Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 69 of 127
Found at i:13402800 original size:17 final size:16
Alignment explanation
Indices: 13402774--13402815 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13402764 TATTTCAATT
13402774 TTATTA-AATTATAAA
1 TTATTATAATTATAAA
**
13402789 TTATTTATAATTATTTA
1 TTA-TTATAATTATAAA
13402806 TTATTATAAT
1 TTATTATAAT
13402816 CATTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 10 0.43
17 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATTATAATTATAAA
Found at i:13402865 original size:27 final size:27
Alignment explanation
Indices: 13402817--13402876 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
13402807 TATTATAATC
* *
13402817 ATTT-TTTATATATTCATGTTAATTAT
1 ATTTATTTATATATTCATATTAATCAT
*
13402843 ATTTATTTATATA-TCTATATTAATCGT
1 ATTTATTTATATATTC-ATATTAATCAT
13402870 ATTTATT
1 ATTTATT
13402877 CGTGTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
ATTTATTTATATATTCATATTAATCAT
Found at i:13408701 original size:2 final size:2
Alignment explanation
Indices: 13408694--13408733 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
13408684 TTTCCCCAAC
*
13408694 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13408734 GCTCCCCCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13412543 original size:19 final size:20
Alignment explanation
Indices: 13412507--13412545 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13412497 CAAAATCATT
13412507 TTTTTTTTCGTATCCTTTTAA
1 TTTTTTTTCG-ATCCTTTTAA
*
13412528 TTTTTTTTC-ATTCTTTTA
1 TTTTTTTTCGATCCTTTTA
13412546 TTCTTAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTTTTCGATCCTTTTAA
Found at i:13416440 original size:61 final size:60
Alignment explanation
Indices: 13416369--13416530 Score: 198
Period size: 61 Copynumber: 2.6 Consensus size: 60
13416359 TTAATTGATC
* *
13416369 AATCATTTAAGGCACTTTTGTACGCAAATGCCTTAATTGAGATATTTTATTTTTTATAACT
1 AATCATTTAAGGC-CTTTTGTACACAAATGCCTTAATTGAGACATTTTATTTTTTATAACT
* * * * * *
13416430 GATCATTTAAGGCGTTTCTATACACAAACGCTTTAATTGAGACATTTTATTTTTTATAATT
1 AATCATTTAAGGCCTTT-TGTACACAAATGCCTTAATTGAGACATTTTATTTTTTATAACT
** *
13416491 AATCATTTAAGGGGTTTTTGTACACAAATGCGTTAATTGA
1 AATCATTTAA-GGCCTTTTGTACACAAATGCCTTAATTGA
13416531 CCTACAAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
60 3 0.04
61 77 0.91
62 5 0.06
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (60 bp):
AATCATTTAAGGCCTTTTGTACACAAATGCCTTAATTGAGACATTTTATTTTTTATAACT
Found at i:13429566 original size:136 final size:136
Alignment explanation
Indices: 13429409--13429682 Score: 539
Period size: 136 Copynumber: 2.0 Consensus size: 136
13429399 ATTGAATAAG
13429409 TATGCATATATACAAATACATTTCCACCTCCCAAAAATTAACTGTCAAATAAGATTTGCAGAGGT
1 TATGCATATATACAAATACATTTCCACCTCCCAAAAATTAACTGTCAAATAAGATTTGCAGAGGT
13429474 ATTTTGTTGCATTTGTGTGACATTTGTGCCATACATGGTTTACTAAGACACTCCATGTTATGCTA
66 ATTTTGTTGCATTTGTGTGACATTTGTGCCATACATGGTTTACTAAGACACTCCATGTTATGCTA
13429539 CCTGCT
131 CCTGCT
13429545 TATGCATATATACAAATACATTTCCACCTCCCAAAAATTAACTGTCAAATAAGATTTGCAGAGGT
1 TATGCATATATACAAATACATTTCCACCTCCCAAAAATTAACTGTCAAATAAGATTTGCAGAGGT
*
13429610 ATTTTGTTGCATTTGTGTGACATTTGTGCCATACATGTTTTACTAAGACACTCCATGTTATGCTA
66 ATTTTGTTGCATTTGTGTGACATTTGTGCCATACATGGTTTACTAAGACACTCCATGTTATGCTA
13429675 CCTGCT
131 CCTGCT
13429681 TA
1 TA
13429683 CATAGTTGAA
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (136 bp):
TATGCATATATACAAATACATTTCCACCTCCCAAAAATTAACTGTCAAATAAGATTTGCAGAGGT
ATTTTGTTGCATTTGTGTGACATTTGTGCCATACATGGTTTACTAAGACACTCCATGTTATGCTA
CCTGCT
Found at i:13434853 original size:5 final size:5
Alignment explanation
Indices: 13434843--13434867 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13434833 TTCACAGGCC
13434843 AACCA AACCA AACCA AACCA AACCA
1 AACCA AACCA AACCA AACCA AACCA
13434868 GCCACAGTCG
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:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCA
Found at i:13435304 original size:2 final size:2
Alignment explanation
Indices: 13435297--13435328 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
13435287 ATAGAAAACC
13435297 TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13435329 GTTGGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13435317 original size:15 final size:15
Alignment explanation
Indices: 13435297--13435325 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13435287 ATAGAAAACC
13435297 TATATATATATATAA
1 TATATATATATATAA
13435312 TATATATATATATA
1 TATATATATATATA
13435326 TATGTTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATATATATATAA
Found at i:13439827 original size:12 final size:12
Alignment explanation
Indices: 13439810--13439844 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13439800 ATATTAGATG
13439810 AATAATAATAAC
1 AATAATAATAAC
13439822 AATAATAATAAC
1 AATAATAATAAC
*
13439834 AA-CATAATAAC
1 AATAATAATAAC
13439845 TTTAGCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:13444852 original size:22 final size:22
Alignment explanation
Indices: 13444826--13444876 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
13444816 CGTAGGTGCC
13444826 TGAGTGGCCAAGTGGGGTGGGG
1 TGAGTGGCCAAGTGGGGTGGGG
13444848 TGAGTGGCCAAGTGGGGTGGGG
1 TGAGTGGCCAAGTGGGGTGGGG
*
13444870 TGGGTGG
1 TGAGTGG
13444877 GTTTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.12, C:0.08, G:0.61, T:0.20
Consensus pattern (22 bp):
TGAGTGGCCAAGTGGGGTGGGG
Found at i:13445128 original size:21 final size:21
Alignment explanation
Indices: 13445102--13445145 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13445092 TTGGATTTTG
* *
13445102 TTATTTATTAATTT-ATGATTT
1 TTATTT-TAAATTTAATAATTT
13445123 TTATTTTAAATTTAATAATTT
1 TTATTTTAAATTTAATAATTT
13445144 TT
1 TT
13445146 TTGTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATTTTAAATTTAATAATTT
Found at i:13447086 original size:21 final size:24
Alignment explanation
Indices: 13447051--13447096 Score: 71
Period size: 21 Copynumber: 2.0 Consensus size: 24
13447041 TCATGTGATA
13447051 TTAGGCATGTGTTTATTT-ATTGT
1 TTAGGCATGTGTTTATTTCATTGT
13447074 TTAGGC-T-TGTTTATTTCATTGT
1 TTAGGCATGTGTTTATTTCATTGT
13447096 T
1 T
13447097 AGTGCAGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 7 0.32
23 6 0.27
ACGTcount: A:0.15, C:0.07, G:0.20, T:0.59
Consensus pattern (24 bp):
TTAGGCATGTGTTTATTTCATTGT
Found at i:13448537 original size:6 final size:5
Alignment explanation
Indices: 13448519--13448615 Score: 65
Period size: 6 Copynumber: 18.4 Consensus size: 5
13448509 CCGTTTGGTA
* *
13448519 ATTTT -TTTT ATTTT GATTTT A-TTT ATTTT ATGTT ATTTT -TTTAT TTTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTT-T ATTTT
**
13448568 ATGAT ATTATT ATTATT ATTATT ATTATT ATTATT ATTGTT ATTTT AT
1 ATTTT ATT-TT ATT-TT ATT-TT ATT-TT ATT-TT ATT-TT ATTTT AT
13448616 ATAATTACTC
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
4 11 0.14
5 26 0.33
6 41 0.53
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:13448554 original size:14 final size:14
Alignment explanation
Indices: 13448525--13448562 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
13448515 GGTAATTTTT
*
13448525 TTTATTTTGATTTTA
1 TTTATTTT-ATGTTA
13448540 TTTATTTTATGTTA
1 TTTATTTTATGTTA
13448554 TTT-TTTTAT
1 TTTATTTTAT
13448563 TTTTTATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 8 0.36
15 8 0.36
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTATTTTATGTTA
Found at i:13448578 original size:3 final size:3
Alignment explanation
Indices: 13448572--13448615 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
13448562 TTTTTTATGA
*
13448572 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13448616 ATAATTACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13449106 original size:20 final size:22
Alignment explanation
Indices: 13449066--13449106 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
13449056 TAATTTTTTA
*
13449066 TTATAATTAAATAATTGTAAAC
1 TTATAATTAAATAATTATAAAC
13449088 TTATAA-TAAA-AATTATAAA
1 TTATAATTAAATAATTATAAA
13449107 TAAATACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TTATAATTAAATAATTATAAAC
Found at i:13449455 original size:30 final size:30
Alignment explanation
Indices: 13449391--13449458 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
13449381 GCACTCAAGG
* * * * *
13449391 CCAAATATGTTTTTAATTTTTATTTTGCAT
1 CCAAATAAGTTTTTAAATTTTAATATGCAA
*
13449421 CCAAATAAGTTTTTAAATTTTAATATGTAA
1 CCAAATAAGTTTTTAAATTTTAATATGCAA
13449451 CCAAATAA
1 CCAAATAA
13449459 ATTCTTTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (30 bp):
CCAAATAAGTTTTTAAATTTTAATATGCAA
Found at i:13459177 original size:17 final size:17
Alignment explanation
Indices: 13459152--13459185 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13459142 AAATTCAAGT
* *
13459152 GAAAGAAAACAAAAACA
1 GAAAAAAAAAAAAAACA
13459169 GAAAAAAAAAAAAAACA
1 GAAAAAAAAAAAAAACA
13459186 AAATTTTACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAAAAAAACA
Found at i:13460448 original size:17 final size:17
Alignment explanation
Indices: 13460426--13460459 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13460416 TAGAGCCAAA
13460426 ACCCAAATCCCTTTCAC
1 ACCCAAATCCCTTTCAC
13460443 ACCCAAATCCCTTTCAC
1 ACCCAAATCCCTTTCAC
13460460 TAGCGAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.47, G:0.00, T:0.24
Consensus pattern (17 bp):
ACCCAAATCCCTTTCAC
Found at i:13465136 original size:18 final size:18
Alignment explanation
Indices: 13465113--13465147 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13465103 AAAAAGTGCA
*
13465113 TTCACATTTATCAGTTTG
1 TTCACATATATCAGTTTG
13465131 TTCACATATATCAGTTT
1 TTCACATATATCAGTTT
13465148 AGTGCATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (18 bp):
TTCACATATATCAGTTTG
Found at i:13467549 original size:30 final size:28
Alignment explanation
Indices: 13467512--13467646 Score: 110
Period size: 30 Copynumber: 4.6 Consensus size: 28
13467502 ATTTAGATAT
*
13467512 ATTTTTATATTTTTATTATATCTAAATAG
1 ATTTTTA-ATTTTTATTATATCTAAATAA
* * * *
13467541 ATTTTTTATCTTTATTTTA-CATTCAAATAT
1 ATTTTTAATTTTTATTATATC--T-AAATAA
* *
13467571 ATTTTTAAATTTTAATTTATATTTAAATAA
1 ATTTTT-AATTTTTA-TTATATCTAAATAA
* *
13467601 ATTATTAACTTTTAATTTATATCTAAATAA
1 ATTTTTAA-TTTTTA-TTATATCTAAATAA
13467631 ATTTTTAATTTTTATT
1 ATTTTTAATTTTTATT
13467647 TACAATAAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 12 0.14
29 14 0.16
30 48 0.56
31 6 0.07
32 4 0.05
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (28 bp):
ATTTTTAATTTTTATTATATCTAAATAA
Found at i:13467629 original size:60 final size:60
Alignment explanation
Indices: 13467508--13467648 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 60
13467498 CTTTATTTAG
* * * * *
13467508 ATATATTTTTATATTTTTA-TTATATCTAAATAGATTTTTTATCTTTATTTTACATTCAA
1 ATATATTTTTAAATTTTTATTTATATCTAAATAAATTATTAATCTTTAATTTACATTCAA
* * *
13467567 ATATATTTTTAAATTTTAATTTATATTTAAATAAATTATTAA-CTTTTAATTTATA-TCTAA
1 ATATATTTTTAAATTTTTATTTATATCTAAATAAATTATTAATC-TTTAATTTACATTC-AA
*
13467627 ATAAATTTTT-AATTTTTATTTA
1 ATATATTTTTAAATTTTTATTTA
13467649 CAATAAATTA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 31 0.45
60 38 0.55
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (60 bp):
ATATATTTTTAAATTTTTATTTATATCTAAATAAATTATTAATCTTTAATTTACATTCAA
Found at i:13467637 original size:23 final size:24
Alignment explanation
Indices: 13467610--13467657 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
13467600 AATTATTAAC
13467610 TTTTAATTTATATCTA-AATAAAT
1 TTTTAATTTATATCTACAATAAAT
* *
13467633 TTTTAATTTTTATTTACAATAAAT
1 TTTTAATTTATATCTACAATAAAT
13467657 T
1 T
13467658 AGATTGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAATTTATATCTACAATAAAT
Found at i:13467957 original size:6 final size:6
Alignment explanation
Indices: 13467946--13467972 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13467936 TGTTCAGCAG
13467946 TCTTTC TCTTTC TCTTTC TCTTTC TCT
1 TCTTTC TCTTTC TCTTTC TCTTTC TCT
13467973 CTCCAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTTTC
Found at i:13471108 original size:20 final size:20
Alignment explanation
Indices: 13471079--13471119 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13471069 TTAAGTTTGT
*
13471079 AGAGTCGGTGAGAGGTGGAG
1 AGAGTCGGTGAGAGGTAGAG
* *
13471099 AGAGTTGGTGGGAGGTAGAG
1 AGAGTCGGTGAGAGGTAGAG
13471119 A
1 A
13471120 TTAAGTTTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.54, T:0.17
Consensus pattern (20 bp):
AGAGTCGGTGAGAGGTAGAG
Found at i:13471484 original size:62 final size:62
Alignment explanation
Indices: 13471318--13471529 Score: 205
Period size: 62 Copynumber: 3.3 Consensus size: 62
13471308 TTTTTATGAT
** * * *
13471318 GGATTATTGAAGGCATTTTTAGCCAAAAACGCATTCAATAATCCTTTCTAAATTTTGTTGAG
1 GGATTATTGAAGATATTTTTGGCCAAAAACACATTCAATAATCCTTTCTAAATTTTGTTAAG
* * ***
13471380 GAGATTATTAAATGTATTTTTTTTTATCAAAAACACATTCAATAATCCATTTC-AAATTTT-TTC
1 G-GATTATTGAA-G-A-TATTTTTGGCCAAAAACACATTCAATAATCC-TTTCTAAATTTTGTT-
13471443 AAG
60 AAG
*
13471446 GGATTATTGAAGATATTTTTGGCCAAAAACACCTTCAATAATCCTTTAC-AAATTTTGTTAAGG
1 GGATTATTGAAGATATTTTTGGCCAAAAACACATTCAATAATCCTTT-CTAAATTTTGTTAA-G
* * *
13471509 GGATCATTGAAGGTGTTTTTG
1 GGATTATTGAAGATATTTTTG
13471530 TCAATTACTG
Statistics
Matches: 123, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
61 3 0.02
62 37 0.30
63 31 0.25
64 2 0.02
65 11 0.09
66 35 0.28
67 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (62 bp):
GGATTATTGAAGATATTTTTGGCCAAAAACACATTCAATAATCCTTTCTAAATTTTGTTAAG
Found at i:13471896 original size:35 final size:34
Alignment explanation
Indices: 13471813--13471896 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 34
13471803 TTTGAGACGT
** * *
13471813 CGCTAATTTAGTGATGTTTTTATTAAAAAAATAC
1 CGCTAATTTAGTGGCGTTTATATAAAAAAAATAC
* * *
13471847 CGTTACTTTGGTGGCGTTTATATAAAAAAAAATAC
1 CGCTAATTTAGTGGCGTTTATAT-AAAAAAAATAC
*
13471882 TGCTAATTTAGTGGC
1 CGCTAATTTAGTGGC
13471897 ATTTTTTAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
34 17 0.45
35 21 0.55
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (34 bp):
CGCTAATTTAGTGGCGTTTATATAAAAAAAATAC
Found at i:13476969 original size:21 final size:21
Alignment explanation
Indices: 13476916--13476969 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
13476906 GAATATCAAG
*
13476916 ATCACCAACTTAAGTATCAGT
1 ATCACCAACTTGAGTATCAGT
*
13476937 ATCACTAACTTGAGTATCAGT
1 ATCACCAACTTGAGTATCAGT
13476958 ATCACCAACTTG
1 ATCACCAACTTG
13476970 CATAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (21 bp):
ATCACCAACTTGAGTATCAGT
Found at i:13483230 original size:187 final size:186
Alignment explanation
Indices: 13483004--13483931 Score: 961
Period size: 187 Copynumber: 5.1 Consensus size: 186
13482994 AAAAAAATGC
* * * * *
13483004 CTTT-AATAATTTTCTTTTAAAAAATTTTGAGAGTATTAAAGGCATCTTCTAGTAAAAAATGCCT
1 CTTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAGTGAAAAACGCAT
* ***
13483068 TCAATATTTCACTACTCAAATATTAAGACTGTTAGTGAAGTTATTTATTCTAGAAAAATACCTTC
66 TCAATATTTCACTACTCAAATTTTAAGA-TGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTC
* * * *
13483133 ACTAATTCCTTTTAATTTATGTACATAATTGTTGAATGTATTTTTTGAGAACAAATA
130 ACTAATTCCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAACAAACA
* * ** *
13483190 CTTTCAATAA-TTTCTTTTTAAAAATTTTTGAGATTATTAAAGGTATCTTCTAGTAAAAAATACC
1 CTTTCAATAATTTTC-TTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAGTGAAAAACGCA
* ** * * * * * *
13483254 TTCAATATGTCGGTATTCAAATTTTAAGACAGTTAATGAAAGCGTTTATTCCAAAAAAATACCTT
65 TTCAATATTTCACTACTCAAATTTTAAGA-TGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTT
* * * *
13483319 CAATAATT-TTTTTAAATTTTTGTACATAATTATTGAAGGTATTTTTTTAGAACAAACGC
129 CACTAATTCCTTTT-AATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAACAAAC-A
* *
13483378 CTTT-AATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAACGCTT
1 CTTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAGTGAAAAACGCAT
* * * * * *
13483442 TCAATATTTCAATACTCAAAATTTAAGATGGTTAGTGAAGGCATTTATTTTACAAAAATGCCTTC
66 TCAATATTTCACTACTCAAATTTTAAGAT-GTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTC
* * *
13483507 ACTACTTCCTTTTAATTTATGTACATAATTATTGAAGGTGTTTTTTGAGAACAAACA
130 ACTAATTCCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAACAAACA
* * * * * * *
13483564 CCTTCAATAA-TTT-TTTAAAAAATTTTTTTAGGATTATTAAAGACATTTTCTAATGAAAAACAC
1 CTTTCAATAATTTTCTTTTAAAAA-TTTTTGA-GATTATTAAAGGCATCTTCTAGTGAAAAACGC
* *
13483627 ATTCAATATTTCACTACTCAAATTTTAAGAAGGTTAATGAAGGCGTTTATTCT------A-A--T
64 ATTCAATATTTCACTACTCAAATTTTAAG-ATGTTAGTGAAGGCGTTTATTCTAGAAAAATACCT
* * * **
13483683 T--C---TT-C--TTAATTTTTGTACATAATTATTAAATGTATTTTTTTAGAACAAATG
128 TCACTAATTCCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAACAAACA
* * * * *
13483734 CTTTCAATAATTTTATTTTAAATATTTTTGAGATTATTAAAGACATCTTTTAGTGAAAAACGTAT
1 CTTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAGTGAAAAACGCAT
* * * *
13483799 TTAATA-TTCATTACTCAAATTTTAAGATAGTCAGTGAAGGCGTTTATTCTAGAAAAATACCTTA
66 TCAATATTTCACTACTCAAATTTTAAGAT-GTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTC
* * * *
13483863 ACTAATTCTTTTTAATTTTTGTACATAATTATTAAAGGT-GTTTTTGAAAACAAACA
130 ACTAATTCCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAACAAACA
*
13483919 CCTTCAATAATTT
1 CTTTCAATAATTT
13483932 CAAGGGCATT
Statistics
Matches: 615, Mismatches: 96, Indels: 63
0.79 0.12 0.08
Matches are distributed among these distances:
168 1 0.00
169 38 0.06
170 82 0.13
171 9 0.01
172 8 0.01
173 2 0.00
175 1 0.00
176 2 0.00
178 4 0.01
180 1 0.00
181 1 0.00
183 2 0.00
185 32 0.05
186 51 0.08
187 368 0.60
188 13 0.02
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (186 bp):
CTTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAGTGAAAAACGCAT
TCAATATTTCACTACTCAAATTTTAAGATGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTTCA
CTAATTCCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAACAAACA
Found at i:13484604 original size:181 final size:181
Alignment explanation
Indices: 13484252--13484607 Score: 622
Period size: 182 Copynumber: 2.0 Consensus size: 181
13484242 TTTTAAGGAG
* *
13484252 ATTATTGAAGGTAGTTTTTCCAGAAAAACACATTCACTTATAATTTTTATATTCATTCTCTGTCT
1 ATTATTGAAGGTAGTTTTTCCAGAAAAACACATTCACTTATAATTTTTATATTCATTCCCTATCT
* * *
13484317 TGAACATCGAAATCACAAACTGTTAGTACAGAGAATGATTAAAAGCTGCATTAATTAACCAAACC
66 TGAACATCGAAATCACAAACTATTAGTACAGAGAATGATTAAAAGCTGCACTAATCAACCAAACC
*
13484382 AAACCCATAAACACATTTCTATCATACTTTTGGATTTTTTTTATAAAAGAA
131 AAACCCATAAACACATTTCTATCATACTTTTAGATTTTTTTTATAAAAGAA
*
13484433 ATTATTGAAGGTATTTTTTCCAGAAAAACACATTCACTTATAATTTTTATATTCATTCCCCTATC
1 ATTATTGAAGGTAGTTTTTCCAGAAAAACACATTCACTTATAATTTTTATATTCATT-CCCTATC
* *
13484498 TTGAACATCGAAATCACGAACTATTGGTACAGAGAATGATTAAAAGCTGCACTAATCAACCAAAC
65 TTGAACATCGAAATCACAAACTATTAGTACAGAGAATGATTAAAAGCTGCACTAATCAACCAAAC
13484563 CAAACCCATAAACACATTTCTATCATACTTTTAGATTTTTTTTAT
130 CAAACCCATAAACACATTTCTATCATACTTTTAGATTTTTTTTAT
13484608 CCCTATCGTC
Statistics
Matches: 165, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
181 56 0.34
182 109 0.66
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (181 bp):
ATTATTGAAGGTAGTTTTTCCAGAAAAACACATTCACTTATAATTTTTATATTCATTCCCTATCT
TGAACATCGAAATCACAAACTATTAGTACAGAGAATGATTAAAAGCTGCACTAATCAACCAAACC
AAACCCATAAACACATTTCTATCATACTTTTAGATTTTTTTTATAAAAGAA
Found at i:13484937 original size:13 final size:12
Alignment explanation
Indices: 13484897--13484945 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
13484887 TGTATGATAT
*
13484897 TGGTATGCTGAA
1 TGGTTTGCTGAA
*
13484909 TGGTTTGCTAAA
1 TGGTTTGCTGAA
*
13484921 TGGTGTTTCTGAA
1 TGGT-TTGCTGAA
13484934 TGGTTTGCTGAA
1 TGGTTTGCTGAA
13484946 GGATATTTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.20, C:0.08, G:0.31, T:0.41
Consensus pattern (12 bp):
TGGTTTGCTGAA
Found at i:13484954 original size:25 final size:25
Alignment explanation
Indices: 13484904--13484958 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13484894 TATTGGTATG
*
13484904 CTGAATGGTTTGCTAAATGGTGTTT
1 CTGAATGGTTTGCTAAATGGTATTT
*
13484929 CTGAATGGTTTGCTGAA-GGATATTT
1 CTGAATGGTTTGCTAAATGG-TATTT
13484954 CTGAA
1 CTGAA
13484959 CACATTACTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (25 bp):
CTGAATGGTTTGCTAAATGGTATTT
Found at i:13488222 original size:35 final size:35
Alignment explanation
Indices: 13488160--13488229 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
13488150 ATATATAAAC
* **
13488160 CAAATATTTTTTGGGTGTAAATATACAACTGACTT
1 CAAATATTTTCTGGGCATAAATATACAACTGACTT
*
13488195 CAAATATTTTCTGGGCATAAACT-TACAATTGACTT
1 CAAATATTTTCTGGGCATAAA-TATACAACTGACTT
13488230 GACATATACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (35 bp):
CAAATATTTTCTGGGCATAAATATACAACTGACTT
Found at i:13489114 original size:306 final size:300
Alignment explanation
Indices: 13488295--13489210 Score: 899
Period size: 305 Copynumber: 3.0 Consensus size: 300
13488285 CAAGAAAACG
* * * * * * * *
13488295 CCTTAAATCATCCATAACAAAATATTATTGAAGG-CTTTTTAATC-AAAATTACCTTCAATAATT
1 CCTTCAATAATCCCTAACAAAATGTTATTGAAGGTATTTTTGA-CAAAAATCACCTTCAATAATC
* * * * * *
13488358 CCACCTAAAAATATATTGTGTGAAATATTAAAGGCATTTTGGAACAAAAACACCTTTAAGAATCC
65 CCACATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGG-CCAAAAACACCTTCAAGAATTC
* * ** **
13488423 GTTCCAAATATTGTGTATGGATTATTGAAGGTATTTTTGATAAAAATTACCTTTAATAATCTCTG
129 GTTCCAACTTTTGTGTATGGATTATTGAAGGTATTTTTGATAAAAACCACCTTTAATAATC-CAA
* * * *
13488488 TT-AAAA--A-T--TTGCATTATTAAAGGCGCTTTCA-ACTAAAAATGCCTTCAAGAATCCGTTC
193 TTAAAAATTATTGATTGGATTATTAAAGGCACTTTCAGAC-AAAAATGCCTTCAAGAATTCGTTT
* * * *
13488546 CATATTTTTTCTATAGATTATTAAGGGCATATTTAG-CACGAAACTA
257 C-TATTTTTTCTATGGATTATTAAGGGTATTTTTTGCCA-GAAA-TA
* ** * * *
13488592 CCTTGAATAATCTTTAACAAAATGTTATTGAAGGTATTTTTTACCAAAATTACCTTCAATAATCC
1 CCTTCAATAATCCCTAACAAAATGTTATTGAAGGTATTTTTGACAAAAATCACCTTCAATAATCC
* *
13488657 CACCTAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCCAAAAACATCTTCAAGAA-TCT
66 CACATAAAAATTTATTGTGTGGAATATTAAAGGCATTTT-GGCCAAAAACACCTTCAAGAATTC-
* * *
13488721 GTTCCAACTTTTTTGTATGGATTATTGAAGGCATTTTT-A-AAACAATCCGCCTTTAATAATACC
129 GTTCCAACTTTTGTGTATGGATTATTGAAGGTATTTTTGATAAA-AA-CCACCTTTAATAAT-CC
* * *
13488784 AACTAAAAATTAATTGAATGGATTATTAAAGGCACTTTCAGTCAAAAATGCCTTCAAGAATTCGT
191 AATTAAAAATT-ATTGATTGGATTATTAAAGGCACTTTCAGACAAAAATGCCTTCAAGAATTCGT
*
13488849 TTCTTATTTTTTCTATGGATTATTTAGGGTATTTTTCTGCCAGAAATA
255 TTC-TATTTTTTCTATGGATTATTAAGGGTATTTTT-TGCCAGAAATA
* * *
13488897 CCTTCAATAATCCCTAACAAAATGTTATTGAAGGTGTTTTTGACAAAAATCACCTTTAATCATCC
1 CCTTCAATAATCCCTAACAAAATGTTATTGAAGGTATTTTTGACAAAAATCACCTTCAATAATCC
* ** * * * *
13488962 GATCATTCAAATTTATCGTGTGGAATATTAAAGGCGTTTTGAGCCAAACACGCCTTCAAGAATTC
66 CA-CATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTG-GCCAAAAACACCTTCAAGAATTC
* * * *
13489027 ATTCTAACTTTTGTGTATGGATTATTGAAGATATTTTTGATAAAAACCACCTGTAATAATCCAAA
129 GTTCCAACTTTTGTGTATGGATTATTGAAGGTATTTTTGATAAAAACCACCTTTAATAATCC-AA
* * * * * * * *
13489092 TTAAAAATTTATTGATTGGATTATTGAAGGTGAGTTT-GGCCAAAAATACCTTTAAGAA-TCGGT
193 TTAAAAA-TTATTGATTGGATTATTAAAGG-CACTTTCAGACAAAAATGCCTTCAAGAATTCGTT
* * * **
13489155 TCTATATTTTCCTTTGGATTATTAAGGGTATTTCTTTGCCAAAAACG
256 TCTAT-TTTTTCTATGGATTATTAAGGGTATTT-TTTGCCAGAAATA
13489202 CCTTCAATA
1 CCTTCAATA
13489211 TTCTCTTCAA
Statistics
Matches: 515, Mismatches: 77, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
296 3 0.01
297 34 0.07
298 125 0.24
299 7 0.01
302 1 0.00
303 1 0.00
304 3 0.01
305 180 0.35
306 145 0.28
307 13 0.03
308 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (300 bp):
CCTTCAATAATCCCTAACAAAATGTTATTGAAGGTATTTTTGACAAAAATCACCTTCAATAATCC
CACATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGCCAAAAACACCTTCAAGAATTCGT
TCCAACTTTTGTGTATGGATTATTGAAGGTATTTTTGATAAAAACCACCTTTAATAATCCAATTA
AAAATTATTGATTGGATTATTAAAGGCACTTTCAGACAAAAATGCCTTCAAGAATTCGTTTCTAT
TTTTTCTATGGATTATTAAGGGTATTTTTTGCCAGAAATA
Found at i:13490278 original size:242 final size:241
Alignment explanation
Indices: 13489854--13490331 Score: 651
Period size: 242 Copynumber: 2.0 Consensus size: 241
13489844 ATTTTTTATG
* * *
13489854 GATTATTAAAAGTGTTTTTGGCCGAAAATACATTCAATAATCCTTCTCTAAAATTTCTTAAATGG
1 GATTATTAAAAGCGTTTTTGACCAAAAATACATTCAATAATCCTTCTCTAAAATTTCTTAAATGG
* * * ** *
13489919 ATTATTGAAGGTGTTTTTGACAAAAAACGCCTTCAATAATCTCCTTAACAAAATTTTTTGTTTGG
66 ATTATTAAAAGCGTTTTAAACAAAAAACGCCTTCAATAATCTCCTTAACAAAATTTTTTGTTTGA
* * *
13489984 ATTATTGAAAAACGTCTTCAATAATTTCTTTAGTAAATTTTTATGAGAGATTATTGAAGGCCTTT
131 ATTATTGAAAAACGCCTTCAATAATTCCTTTAATAAATTTTTATGAGAGATTATTGAAGGCCTTT
** *
13490049 TTGACAAAAAATGCTTTTAATAATTCTTTCTAAATTTTGTTCAGGA
196 TTGACAAAAAACACTTTCAATAATTCTTTCTAAATTTTGTTCAGGA
* * *
13490095 GATTATTGAAAA-CGTTTTTGACCAAAAATTCCTTCAATAATCCCTT-TCTAAAATTAT-TTGAA
1 GATTATT-AAAAGCGTTTTTGACCAAAAATACATTCAATAAT-CCTTCTCTAAAATT-TCTTAAA
* *
13490157 TGGATTATTAAAAGCGTTTTAAACAAAAAAACGCTTTTAATAATCT-CTTCAACAAAATTTTTTG
63 TGGATTATTAAAAGCGTTTTAAAC-AAAAAACGCCTTCAATAATCTCCTT-AACAAAATTTTTTG
13490221 TTTGAATTATTGAAAAACGCCTTCAAT-ATTCCCTTTAATAAATTTTTATGAGAGATTATTGAAG
126 TTTGAATTATTGAAAAACGCCTTCAATAATT-CCTTTAATAAATTTTTATGAGAGATTATTGAAG
** * *
13490285 GTTTTTTTGATAAAAAACACTTTCAATAATTTTTTCTAAATTTTGTT
190 GCCTTTTTGACAAAAAACACTTTCAATAATTCTTTCTAAATTTTGTT
13490332 GAAAGAATTA
Statistics
Matches: 207, Mismatches: 24, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
241 69 0.33
242 138 0.67
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (241 bp):
GATTATTAAAAGCGTTTTTGACCAAAAATACATTCAATAATCCTTCTCTAAAATTTCTTAAATGG
ATTATTAAAAGCGTTTTAAACAAAAAACGCCTTCAATAATCTCCTTAACAAAATTTTTTGTTTGA
ATTATTGAAAAACGCCTTCAATAATTCCTTTAATAAATTTTTATGAGAGATTATTGAAGGCCTTT
TTGACAAAAAACACTTTCAATAATTCTTTCTAAATTTTGTTCAGGA
Found at i:13490345 original size:63 final size:62
Alignment explanation
Indices: 13490259--13490378 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
13490249 TTCCCTTTAA
* *
13490259 TAAATTTTTATGAGAGATTATTGAAGGTTTTTTTGATAAAAAACACTTTCAATAATTTTTTC
1 TAAATTTTTATGAAAGATTATTGAAGGATTTTTTGATAAAAAACACTTTCAATAATTTTTTC
* * *
13490321 TAAATTTTGT-TGAAAGAATTATTGAAGGATTTTTTGGTCAAAAATACTTTCAATAATT
1 TAAATTTT-TATGAAAG-ATTATTGAAGGATTTTTTGATAAAAAACACTTTCAATAATT
13490379 CCCTCAACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
62 13 0.25
63 38 0.75
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (62 bp):
TAAATTTTTATGAAAGATTATTGAAGGATTTTTTGATAAAAAACACTTTCAATAATTTTTTC
Found at i:13490481 original size:242 final size:240
Alignment explanation
Indices: 13489854--13490490 Score: 592
Period size: 242 Copynumber: 2.6 Consensus size: 240
13489844 ATTTTTTATG
* * * * * ** *
13489854 GATTATT-AAAAGTGTTTTTGGCCGAAAATACATTCAATAATCCTTCTCTAAAATT-TCTTAAAT
1 GATTATTGAAAA-CGTTTTTGACCAAAAATACCTTCAATAATCCCTAACTAAAATTAT-TTCAAT
* * * ** * *
13489917 GGATTATTGAAGGTGTTTTTGAC-AAAAAACGCCTTCAATAATCTCCTTAACAAAATTTTTTGTT
64 GGATTATTAAAAGCGTTTTAAACAAAAAAACGCCTTCAATAATCT-CTTAACAAAATTTTTTATA
* * * * *
13489981 TGGATTATTGAAAAACGTCTTCAATAATTTCTTTAGTAAATTTTTATGAGAGATTATTGAAGGCC
128 TGAATTATTCAAAAACGCCTTCAAT-ATTCCTTTAATAAATTTTTATGAGAGATTATTGAAGGCC
** * * *
13490046 TTTTTGACAAAAAATGCTTTTAATAATTCTTTCTAAATTTTGTTCAGGA
192 TTTTTGACAAAAAACACTTTCAATAATTCTTTCTAAATTTTGTTAAAGA
* ** *
13490095 GATTATTGAAAACGTTTTTGACCAAAAATTCCTTCAATAATCCCTTTCTAAAATTATTTGAATGG
1 GATTATTGAAAACGTTTTTGACCAAAAATACCTTCAATAATCCCTAACTAAAATTATTTCAATGG
* * * *
13490160 ATTATTAAAAGCGTTTTAAACAAAAAAACGCTTTTAATAATCTCTTCAACAAAATTTTTTGTTTG
66 ATTATTAAAAGCGTTTTAAACAAAAAAACGCCTTCAATAATCTCTT-AACAAAATTTTTTATATG
* **
13490225 AATTATTGAAAAACGCCTTCAATATTCCCTTTAATAAATTTTTATGAGAGATTATTGAAGGTTTT
130 AATTATTCAAAAACGCCTTCAATATT-CCTTTAATAAATTTTTATGAGAGATTATTGAAGGCCTT
* *
13490290 TTTGATAAAAAACACTTTCAATAATTTTTTCTAAATTTTGTTGAAAGA
194 TTTGACAAAAAACACTTTCAATAATTCTTTCTAAATTTTGTT-AAAGA
* * ** * * *
13490338 -ATTATTGAAGGA-TTTTTTGGTCAAAAATACTTTCAATAATTCCCTCAAC-AAAATTTTTTTCT
1 GATTATTGAA-AACGTTTTTGACCAAAAATACCTTCAATAA-TCCCT-AACTAAAA-TTATTTCA
* * **** * * *
13490400 TTGGATTATTGAAAGC-TTTTTTGGATAAAAATGCCTTCAATAATCAT-TT-TCAAAATTTTTTA
62 ATGGATTATTAAAAGCGTTTTAAACAAAAAAACGCCTTCAATAATC-TCTTAACAAAATTTTTTA
13490462 TAT-AATTATTACCAAAAACGCCTTCAATA
126 TATGAATTATT--CAAAAACGCCTTCAATA
13490491 ATCTCATTCA
Statistics
Matches: 330, Mismatches: 53, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
240 7 0.02
241 85 0.26
242 181 0.55
243 36 0.11
244 21 0.06
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (240 bp):
GATTATTGAAAACGTTTTTGACCAAAAATACCTTCAATAATCCCTAACTAAAATTATTTCAATGG
ATTATTAAAAGCGTTTTAAACAAAAAAACGCCTTCAATAATCTCTTAACAAAATTTTTTATATGA
ATTATTCAAAAACGCCTTCAATATTCCTTTAATAAATTTTTATGAGAGATTATTGAAGGCCTTTT
TGACAAAAAACACTTTCAATAATTCTTTCTAAATTTTGTTAAAGA
Found at i:13495653 original size:15 final size:17
Alignment explanation
Indices: 13495622--13495655 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13495612 GTAAGATAAT
13495622 TTATTTATTTTTCAAAA
1 TTATTTATTTTTCAAAA
13495639 TTATTT-TTTTT-AAAA
1 TTATTTATTTTTCAAAA
13495654 TT
1 TT
13495656 TATATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTATTTTTCAAAA
Found at i:13495658 original size:16 final size:18
Alignment explanation
Indices: 13495619--13495658 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
13495609 AGGGTAAGAT
13495619 AATTTATTTATTTTTCAA
1 AATTTATTTATTTTTCAA
13495637 AA-TTATTT-TTTTT-AA
1 AATTTATTTATTTTTCAA
13495652 AATTTAT
1 AATTTAT
13495659 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.19
16 9 0.43
17 6 0.29
18 2 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTATTTATTTTTCAA
Found at i:13501015 original size:6 final size:6
Alignment explanation
Indices: 13501004--13501028 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13500994 GCACAGTAAA
13501004 AAAAAC AAAAAC AAAAAC AAAAAC A
1 AAAAAC AAAAAC AAAAAC AAAAAC A
13501029 GAAAGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:13502817 original size:3 final size:3
Alignment explanation
Indices: 13502809--13502847 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13502799 AATCTTTCAA
13502809 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13502848 TTCTATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13503537 original size:2 final size:2
Alignment explanation
Indices: 13503530--13503560 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13503520 ACATACATAC
13503530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13503561 AATTAGAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13503637 original size:4 final size:4
Alignment explanation
Indices: 13503628--13503678 Score: 54
Period size: 4 Copynumber: 13.2 Consensus size: 4
13503618 TAATCTGACA
* *
13503628 AAAT AAAT AAAT AAA- AGTAT AAAT AAAT AAAT AAAT AAA- AATT AAA-
1 AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
13503674 AAAT A
1 AAAT A
13503679 CCTACAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.15
4 32 0.82
5 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:13505446 original size:3 final size:3
Alignment explanation
Indices: 13505440--13505468 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13505430 ATTAAAAGGT
13505440 TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13505469 GTTTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:13505475 original size:14 final size:14
Alignment explanation
Indices: 13505441--13505468 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13505431 TTAAAAGGTT
13505441 TATTATTATTATTA
1 TATTATTATTATTA
13505455 TATTATTATTATTA
1 TATTATTATTATTA
13505469 GTTTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:13506468 original size:13 final size:14
Alignment explanation
Indices: 13506447--13506482 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13506437 TCAGAATAAA
13506447 AAAGAAAAAG-AAG
1 AAAGAAAAAGAAAG
*
13506460 AAGGAAAAAGAAAG
1 AAAGAAAAAGAAAG
13506474 AAAGAAAAA
1 AAAGAAAAA
13506483 AATATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:13506763 original size:44 final size:44
Alignment explanation
Indices: 13506670--13506803 Score: 144
Period size: 44 Copynumber: 3.1 Consensus size: 44
13506660 TCAATAACAT
* * * * *
13506670 TTTTAAAAATTTAAA-AAGCTTCTCTGAGTAAAGGCTCAATGAC
1 TTTTGAAAATTTAAAGAGGCTCCTCTAAGTAAAGGCTCAACGAC
* * *
13506713 TTTTGAAAATTTAAAGAGGCTCCTCTAAGTATAGGTTTAACGAC
1 TTTTGAAAATTTAAAGAGGCTCCTCTAAGTAAAGGCTCAACGAC
* ** * *
13506757 TTTTGAAAATTTAAAGAGACTCCTCTAAACAGAGGCTCAACAAC
1 TTTTGAAAATTTAAAGAGGCTCCTCTAAGTAAAGGCTCAACGAC
13506801 TTT
1 TTT
13506804 AAAAAAATCT
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
43 14 0.19
44 61 0.81
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (44 bp):
TTTTGAAAATTTAAAGAGGCTCCTCTAAGTAAAGGCTCAACGAC
Found at i:13506890 original size:48 final size:48
Alignment explanation
Indices: 13506776--13507195 Score: 448
Period size: 48 Copynumber: 8.9 Consensus size: 48
13506766 TTTAAAGAGA
* * *
13506776 CTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATCTATCTTGAAAAAG
1 CTCCTATAAGCAGAGGCTCAACAACTTT--AAAAATTTATCTTGAAAAAG
* * * * *
13506826 CTCAT-TAA-CTAAAGGCTTAATAACTTTAAAAATTTATCTTGAAAAAA
1 CTCCTATAAGC-AGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAG
* * *
13506873 CTCCTATCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGGAAAAG
1 CTCCTATAAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTTGAAAAAG
* * * *
13506921 CTCCTCTCAGCAAAGGCTCAACAATTTTAAAAATTTATCTTGAAAAAG
1 CTCCTATAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAG
* * *
13506969 TTCCTCTCATG-AGAGG-TCAACAACTTT---AATTTATCTTGAAAAAG
1 CTCCTAT-AAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAG
* * *
13507013 CTCTTTTAAGCAGAAGCTCAACAAC-TTAAAAATTTCATCTTGAAAAAG
1 CTCCTATAAGCAGAGGCTCAACAACTTTAAAAATTT-ATCTTGAAAAAG
* *
13507061 CT--TATAAGCAGAGGCTCGACAACTTTAAAACTTTATCTTGAAAAAG
1 CTCCTATAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAG
* *
13507107 CTCCTTTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG
1 CTCCTATAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAG
* * * *
13507155 CTCCTCTAAGCAGAAGCTCAACAACTTTAAATATTCATCTT
1 CTCCTATAAGCAGAGGCTCAACAACTTTAAAAATTTATCTT
13507196 TTCTCGAAAT
Statistics
Matches: 315, Mismatches: 40, Indels: 32
0.81 0.10 0.08
Matches are distributed among these distances:
43 2 0.01
44 27 0.09
45 8 0.03
46 32 0.10
47 51 0.16
48 167 0.53
49 24 0.08
50 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (48 bp):
CTCCTATAAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAG
Found at i:13507108 original size:186 final size:187
Alignment explanation
Indices: 13506776--13507184 Score: 490
Period size: 186 Copynumber: 2.2 Consensus size: 187
13506766 TTTAAAGAGA
* * *
13506776 CTCCTCTAAACAGAGGCTCAACAACTTTAAAAAAATCTATCTTGAAAAAGCTCATTAACTAAAGG
1 CTCCTCTAAGCAGAAGCTCAACAACTTT-----AATTTATCTTGAAAAAGCTCATTAACTAAAGG
* * *
13506841 CTTAATAACTTTAAAAATTTATCTTGAAAAAACTCCTATCAGCAGAGGCTCAACAACTTTAAAAT
61 CTCAACAACTTTAAAAATTTATCTTGAAAAAACT-CTATAAGCAGAGGCTCAACAACTTTAAAAT
* * * *
13506906 CTCATCTTGGAAAAGCTCCTCTCAGCAAAGGCTCAACAATTTTAAAAATTTATCTTGAAAAAG
125 CTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG
* * * *
13506969 TTCCTCTCATG-AG-AGGTCAACAACTTTAATTTATCTTGAAAAAGCTCTTTTAAGC-AGAA-GC
1 CTCCTCT-AAGCAGAAGCTCAACAACTTTAATTTATCTTGAAAAAGCTC-ATTAA-CTA-AAGGC
* *
13507030 TCAACAAC-TTAAAAATTTCATCTTGAAAAAGCT-TATAAGCAGAGGCTCGACAACTTTAAAA-C
62 TCAACAACTTTAAAAATTT-ATCTTGAAAAAACTCTATAAGCAGAGGCTCAACAACTTTAAAATC
* * *
13507092 TTTATCTTGAAAAAGCTCCTTTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG
126 -TCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG
13507155 CTCCTCTAAGCAGAAGCTCAACAACTTTAA
1 CTCCTCTAAGCAGAAGCTCAACAACTTTAA
13507185 ATATTCATCT
Statistics
Matches: 186, Mismatches: 22, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
185 3 0.02
186 89 0.48
187 44 0.24
188 26 0.14
189 3 0.02
192 12 0.06
193 8 0.04
194 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (187 bp):
CTCCTCTAAGCAGAAGCTCAACAACTTTAATTTATCTTGAAAAAGCTCATTAACTAAAGGCTCAA
CAACTTTAAAAATTTATCTTGAAAAAACTCTATAAGCAGAGGCTCAACAACTTTAAAATCTCATC
TTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAG
Found at i:13512012 original size:10 final size:9
Alignment explanation
Indices: 13511997--13512072 Score: 51
Period size: 8 Copynumber: 9.0 Consensus size: 9
13511987 CTTCATCATT
13511997 GAAAGAACAA
1 GAAAGAA-AA
13512007 GAAAGAAGAA
1 GAAAGAA-AA
*
13512017 GAAAGAGAA
1 GAAAGAAAA
13512026 -AAAG-AAA
1 GAAAGAAAA
13512033 GAAAG-AAA
1 GAAAGAAAA
13512041 GAAA-AAAA
1 GAAAGAAAA
*
13512049 -ATAGAAAA
1 GAAAGAAAA
13512057 -ATAA-AAAA
1 GA-AAGAAAA
13512065 G-AAGAAAA
1 GAAAGAAAA
13512073 TAATAATAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 6 0.11
8 31 0.56
9 3 0.05
10 15 0.27
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:13512022 original size:4 final size:4
Alignment explanation
Indices: 13512005--13512044 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
13511995 TTGAAAGAAC
13512005 AAGA AAG- AAG- AAGA AAGA GAA-A AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAGA AA
13512045 AAAAATAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 8 0.24
4 23 0.70
5 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:13512047 original size:20 final size:18
Alignment explanation
Indices: 13511997--13512070 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 18
13511987 CTTCATCATT
13511997 GAAAGAACAAGAAAGAAGAA
1 GAAAGAA-AA-AAAGAAGAA
*
13512017 GAAAGAGAAAAAGAAAGAAA
1 GAAAGAAAAAAAG-AAG-AA
13512037 GAAAGAAAAAAA-ATAGAA
1 GAAAGAAAAAAAGA-AGAA
*
13512055 -AAA-TAAAAAAGAAGAA
1 GAAAGAAAAAAAGAAGAA
13512071 AATAATAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
16 10 0.21
17 4 0.09
18 7 0.15
19 7 0.15
20 19 0.40
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (18 bp):
GAAAGAAAAAAAGAAGAA
Found at i:13512077 original size:3 final size:3
Alignment explanation
Indices: 13512071--13512095 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13512061 AAAAGAAGAA
13512071 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
13512096 CAAAATGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13514577 original size:21 final size:18
Alignment explanation
Indices: 13514551--13514590 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
13514541 AAACAAAAAG
13514551 AATTAACTTTTAATAAATTTT
1 AATTAA-TTTT-A-AAATTTT
13514572 AATTAATTTTAAAATTTT
1 AATTAATTTTAAAATTTT
13514590 A
1 A
13514591 TTAGGAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 4 0.21
21 6 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTAATTTTAAAATTTT
Found at i:13515153 original size:21 final size:21
Alignment explanation
Indices: 13515106--13515153 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
13515096 TCAATCTTAT
* * *
13515106 TTTAAAGTTTGTTAATGTTTG
1 TTTAGAGTTCGTTAATGTTTA
* *
13515127 TCTAGAGTTCGTTTATGTTTA
1 TTTAGAGTTCGTTAATGTTTA
13515148 TTTAGA
1 TTTAGA
13515154 ATCTATTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.54
Consensus pattern (21 bp):
TTTAGAGTTCGTTAATGTTTA
Found at i:13515186 original size:15 final size:14
Alignment explanation
Indices: 13515144--13515193 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
13515134 TTCGTTTATG
*
13515144 TTTATTTAGAATCTA
1 TTTATTTAG-ATTTA
*
13515159 TTTATTTAAATTTA
1 TTTATTTAGATTTA
13515173 TTTAGTTTAGATTTA
1 TTTA-TTTAGATTTA
*
13515188 TGTATT
1 TTTATT
13515194 ATTAATGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (14 bp):
TTTATTTAGATTTA
Found at i:13520257 original size:5 final size:5
Alignment explanation
Indices: 13520230--13520332 Score: 61
Period size: 5 Copynumber: 19.4 Consensus size: 5
13520220 AAAAATCGTG
*
13520230 AATAA AATAA TAATTAA AGATAA AATAA TAAT-A AGTAA AATCTAA AA-AA
1 AATAA AATAA -AA-TAA A-ATAA AATAA -AATAA AATAA AA--TAA AATAA
* *
13520279 ATCTAA AATAA AATGAA AA-AA AAT-A GATAA AATAA AATAAA AATAA
1 A-ATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AAT-AA AATAA
13520325 AATCAA AA
1 AAT-AA AA
13520333 CATAAAATAG
Statistics
Matches: 78, Mismatches: 6, Indels: 27
0.70 0.05 0.24
Matches are distributed among these distances:
4 12 0.15
5 31 0.40
6 26 0.33
7 9 0.12
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:13520300 original size:24 final size:23
Alignment explanation
Indices: 13520273--13520341 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
13520263 AGTAAAATCT
13520273 AAAAAAATCTAAAATAAAATGAAA
1 AAAAAAATCTAAAATAAAAT-AAA
* **
13520297 AAAAATAGATAAAATAAAATAAA
1 AAAAAAATCTAAAATAAAATAAA
* *
13520320 AATAAAATCAAAACATAAAATA
1 AAAAAAATCTAAA-ATAAAATA
13520342 GAAGGAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 11 0.31
24 25 0.69
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.17
Consensus pattern (23 bp):
AAAAAAATCTAAAATAAAATAAA
Found at i:13520308 original size:19 final size:20
Alignment explanation
Indices: 13520286--13520323 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13520276 AAAATCTAAA
*
13520286 ATAAAATGAAA-AAAAATAG
1 ATAAAATAAAATAAAAATAG
13520305 ATAAAATAAAATAAAAATA
1 ATAAAATAAAATAAAAATA
13520324 AAATCAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
ATAAAATAAAATAAAAATAG
Found at i:13523555 original size:2 final size:2
Alignment explanation
Indices: 13523548--13523577 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13523538 TCTTGTCTAG
*
13523548 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13523578 GTTTTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13524090 original size:9 final size:9
Alignment explanation
Indices: 13524070--13524098 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
13524060 TTACTTTAAT
13524070 TATATATT-
1 TATATATTA
13524078 TATATATTA
1 TATATATTA
13524087 TATATATTA
1 TATATATTA
13524096 TAT
1 TAT
13524099 TCGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATATATTA
Found at i:13524176 original size:13 final size:13
Alignment explanation
Indices: 13524160--13524195 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
13524150 TATTTGTTAC
13524160 TTTAATTTAATAT
1 TTTAATTTAATAT
*
13524173 TTTAAATTAATAT
1 TTTAATTTAATAT
13524186 TTATAATTTA
1 TT-TAATTTA
13524196 TGTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAATTTAATAT
Found at i:13524347 original size:21 final size:21
Alignment explanation
Indices: 13524317--13524357 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13524307 TTATCCTTGA
*
13524317 TTTCTTTTTTTTTTTTTTACT
1 TTTCTCTTTTTTTTTTTTACT
13524338 TTTCTCTTTTTTTTTTTTAC
1 TTTCTCTTTTTTTTTTTTAC
13524358 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTCTCTTTTTTTTTTTTACT
Found at i:13524518 original size:125 final size:128
Alignment explanation
Indices: 13524289--13524547 Score: 373
Period size: 125 Copynumber: 2.0 Consensus size: 128
13524279 ATAAAAGGTC
* *
13524289 AATTTAAGTATTCAATAGTTATCCTTGATTTCTTTTTTTTTTTTTTACTTTTCTCTTTTTTTTTT
1 AATTTAAGTATTCAATAGTTATCCTTGA----TTTTTTTTTTTTTTACTTTTCTCTTCTCTTTTT
* * *
13524354 TTACAAAAAAAAAAAAATCAACCGCGCAGGTATTCACTTGTTGACAAAAATAAATGGTAACAAAT
62 TTACAAAAAAAAAAAAATCAACCGCCCAAGTATTCACTTGCTGACAAAAATAAATGGTAACAAAT
13524419 TT
127 TT
13524421 AATTTAAGTATTCAATAGTTATCCTTGA-TTTTTTTTTTTTTAC-TTT-T-TTCTCTTTTTTTAC
1 AATTTAAGTATTCAATAGTTATCCTTGATTTTTTTTTTTTTTACTTTTCTCTTCTCTTTTTTTAC
* * *
13524482 AAAAAAAAAAAAAATCAATCGCCCAAGTATTCACTTGCTGACTATAATAAATGGTAACAAATTT
66 -AAAAAAAAAAAAATCAACCGCCCAAGTATTCACTTGCTGACAAAAATAAATGGTAACAAATTT
13524546 AA
1 AA
13524548 GTGCATAAGG
Statistics
Matches: 118, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
124 12 0.10
125 60 0.51
126 3 0.03
127 15 0.13
132 28 0.24
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (128 bp):
AATTTAAGTATTCAATAGTTATCCTTGATTTTTTTTTTTTTTACTTTTCTCTTCTCTTTTTTTAC
AAAAAAAAAAAAATCAACCGCCCAAGTATTCACTTGCTGACAAAAATAAATGGTAACAAATTT
Found at i:13525727 original size:25 final size:25
Alignment explanation
Indices: 13525678--13525736 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
13525668 ATCATAAACC
*
13525678 GTCTGTTTTTTAACAGACTTGTCTT
1 GTCTGTTTTTTAACAGACTTATCTT
*
13525703 GTCTGTTTTTTAGCATG-CTTATCTT
1 GTCTGTTTTTTAACA-GACTTATCTT
* *
13525728 ATGTGTTTT
1 GTCTGTTTT
13525737 GAAAAGAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.56
Consensus pattern (25 bp):
GTCTGTTTTTTAACAGACTTATCTT
Found at i:13526182 original size:12 final size:12
Alignment explanation
Indices: 13526165--13526189 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13526155 AGATCAATAA
13526165 TAAAAAAATTAT
1 TAAAAAAATTAT
13526177 TAAAAAAATTAT
1 TAAAAAAATTAT
13526189 T
1 T
13526190 TATAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAAATTAT
Found at i:13526243 original size:12 final size:12
Alignment explanation
Indices: 13526225--13526258 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13526215 ATTTAATGAT
13526225 AATTTTTATTAA
1 AATTTTTATTAA
*
13526237 TATTTTTATTAA
1 AATTTTTATTAA
*
13526249 AATATTTATT
1 AATTTTTATT
13526259 TTATAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTTTATTAA
Found at i:13526892 original size:2 final size:2
Alignment explanation
Indices: 13526887--13526911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13526877 ATATGTTTGA
13526887 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13526912 ATTTAACGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13528917 original size:1 final size:1
Alignment explanation
Indices: 13528911--13528941 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
13528901 TCTTAGCTAG
13528911 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13528942 CACCTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13530080 original size:27 final size:27
Alignment explanation
Indices: 13530042--13530097 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
13530032 TAAGATAATA
13530042 TAAGATAATTTATTTATTGATCAAAAT
1 TAAGATAATTTATTTATTGATCAAAAT
*
13530069 TAAGATAATTTATTTATTTATCAAAAT
1 TAAGATAATTTATTTATTGATCAAAAT
13530096 TA
1 TA
13530098 TCTTTTCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (27 bp):
TAAGATAATTTATTTATTGATCAAAAT
Found at i:13542577 original size:94 final size:94
Alignment explanation
Indices: 13542416--13542592 Score: 300
Period size: 94 Copynumber: 1.9 Consensus size: 94
13542406 CTTGTCAAAA
* *
13542416 TAATGTGTACAGTATATTATAATCCAACAAAATTAAACAAGTTTTTAAAACTAAAATGAATTATA
1 TAATGTGTACAGTATACTATAATCCAACAAAATTAAACAAGTGTTTAAAACTAAAATGAATTATA
13542481 CTAAAATCATTAATAATTGTGCAGATGCT
66 CTAAAATCATTAATAATTGTGCAGATGCT
* * *
13542510 TAATGTTTACAGTGTACTATAATCTAACAAAATTAAACAAGTGTTTAAAACTAAAATGAATTATA
1 TAATGTGTACAGTATACTATAATCCAACAAAATTAAACAAGTGTTTAAAACTAAAATGAATTATA
*
13542575 CTAAAATCATTAGTAATT
66 CTAAAATCATTAATAATT
13542593 ATGTAGGTGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (94 bp):
TAATGTGTACAGTATACTATAATCCAACAAAATTAAACAAGTGTTTAAAACTAAAATGAATTATA
CTAAAATCATTAATAATTGTGCAGATGCT
Found at i:13542896 original size:28 final size:28
Alignment explanation
Indices: 13542865--13542944 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 28
13542855 TTCGACTGGA
13542865 CTCCAGGCCTAATTTTGATTCAATTGGG
1 CTCCAGGCCTAATTTTGATTCAATTGGG
* *
13542893 CTCCA-GACTCGATTTTGACTT-AATTGGG
1 CTCCAGGCCT-AATTTTGA-TTCAATTGGG
** *
13542921 CTTTAGGCCTAA-TTTGATCCAATT
1 CTCCAGGCCTAATTTTGATTCAATT
13542945 AGGCCTAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.02
27 12 0.29
28 23 0.56
29 5 0.12
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (28 bp):
CTCCAGGCCTAATTTTGATTCAATTGGG
Found at i:13544034 original size:17 final size:17
Alignment explanation
Indices: 13544012--13544048 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
13544002 TTTTTCAAAT
13544012 TTTTTATATTATT-TTTA
1 TTTTTATA-TATTATTTA
13544029 TTTTTATATATTATTTA
1 TTTTTATATATTATTTA
13544046 TTT
1 TTT
13544049 ATATCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATATATTATTTA
Found at i:13544581 original size:28 final size:27
Alignment explanation
Indices: 13544550--13544765 Score: 121
Period size: 30 Copynumber: 7.4 Consensus size: 27
13544540 TCTAAAACTC
*
13544550 TTAAACCCTAAACCTTTAAACCATAAAA
1 TTAAACCCTAAACCTCTAAACC-TAAAA
*
13544578 TTAAACCCTAAACCTCCAAACTCTAAAAA
1 TTAAACCCTAAACCTCTAAAC-CT-AAAA
**
13544607 CGAAACCCTAAACACTCTAAACCCT--AA
1 TTAAACCCTAAAC-CTCTAAA-CCTAAAA
*
13544634 TTAAACCCTAAACCCTCTCAACCCTAAAAA
1 TTAAACCCTAAA-CCTCT-AAACCT-AAAA
** * *
13544664 CAAAACCTTAAATCCTCTGAACCTTAAAAA
1 TTAAACCCTAAA-CCTCTAAACC-T-AAAA
** *
13544694 CAAAACCTTAAACCCTCTAAACCCTAAAA
1 TTAAACCCTAAA-CCTCTAAA-CCTAAAA
* * * *
13544723 TCAAATCCCTAAAACATCCAATCCCTAAAA
1 TTAAA-CCCT-AAACCTCTAA-ACCTAAAA
13544753 TTGAAACCCTAAA
1 TT-AAACCCTAAA
13544766 TTCAAAACCC
Statistics
Matches: 150, Mismatches: 23, Indels: 29
0.74 0.11 0.14
Matches are distributed among these distances:
27 19 0.13
28 23 0.15
29 29 0.19
30 70 0.47
31 9 0.06
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (27 bp):
TTAAACCCTAAACCTCTAAACCTAAAA
Found at i:13544643 original size:56 final size:57
Alignment explanation
Indices: 13544552--13544735 Score: 176
Period size: 57 Copynumber: 3.2 Consensus size: 57
13544542 TAAAACTCTT
* * *
13544552 AAACCCTAAACCTTTAAACCATAAAATTAAACCCTAAA-CCTC-CAAACTCTAAAAACG
1 AAACCCTAAACCTCTAAACCAT-AAATTAAACCCTAAACCCTCTC-AACCCTAAAAACA
*
13544609 AAACCCTAAACACTCTAAACCCT-AATTAAACCCTAAACCCTCTCAACCCTAAAAACA
1 AAACCCTAAAC-CTCTAAACCATAAATTAAACCCTAAACCCTCTCAACCCTAAAAACA
* * * ** * * *
13544666 AAACCTTAAATCCTCTGAACCTTAAAAACAAAACCTTAAACCCTCTAAACCCTAAAATCA
1 AAACCCTAAA-CCTCTAAACC--ATAAATTAAACCCTAAACCCTCTCAACCCTAAAAACA
*
13544726 AATCCCTAAA
1 AAACCCTAAA
13544736 ACATCCAATC
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
56 14 0.13
57 43 0.41
58 11 0.10
60 37 0.35
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (57 bp):
AAACCCTAAACCTCTAAACCATAAATTAAACCCTAAACCCTCTCAACCCTAAAAACA
Found at i:13544681 original size:30 final size:30
Alignment explanation
Indices: 13544580--13544727 Score: 142
Period size: 30 Copynumber: 5.1 Consensus size: 30
13544570 CCATAAAATT
* * * *
13544580 AAACCCTAAA-CCTCCAAACTCTAAAAACG
1 AAACCTTAAACCCTCTAAACCCTAAAAACA
* * **
13544609 AAACCCTAAACACTCTAAACCCT---AATT
1 AAACCTTAAACCCTCTAAACCCTAAAAACA
* *
13544636 AAACCCTAAACCCTCTCAACCCTAAAAACA
1 AAACCTTAAACCCTCTAAACCCTAAAAACA
* * *
13544666 AAACCTTAAATCCTCTGAACCTTAAAAACA
1 AAACCTTAAACCCTCTAAACCCTAAAAACA
*
13544696 AAACCTTAAACCCTCTAAACCCTAAAATCA
1 AAACCTTAAACCCTCTAAACCCTAAAAACA
13544726 AA
1 AA
13544728 TCCCTAAAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
27 23 0.23
29 10 0.10
30 65 0.66
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.18
Consensus pattern (30 bp):
AAACCTTAAACCCTCTAAACCCTAAAAACA
Found at i:13544734 original size:14 final size:14
Alignment explanation
Indices: 13544715--13544782 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 14
13544705 ACCCTCTAAA
13544715 CCCTAAAATCAAAT
1 CCCTAAAATCAAAT
*
13544729 CCCTAAAACATCCAAT
1 CCCT-AAA-ATCAAAT
*
13544745 CCCTAAAATTGAAA-
1 CCCTAAAA-TCAAAT
* *
13544759 CCCTAAATTCAAAA
1 CCCTAAAATCAAAT
*
13544773 CCCAAAAATC
1 CCCTAAAATC
13544783 CAAAATCCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.09
14 20 0.47
15 9 0.21
16 10 0.23
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (14 bp):
CCCTAAAATCAAAT
Found at i:13544760 original size:60 final size:57
Alignment explanation
Indices: 13544568--13544765 Score: 161
Period size: 60 Copynumber: 3.4 Consensus size: 57
13544558 TAAACCTTTA
* * * *
13544568 AACCATAAAATTAAACCCTAAA-CCTCCAAACTCTAAAAACGAAACCCT-AAACACTCTA
1 AACCCTAAAATTAAACCCTAAACCCTCTAAACCCTAAAAAC-AAACCCTAAAACA-TC-C
* * * * *
13544626 AACCCT--AATTAAACCCTAAACCCTCTCAACCCTAAAAACAAAACCTTAAATCCTCTG
1 AACCCTAAAATTAAACCCTAAACCCTCTAAACCCTAAAAAC-AAACCCTAAAACATC-C
* ** * *
13544683 AACCTTAAAAACAAAACCTTAAACCCTCTAAACCCTAAAATCAAATCCCTAAAACATCC
1 AACCCT-AAAATTAAACCCTAAACCCTCTAAACCCTAAAAACAAA-CCCTAAAACATCC
13544742 AATCCCTAAAATTGAAACCCTAAA
1 AA-CCCTAAAATT-AAACCCTAAA
13544766 TTCAAAACCC
Statistics
Matches: 109, Mismatches: 23, Indels: 14
0.75 0.16 0.10
Matches are distributed among these distances:
56 14 0.13
57 29 0.27
58 8 0.07
59 9 0.08
60 49 0.45
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (57 bp):
AACCCTAAAATTAAACCCTAAACCCTCTAAACCCTAAAAACAAACCCTAAAACATCC
Found at i:13544838 original size:13 final size:14
Alignment explanation
Indices: 13544820--13544889 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
13544810 CTTAAACACT
13544820 AAACCCTAAAATC-
1 AAACCCTAAAATCG
* *
13544833 AAACCCTAAATCCTCT
1 AAACCCTAAA--ATCG
*
13544849 AAACCCTAAAA-CTA
1 AAACCCTAAAATC-G
*
13544863 AAACCCCAAAATCG
1 AAACCCTAAAATCG
*
13544877 AAACCCAAAAATC
1 AAACCCTAAAATC
13544890 CAAAATCTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.24
14 22 0.48
15 3 0.07
16 10 0.22
ACGTcount: A:0.51, C:0.33, G:0.01, T:0.14
Consensus pattern (14 bp):
AAACCCTAAAATCG
Found at i:13546594 original size:19 final size:19
Alignment explanation
Indices: 13546558--13546595 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
13546548 TATACTATTT
13546558 TTAAAAATTTTCAAATAAAA
1 TTAAAAATTTTC-AATAAAA
13546578 TTAAAATATTTTC-ATAAA
1 TTAAAA-ATTTTCAATAAA
13546596 TAATTTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAAATTTTCAATAAAA
Found at i:13546866 original size:17 final size:17
Alignment explanation
Indices: 13546828--13546874 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13546818 TATTTTCATA
* *
13546828 ATTTTTAATAGTT-TTT
1 ATTTTTTATAATTATTT
13546844 ACTTTTTTATAATTATTT
1 A-TTTTTTATAATTATTT
13546862 ATTTTTTA-AATTA
1 ATTTTTTATAATTA
13546875 ATTTCATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 17 0.63
18 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTTTTTATAATTATTT
Found at i:13546878 original size:17 final size:18
Alignment explanation
Indices: 13546841--13546874 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13546831 TTTAATAGTT
13546841 TTTACTTTTTTATAATTA
1 TTTACTTTTTTATAATTA
13546859 TTTA-TTTTTTA-AATTA
1 TTTACTTTTTTATAATTA
13546875 ATTTCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTACTTTTTTATAATTA
Found at i:13547503 original size:35 final size:34
Alignment explanation
Indices: 13547457--13547524 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
13547447 CTTAAAATTT
*
13547457 AAAAATTAAAAAATATAAAAAATTCCTAAAAAATA
1 AAAAATAAAAAAATATAAAAAATT-CTAAAAAATA
* *
13547492 AAAAATAAAAAAATCTAAAACATTCTAAAAAAT
1 AAAAATAAAAAAATATAAAAAATTCTAAAAAAT
13547525 TATAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (34 bp):
AAAAATAAAAAAATATAAAAAATTCTAAAAAATA
Found at i:13547510 original size:10 final size:10
Alignment explanation
Indices: 13547463--13547535 Score: 52
Period size: 10 Copynumber: 7.9 Consensus size: 10
13547453 ATTTAAAAAT
*
13547463 TAAAAAA-TA
1 TAAAAAATTC
13547472 TAAAAAATTCC
1 TAAAAAATT-C
13547483 TAAAAAA---
1 TAAAAAATTC
13547490 TAAAAAA---
1 TAAAAAATTC
*
13547497 TAAAAAAATC
1 TAAAAAATTC
*
13547507 TAAAACATTC
1 TAAAAAATTC
*
13547517 TAAAAAATTA
1 TAAAAAATTC
13547527 TAAAAAATT
1 TAAAAAATT
13547536 TTTGAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
7 14 0.26
9 7 0.13
10 26 0.48
11 7 0.13
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:13547579 original size:55 final size:55
Alignment explanation
Indices: 13547463--13547565 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
13547453 ATTTAAAAAT
13547463 TAAAAAA-TATAAAAAATTCCTAAAAAATAAAAAATAAAAAAATCTAAAACATTC
1 TAAAAAATTATAAAAAATTCCTAAAAAATAAAAAATAAAAAAATCTAAAACATTC
** * * *
13547517 TAAAAAATTATAAAAAATTTTTGAAAAATAAAATATTAAAAAAT-TAAAA
1 TAAAAAATTATAAAAAATTCCTAAAAAATAAAAAATAAAAAAATCTAAAA
13547566 TTTCAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 12 0.28
55 31 0.72
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.26
Consensus pattern (55 bp):
TAAAAAATTATAAAAAATTCCTAAAAAATAAAAAATAAAAAAATCTAAAACATTC
Found at i:13547685 original size:18 final size:18
Alignment explanation
Indices: 13547650--13547683 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13547640 TAAAAAAATG
*
13547650 AAAAATTTTCATAATTTA
1 AAAAATTTTCAAAATTTA
13547668 AAAAATTTT-AAAATTT
1 AAAAATTTTCAAAATTT
13547684 TAGATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCAAAATTTA
Found at i:13547890 original size:16 final size:17
Alignment explanation
Indices: 13547869--13547909 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
13547859 TTTTTAAAAT
13547869 TTTTTAAATA-TTTAAG
1 TTTTTAAATATTTTAAG
*
13547885 TTTTTAAATATTTTAAT
1 TTTTTAAATATTTTAAG
13547902 TTTTTAAA
1 TTTTTAAA
13547910 AAATATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTTAAATATTTTAAG
Found at i:13548347 original size:23 final size:24
Alignment explanation
Indices: 13548318--13548364 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13548308 TATGCAAAAC
*
13548318 CACTTTCACA-AATTGAAAATTTT
1 CACTTTCACATAATTAAAAATTTT
*
13548341 CACTTTCTCATAATTAAAAATTTT
1 CACTTTCACATAATTAAAAATTTT
13548365 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (24 bp):
CACTTTCACATAATTAAAAATTTT
Found at i:13567971 original size:48 final size:48
Alignment explanation
Indices: 13567915--13568012 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
13567905 TTGAACCGAA
13567915 ACGAGGAGTGAGATGAACGAAAGTGATATGAGAAGACTTACAGTTAAG
1 ACGAGGAGTGAGATGAACGAAAGTGATATGAGAAGACTTACAGTTAAG
13567963 ACGAGGAGTGAGATGAACGAAAGTGATATGAGAAGACTTACAGTTAAG
1 ACGAGGAGTGAGATGAACGAAAGTGATATGAGAAGACTTACAGTTAAG
13568011 AC
1 AC
13568013 CTCCTTCATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (48 bp):
ACGAGGAGTGAGATGAACGAAAGTGATATGAGAAGACTTACAGTTAAG
Found at i:13574356 original size:12 final size:11
Alignment explanation
Indices: 13574323--13574355 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 11
13574313 TCTATTTTCT
13574323 TTTTATTTTTG
1 TTTTATTTTTG
13574334 ATTTTATTTTTG
1 -TTTTATTTTTG
13574346 TTTTATTTTT
1 TTTTATTTTT
13574356 TCTTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTG
Found at i:13574493 original size:24 final size:25
Alignment explanation
Indices: 13574448--13574498 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
13574438 AGGATTTTTA
***
13574448 TTATTATATTTATTTTTGTGAT-TT
1 TTATTATATTTATTTGCATGATATT
13574472 TTATTATATTTATTTGCATGATATT
1 TTATTATATTTATTTGCATGATATT
13574497 TT
1 TT
13574499 TAAATGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.67
Consensus pattern (25 bp):
TTATTATATTTATTTGCATGATATT
Found at i:13575445 original size:44 final size:43
Alignment explanation
Indices: 13575347--13575446 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 43
13575337 TGTACTAACC
* * *
13575347 TATTTGTTTATTTTGTAGCTTATGAATTTTTTATGTACTAATA
1 TATTTGTTTATTTTGTAGATTATGAATTTTATATGTACCAATA
* *
13575390 TATTTGTTTATTTTGTAGATT-TTAATTTGATATATGTACCAATT
1 TATTTGTTTATTTTGTAGATTATGAATTT--TATATGTACCAATA
*
13575434 TATTTGATTATTT
1 TATTTGTTTATTT
13575447 GGGTTGGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 6 0.12
43 20 0.41
44 23 0.47
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (43 bp):
TATTTGTTTATTTTGTAGATTATGAATTTTATATGTACCAATA
Found at i:13577002 original size:17 final size:17
Alignment explanation
Indices: 13576955--13576996 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
13576945 CACATCTTAG
13576955 GCTAAATTTACCAAAAA
1 GCTAAATTTACCAAAAA
13576972 GCTAAATTTACCAAAAA
1 GCTAAATTTACCAAAAA
13576989 GCTAAATT
1 GCTAAATT
13576997 ATCCAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (17 bp):
GCTAAATTTACCAAAAA
Found at i:13578834 original size:70 final size:70
Alignment explanation
Indices: 13578659--13578840 Score: 184
Period size: 70 Copynumber: 2.6 Consensus size: 70
13578649 AATTGTTTGG
* * * *
13578659 ACCATGCATTTGCATCATTTGCTGAAAATTTAAATAATTGTTTTGAATATTACATTTGAACCATT
1 ACCATGCATTTGCATCATTTGATGAAAATTTAAATCATTG-ATTGAATATTACATTTGAACCATA
* *
13578724 GTTTGT
65 GTTAGA
*** * * * * * *
13578730 ACCATATGTTTGCATCATTTGGTGAATATATAAATCATTGATTGAATATTGCATTTGCATCATAG
1 ACCATGCATTTGCATCATTTGATGAAAATTTAAATCATTGATTGAATATTACATTTGAACCATAG
13578795 TTAGA
66 TTAGA
* ** *
13578800 ACCATGCATTTGTATCATTTGATGAGCATTTAAATCTTTGA
1 ACCATGCATTTGCATCATTTGATGAAAATTTAAATCATTGA
13578841 CATTTAAAAA
Statistics
Matches: 88, Mismatches: 23, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
70 55 0.62
71 33 0.38
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (70 bp):
ACCATGCATTTGCATCATTTGATGAAAATTTAAATCATTGATTGAATATTACATTTGAACCATAG
TTAGA
Found at i:13578973 original size:27 final size:29
Alignment explanation
Indices: 13578938--13579005 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 29
13578928 GGATAGATAT
*
13578938 ATTTGCATTTGCATTTTGGTG-GA-AAGC
1 ATTTGCATTTGCATATTGGTGAGATAAGC
* *
13578965 ATTTACATTT--ATATTGGTGAGATAAGT
1 ATTTGCATTTGCATATTGGTGAGATAAGC
13578992 ATTTGCATTTGCAT
1 ATTTGCATTTGCAT
13579006 CTTAGTAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.24
26 2 0.06
27 21 0.64
29 2 0.06
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (29 bp):
ATTTGCATTTGCATATTGGTGAGATAAGC
Found at i:13579477 original size:43 final size:42
Alignment explanation
Indices: 13579381--13579479 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
13579371 TTAGGTACTT
*
13579381 TTTTAGTTTTTAAAGTTTCATAGCCTTTGATAAAATGAACTC
1 TTTTAGTTTTTAAAGTTTCATAGCCTCTGATAAAATGAACTC
*** * ** *
13579423 TTTCCTTTTTTAAAGTTTCATAGCTCTCTGTTGGAATGAGCTC
1 TTTTAGTTTTTAAAGTTTCATAGC-CTCTGATAAAATGAACTC
*
13579466 TTTTAGATTTTAAA
1 TTTTAGTTTTTAAA
13579480 ATTGTTGAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 21 0.48
43 23 0.52
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (42 bp):
TTTTAGTTTTTAAAGTTTCATAGCCTCTGATAAAATGAACTC
Found at i:13579666 original size:22 final size:23
Alignment explanation
Indices: 13579627--13579670 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13579617 AATGAAAATA
* *
13579627 TTTGAACTTTTTGAATGTGAATC
1 TTTGAAATTTTAGAATGTGAATC
13579650 TTTGAAATTTTAG-ATGTGAAT
1 TTTGAAATTTTAGAATGTGAAT
13579671 TTCTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.48
Consensus pattern (23 bp):
TTTGAAATTTTAGAATGTGAATC
Found at i:13579874 original size:45 final size:45
Alignment explanation
Indices: 13579640--13579999 Score: 162
Period size: 45 Copynumber: 8.0 Consensus size: 45
13579630 GAACTTTTTG
* * * * *
13579640 AATGTGAATCTTTGAAATTTTAGATGTGAATTTCTAAATTTTTTTCA
1 AATGAGAATATTT-AAATTTTAGATATGAATCTCTAAA-ATTTTTCA
* * * *
13579687 AATGTGAAAATTTTTAACTTTAGATATGAATCTCTAAAATTTTT-A
1 AATGAGAATA-TTTAAATTTTAGATATGAATCTCTAAAATTTTTCA
* * * * * * * **
13579732 AATAATAATATTTGAATTTCAAATATGAATCT-TTAAATGTTAGA
1 AATGAGAATATTTAAATTTTAGATATGAATCTCTAAAATTTTTCA
** * * * * * **
13579776 TCTGAAAAT-TTTAGAGATTCTGGATGTGAGTC-CTTAAAATTTTTTG
1 AATGAGAATATTTA-A-ATTTTAGATATGAATCTC-TAAAATTTTTCA
*
13579822 AACGAGAATATTTAAATTTTAGATATGAATCTCTAAAATTTTTCA
1 AATGAGAATATTTAAATTTTAGATATGAATCTCTAAAATTTTTCA
* * *
13579867 AATGAGAATTTTTAAATTTGT-GAATGTGAATCTCTAAGA-TTTTCA
1 AATGAGAATATTTAAATTT-TAG-ATATGAATCTCTAAAATTTTTCA
* ** * ** *
13579912 AAT-ATAAGCCTTTGAATTTTTTATGTGAATCTCTAAGAA-TTTT-A
1 AATGAGAA-TATTTAAATTTTAGATATGAATCTCTAA-AATTTTTCA
* * * * * *
13579956 AAAGTGAATCTTGGAAATTTTAAATATGAATCTCAAAAATTTTT
1 AATGAGAATATT-TAAATTTTAGATATGAATCTCTAAAATTTTT
13580000 TGAATGTGAA
Statistics
Matches: 233, Mismatches: 64, Indels: 34
0.70 0.19 0.10
Matches are distributed among these distances:
43 10 0.04
44 51 0.22
45 103 0.44
46 34 0.15
47 32 0.14
48 3 0.01
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (45 bp):
AATGAGAATATTTAAATTTTAGATATGAATCTCTAAAATTTTTCA
Found at i:13579995 original size:22 final size:22
Alignment explanation
Indices: 13579936--13579998 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
13579926 AATTTTTTAT
*
13579936 GTGAATCTCTAAGAATTTTAAAA
1 GTGAATCTC-AAAAATTTTAAAA
***
13579959 GTGAATCTTGGAAATTTTAAATA
1 GTGAATCTCAAAAATTTTAAA-A
13579982 -TGAATCTCAAAAATTTT
1 GTGAATCTCAAAAATTTT
13579999 TTGAATGTGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 23 0.72
23 9 0.28
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (22 bp):
GTGAATCTCAAAAATTTTAAAA
Found at i:13580169 original size:39 final size:37
Alignment explanation
Indices: 13580090--13580184 Score: 93
Period size: 39 Copynumber: 2.5 Consensus size: 37
13580080 TTTTACAAAT
* * * * * *
13580090 CTTTTAATC-TTTGCGAATCTTGAATTTTTTTAAAAT
1 CTTTGAATCTTTTGTGAATCTTAAATCTTTTGAAAAC
* *
13580126 CTTTGAATTTTTTTTGTGAATCTTAAATCTTTTGCAAAC
1 CTTTGAA--TCTTTTGTGAATCTTAAATCTTTTGAAAAC
13580165 CTTTGAATCTTTTGTGAATC
1 CTTTGAATCTTTTGTGAATC
13580185 AAATTTTGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
36 6 0.13
37 12 0.26
38 1 0.02
39 28 0.60
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.52
Consensus pattern (37 bp):
CTTTGAATCTTTTGTGAATCTTAAATCTTTTGAAAAC
Found at i:13580173 original size:19 final size:19
Alignment explanation
Indices: 13580057--13580178 Score: 88
Period size: 19 Copynumber: 6.5 Consensus size: 19
13580047 AATTATTTTA
*
13580057 AATCTTTTGCAAACCTTTG
1 AATCTTTTGCAAATCTTTG
* * *
13580076 AATTTTTTACAAATCTTTT
1 AATCTTTTGCAAATCTTTG
*
13580095 AATC-TTTGCGAATC-TTG
1 AATCTTTTGCAAATCTTTG
* **
13580112 AATTTTTTTAAAATCTTTG
1 AATCTTTTGCAAATCTTTG
* ** *
13580131 AATTTTTTTTGTGAATC-TTA
1 AA--TCTTTTGCAAATCTTTG
*
13580151 AATCTTTTGCAAACCTTTG
1 AATCTTTTGCAAATCTTTG
13580170 AATCTTTTG
1 AATCTTTTG
13580179 TGAATCAAAT
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
17 5 0.06
18 24 0.31
19 34 0.44
20 4 0.05
21 10 0.13
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (19 bp):
AATCTTTTGCAAATCTTTG
Found at i:13580344 original size:22 final size:22
Alignment explanation
Indices: 13580318--13580359 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13580308 CTTTAAATTT
*
13580318 AATTGCGAATTTTTGAATTTTA
1 AATTGCGAACTTTTGAATTTTA
*
13580340 AATTGTGAACTTTTGAATTT
1 AATTGCGAACTTTTGAATTT
13580360 CAAGTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (22 bp):
AATTGCGAACTTTTGAATTTTA
Found at i:13581096 original size:13 final size:13
Alignment explanation
Indices: 13581080--13581147 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 13
13581070 TTTTTTCTAA
13581080 TTTTATTTTT-TAT
1 TTTTATTTTTAT-T
13581093 TTTTATTTTTGATT
1 TTTTATTTTT-ATT
13581107 TCTTTATTTTT-TT
1 T-TTTATTTTTATT
13581120 TCTTTACTTTTTCATT
1 T-TTTA-TTTTT-ATT
13581136 TTATTATTTTTA
1 TT-TTATTTTTA
13581148 ATTATGATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
13 18 0.38
14 8 0.17
15 16 0.33
16 6 0.12
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:13581117 original size:29 final size:28
Alignment explanation
Indices: 13581080--13581146 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
13581070 TTTTTTCTAA
*
13581080 TTTTATTTTTTATT-TTTA-TTTTTGATT
1 TTTTATTTTTT-TTCTTTACTTTTTCATT
13581107 TCTTTATTTTTTTTCTTTACTTTTTCATT
1 T-TTTATTTTTTTTCTTTACTTTTTCATT
13581136 TTATTATTTTT
1 TT-TTATTTTT
13581147 AATTATGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 3 0.09
28 15 0.43
29 17 0.49
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.79
Consensus pattern (28 bp):
TTTTATTTTTTTTCTTTACTTTTTCATT
Found at i:13581294 original size:24 final size:24
Alignment explanation
Indices: 13581257--13581328 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
13581247 ATTTATTTGC
13581257 ATAATAT-T-TTTGCATGAATTTT
1 ATAATATATATTTGCATGAATTTT
* * *
13581279 ATTATATTTATTTGCATGAATAATT
1 ATAATATATATTTGCATGAAT-TTT
*
13581304 GTAATATATATTTGCATGATATTTT
1 ATAATATATATTTGCATGA-ATTTT
13581329 GCATGAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 6 0.15
23 1 0.03
24 11 0.28
25 20 0.50
26 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
ATAATATATATTTGCATGAATTTT
Found at i:13590799 original size:6 final size:6
Alignment explanation
Indices: 13590790--13590817 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13590780 CGACGGATAC
13590790 GGAGAT GGAGAT GGAGAT GGAGAT GGAG
1 GGAGAT GGAGAT GGAGAT GGAGAT GGAG
13590818 GCGCTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.54, T:0.14
Consensus pattern (6 bp):
GGAGAT
Found at i:13591697 original size:16 final size:17
Alignment explanation
Indices: 13591666--13591698 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13591656 ATATTTTATT
13591666 AATTAAAATAATAAAAA
1 AATTAAAATAATAAAAA
*
13591683 AATTTAAAT-ATAAAAA
1 AATTAAAATAATAAAAA
13591699 TTCGATTAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATTAAAATAATAAAAA
Found at i:13594524 original size:11 final size:11
Alignment explanation
Indices: 13594509--13594548 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
13594499 AATATCTGGT
*
13594509 AAATCTCAAAT
1 AAATCTCAAAC
*
13594520 AAATCTCTAAC
1 AAATCTCAAAC
13594531 AAATCTCAAAC
1 AAATCTCAAAC
13594542 AAATCTC
1 AAATCTC
13594549 TTATGAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:13594845 original size:24 final size:25
Alignment explanation
Indices: 13594804--13594908 Score: 124
Period size: 25 Copynumber: 4.2 Consensus size: 25
13594794 TCAAACCTTT
*
13594804 AGCTCTTCCCACATCTCGAACATTC
1 AGCTCTTCTCACATCTCGAACATTC
13594829 AGCTCTT-TCACATCTCGAACATTC
1 AGCTCTTCTCACATCTCGAACATTC
* **
13594853 AGCTCTTTTCACATCTTAAATC-TTC
1 AGCTCTTCTCACATCTCGAA-CATTC
* * *
13594878 AACTCTTCTCACATTTCGAACCTTC
1 AGCTCTTCTCACATCTCGAACATTC
13594903 AGCTCT
1 AGCTCT
13594909 GATACCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
24 24 0.35
25 43 0.63
26 1 0.01
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.35
Consensus pattern (25 bp):
AGCTCTTCTCACATCTCGAACATTC
Found at i:13595534 original size:11 final size:11
Alignment explanation
Indices: 13595518--13595557 Score: 80
Period size: 11 Copynumber: 3.6 Consensus size: 11
13595508 AATATCTGGT
13595518 AAATCTCAAAC
1 AAATCTCAAAC
13595529 AAATCTCAAAC
1 AAATCTCAAAC
13595540 AAATCTCAAAC
1 AAATCTCAAAC
13595551 AAATCTC
1 AAATCTC
13595558 TTATGAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:13595854 original size:24 final size:25
Alignment explanation
Indices: 13595813--13595917 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
13595803 TCAAACCTTT
*
13595813 AGCTCTTCCCACATCTCGAACATTC
1 AGCTCTTCTCACATCTCGAACATTC
*
13595838 AGCTCTT-TCACATCTCGAACATTA
1 AGCTCTTCTCACATCTCGAACATTC
* **
13595862 AGCTCTTTTCACATCTTAAATC-TTC
1 AGCTCTTCTCACATCTCGAA-CATTC
* * *
13595887 AACTCTTCTCACATTTCGAACCTTC
1 AGCTCTTCTCACATCTCGAACATTC
13595912 AGCTCT
1 AGCTCT
13595918 GATCCACTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
24 23 0.35
25 42 0.64
26 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.07, T:0.35
Consensus pattern (25 bp):
AGCTCTTCTCACATCTCGAACATTC
Found at i:13596541 original size:11 final size:11
Alignment explanation
Indices: 13596526--13596565 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
13596516 AATATCTGGT
*
13596526 AAATCTCAAAT
1 AAATCTCAAAC
13596537 AAATCTCAAAC
1 AAATCTCAAAC
13596548 AAATCTCAAAC
1 AAATCTCAAAC
13596559 AAATCTC
1 AAATCTC
13596566 TTATGGGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:13607587 original size:126 final size:126
Alignment explanation
Indices: 13607415--13607935 Score: 415
Period size: 126 Copynumber: 4.1 Consensus size: 126
13607405 AAGGGGAATG
* *
13607415 AATTTTTTAAA-ATGATCAATTAAGGCATTTGTTA-ACACAAACGCCTTAATTGATCAATTTTAA
1 AATTTTTAAAACAT-ATCAATTAAGGCATTT-CTACACACAAACGCCTTAATTGATCAATTTTAA
* * * * * *
13607478 AAATTATAATTTAGATCAATTAAGTCGTTTATGTATAGAAATGCTTTAATTGATCTAAAATAT
64 AAATTATAAGTTAGATCAATTAAGGCATTTGTGTACAGAAACGCTTTAATTGATCTAAAATAT
* * * * * *
13607541 AATTTTTAAAACATATCAATTAAGGTATTTCTACACATAAATGCCTTAATTGATTAGTTTTATAA
1 AATTTTTAAAACATATCAATTAAGGCATTTCTACACACAAACGCCTTAATTGATCAATTTTAAAA
* * *
13607606 TTTATAAGTTAGATCAGTTAAGGCGTTTGTGTACAGGAACAAACGCCTTAATTGATAATTGATCT
66 ATTATAAGTTAGATCAATTAAGGCATTTGTGTACA-G---AAACG-C----TT--TAATTGATCT
13607671 AAAATAT
120 AAAATAT
** * * * * * * *
13607678 AATTTTTAAATTAGATAAATTAAGGCATTCCTAAATACAAACGCCTTAATTGATCCATTTTATAA
1 AATTTTTAAAACATATCAATTAAGGCATTTCTACACACAAACGCCTTAATTGATCAATTTTAAAA
* * * * * * * *
13607743 TTTAAAAGTTAGATTAATTGAGGCATTTGTGTACAAAAATG-TCATAATTGATCTAAATTAT
66 ATTATAAGTTAGATCAATTAAGGCATTTGTGTACAGAAACGCT-TTAATTGATCTAAAATAT
* * ** * *
13607804 AATTTTTAAAACAAATCAATTGAGGCGA-TTCTGTACACGAACGCCTTAATTGATCAATTTT-AG
1 AATTTTTAAAACATATCAATTAAGGC-ATTTCTACACACAAACGCCTTAATTGATCAATTTTAAA
*** * * * * * *
13607867 AATTA-AAAACATCATCAATTAAGACATTTGTATATAGAAACGCCTTAATTGATCTAAAAAAT
65 AATTATAAGTTA-GATCAATTAAGGCATTTGTGTACAGAAACGCTTTAATTGATCTAAAATAT
13607929 AATTTTT
1 AATTTTT
13607936 TGATATTTAA
Statistics
Matches: 312, Mismatches: 66, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
124 3 0.01
125 50 0.16
126 144 0.46
127 5 0.02
130 4 0.01
131 1 0.00
133 4 0.01
135 2 0.01
137 99 0.32
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (126 bp):
AATTTTTAAAACATATCAATTAAGGCATTTCTACACACAAACGCCTTAATTGATCAATTTTAAAA
ATTATAAGTTAGATCAATTAAGGCATTTGTGTACAGAAACGCTTTAATTGATCTAAAATAT
Found at i:13607772 original size:137 final size:137
Alignment explanation
Indices: 13607524--13607777 Score: 348
Period size: 137 Copynumber: 1.9 Consensus size: 137
13607514 AGAAATGCTT
* * * * * * *
13607524 TAATTGATCTAAAATATAATTTTTAAAACATATCAATTAAGGTATTTCTACACATAAATGCCTTA
1 TAATTGATCTAAAATATAATTTTTAAAACAGATAAATTAAGGCATTCCTAAACACAAACGCCTTA
* * * *
13607589 ATTGATTAGTTTTATAATTTATAAGTTAGATCAGTTAAGGCGTTTGTGTACAGGAACAAACGCCT
66 ATTGATCAGTTTTATAATTTAAAAGTTAGATCAATTAAGGCATTTGTGTACAGGAACAAACGCCT
13607654 TAATTGA
131 TAATTGA
** *
13607661 TAATTGATCTAAAATATAATTTTTAAATTAGATAAATTAAGGCATTCCTAAATACAAACGCCTTA
1 TAATTGATCTAAAATATAATTTTTAAAACAGATAAATTAAGGCATTCCTAAACACAAACGCCTTA
* *
13607726 ATTGATCCA-TTTTATAATTTAAAAGTTAGATTAATTGAGGCATTTGTGTACA
66 ATTGAT-CAGTTTTATAATTTAAAAGTTAGATCAATTAAGGCATTTGTGTACA
13607778 AAAATGTCAT
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
137 99 0.99
138 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (137 bp):
TAATTGATCTAAAATATAATTTTTAAAACAGATAAATTAAGGCATTCCTAAACACAAACGCCTTA
ATTGATCAGTTTTATAATTTAAAAGTTAGATCAATTAAGGCATTTGTGTACAGGAACAAACGCCT
TAATTGA
Found at i:13610887 original size:217 final size:217
Alignment explanation
Indices: 13610633--13611064 Score: 830
Period size: 217 Copynumber: 2.0 Consensus size: 217
13610623 TGATTGGTTG
13610633 GGTTTTAAAGAAAAAAAAAAAGGTGAAACAACTTTTTAAAGTTTGAGAATTTGTTATGTTTGATC
1 GGTTTTAAAGAAAAAAAAAAAGGTGAAACAACTTTTTAAAGTTTGAGAATTTGTTATGTTTGATC
*
13610698 TTTTTTTTTCTTGATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTTG
66 CTTTTTTTTCTTGATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTTG
13610763 AAATTAGTTTGTCCTCATGTCATGTATTTATCACATGCA-TTTTTTATGGCATTTTTATAATTTT
131 AAATTAGTTTGTCCTCATGTCATGTATTTATCACATGCATTTTTTTATGGCATTTTTATAATTTT
13610827 ATTTTGTCACATGCATTATTCC
196 ATTTTGTCACATGCATTATTCC
*
13610849 GGTTTTAAAGAAAAAAAAAAAAGGTGAAACAGCTTTTTAAAGTTTGAGAATTTGTTATGTTTGAT
1 GGTTTTAAAG-AAAAAAAAAAAGGTGAAACAACTTTTTAAAGTTTGAGAATTTGTTATGTTTGAT
13610914 CCTTTTTTTTCTTGATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTT
65 CCTTTTTTTTCTTGATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTT
13610979 GAAATTAGTTTGTCCTCATGTCATGTATTTATCACATGCATTTTTTTATGGCATTTTTATAATTT
130 GAAATTAGTTTGTCCTCATGTCATGTATTTATCACATGCATTTTTTTATGGCATTTTTATAATTT
13611044 TATTTTGTCACATGCATTATT
195 TATTTTGTCACATGCATTATT
13611065 TCATGAAACC
Statistics
Matches: 212, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
216 10 0.05
217 157 0.74
218 45 0.21
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (217 bp):
GGTTTTAAAGAAAAAAAAAAAGGTGAAACAACTTTTTAAAGTTTGAGAATTTGTTATGTTTGATC
CTTTTTTTTCTTGATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTTG
AAATTAGTTTGTCCTCATGTCATGTATTTATCACATGCATTTTTTTATGGCATTTTTATAATTTT
ATTTTGTCACATGCATTATTCC
Found at i:13611088 original size:18 final size:16
Alignment explanation
Indices: 13611062--13611114 Score: 70
Period size: 18 Copynumber: 3.1 Consensus size: 16
13611052 CACATGCATT
13611062 ATTTCATGAAACCCTAA
1 ATTTCATGAAA-CCTAA
13611079 ATTCTCATGAAACCTCAA
1 ATT-TCATGAAACCT-AA
13611097 ATTTCATGAAAACCTAA
1 ATTTCATG-AAACCTAA
13611114 A
1 A
13611115 CCACAAATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (16 bp):
ATTTCATGAAACCTAA
Found at i:13611105 original size:17 final size:17
Alignment explanation
Indices: 13611062--13611114 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
13611052 CACATGCATT
13611062 ATTTCATGAAACCCTAA
1 ATTTCATGAAACCCTAA
13611079 ATTCTCATGAAA-CCTCAA
1 ATT-TCATGAAACCCT-AA
*
13611097 ATTTCATGAAAACCTAA
1 ATTTCATGAAACCCTAA
13611114 A
1 A
13611115 CCACAAATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (17 bp):
ATTTCATGAAACCCTAA
Found at i:13611762 original size:968 final size:984
Alignment explanation
Indices: 13609856--13611816 Score: 2442
Period size: 993 Copynumber: 2.0 Consensus size: 984
13609846 GTTTTTAAAG
* * *
13609856 AAAAAATGGTGGAACATCTATTTAAAGTTTGAAAATTTGTTATATATGATCCTTCTTTTTTTCTT
1 AAAAAAAGGTGAAACAGCTATTTAAAGTTTGAAAATTTGTTATATATGATCCTTCTTTTTTTCTT
*
13609921 GATTTCTCATGCACAACTTATTTGTAATTTAGTTTTGTAAGTACCTAGGTTTAAAATTAGTTTAT
66 GATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTAAGTACCTAGGTTTAAAATTAGTTTAT
* * ** *
13609986 CCTCATGTTATGCATTGGTCATGTGCATTTTTATGACATTTTTTTAATTTGATTTTGTCACATGC
131 CCTCATGTCATGCATTGATCACATGCATTTTTATGACATTTTTATAATTTGATTTTGTCACATGC
* *
13610051 ATTATCCCACGAAACCTTAAATTCTCATAAAACCTATATTCCATAAAACCTCAAACCCTAAAACT
196 ATTATCCCACGAAACCCTAAATTCTCATAAAACCTAAATTCCATAAAACCTCAAACCC-AAAAC-
* * *** * * **
13610116 TAAACTTTAAACTTTAAACCATAAACCTAAATCATAAACCTTAAAACCCAACCTTCCTTTTGGTT
259 T--ACCTAAAACCCAAAACCATAAACCTAAATCATAAACCTTAAAACCAAACCTTCATTTCAGTT
*
13610181 CCTTTCATAGTTTTTTTGCTTCTAAAAGTTGTTCATGATGATTAAAATGATGAATTTGTTAATGT
322 CCTTTCA-A----TTTTGC-TCTAAAAATTGTTCATGATGATTAAAATGATGAATTTGTTAATGT
*
13610246 TTTACATGATCCTTGATTGGTTAGTGATAAGGTAGTGTTTAATTATGTCCAAATTGTTAATAATT
381 TTTACATGAT-CTTGAGTGGTTAGTGATAAGGTAGTGTTTAATTATGTCCAAATTGTTAATAATT
* * * *
13610311 TCTTTACTATTCTTGGTTTGTTTTATGCTTGGTAAAATTCTTCTTATAAAGTGAATGCCCTTACA
445 TCTTTAATATTCCTAGTTTGCTTTATGCTTGGTAAAATTCTTCTTATAAAGTGAATGCCCTTACA
* *
13610376 TGATGATTTAAAAGTTAAATGATGTATGTTTGGAATAAAATATAGGTGGAAAAATGCCATGAAGG
510 TGATGATTTAAAAGGTAAATGATGTATGTTTGGAATAAAATATAGGTGGAAAAATGCCATAAAGG
* *
13610441 TTCCGACATGGTGGTTTCTTATTTGGCCAAACCTTTTTTCTTCTTTTGGTAAGTAATTGTTGCTT
575 TT----CA--GT-GTTTCTTATTTGGCCAAACCTTTGTTCTTCATTTGG--AGTAA-TGTTGCTT
* *
13610506 GATTTCACATGTTTGATTGTTGTTTTTGTTATGTTTACTAAGTTTTTAATGTGTTGGGTTAATTT
630 GATTTCACAAGTTTGATTGTTG--TTTGTTATGTTTACTAAGTTTTTAATGTGTTGGGTTAATGT
* ** * * *
13610571 TTCAATGAAAAGAAATGCTAGTTTAATAAATTGTTTGTTTGATCTTATTGTTTGATTGGTTGGGT
693 TTCAATGAAAAAAAATGCTAGTTTAATAAATTGTTTGGCTAATCTTAGTATTTGATTGGTTGGGT
* * * * **
13610636 TTTAAAGAAAAAAAAAAAGGTGAAACAACTTTTTAAAGTTTGAGAATTTGTTATGTTTGATCTTT
758 TTT-AAGAAAAAAAAAAAGGCGAAACAACATTTTAAAGTTTGAAAAATTGTTATGTTTGATCTCA
*
13610701 TTTTTTCTTGATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTTGAAA
822 TTTTTTCTTGATTTCTCATACACAACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTTGAAA
* * * * *
13610766 TTAGTTTGTCCTCATGTCATGTATTTATCACATGCATTTTTTATGGCATTTTTATAATTTTATTT
887 TTAGTTTGCCCTCATGTCATGCATTTATCACATACATTTTTAATGGCATTTTTATAATTTGATTT
13610831 TGTCACATGCATTATTCCGGTTTTAAAGAAAAA
952 TGTCACATGCATTATTCCGGTTTTAAAGAAAAA
* * * *
13610864 AAAAAAAGGTGAAACAGCTTTTTAAAGTTTGAGAATTTGTTATGTTTGATCC-T-TTTTTTTCTT
1 AAAAAAAGGTGAAACAGCTATTTAAAGTTTGAAAATTTGTTATATATGATCCTTCTTTTTTTCTT
* *
13610927 GATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTATA-TACCTAGGTTTGAAATTAGTTTG
66 GATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTA-AGTACCTAGGTTTAAAATTAGTTTA
* * * *
13610991 TCCTCATGTCATGTATTTATCACATGCATTTTTTTATGGCATTTTTATAATTTTATTTTGTCACA
130 TCCTCATGTCATGCATTGATCACATGCA--TTTTTATGACATTTTTATAATTTGATTTTGTCACA
** * * *
13611056 TGCATTATTTCATGAAACCCTAAATTCTCATGAAACCTCAAATTTCATGAAAACCT-AAA-CCAC
193 TGCATTATCCCACGAAACCCTAAATTCTCATAAAACCT-AAATTCCAT-AAAACCTCAAACCCA-
* * *
13611119 AAA-T-CCTAAAACCCAAAACC-TAAATCTTAAATCTTAAACCTTAAATCCGAAACC-TCATTTC
255 AAACTACCTAAAACCCAAAACCATAAA-CCTAAATCATAAACCTTAAAACC-AAACCTTCATTTC
*
13611180 AGTTCCTTTC-A-TTT-C-C-AAAAATTGTTCATGATGATT-AAATGATGAATTTGTTGATGTTT
318 AGTTCCTTTCAATTTTGCTCTAAAAATTGTTCATGATGATTAAAATGATGAATTTGTTAATG-TT
** * * * ** * * *
13611239 GTTTTATGTAT-TTGAGTGGTTAGTTATATGTTAGTGTTTGTTTTATGTCTAAATTGTTCATGAT
382 -TTACATG-ATCTTGAGTGGTTAGTGATAAGGTAGTGTTT-AATTATGTCCAAATTGTTAATAAT
* *
13611303 TTCTTTAATATTCCTAGTTTGCTTTATGCTTGGTAAAATTTTTCTTATGATA-TGAATGCCCTTA
444 TTCTTTAATATTCCTAGTTTGCTTTATGCTTGGTAAAATTCTTCTTAT-AAAGTGAATGCCCTTA
* ** *
13611367 CATGGTGATTTGGAAGGTAAATGATGTATGTTTGGAATGAAAATATGGGTGGAAAAATGCCATAA
508 CATGATGATTTAAAAGGTAAATGATGTATGTTTGGAAT-AAAATATAGGTGGAAAAATGCCATAA
*
13611432 AGG-T-A-T-TTTCTTATTTGGTCAAACC-TTGTTCTTCATTT-G-GTAA-GTTGCTTGATTTCA
572 AGGTTCAGTGTTTCTTATTTGGCCAAACCTTTGTTCTTCATTTGGAGTAATGTTGCTTGATTTCA
13611489 CAAGTTTGATTGTTG-TT-TT-TG-TTA-TAAGTTTTTAATGTGTTGGGTTAATGTTTCAATGAA
637 CAAGTTTGATTGTTGTTTGTTATGTTTACTAAGTTTTTAATGTGTTGGGTTAATGTTTCAATG-A
* *
13611549 AAAAAAATGCTAGTTTACTAAATTGTTTGGCTAATCTTGGTATTT-ATTTGGTTGGGTTTT-A-A
701 AAAAAAATGCTAGTTTAATAAATTGTTTGGCTAATCTTAGTATTTGA-TTGGTTGGGTTTTAAGA
* * * *
13611611 AAAAAAAAATGGCGGAACATCATTTTAAAGTTTGAAAAATTGTTGTGTTTGATC-CATTTTTTCT
765 AAAAAAAAAAGGCGAAACAACATTTTAAAGTTTGAAAAATTGTTATGTTTGATCTCATTTTTTCT
* *
13611675 TGATTTCTCATACACAACTTATTTGTTATTTAGTTTTGTAAATATACCTAGGTTTGAAATTAGTT
830 TGATTTCTCATACACAACTTACTTGTAATTTAGTTTTGT--ATATACCTAGGTTTGAAATTAGTT
* *
13611740 TGCCCTCATGTTATGCATTTATCACATACATTTTTAATGGCATTTTTGTAATTTGATTTTGTCAC
893 TGCCCTCATGTCATGCATTTATCACATACATTTTTAATGGCATTTTTATAATTTGATTTTGTCAC
13611805 ATGCATTATTCC
958 ATGCATTATTCC
13611817 ATGAAACCCC
Statistics
Matches: 839, Mismatches: 96, Indels: 76
0.83 0.09 0.08
Matches are distributed among these distances:
966 44 0.05
967 47 0.06
968 95 0.11
969 34 0.04
970 54 0.06
971 2 0.00
972 2 0.00
973 2 0.00
976 28 0.03
978 4 0.00
981 1 0.00
982 11 0.01
983 18 0.02
985 1 0.00
988 1 0.00
991 19 0.02
992 45 0.05
993 115 0.14
994 31 0.04
995 1 0.00
996 3 0.00
1001 1 0.00
1002 4 0.00
1003 45 0.05
1004 4 0.00
1006 92 0.11
1007 3 0.00
1008 115 0.14
1009 10 0.01
1010 7 0.01
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (984 bp):
AAAAAAAGGTGAAACAGCTATTTAAAGTTTGAAAATTTGTTATATATGATCCTTCTTTTTTTCTT
GATTTCTCATGCACAACTTACTTGTAATTTAGTTTTGTAAGTACCTAGGTTTAAAATTAGTTTAT
CCTCATGTCATGCATTGATCACATGCATTTTTATGACATTTTTATAATTTGATTTTGTCACATGC
ATTATCCCACGAAACCCTAAATTCTCATAAAACCTAAATTCCATAAAACCTCAAACCCAAAACTA
CCTAAAACCCAAAACCATAAACCTAAATCATAAACCTTAAAACCAAACCTTCATTTCAGTTCCTT
TCAATTTTGCTCTAAAAATTGTTCATGATGATTAAAATGATGAATTTGTTAATGTTTTACATGAT
CTTGAGTGGTTAGTGATAAGGTAGTGTTTAATTATGTCCAAATTGTTAATAATTTCTTTAATATT
CCTAGTTTGCTTTATGCTTGGTAAAATTCTTCTTATAAAGTGAATGCCCTTACATGATGATTTAA
AAGGTAAATGATGTATGTTTGGAATAAAATATAGGTGGAAAAATGCCATAAAGGTTCAGTGTTTC
TTATTTGGCCAAACCTTTGTTCTTCATTTGGAGTAATGTTGCTTGATTTCACAAGTTTGATTGTT
GTTTGTTATGTTTACTAAGTTTTTAATGTGTTGGGTTAATGTTTCAATGAAAAAAAATGCTAGTT
TAATAAATTGTTTGGCTAATCTTAGTATTTGATTGGTTGGGTTTTAAGAAAAAAAAAAAGGCGAA
ACAACATTTTAAAGTTTGAAAAATTGTTATGTTTGATCTCATTTTTTCTTGATTTCTCATACACA
ACTTACTTGTAATTTAGTTTTGTATATACCTAGGTTTGAAATTAGTTTGCCCTCATGTCATGCAT
TTATCACATACATTTTTAATGGCATTTTTATAATTTGATTTTGTCACATGCATTATTCCGGTTTT
AAAGAAAAA
Found at i:13611870 original size:7 final size:7
Alignment explanation
Indices: 13611859--13612044 Score: 128
Period size: 7 Copynumber: 26.6 Consensus size: 7
13611849 TCATAAAATT
*
13611859 CTAAACT
1 CTAAACC
13611866 CTAAACC
1 CTAAACC
13611873 CTAAACC
1 CTAAACC
13611880 CTAAACC
1 CTAAACC
* *
13611887 ATAATATC
1 CTAA-ACC
13611895 C-AAACC
1 CTAAACC
**
13611901 CTAAATT
1 CTAAACC
*
13611908 TTAAACC
1 CTAAACC
13611915 CTAAACC
1 CTAAACC
* *
13611922 ATAATATC
1 CTAA-ACC
13611930 C-AAACC
1 CTAAACC
**
13611936 CTAAATT
1 CTAAACC
*
13611943 TTAAACC
1 CTAAACC
13611950 CTAAACC
1 CTAAACC
* *
13611957 ATAAATC
1 CTAAACC
13611964 CTAAACC
1 CTAAACC
13611971 CTAAATCC
1 CTAAA-CC
13611979 C-AAA-C
1 CTAAACC
13611984 CTCAAACC
1 CT-AAACC
* *
13611992 TTAAAAC
1 CTAAACC
*
13611999 CTAAAAC
1 CTAAACC
*
13612006 CTAAACT
1 CTAAACC
*
13612013 TTAAACC
1 CTAAACC
*
13612020 CTAAAAC
1 CTAAACC
*
13612027 ATAAACC
1 CTAAACC
13612034 CTAAACC
1 CTAAACC
13612041 CTAA
1 CTAA
13612045 CATATACCTC
Statistics
Matches: 134, Mismatches: 37, Indels: 16
0.72 0.20 0.09
Matches are distributed among these distances:
5 2 0.01
6 6 0.04
7 117 0.87
8 9 0.07
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Done.