAAAAAA
Found at i:101910282 original size:91 final size:91
Alignment explanation
Indices: 101910101--101910296 Score: 286
Period size: 91 Copynumber: 2.2 Consensus size: 91
101910091 ACTCTTTGTA
* * *
101910101 TAAGGGTTGGTATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTAGCTTTGTCTAGTCCTAAG
1 TAAGGGTTGGGATATGCATACCTAAAGCAACGCTTAAATAAGAGTTAGCTTTATCTAGTCCTAAG
101910166 ACGACACTTTTGGGGCAACACTTTCC
66 ACGACACTTTTGGGGCAACACTTTCC
* * * * *
101910192 TAGGGGTTGGGATATGTATACCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTATCTAGTCCTAA
1 TAAGGGTTGGGATATGCATACCTAAAGCAACGCTTAAATAAGAGTTAG-CTTTATCTAGTCCTAA
*
101910257 GACGACACTTTTGTGGCAACA-TTTCC
65 GACGACACTTTTGGGGCAACACTTTCC
*
101910283 TAAGTGTTGGGATA
1 TAAGGGTTGGGATA
101910297 GACTATGCTT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 59 0.63
92 34 0.37
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (91 bp):
TAAGGGTTGGGATATGCATACCTAAAGCAACGCTTAAATAAGAGTTAGCTTTATCTAGTCCTAAG
ACGACACTTTTGGGGCAACACTTTCC
Found at i:101910473 original size:132 final size:132
Alignment explanation
Indices: 101910195--101910796 Score: 814
Period size: 132 Copynumber: 4.5 Consensus size: 132
101910185 ACTTTCCTAG
* * * *
101910195 GGGTTGGGATATGTATACCTAAAGCAACGCTTGAATAAGAGTTGGTTTTTATCTAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
*
101910260 GACACTTTTGTGGCAACA-TTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
66 GACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
101910324 AA
131 AA
* * *
101910326 GGGTTGGTATATGTATGCCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* *
101910391 GACACTTTTGTGGCGACATTTTACTAAGTGTTGGGATAGACTATGCTTTGGCCAACTATTTGTAT
66 GACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
101910456 AA
131 AA
* * *
101910458 GGGTTGGGATATGTATGTCTAAGGCAACGCTTGAATAAAAGTTGGCTTTTGTATAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* * *
101910523 GACACTTTTTTGGTGACATTTTCCTAAGTGTTCGGATAGACTATGCTTTGGCCAACTCTTTGTAT
66 GACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
101910588 AA
131 AA
* * * **
101910590 GGGTTGGGACATGTATTCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTCGTTGTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
* ** * * *
101910655 GACAGTTTT-TGTATGACACTTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGCCAA
66 GACACTTTTGTG-GCGACATTTTCCTAAGTGTTGGGAT--A---G---AC-TATGCTTTGGCCAA
101910719 CTCTTTGTATAA
121 CTCTTTGTATAA
* * * *
101910731 GGGTTGGGATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGC-TTTGTCCAGTCCTAAGAC
1 GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
101910795 GA
66 GA
101910797 TATATATTTT
Statistics
Matches: 420, Mismatches: 40, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
131 77 0.18
132 257 0.61
134 1 0.00
137 1 0.00
140 18 0.04
141 66 0.16
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (132 bp):
GGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAAGAC
GACACTTTTGTGGCGACATTTTCCTAAGTGTTGGGATAGACTATGCTTTGGCCAACTCTTTGTAT
AA
Found at i:101910909 original size:130 final size:130
Alignment explanation
Indices: 101910674--101910914 Score: 340
Period size: 130 Copynumber: 1.9 Consensus size: 130
101910664 TGTATGACAC
* *
101910674 TTTCCGAAGTGTTGGGATAGACTGGCCAACATATGCTTTAGCCAACTCTTTGTATAAGGGTTGGG
1 TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
**
101910739 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCCAGTCCTAAGACGATATATAT
66 ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAAGACGATATATAT
* * * ** * *
101910804 TTTCCTAAGTGTTGGGATAGACTTGCCGACATACGC-TTAGGTTAACTTTTTATATAAGGGTTGT
1 TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTA-GCCAACTCTTTATATAAGGGTTGG
** *
101910868 GATATGCATGCTTAATGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
65 GATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCA
101910915 ACACTATGCC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 3 0.03
130 93 0.97
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (130 bp):
TTTCCGAAGTGTTGGGATAGACTGGCCAACATACGCTTTAGCCAACTCTTTATATAAGGGTTGGG
ATATGCATGCCAAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCCAGTCCTAAGACGATATATAT
Found at i:101911045 original size:7 final size:7
Alignment explanation
Indices: 101911024--101911081 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
101911014 CATGCCTAAT
101911024 GGGTTTA
1 GGGTTTA
101911031 GGGTGTTTA
1 -GG-GTTTA
101911040 GGGTTTA
1 GGGTTTA
*
101911047 GGATTTA
1 GGGTTTA
*
101911054 GGGCTTA
1 GGGTTTA
101911061 GGGTTTA
1 GGGTTTA
*
101911068 AGGTTTA
1 GGGTTTA
*
101911075 GGATTTA
1 GGGTTTA
101911082 AGAGTTGGCC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
7 33 0.79
8 4 0.10
9 5 0.12
ACGTcount: A:0.19, C:0.02, G:0.38, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:101911253 original size:14 final size:14
Alignment explanation
Indices: 101911234--101911331 Score: 63
Period size: 15 Copynumber: 6.6 Consensus size: 14
101911224 AGCTTGTATA
101911234 TTTAGGTTTTAGGG
1 TTTAGGTTTTAGGG
* *
101911248 TTTAGGGTTTAGGA
1 TTTAGGTTTTAGGG
* *
101911262 TTTATAG-TTTAGGAC
1 TTTA-GGTTTTAGG-G
*
101911277 TTTAGGGTTTAGGG
1 TTTAGGTTTTAGGG
* *
101911291 TGTATGGTTTTAAGG
1 TTTA-GGTTTTAGGG
*
101911306 TTTAGGATTTTATGG
1 TTTAGG-TTTTAGGG
101911321 TCTTGAGGTTT
1 T-TT-AGGTTT
101911332 AAGGTTTGTG
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
14 28 0.42
15 30 0.45
16 5 0.08
17 3 0.05
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (14 bp):
TTTAGGTTTTAGGG
Found at i:101911309 original size:29 final size:29
Alignment explanation
Indices: 101911238--101911311 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
101911228 TGTATATTTA
* *
101911238 GGTTTTAGGGTTTAGGGTTTAGGATTTAT
1 GGTTTTAAGGTTTAGGGTTTAGGATGTAT
* *
101911267 AG-TTT-AGGACTTTAGGGTTTAGGGTGTAT
1 GGTTTTAAGG--TTTAGGGTTTAGGATGTAT
101911296 GGTTTTAAGGTTTAGG
1 GGTTTTAAGGTTTAGG
101911312 ATTTTATGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
27 2 0.06
28 3 0.08
29 25 0.69
30 3 0.08
31 3 0.08
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (29 bp):
GGTTTTAAGGTTTAGGGTTTAGGATGTAT
Found at i:101911316 original size:15 final size:15
Alignment explanation
Indices: 101911296--101911349 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
101911286 TAGGGTGTAT
101911296 GGTTTTAAGGTTT-A
1 GGTTTTAAGGTTTGA
*
101911310 GGATTTTATGGTCTTGA
1 GG-TTTTAAGGT-TTGA
*
101911327 GG-TTTAAGGTTTGT
1 GGTTTTAAGGTTTGA
101911341 GG-TTTAAGG
1 GGTTTTAAGG
101911350 CTTAGGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 14 0.41
15 15 0.44
16 2 0.06
17 3 0.09
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTTAAGGTTTGA
Found at i:101915268 original size:46 final size:48
Alignment explanation
Indices: 101915213--101915346 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 48
101915203 GGATGGTTGA
*
101915213 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-AT
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAG
* * * *
101915261 G-TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AG
*
101915306 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 GCATC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
101915347 CAGGTTACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
43 6 0.09
45 4 0.06
46 29 0.41
47 26 0.37
48 3 0.04
50 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (48 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAG
Found at i:101922250 original size:17 final size:17
Alignment explanation
Indices: 101922230--101922262 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
101922220 GGATATTTCC
101922230 TTGGGCTGTTTTTATTT
1 TTGGGCTGTTTTTATTT
*
101922247 TTGGGTTGTTTTTATT
1 TTGGGCTGTTTTTATT
101922263 CAAATATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.24, T:0.67
Consensus pattern (17 bp):
TTGGGCTGTTTTTATTT
Found at i:101926654 original size:37 final size:35
Alignment explanation
Indices: 101926536--101926924 Score: 208
Period size: 37 Copynumber: 10.7 Consensus size: 35
101926526 AAGATATATA
* * *
101926536 CCAACGTTTTTAAGGTTACCTTAGAAGAA-TCTATC
1 CCAACTTTTTTAAGGTTGCCTTA-AACAAGTCTATC
** * * *
101926571 GTAACCTTTTTAACGTTGCTTTAAACAAGTCTATC
1 CCAACTTTTTTAAGGTTGCCTTAAACAAGTCTATC
* *
101926606 CCAACCTTTTTTTAAGGTTGCCTTAGACAATGTCTATT
1 CCAA-C-TTTTTTAAGGTTGCCTTAAACAA-GTCTATC
* * * *
101926644 CTAACATTTTTAAAAGGTTGCCTTAAACATGCCTATC
1 CCAAC-TTTTT-TAAGGTTGCCTTAAACAAGTCTATC
* * *
101926681 CCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATC
1 CCAA-CTTT-TTTAAGGTTGCCTTAAACAAG-TCTATC
* * * * * *
101926719 CCAACTTTTTTAAAAAGTTGCTTTAGATAAGGTTTATA
1 CCAACTTTTTT--AAGGTTGCCTTAAACAA-GTCTATC
* * * *
101926757 CCAATTTTTTTAAGGGTTGCTTTATACAAGGCATATC
1 CCAACTTTTTTAA-GGTTGCCTTAAACAAGTC-TATC
* ** *
101926794 CCAACCTTTTTAAGGTTGCCTTAAATGAGTCAATC
1 CCAACTTTTTTAAGGTTGCCTTAAACAAGTCTATC
* * * **
101926829 CCAACCTTTTAAAGGTTGCCATAAA-TGGATCTATC
1 CCAACTTTTTTAAGGTTGCCTTAAACAAG-TCTATC
* * * * *
101926864 CCAACTATTCTTAAAAGTTGCCTTAGACAAGAACTATA
1 CCAACT-TT-TTTAAGGTTGCCTTAAACAAG-TCTATC
*
101926902 CCAACCTTTTTATA-GTTGCCTTA
1 CCAACTTTTTTA-AGGTTGCCTTA
101926925 TACAGGTTTA
Statistics
Matches: 273, Mismatches: 63, Indels: 35
0.74 0.17 0.09
Matches are distributed among these distances:
34 5 0.02
35 61 0.22
36 32 0.12
37 100 0.37
38 74 0.27
39 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (35 bp):
CCAACTTTTTTAAGGTTGCCTTAAACAAGTCTATC
Found at i:101926681 original size:75 final size:75
Alignment explanation
Indices: 101926585--101926910 Score: 213
Period size: 75 Copynumber: 4.4 Consensus size: 75
101926575 CCTTTTTAAC
* * ** * * *
101926585 GTTGCTTTAAACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAATG-TCTATTCTAAC
1 GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAA-GATCTATCCCAAC
*
101926649 ATTTTTAAAAG
65 ATTTTTAAAAA
* *
101926660 GTTGCCTTAAACATGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACT
1 GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACA
101926725 TTTTTAAAAA
66 TTTTTAAAAA
* * * ** * * ** * * * *
101926735 GTTGCTTTAGATAAGGTTTATACCAA-TTTTTTTAAGGGTTGCTTTATACAAG-GCATATCCCAA
1 GTTGCCTTAAACAA-GCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATC-TATCCCAA
* *
101926798 CCTTTTT--AAG
64 CATTTTTAAAAA
** * * * *
101926808 GTTGCCTTAAATGAGTCAATCCCAACCTTT--TAAAGGTTGCCATA-A-ATGGATCTATCCCAAC
1 GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACA-AGATCTATCCCAAC
*
101926869 TATTCTT-AAAA
65 -ATTTTTAAAAA
* * *
101926880 GTTGCCTTAGACAAGAACTATACCAACCTTT
1 GTTGCCTTAAACAAG-CCTATCCCAACCTTT
101926911 TTATAGTTGC
Statistics
Matches: 195, Mismatches: 47, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
69 1 0.01
70 11 0.06
71 16 0.08
72 22 0.11
73 28 0.14
74 2 0.01
75 107 0.55
76 8 0.04
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (75 bp):
GTTGCCTTAAACAAGCCTATCCCAACCTTTCCTAAAGGTTGCCTTAGACAAGATCTATCCCAACA
TTTTTAAAAA
Found at i:101934406 original size:25 final size:24
Alignment explanation
Indices: 101934370--101934417 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
101934360 AACTTCACAA
* *
101934370 TTTTTCTTAATTTGGTATTTTAAT
1 TTTTTCTTAATTTAGTATGTTAAT
*
101934394 TTTTTTTTCAATTTAGTATGTTAA
1 TTTTTCTT-AATTTAGTATGTTAA
101934418 CTTGATGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTTCTTAATTTAGTATGTTAAT
Found at i:101936433 original size:28 final size:27
Alignment explanation
Indices: 101936369--101936433 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
101936359 ACACAAATTG
* *
101936369 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTGAATATATTA
* *
101936396 AAATTGAAAATAAAATGTGAATATGATTA
1 AAAAT-AAAATAAAAAGTGAATAT-ATTA
101936425 AAAATAAAA
1 AAAATAAAA
101936434 AATATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.13
28 19 0.61
29 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTGAATATATTA
Found at i:101948284 original size:21 final size:20
Alignment explanation
Indices: 101948246--101948285 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
101948236 TAATATTATC
* *
101948246 AAATTTAAATAAATAAAAAG
1 AAATTTAAAGAAAGAAAAAG
101948266 AAATTATAAAGAAAGAAAAA
1 AAATT-TAAAGAAAGAAAAA
101948286 AGGAAGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AAATTTAAAGAAAGAAAAAG
Found at i:101948686 original size:4 final size:4
Alignment explanation
Indices: 101948677--101948709 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
101948667 GTTTACACAT
101948677 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
101948710 ATCTTTAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:101948953 original size:22 final size:22
Alignment explanation
Indices: 101948901--101948953 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
101948891 ATTGTTCTTG
* *
101948901 TGTTGTTGTTTTGCTATCATTT
1 TGTTGTTATATTGCTATCATTT
* *
101948923 TGCTATTATATTGCTA-CTATTT
1 TGTTGTTATATTGCTATC-ATTT
101948945 TGTTGTTAT
1 TGTTGTTAT
101948954 TGTTTAGATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.60
Consensus pattern (22 bp):
TGTTGTTATATTGCTATCATTT
Found at i:101950019 original size:15 final size:15
Alignment explanation
Indices: 101950001--101950030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101949991 ACTGTTAAAC
*
101950001 TTTTTATATATTTAT
1 TTTTTAAATATTTAT
101950016 TTTTTAAATATTTAT
1 TTTTTAAATATTTAT
101950031 CATATCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTAAATATTTAT
Found at i:101951294 original size:38 final size:39
Alignment explanation
Indices: 101951220--101951299 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
101951210 AAAAAGGAAA
*
101951220 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
101951259 ACTTAGAAGAAAGGCGAGATTC-TTGAAACCATAATAAT
1 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
101951297 ACT
1 ACT
101951300 AAAAATTGCC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 19 0.47
39 21 0.52
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (39 bp):
ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
Found at i:101951924 original size:4 final size:4
Alignment explanation
Indices: 101951915--101951941 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
101951905 GTCACCAGGT
101951915 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
101951942 TTTTTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:101958180 original size:11 final size:11
Alignment explanation
Indices: 101958166--101958206 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
101958156 TATTTTCTCC
101958166 CTATTTTGCTA
1 CTATTTTGCTA
*
101958177 CTATTTTACTA
1 CTATTTTGCTA
* *
101958188 TTATGTTGCTA
1 CTATTTTGCTA
101958199 CTATTTTG
1 CTATTTTG
101958207 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:101965106 original size:14 final size:15
Alignment explanation
Indices: 101965087--101965115 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
101965077 TGATCTAGTG
101965087 AAGTTTT-AAGGAGA
1 AAGTTTTGAAGGAGA
101965101 AAGTTTTGAAGGAGA
1 AAGTTTTGAAGGAGA
101965116 GTGATCTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (15 bp):
AAGTTTTGAAGGAGA
Found at i:101965108 original size:40 final size:40
Alignment explanation
Indices: 101965047--101965122 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
101965037 AGTTATAATA
101965047 AAGTTTTAAGGAGAAGCTTTTGAAGGAGAGTGATCTAGTG
1 AAGTTTTAAGGAGAAGCTTTTGAAGGAGAGTGATCTAGTG
101965087 AAGTTTTAAGGAGAAAG-TTTTGAAGGAGAGTGATCT
1 AAGTTTTAAGGAG-AAGCTTTTGAAGGAGAGTGATCT
101965123 TAGTTGAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 32 0.91
41 3 0.09
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (40 bp):
AAGTTTTAAGGAGAAGCTTTTGAAGGAGAGTGATCTAGTG
Found at i:101993984 original size:4 final size:4
Alignment explanation
Indices: 101993975--101994007 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
101993965 GTTTACACAT
101993975 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
101994008 ATCTTTAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCTA
Found at i:101994254 original size:22 final size:22
Alignment explanation
Indices: 101994202--101994254 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
101994192 ATTGTTCTTG
* *
101994202 TGTTGTTGTTTTGCTATCATTT
1 TGTTGTTATATTGCTATCATTT
* *
101994224 TGCTATTATATTGCTA-CTATTT
1 TGTTGTTATATTGCTATC-ATTT
101994246 TGTTGTTAT
1 TGTTGTTAT
101994255 TGTTTAGATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.60
Consensus pattern (22 bp):
TGTTGTTATATTGCTATCATTT
Found at i:101996616 original size:39 final size:39
Alignment explanation
Indices: 101996558--101996638 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
101996548 AAAAGGAAAA
*
101996558 ACTTAGAAGAAAGGTGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
101996597 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
1 ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
101996636 ACT
1 ACT
101996639 AAAAATTGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.27
Consensus pattern (39 bp):
ACTTAGAAGAAAGGCGAGATTCTTTGAAACCATAATAAT
Found at i:101997273 original size:4 final size:4
Alignment explanation
Indices: 101997264--101997290 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
101997254 GTCACCAGGT
101997264 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
101997291 TTTTTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:102001463 original size:13 final size:13
Alignment explanation
Indices: 102001445--102001470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102001435 AATATCTTTG
102001445 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
102001458 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
102001471 TTAATGCATT
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (13 bp):
GTTTTTGTTGTTT
Found at i:102003613 original size:11 final size:11
Alignment explanation
Indices: 102003599--102003639 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
102003589 TATTTTCTCC
102003599 CTATTTTGCTA
1 CTATTTTGCTA
*
102003610 CTATTTTACTA
1 CTATTTTGCTA
* *
102003621 TTATGTTGCTA
1 CTATTTTGCTA
102003632 CTATTTTG
1 CTATTTTG
102003640 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:102003864 original size:12 final size:12
Alignment explanation
Indices: 102003843--102003877 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
102003833 TATATATTTT
*
102003843 AAAATTATATAA
1 AAAATAATATAA
102003855 AAAATAATATAA
1 AAAATAATATAA
*
102003867 AAATTAATATA
1 AAAATAATATA
102003878 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:102009304 original size:20 final size:20
Alignment explanation
Indices: 102009266--102009336 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
102009256 CATGTTTACT
102009266 TTTCGTTTAACTC-TCATGAG
1 TTTCGTTTAACTCAT-ATGAG
102009286 CTTTCG-TTAACTCATATGAG
1 -TTTCGTTTAACTCATATGAG
*
102009306 TTTCAGTTTAAC-CATATTGGG
1 TTTC-GTTTAACTCATA-TGAG
102009327 TTTTCGTTTA
1 -TTTCGTTTA
102009337 GCTCTTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 4 0.09
20 17 0.39
21 19 0.43
22 4 0.09
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (20 bp):
TTTCGTTTAACTCATATGAG
Found at i:102009392 original size:42 final size:44
Alignment explanation
Indices: 102009310--102009406 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 44
102009300 TATGAGTTTC
* * **
102009310 AGTTTAA-CCATATTGGGTTTTCGTTTAGCTCTTTTAAGCTT-T
1 AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
* *
102009352 AGTTTAACCCTTA-TGGGTTTTTGTTTAGCCCTTACGAGCTTCT
1 AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
*
102009395 A-TTCAACCCTTA
1 AGTTTAACCCTTA
102009407 CTGTTTTTCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 40 0.87
43 6 0.13
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (44 bp):
AGTTTAACCCTTATTGGGTTTTCGTTTAGCCCTTACAAGCTTCT
Done.