Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 260 of 322
Found at i:86383430 original size:13 final size:13
Alignment explanation
Indices: 86383397--86383421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86383387 TAGACTTTTT
86383397 TTTAAAAAAAACC
1 TTTAAAAAAAACC
86383410 TTTAAAAAAAAC
1 TTTAAAAAAAAC
86383422 TTGTGAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
TTTAAAAAAAACC
Found at i:86384329 original size:31 final size:31
Alignment explanation
Indices: 86384294--86384360 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
86384284 AACAATCCAA
*
86384294 TGACTTAAATAAAAA-TATTTGAATAGTTCAG
1 TGACTTAAATAAAAACT-TTCGAATAGTTCAG
*
86384325 TGACTTAAATAAAAACTTTCGAATAGTTTAG
1 TGACTTAAATAAAAACTTTCGAATAGTTCAG
86384356 TGACT
1 TGACT
86384361 GAATTATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAGTTCAG
Found at i:86398018 original size:16 final size:17
Alignment explanation
Indices: 86397982--86398018 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
86397972 AATTTTATTT
*
86397982 TAATAATAAATTTTAAA
1 TAATAATAAAGTTTAAA
86397999 -AATAAT-AAGTTTAAA
1 TAATAATAAAGTTTAAA
86398014 TAATA
1 TAATA
86398019 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAAGTTTAAA
Found at i:86398572 original size:23 final size:22
Alignment explanation
Indices: 86398535--86398700 Score: 66
Period size: 23 Copynumber: 7.9 Consensus size: 22
86398525 GAATTATTAT
*
86398535 TAAAATAT-GAATTAATAAAAA
1 TAAAATATATAATTAATAAAAA
* *
86398556 TAAAATATATAATTTAATAACAT
1 TAAAATATATAA-TTAATAAAAA
** * * *
86398579 TATTA-ATATGATT-AT--CAT
1 TAAAATATATAATTAATAAAAA
*
86398597 TAAAATAT-GAATTAATAAAAA
1 TAAAATATATAATTAATAAAAA
* *
86398618 TAAAATATATAATTTAATAACAT
1 TAAAATATATAA-TTAATAAAAA
** * * *
86398641 TATTA-ATATGATT-AT--CAT
1 TAAAATATATAATTAATAAAAA
*
86398659 TAAAATAT-GAATTAATAAAAA
1 TAAAATATATAATTAATAAAAA
86398680 TAAAAATATATAATTTAATAA
1 T-AAAATATATAA-TTAATAA
86398701 CATTCTTAAT
Statistics
Matches: 105, Mismatches: 25, Indels: 27
0.67 0.16 0.17
Matches are distributed among these distances:
18 18 0.17
19 8 0.08
20 4 0.04
21 23 0.22
22 21 0.20
23 24 0.23
24 7 0.07
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.37
Consensus pattern (22 bp):
TAAAATATATAATTAATAAAAA
Found at i:86398616 original size:62 final size:62
Alignment explanation
Indices: 86398519--86398745 Score: 393
Period size: 62 Copynumber: 3.6 Consensus size: 62
86398509 TTATTAAATT
*
86398519 TTAATA-GAATTATTATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
1 TTAATATG-ATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
86398581 TTAATATGATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
1 TTAATATGATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
*
86398643 TTAATATGATTATCATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTC
1 TTAATATGATTATCATTAAAATATGAATTAATAAAAAT-AAAATATATAATTTAATAACATTA
* *
86398706 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAA
1 TTAATATGATTATCATTAAAATATGAATTAATAAAAATAA
86398746 TAATTAATAA
Statistics
Matches: 159, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
62 99 0.62
63 60 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (62 bp):
TTAATATGATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
Found at i:86398740 original size:125 final size:124
Alignment explanation
Indices: 86398519--86398745 Score: 393
Period size: 125 Copynumber: 1.8 Consensus size: 124
86398509 TTATTAAATT
*
86398519 TTAATAGAATTATTATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTATTA
1 TTAATAGAATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTATTA
*
86398584 ATATGATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
66 ATATAATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
*
86398643 TTAATATG-ATTATCATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTCT
1 TTAATA-GAATTATCATTAAAATATGAATTAATAAAAAT-AAAATATATAATTTAATAACATTAT
*
86398707 TAATATAATTATTATTAAAATATGAATTAATAAAAATAA
64 TAATATAATTATCATTAAAATATGAATTAATAAAAATAA
86398746 TAATTAATAA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
124 35 0.36
125 62 0.64
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (124 bp):
TTAATAGAATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTATTA
ATATAATTATCATTAAAATATGAATTAATAAAAATAAAATATATAATTTAATAACATTA
Found at i:86402407 original size:18 final size:18
Alignment explanation
Indices: 86402384--86402420 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
86402374 CCATGGGTCA
86402384 AGTTACACGGGATTACCG
1 AGTTACACGGGATTACCG
86402402 AGTTACACGGGATTACCG
1 AGTTACACGGGATTACCG
86402420 A
1 A
86402421 ATGAGCTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (18 bp):
AGTTACACGGGATTACCG
Found at i:86407786 original size:45 final size:45
Alignment explanation
Indices: 86407735--86408545 Score: 1622
Period size: 45 Copynumber: 18.0 Consensus size: 45
86407725 AATTCATAAC
86407735 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86407780 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86407825 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86407870 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86407915 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86407960 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408005 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408050 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408095 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408140 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408185 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408230 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408275 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408320 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408365 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408410 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408455 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408500 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
1 ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
86408545 A
1 A
86408546 ATTTGAGACA
Statistics
Matches: 766, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 766 1.00
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (45 bp):
ATTTTAAATTGATGAAAATATATTTTTCACACAAATTATTTTATA
Found at i:86414196 original size:116 final size:116
Alignment explanation
Indices: 86413988--86414214 Score: 355
Period size: 116 Copynumber: 2.0 Consensus size: 116
86413978 TTGGTGTGGT
* * *
86413988 TGACAAAACAGCCACTCTGATTTCAATTCAGTGACTCAACTTTCGAAAAATAACAAATCAACCCT
1 TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
* *
86414053 TTTAATCATTTTCCATTACAAATGTAATAGAAAAATGACATGACATGTAGC
66 TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACATGTAGC
* **
86414104 TGACAAAACAGTCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAGTCAT
1 TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
* * *
86414169 TTTAACCATTTTCCGTTACAAACGTAATGGAAAAGTGACATGACAT
66 TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACAT
86414215 CCTATTGTGT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (116 bp):
TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACATGTAGC
Found at i:86415198 original size:29 final size:31
Alignment explanation
Indices: 86415138--86415198 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
86415128 GGAAAAGAAG
*
86415138 AAGTATAAACATATTGGGCCATTTATGCAAA
1 AAGTATAAACATATTGGGCCATTTATGAAAA
* *
86415169 AAGTA-AAA-ATATTGGGTCATTTATTAAAA
1 AAGTATAAACATATTGGGCCATTTATGAAAA
86415198 A
1 A
86415199 GAAAAGGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 3 0.11
31 5 0.19
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (31 bp):
AAGTATAAACATATTGGGCCATTTATGAAAA
Found at i:86417651 original size:26 final size:26
Alignment explanation
Indices: 86417622--86417710 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 26
86417612 ATGAGTATCT
86417622 CGATAAATGGCTCTTCGTGAGCTTTC
1 CGATAAATGGCTCTTCGTGAGCTTTC
* *
86417648 CGATTAAA-GGCTCTTTGTAAGC-TTC
1 CGA-TAAATGGCTCTTCGTGAGCTTTC
* * *
86417673 CTG-TTAATGGCTCTCCG-GAGCTTCC
1 C-GATAAATGGCTCTTCGTGAGCTTTC
86417698 CGATAAATGGCTC
1 CGATAAATGGCTC
86417711 ACAAGAGCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
24 7 0.14
25 23 0.46
26 16 0.32
27 4 0.08
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
CGATAAATGGCTCTTCGTGAGCTTTC
Found at i:86417775 original size:25 final size:25
Alignment explanation
Indices: 86417667--86417785 Score: 109
Period size: 25 Copynumber: 4.8 Consensus size: 25
86417657 GCTCTTTGTA
* * **
86417667 AGCTTCCTGTTA-ATGGCTCTCCGG
1 AGCTTCCCGTTATATGGCTCACAAG
* *
86417691 AGCTTCCCGATAAATGGCTCACAAG
1 AGCTTCCCGTTATATGGCTCACAAG
* ** *
86417716 AGCTTCCCATTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACAAG
86417741 AGCTTCCCGTTATATGGCTCGA-AAG
1 AGCTTCCCGTTATATGGCTC-ACAAG
86417766 AGCTTCCCGTT-TATGTGCTC
1 AGCTTCCCGTTATATG-GCTC
86417786 GTATGAGTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
24 14 0.18
25 62 0.81
26 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACAAG
Found at i:86417798 original size:26 final size:25
Alignment explanation
Indices: 86417744--86417800 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
86417734 TCACATGAGC
*
86417744 TTCCCGTTATATGGCTCGAAAGAGC
1 TTCCCGTTATATGGCTCGAAAGAGA
* *
86417769 TTCCCGTT-TATGTGCTCGTATGAGTA
1 TTCCCGTTATATG-GCTCGAAAGAG-A
86417795 TTCCCG
1 TTCCCG
86417801 AATATGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 17 0.63
26 6 0.22
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (25 bp):
TTCCCGTTATATGGCTCGAAAGAGA
Found at i:86419527 original size:33 final size:32
Alignment explanation
Indices: 86419452--86419532 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
86419442 CGTAAGGGTG
**
86419452 ACACTTGAAAAGGAAATGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACATACACTTTGTGTGT
86419484 ACACTTGAAAAGGAAACATACACTTTGTGTGT
1 ACACTTGAAAAGGAAACATACACTTTGTGTGT
86419516 ACCACTTGAAAATGGAA
1 A-CACTTGAAAA-GGAA
86419533 TGTGCACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 31 0.69
33 10 0.22
34 4 0.09
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (32 bp):
ACACTTGAAAAGGAAACATACACTTTGTGTGT
Found at i:86420645 original size:19 final size:19
Alignment explanation
Indices: 86420621--86420676 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
86420611 GTCCTAAGCC
86420621 ACACGGGCGTGTGTAATCT
1 ACACGGGCGTGTGTAATCT
*
86420640 ACAC-GGC---T-TAAAC-
1 ACACGGGCGTGTGTAATCT
86420653 ACACGGGCGTGTGTAATCT
1 ACACGGGCGTGTGTAATCT
86420672 ACACG
1 ACACG
86420677 ACCTAAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 1 0.03
17 1 0.03
18 7 0.24
19 9 0.31
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (19 bp):
ACACGGGCGTGTGTAATCT
Found at i:86420660 original size:32 final size:32
Alignment explanation
Indices: 86420620--86420693 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
86420610 TGTCCTAAGC
* *
86420620 CACACGGGCGTGTGTAATCTACACGGCTTAAA
1 CACACGGGCGTGTGTAATCTACACGACCTAAA
86420652 CACACGGGCGTGTGTAATCTACACGACCTAAA
1 CACACGGGCGTGTGTAATCTACACGACCTAAA
86420684 CACACGGGCG
1 CACACGGGCG
86420694 CGTATGGTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.18
Consensus pattern (32 bp):
CACACGGGCGTGTGTAATCTACACGACCTAAA
Found at i:86423613 original size:25 final size:23
Alignment explanation
Indices: 86423585--86423640 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
86423575 TTTGAAGTAT
* * *
86423585 TTTTTTATATTATATTATTTTGACA
1 TTTTTTATAATAT-TTAGTTT-AAA
*
86423610 TTTTGTATAATATTTAGTTTAAA
1 TTTTTTATAATATTTAGTTTAAA
86423633 TTTTTTAT
1 TTTTTTAT
86423641 TATCTGTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.35
24 6 0.23
25 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TTTTTTATAATATTTAGTTTAAA
Found at i:86430078 original size:33 final size:32
Alignment explanation
Indices: 86430002--86430079 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
86429992 CGTAAGGGTG
86430002 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
86430034 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
*
86430066 ACCACTTTAAAAGG
1 A-CACTTGAAAAGG
86430080 GAATGTGCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 33 0.75
33 11 0.25
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (32 bp):
ACACTTGAAAAGGAAACGTACACTTTGTGTGT
Found at i:86436252 original size:94 final size:94
Alignment explanation
Indices: 86436125--86436301 Score: 264
Period size: 94 Copynumber: 1.9 Consensus size: 94
86436115 GTTATGTGAG
* * * * *
86436125 AGCCAGTGTAAGACCATATCTGGGGCATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATAGAGACGAGGGCCAGTGTAAGACGTG
86436190 TCTAGGACATGCATCAGCCACATTACGAT
66 TCTAGGACATGCATCAGCCACATTACGAT
* * * *
86436219 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCGTAGAGATGAGTGCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATAGAGACGAGGGCCAGTGTAAGACGTG
*
86436284 TCTGGGACATGCATCAGC
66 TCTAGGACATGCATCAGC
86436302 TAAGCTTCGT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATATCTAGGACATGGCATCAGCATAGAGACGAGGGCCAGTGTAAGACGTG
TCTAGGACATGCATCAGCCACATTACGAT
Found at i:86436330 original size:44 final size:44
Alignment explanation
Indices: 86436177--86436341 Score: 154
Period size: 44 Copynumber: 3.6 Consensus size: 44
86436167 GACGAGGGCT
* *
86436177 AGTGTAAGACGTGTCTAGGACATGCATCAGC-CA-CATTACGATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGC-TT-CG-T-GCC
* **
86436223 AGTGTAAGACCATGTCTAGGACATGGCATCAGCGTAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGC-TA-AGCTTCGTGCC
* * *
86436271 AGTGTAAGACGTGTCTGGGACATGCATCAGCTAAGCTTCGTGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGCTTCGTGCC
* *
86436315 AGTGTAAGATATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
86436342 TACACAAGAG
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 32 0.32
45 2 0.02
46 17 0.17
47 25 0.25
48 20 0.20
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGCTTCGTGCC
Found at i:86437297 original size:55 final size:55
Alignment explanation
Indices: 86437182--86437300 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
86437172 CTTAAACTTT
* * * * *
86437182 TAAGTTAGTATTGTCCACGGGTAGGCCACATGGGCGTGCGTCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATGCCTA
* * *
86437237 TAAGTCAGTATTGTTCACGGGTAGGCCACACGGGCATGTGTCATGGCCATGCCCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATG-CCTA
86437293 -AAGTCAGT
1 TAAGTCAGT
86437301 GTTGCACATG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 52 0.95
56 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATGCCTA
Found at i:86440019 original size:67 final size:67
Alignment explanation
Indices: 86439943--86440076 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
86439933 TTTCTTTATT
86439943 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
1 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
86440008 AG
66 AG
*
86440010 TTAAGTTTTAATATATTTTTAATTAATAAAACTTTAATTAATTATTTATTTTAATGAAATTTCTC
1 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
86440075 AG
66 AG
86440077 GTAACATGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (67 bp):
TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
AG
Found at i:86443291 original size:5 final size:6
Alignment explanation
Indices: 86443276--86443301 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
86443266 TCAAAAACAT
86443276 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
86443302 TTGTATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:86460416 original size:46 final size:48
Alignment explanation
Indices: 86460294--86460423 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
86460284 TTTAACCCGC
86460294 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
86460344 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
86460387 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
86460424 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 1 0.01
45 2 0.03
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:86460880 original size:30 final size:30
Alignment explanation
Indices: 86460846--86460905 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
86460836 ATTTAATACG
86460846 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
86460876 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
86460906 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:86467907 original size:46 final size:46
Alignment explanation
Indices: 86467840--86468171 Score: 565
Period size: 46 Copynumber: 7.2 Consensus size: 46
86467830 AACCCGCCCC
* * * *
86467840 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
86467886 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
86467932 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
86467978 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
86468024 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
86468070 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
86468116 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
86468162 TAAGTGAACT
1 TAAGTGAACT
86468172 GTCACTTGTA
Statistics
Matches: 277, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 277 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:86469802 original size:5 final size:5
Alignment explanation
Indices: 86469792--86469827 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
86469782 TTATGTGTTC
86469792 TTTAT TTTAT TTTA- -TTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
86469828 TCGCACCTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.10
5 26 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:86469811 original size:13 final size:13
Alignment explanation
Indices: 86469793--86469820 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
86469783 TATGTGTTCT
86469793 TTATTTTATTTTA
1 TTATTTTATTTTA
86469806 TTATTTTATTTTA
1 TTATTTTATTTTA
86469819 TT
1 TT
86469821 TTATTTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:86470050 original size:30 final size:30
Alignment explanation
Indices: 86470014--86470073 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
86470004 AAACCTCAAA
86470014 GTTTTTATTCCTTGCATTTAGGTCCTTACT
1 GTTTTTATTCCTTGCATTTAGGTCCTTACT
86470044 GTTTTTATTCCTTGCATTTAGGTCCTTACT
1 GTTTTTATTCCTTGCATTTAGGTCCTTACT
86470074 AACACTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (30 bp):
GTTTTTATTCCTTGCATTTAGGTCCTTACT
Found at i:86485420 original size:42 final size:43
Alignment explanation
Indices: 86485312--86485471 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
86485302 AGCTCGTACA
* * * *
86485312 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAAATCG
* * * * *
86485355 ATGCCACTGTCCCAGACAGGGTCTTCCACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAAATCG
* * * *
86485397 ATGCCAATGTCCCAAACATGGTCTTACACATAAATCACAAATTG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCAAAAATCG
* **
86485441 ATGCCAATGTCTCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
86485472 TAACACATAT
Statistics
Matches: 93, Mismatches: 22, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
42 27 0.29
43 40 0.43
44 26 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAAAATCG
Found at i:86485471 original size:86 final size:85
Alignment explanation
Indices: 86485312--86485471 Score: 196
Period size: 86 Copynumber: 1.9 Consensus size: 85
86485302 AGCTCGTACA
* * ** *
86485312 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAAAATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAAACATGGTCTTACACATAATCAAAAATCGATGCCAATGTCCCAGACAGGGT
*
86485377 CTTCCACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * * * *
86485397 ATGCCAATGTCCCAAACATGGTCTTACACATAAATCACAAATTGATGCCAATGTCTCAGA-TGTG
1 ATGCCAACGTCCCAAACATGGTCTTACACAT-AATCAAAAATCGATGCCAATGTCCCAGACAG-G
86485461 GTCTTACACGA
64 GTCTTACACGA
86485472 TAACACATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 27 0.44
86 35 0.56
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAAACATGGTCTTACACATAATCAAAAATCGATGCCAATGTCCCAGACAGGGT
CTTACACGAAATCATATACG
Found at i:86486736 original size:46 final size:46
Alignment explanation
Indices: 86486677--86486838 Score: 175
Period size: 46 Copynumber: 3.5 Consensus size: 46
86486667 GCCCATAAGC
* *
86486677 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTTGGACGTTAGCATCCATAAAT
** * * * ** *
86486723 GAACTCGGACTCAACTCAACGAGCCCGGATGTCTAG-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTTGGACGT-TAGCATCCAT-AAAT
* *
86486770 GAACTCGGACTCAACTCAACGAG-TTAGGACGTTGGCATCCATAATT
1 GAACTCGGACTCAACTCAACGAGCTT-GGACGTTAGCATCCATAAAT
86486816 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
86486839 TTCGGAGGCC
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
46 57 0.62
47 35 0.38
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTTGGACGTTAGCATCCATAAAT
Found at i:86496261 original size:46 final size:46
Alignment explanation
Indices: 86496194--86496410 Score: 362
Period size: 46 Copynumber: 4.7 Consensus size: 46
86496184 AACCCGCCCC
*
86496194 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
*
86496240 TAAGTGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
* *
86496286 TAAGCGAACTCGGACTCAACTCAACGAGCTCGTGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
* **
86496332 TAAGCGAACTCGGACTCAACTCAACGAGCTTAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
*
86496378 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
86496411 ATGCTCAACC
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 161 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
Found at i:86498398 original size:292 final size:292
Alignment explanation
Indices: 86497874--86498458 Score: 1170
Period size: 292 Copynumber: 2.0 Consensus size: 292
86497864 AAAGGAGAAA
86497874 CTAAAATTTTTAGCTTTTCCTCTCCCAAAAGCACTTTTAGTGCTTAATTACTTTTTCACCCCTCT
1 CTAAAATTTTTAGCTTTTCCTCTCCCAAAAGCACTTTTAGTGCTTAATTACTTTTTCACCCCTCT
86497939 AATAATATAGCACATTCCCTTTTTTTTCTTGGTGCTTAATTACAAATGTGTTAAAATCATTAATT
66 AATAATATAGCACATTCCCTTTTTTTTCTTGGTGCTTAATTACAAATGTGTTAAAATCATTAATT
86498004 AAAAATAAAAGAAATATTTGTTAAAACACTAATTACAAATATTTAATTGTTATATTTAAATATTT
131 AAAAATAAAAGAAATATTTGTTAAAACACTAATTACAAATATTTAATTGTTATATTTAAATATTT
86498069 AAAATGTAGTTTATATATTCTAATTAAATTTTATAAGTAATTAATATTTATTACTTAAAAATATT
196 AAAATGTAGTTTATATATTCTAATTAAATTTTATAAGTAATTAATATTTATTACTTAAAAATATT
86498134 TAAAATATATATTTCCTATATTAAAATATTAC
261 TAAAATATATATTTCCTATATTAAAATATTAC
86498166 CTAAAATTTTTAGCTTTTCCTCTCCCAAAAGCACTTTTAGTGCTTAATTACTTTTTCACCCCTCT
1 CTAAAATTTTTAGCTTTTCCTCTCCCAAAAGCACTTTTAGTGCTTAATTACTTTTTCACCCCTCT
86498231 AATAATATAGCACATTCCCTTTTTTTTCTTGGTGCTTAATTACAAATGTGTTAAAATCATTAATT
66 AATAATATAGCACATTCCCTTTTTTTTCTTGGTGCTTAATTACAAATGTGTTAAAATCATTAATT
86498296 AAAAATAAAAGAAATATTTGTTAAAACACTAATTACAAATATTTAATTGTTATATTTAAATATTT
131 AAAAATAAAAGAAATATTTGTTAAAACACTAATTACAAATATTTAATTGTTATATTTAAATATTT
86498361 AAAATGTAGTTTATATATTCTAATTAAATTTTATAAGTAATTAATATTTATTACTTAAAAATATT
196 AAAATGTAGTTTATATATTCTAATTAAATTTTATAAGTAATTAATATTTATTACTTAAAAATATT
86498426 TAAAATATATATTTCCTATATTAAAATATTAC
261 TAAAATATATATTTCCTATATTAAAATATTAC
86498458 C
1 C
86498459 AAGTTATAAT
Statistics
Matches: 293, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 293 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (292 bp):
CTAAAATTTTTAGCTTTTCCTCTCCCAAAAGCACTTTTAGTGCTTAATTACTTTTTCACCCCTCT
AATAATATAGCACATTCCCTTTTTTTTCTTGGTGCTTAATTACAAATGTGTTAAAATCATTAATT
AAAAATAAAAGAAATATTTGTTAAAACACTAATTACAAATATTTAATTGTTATATTTAAATATTT
AAAATGTAGTTTATATATTCTAATTAAATTTTATAAGTAATTAATATTTATTACTTAAAAATATT
TAAAATATATATTTCCTATATTAAAATATTAC
Found at i:86499192 original size:21 final size:21
Alignment explanation
Indices: 86499168--86499211 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
86499158 CAACAATGAC
86499168 ATAACTCAAAATCATCATCAA
1 ATAACTCAAAATCATCATCAA
**
86499189 ATAACTCAATCTCATCATCAA
1 ATAACTCAAAATCATCATCAA
86499210 AT
1 AT
86499212 TCTAAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAACTCAAAATCATCATCAA
Found at i:86500638 original size:45 final size:45
Alignment explanation
Indices: 86500589--86500737 Score: 176
Period size: 45 Copynumber: 3.3 Consensus size: 45
86500579 TTCAGCCACA
* *
86500589 GTCTTATTTATTTTCGACATGATGCCATAGTGCCTTTCAACTATG
1 GTCTTATTCATTTTCGACATGATGCCATAGTGTCTTTCAACTATG
* * * *
86500634 GTCTTATTCATTTCCGTCATGTTGCCATAGTGTCTTTCAAGTATG
1 GTCTTATTCATTTTCGACATGATGCCATAGTGTCTTTCAACTATG
* * *
86500679 GTCCTATTCA-TTTCAGATAT-AGTGTCATAGTGTCTTTCAACTATG
1 GTCTTATTCATTTTC-GACATGA-TGCCATAGTGTCTTTCAACTATG
*
86500724 GTCTTTTTCATTTT
1 GTCTTATTCATTTT
86500738 TCAAGACAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
44 3 0.03
45 80 0.93
46 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (45 bp):
GTCTTATTCATTTTCGACATGATGCCATAGTGTCTTTCAACTATG
Found at i:86503517 original size:45 final size:45
Alignment explanation
Indices: 86503450--86503666 Score: 300
Period size: 45 Copynumber: 4.9 Consensus size: 45
86503440 CACACAGTAT
*
86503450 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
86503495 TATTCGGGCCTTTGAGCTTAGCAAGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
86503540 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
86503585 TATTCAGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* *
86503630 TA-TCGGG--TTTAAAACCTAGCAGGCTA-AATGCCGGTGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
86503667 TTTGATAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
42 14 0.09
43 14 0.09
44 4 0.03
45 125 0.79
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:86506272 original size:21 final size:21
Alignment explanation
Indices: 86506247--86506305 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
86506237 TATAATGAGT
*
86506247 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
86506268 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
86506289 ATATCATGT-CATATCAT
1 ATATCATGTGCATATCAT
86506306 GTATATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:86506291 original size:10 final size:10
Alignment explanation
Indices: 86506247--86506313 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
86506237 TATAATGAGT
86506247 ATATCATGTGC
1 ATATCATGT-C
* **
86506258 ATCTCATAAC
1 ATATCATGTC
86506268 ATATCATGTGC
1 ATATCATGT-C
86506279 ATATCATGTC
1 ATATCATGTC
86506289 ATATCATGTC
1 ATATCATGTC
86506299 ATATCATGT-
1 ATATCATGTC
86506308 ATATCA
1 ATATCA
86506314 AAATCTCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.55
11 16 0.33
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (10 bp):
ATATCATGTC
Found at i:86514032 original size:11 final size:11
Alignment explanation
Indices: 86513983--86514047 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
86513973 ACCCAACCCA
*
86513983 TGCATATAATG
1 TGCATATCATG
* *
86513994 AGTATATCATG
1 TGCATATCATG
* *
86514005 TGCATCTCATAA
1 TGCATATCAT-G
86514017 T--ATATCATG
1 TGCATATCATG
86514026 TGCATATCATG
1 TGCATATCATG
86514037 T-CATATCATG
1 TGCATATCATG
86514047 T
1 T
86514048 ATATCAAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
9 1 0.02
10 16 0.38
11 24 0.57
12 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (11 bp):
TGCATATCATG
Found at i:86514041 original size:10 final size:10
Alignment explanation
Indices: 86514018--86514053 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
86514008 ATCTCATAAT
86514018 ATATCATGTGC
1 ATATCATGT-C
86514029 ATATCATGTC
1 ATATCATGTC
86514039 ATATCATGT-
1 ATATCATGTC
86514048 ATATCA
1 ATATCA
86514054 AAATCTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.24
10 10 0.40
11 9 0.36
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (10 bp):
ATATCATGTC
Found at i:86514047 original size:21 final size:21
Alignment explanation
Indices: 86513996--86514035 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
86513986 ATATAATGAG
*
86513996 TATATCATGTGCATCTCATAA
1 TATATCATGTGCATATCATAA
86514017 TATATCATGTGCATATCAT
1 TATATCATGTGCATATCAT
86514036 GTCATATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
TATATCATGTGCATATCATAA
Found at i:86521128 original size:45 final size:45
Alignment explanation
Indices: 86521064--86521193 Score: 224
Period size: 45 Copynumber: 2.9 Consensus size: 45
86521054 CGCACAGTAT
*
86521064 TATTCGGGCCTTTGAGCCTAGCAGGCTATATTGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
86521109 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
86521154 TATTCAGGCCTTTAAGCCTAGCAGGCTATAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
86521194 AATGATATCG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:86525455 original size:27 final size:27
Alignment explanation
Indices: 86525416--86525516 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 27
86525406 CATTATCGCA
**
86525416 GCAAAGCTTCCAGTAACAGTAAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* *
86525443 GCAAAGCCACCAGTATCAGTATATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* *
86525470 GCAAAGCCACCGGTAACAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
*
86525497 GCAGAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
86525517 CTTCCTCCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
26 6 0.09
27 58 0.91
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAAATGTG
Found at i:86528432 original size:26 final size:26
Alignment explanation
Indices: 86528403--86528628 Score: 106
Period size: 26 Copynumber: 9.1 Consensus size: 26
86528393 TCCTCTCTCA
86528403 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
**
86528429 AGCCAT-TAATTGGGAAGCTCACAAAG
1 AGCCATATAA-CAGGAAGCTCACAAAG
* * *
86528455 AGCC-TAT--CAGAAAGCTTATC--CG
1 AGCCATATAACAGGAAGCTCA-CAAAG
* * *
86528477 GGCTATATAACAGGAAGCTCA-TAAG
1 AGCCATATAACAGGAAGCTCACAAAG
* * *
86528502 AGCCATA-ATCAGAAAGTTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
* * *
86528527 A--AATTTTATTCAGGAAGCTCACAAAG
1 AGCCA-TATA-ACAGGAAGCTCACAAAG
* * *
86528553 AGCC-TTTAATCAGG-AGCTC-CGAAT
1 AGCCATATAA-CAGGAAGCTCACAAAG
* * **
86528577 AGCCATATATCAGGAAGTTCA-AGCG
1 AGCCATATAACAGGAAGCTCACAAAG
86528602 AGCCATAT--CAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
86528626 AGC
1 AGC
86528629 TGCAGTAGTC
Statistics
Matches: 145, Mismatches: 36, Indels: 40
0.66 0.16 0.18
Matches are distributed among these distances:
22 3 0.02
23 21 0.14
24 28 0.19
25 44 0.30
26 49 0.34
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (26 bp):
AGCCATATAACAGGAAGCTCACAAAG
Found at i:86530722 original size:74 final size:75
Alignment explanation
Indices: 86530625--86530784 Score: 214
Period size: 74 Copynumber: 2.1 Consensus size: 75
86530615 CATAAATTAA
* *
86530625 AAAAGAAAATTAGGATTATTCCCTTACTAATAAAGAAGGAAAATGAAAAGTCAAAAAAAAGAATT
1 AAAAGAATA-TAGGATTATTCCCTTACTAATAAACAAGGAAAATGAAAAGTCAAAAAAAAGAATT
86530690 ATATT-ATTCC
65 ATATTCATTCC
* * * * *
86530700 AAAAGAATATAGGATTATTCCCTTATTAATAAACAATGTAAATGAACAGTTAAAAAAAAGAATTA
1 AAAAGAATATAGGATTATTCCCTTACTAATAAACAAGGAAAATGAAAAGTCAAAAAAAAGAATTA
* * *
86530765 TTTTCTTTTC
66 TATTCATTCC
86530775 AAAAGAATAT
1 AAAAGAATAT
86530785 TAATTTCCAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 53 0.72
75 21 0.28
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (75 bp):
AAAAGAATATAGGATTATTCCCTTACTAATAAACAAGGAAAATGAAAAGTCAAAAAAAAGAATTA
TATTCATTCC
Found at i:86530932 original size:132 final size:135
Alignment explanation
Indices: 86530760--86531037 Score: 373
Period size: 138 Copynumber: 2.1 Consensus size: 135
86530750 TAAAAAAAAG
* * ** ***
86530760 AATTATTTTCTTTTCAAAAGAATATTAATTTCCATATCTTTTATATTTT-TTCGA-ATTTATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGATACCAATTAA
* *
86530823 TATAA-TTATATTAATAAATTTGAAAAAATATATACAATTAATATTTTGTATGCATCAAATTCAT
66 TATAATTTATATTAATAAATTCGAAAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
86530887 ATATT
131 ATATT
* * *
86530892 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGATACCAATTCA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGATACCAATTAA
** *
86530957 TATAATTGTTTATATTAATAAATTCGGTAAAATATATTCAATTAATATTTTGTATGAATCAAATT
66 TATAA---TTTATATTAATAAATTCGAAAAAATATATACAATTAATATTTTGTATGAATCAAATT
86531022 CATATATT
128 CATATATT
86531030 AATTATAT
1 AATTATAT
86531038 CTATGTTCTC
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
132 45 0.36
133 3 0.02
134 10 0.08
138 67 0.54
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (135 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGATACCAATTAA
TATAATTTATATTAATAAATTCGAAAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATT
Found at i:86532250 original size:2 final size:2
Alignment explanation
Indices: 86532245--86532270 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86532235 CATATATATA
86532245 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
86532271 GATGAGTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:86535271 original size:19 final size:19
Alignment explanation
Indices: 86535247--86535284 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
86535237 AAATTGAATA
86535247 GACTTAGGTGAGCAAACAT
1 GACTTAGGTGAGCAAACAT
86535266 GACTTAGGTGAGCAAACAT
1 GACTTAGGTGAGCAAACAT
86535285 CGCCCCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
GACTTAGGTGAGCAAACAT
Found at i:86538441 original size:41 final size:40
Alignment explanation
Indices: 86538352--86538514 Score: 143
Period size: 41 Copynumber: 4.0 Consensus size: 40
86538342 TTAAACAGAT
** * * * *
86538352 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAG
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATT-AC
* *
86538392 TACCCCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA-
1 T-CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTG-AAT-TAC
*
86538434 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
* * *
86538474 TTCACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTAC
1 -TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
86538515 ATTCAATCAC
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.02
40 6 0.06
41 88 0.85
42 3 0.03
43 3 0.03
44 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAATTAC
Found at i:86556442 original size:20 final size:19
Alignment explanation
Indices: 86556394--86556444 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
86556384 ACAGATAAAC
86556394 ATTAAATTAA-AATTTAAT
1 ATTAAATTAATAATTTAAT
*
86556412 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-AATTTAAT
86556432 ATTAAATTAATAA
1 ATTAAATTAATAA
86556445 AATATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 16 0.59
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:86557168 original size:24 final size:24
Alignment explanation
Indices: 86557136--86557183 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
86557126 AATTAGGCTC
86557136 TAGTGATTGAAATTATGTCCAGAA
1 TAGTGATTGAAATTATGTCCAGAA
86557160 TAGTGATTGAAATTATGTCCAGAA
1 TAGTGATTGAAATTATGTCCAGAA
86557184 GCATCGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
TAGTGATTGAAATTATGTCCAGAA
Found at i:86558105 original size:15 final size:15
Alignment explanation
Indices: 86558081--86558112 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
86558071 TATGCATACA
*
86558081 AAATATAAAAGACAT
1 AAATACAAAAGACAT
86558096 AAATACAAAAGACAT
1 AAATACAAAAGACAT
86558111 AA
1 AA
86558113 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:86561016 original size:17 final size:17
Alignment explanation
Indices: 86560996--86561034 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
86560986 AGCCTTTGGT
86560996 CAATTCAAAACCTATAA
1 CAATTCAAAACCTATAA
**
86561013 CAATTGGAAACCTATAA
1 CAATTCAAAACCTATAA
86561030 CAATT
1 CAATT
86561035 GGACTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (17 bp):
CAATTCAAAACCTATAA
Found at i:86561035 original size:17 final size:17
Alignment explanation
Indices: 86561003--86561037 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
86560993 GGTCAATTCA
86561003 AAACCTATAACAATTGG
1 AAACCTATAACAATTGG
86561020 AAACCTATAACAATTGG
1 AAACCTATAACAATTGG
86561037 A
1 A
86561038 CTTTTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (17 bp):
AAACCTATAACAATTGG
Found at i:86571769 original size:6 final size:6
Alignment explanation
Indices: 86571709--86571767 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
86571699 ACTTGAAGAT
* * *
86571709 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA AATGGT GATGGT
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
*
86571757 GATGGT GATGG
1 GATGGA GATGG
86571768 TGCACTGGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (6 bp):
GATGGA
Found at i:86571946 original size:76 final size:76
Alignment explanation
Indices: 86571820--86571975 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
86571810 AGTCTTCCAG
86571820 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
1 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
86571885 AACACGAAAGA
66 AACACGAAAGA
86571896 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
1 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
86571961 AACACGAAAGA
66 AACACGAAAGA
86571972 AAAC
1 AAAC
86571976 AACAAAACAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (76 bp):
AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
AACACGAAAGA
Found at i:86572544 original size:27 final size:27
Alignment explanation
Indices: 86572506--86572561 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
86572496 CAATATTAAC
86572506 AATATTACATAACTAATCATTTTATAT
1 AATATTACATAACTAATCATTTTATAT
86572533 AATATTACATAACTAATCATTTTATAT
1 AATATTACATAACTAATCATTTTATAT
86572560 AA
1 AA
86572562 CAAGTAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (27 bp):
AATATTACATAACTAATCATTTTATAT
Found at i:86575537 original size:31 final size:30
Alignment explanation
Indices: 86575462--86575538 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
86575452 ATTACATTAG
*
86575462 TAGTCACCTAACTATTAGTAAATTTCATTTT
1 TAGTCACC-AACTATTAGTAAATATCATTTT
* * * *
86575493 TGGTTACTTAACTATTAGTAAATATCCTTTT
1 TAGTCAC-CAACTATTAGTAAATATCATTTT
86575524 TAGTCATCCAACTAT
1 TAGTCA-CCAACTAT
86575539 AAAAATTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (30 bp):
TAGTCACCAACTATTAGTAAATATCATTTT
Found at i:86578107 original size:31 final size:31
Alignment explanation
Indices: 86578069--86578128 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
86578059 GGTAACCAAA
86578069 AAAGCAACCGCTACTGCCAATGGAGCGTAGC
1 AAAGCAACCGCTACTGCCAATGGAGCGTAGC
86578100 AAAGCAACCGCTACTGCCAATGGAGCGTA
1 AAAGCAACCGCTACTGCCAATGGAGCGTA
86578129 TTTCCTCACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.13
Consensus pattern (31 bp):
AAAGCAACCGCTACTGCCAATGGAGCGTAGC
Found at i:86579698 original size:19 final size:20
Alignment explanation
Indices: 86579674--86579712 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
86579664 TCTTATTTTT
86579674 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
86579693 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
86579713 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:86579730 original size:25 final size:23
Alignment explanation
Indices: 86579674--86579738 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
86579664 TCTTATTTTT
*
86579674 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
86579693 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
86579716 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
86579739 GTTTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:86582381 original size:13 final size:12
Alignment explanation
Indices: 86582358--86582420 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
86582348 AGTAATTTTA
86582358 TATTAAAATTAT
1 TATTAAAATTAT
86582370 TATT-AAA-TAT
1 TATTAAAATTAT
86582380 TATTAATAATTA-
1 TATTAA-AATTAT
*
86582392 TATTAAGAA-TGT
1 TATTAA-AATTAT
86582404 TATT-AAATTAT
1 TATTAAAATTAT
86582415 ATATTA
1 -TATTA
86582421 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:86582385 original size:22 final size:23
Alignment explanation
Indices: 86582358--86582420 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
86582348 AGTAATTTTA
86582358 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
86582380 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
86582404 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
86582421 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:86582528 original size:25 final size:26
Alignment explanation
Indices: 86582479--86582529 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
86582469 TATTTTATTT
*
86582479 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
86582505 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
86582530 ATCTACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:86582653 original size:44 final size:46
Alignment explanation
Indices: 86582602--86582694 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
86582592 TACAACATTT
*
86582602 ATTCCATTCAATCAAACACA-AGAATT-CT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCC
* * *
86582646 ATTCCATTCAACCAAACAATTGAATTATTGATTACAGTTCTATTCC
1 ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
86582692 ATT
1 ATT
86582695 ACAGTGAACG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.52
45 1 0.02
46 18 0.43
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
Found at i:86584252 original size:3 final size:3
Alignment explanation
Indices: 86584228--86584369 Score: 97
Period size: 3 Copynumber: 46.3 Consensus size: 3
86584218 TGGATTGCTA
* * * * *
86584228 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * * *
86584274 GTT ATT ATT CTT ACT ATT ATT ATT ATC GTT ACT ATT TTT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
86584322 ATT -TAT ATAT ATT ATT ATT ACT ATT ATT TTT CACT ATT ATT ATT ATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
86584369 A
1 A
86584370 GAATTAAGTG
Statistics
Matches: 103, Mismatches: 32, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
2 1 0.01
3 93 0.90
4 9 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:86584340 original size:25 final size:28
Alignment explanation
Indices: 86584245--86584369 Score: 112
Period size: 28 Copynumber: 4.5 Consensus size: 28
86584235 TTATCATTGT
* * * *
86584245 TATTATTATTCTTACTATTATATATTAT
1 TATTATTATTATTACTATTATTTATCAC
* * **
86584273 TGTTATTATTCTTACTATTATTATTATCGT
1 TATTATTATTATTACTATTA-T-TTATCAC
* *
86584303 TACTATTTTTATTACTATTATTTAT-A-
1 TATTATTATTATTACTATTATTTATCAC
*
86584329 TA-TATTATTATTACTATTATTTTTCAC
1 TATTATTATTATTACTATTATTTATCAC
86584356 TATTATTATTATTA
1 TATTATTATTATTA
86584370 GAATTAAGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
25 20 0.25
26 3 0.04
27 2 0.02
28 34 0.42
29 2 0.02
30 20 0.25
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTATTATTATTACTATTATTTATCAC
Found at i:86584695 original size:11 final size:12
Alignment explanation
Indices: 86584679--86584709 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
86584669 TTGTGTGTTC
86584679 TTTATTTTA-TT
1 TTTATTTTATTT
86584690 TTTATTTTATTT
1 TTTATTTTATTT
86584702 TTTATTTT
1 TTTATTTT
86584710 CACAAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:86588833 original size:14 final size:14
Alignment explanation
Indices: 86588814--86588840 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
86588804 GTTCTTTATT
86588814 TTATTTTTATTTTA
1 TTATTTTTATTTTA
86588828 TTATTTTTATTTT
1 TTATTTTTATTTT
86588841 CACAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:86589918 original size:46 final size:47
Alignment explanation
Indices: 86589853--86589992 Score: 178
Period size: 46 Copynumber: 3.0 Consensus size: 47
86589843 TTATCTTTGA
* * * * *
86589853 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
*
86589899 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
* * *
86589945 CACGTTGCCATGGCATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
86589991 CA
1 CA
86589993 GAGAGCACAC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 4 0.05
46 79 0.95
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
Found at i:86603889 original size:88 final size:88
Alignment explanation
Indices: 86603735--86604149 Score: 611
Period size: 88 Copynumber: 4.7 Consensus size: 88
86603725 AATCTCCACT
* * *
86603735 AGCCTTAACCCCCTAAGTAGTAGGGCAACATGCTG-GGAATTACAGATCTTATCTCCCTAAGTAG
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAG-ATTACAGATCTTATCTCCCTAAGCAG
* *
86603799 TAGTGGAATAGATCGAAGACGGTG
65 TAGTGGAGTAGATCGAAGACAGTG
* * **
86603823 AGCCTTAAACCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATATTATCTCTTTAAGCAGT
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGT
86603888 AGTGGAGTAGATCGAAGAC-GATG
66 AGTGGAGTAGATCGAAGACAG-TG
* * *
86603911 AGCCTTAACCCCTTAAGCAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGTAGT
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGT
* *
86603976 AGTGGAGCAGATCGAAGACAGTA
66 AGTGGAGTAGATCGAAGACAGTG
* * *
86603999 AGCCTTAACCCCCTAAGTAGTAGGGAAACATGCTGGAA-ATTACAGATCTTATCTCTCTAAGCAG
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGCAG
86604063 TAGTGGAGTAGATCGAAGACAGTG
65 TAGTGGAGTAGATCGAAGACAGTG
* *
86604087 AGCCTTAACCCCCTAAGCAGTAGGGCAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGCA
1 AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCA
86604150 ACTGTAACAC
Statistics
Matches: 293, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
87 4 0.01
88 284 0.97
89 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGTAGTAGGGCAACAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGTAGATCGAAGACAGTG
Found at i:86603977 original size:44 final size:43
Alignment explanation
Indices: 86603745--86604147 Score: 157
Period size: 44 Copynumber: 9.2 Consensus size: 43
86603735 AGCCTTAACC
* *
86603745 CCCTAAGTAGTAGGGCAACATGCTGGGA-ATTACAGATCTTATCT
1 CCCTAAGTAGTAGGG-AACA-GCTCGAAGATTACAGATCTTATCT
* * * * * *
86603789 CCCTAAGTAGTAGTGGAATAGATCGAAGACGGT-GAG-CCTTAAAC-
1 CCCTAAGTAGTAG-GGAACAGCTCGAAGA--TTACAGATCTT-ATCT
*
86603833 CCCTAAGTAGTAGGGCAACAGGCT-GAAGATTACAGATATTATCT
1 CCCTAAGTAGTAGGG-AACA-GCTCGAAGATTACAGATCTTATCT
** * ** * ** * * *
86603877 CTTTAAGCAGTAGTGGAGTAGATCGAAGACGA-TGAGCCTTAAC-
1 CCCTAAGTAGTAG-GGAACAGCTCGAAGATTACAGA-TCTTATCT
*
86603920 CCCTTAAGCAGTAGGGCAACAGGCT-GAAGATTACAGATCTTATCT
1 CCC-TAAGTAGTAGGG-AACA-GCTCGAAGATTACAGATCTTATCT
* * * * * *
86603965 CCCTAAGTAGTAGTGGAGCAGATCGAAGACAGTA-AG-CCTTAACC
1 CCCTAAGTAGTAG-GGAACAGCTCGAAG--ATTACAGATCTTATCT
*
86604009 CCCTAAGTAGTAGGGAAACATGCTGGAA-ATTACAGATCTTATCT
1 CCCTAAGTAGTAGGG-AACA-GCTCGAAGATTACAGATCTTATCT
* * ** * * ** * * *
86604053 CTCTAAGCAGTAGTGGAGTAGATCGAAGA-CAGTGAGCCTTAACC
1 CCCTAAGTAGTAG-GGAACAGCTCGAAGATTACAGA-TCTTATCT
*
86604097 CCCTAAGCAGTAGGGCAACAAGCT-GAAGATTACAGATCTTATCT
1 CCCTAAGTAGTAGGG-AAC-AGCTCGAAGATTACAGATCTTATCT
86604141 CCCTAAG
1 CCCTAAG
86604148 CAACTGTAAC
Statistics
Matches: 254, Mismatches: 73, Indels: 64
0.65 0.19 0.16
Matches are distributed among these distances:
42 4 0.02
43 33 0.13
44 179 0.70
45 34 0.13
46 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (43 bp):
CCCTAAGTAGTAGGGAACAGCTCGAAGATTACAGATCTTATCT
Found at i:86605008 original size:46 final size:46
Alignment explanation
Indices: 86604909--86605064 Score: 170
Period size: 47 Copynumber: 3.3 Consensus size: 46
86604899 CAAGATCAGC
* *
86604909 TATGGTCTTACACGTAATCACATATCACATA-TCGATGCCATAGCCCAGC
1 TATGGTCTTACACG-AATCACATAT--CATACT-GATGCCATATCCCAGA
*
86604958 TATGGTCTTACACGAATCACATATCTTACTGATGCCATATCCCAGA
1 TATGGTCTTACACGAATCACATATCATACTGATGCCATATCCCAGA
* * * * * **
86605004 TATGGTCTTATACAGTAGCATATATCACACCAATGCCATATCCCAGA
1 TATGGTCTTACAC-GAATCACATATCATACTGATGCCATATCCCAGA
86605051 TATGGTCTTACACG
1 TATGGTCTTACACG
86605065 GAAATCACTT
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
46 30 0.32
47 39 0.42
48 10 0.11
49 14 0.15
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (46 bp):
TATGGTCTTACACGAATCACATATCATACTGATGCCATATCCCAGA
Found at i:86605132 original size:31 final size:31
Alignment explanation
Indices: 86605089--86605267 Score: 261
Period size: 31 Copynumber: 5.8 Consensus size: 31
86605079 CTTGTCACTT
* * *
86605089 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
86605120 GTAGCTGGAGCTACCATTTTTCACTGATCA-
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
86605150 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
86605181 GTAGCCGGAACTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
86605212 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
86605243 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
86605268 TGTCATTTGT
Statistics
Matches: 135, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 28 0.21
31 107 0.79
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:86605184 original size:61 final size:62
Alignment explanation
Indices: 86605089--86605267 Score: 279
Period size: 61 Copynumber: 2.9 Consensus size: 62
86605079 CTTGTCACTT
* * *
86605089 GTAGCCGAAGCTACCACTATTCATTGATCAGGTAGCTGGAGCTACCATTTTTCACTGATCA-
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
* * *
86605150 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCCGGAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
* *
86605212 GTAGCAGAAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACT
86605268 TGTCATTTGT
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 55 0.52
62 51 0.48
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGGAGCTACCACTTTTCACTGATCAG
Found at i:86605349 original size:50 final size:51
Alignment explanation
Indices: 86605243--86605371 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
86605233 CACTGATCAG
* * *
86605243 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
86605294 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
86605344 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
86605372 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:86607532 original size:88 final size:88
Alignment explanation
Indices: 86607379--86607750 Score: 482
Period size: 88 Copynumber: 4.2 Consensus size: 88
86607369 TTACAACAGC
* * *
86607379 AGTGGAGCAGATTGAAGACGGTGAGCCTTAACGCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
86607444 CAGATCTTATC-CCCTTAAGCAGT
66 CAGATCTTATCTCCC-TAAGCAGT
* *
86607467 AGTGGAGCAGATAGAAGACAGTGAGCCTTAACCCCCTAAGCAATAAGGCAACAGGCT-GAAGATT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAA-ATT
* *
86607531 ACAGATCTTATCTCCCTAAGAAAAT
65 ACAGATCTTATCTCCCTAAG-CAGT
* * * *
86607556 AGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAAGTAGTAGGGCAACAGGCT-GAAAGTT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAA-TT
* **
86607620 ACAGATCTGATCTCCCTAATTAGT
65 ACAGATCTTATCTCCCTAAGCAGT
* * * * * *
86607644 AGTGGAGCAGATCGAAGACAATAAACTTTAACCCCCTAAGTAGT-GGGACAACAGGCTGGAAATT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGG-CAACAGGCTGGAAATT
*
86607708 ACAGATCCTATCTCCCTAAGCAGT
65 ACAGATCTTATCTCCCTAAGCAGT
86607732 AGTGGAGCAGATCGAAGAC
1 AGTGGAGCAGATCGAAGAC
86607751 GGTAAGCAGT
Statistics
Matches: 252, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
87 6 0.02
88 163 0.65
89 83 0.33
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (88 bp):
AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
CAGATCTTATCTCCCTAAGCAGT
Found at i:86607677 original size:177 final size:176
Alignment explanation
Indices: 86607379--86607750 Score: 482
Period size: 177 Copynumber: 2.1 Consensus size: 176
86607369 TTACAACAGC
* * * *
86607379 AGTGGAGCAGATTGAAGACGGTGAGCCTTAACGCCCTAAGCAGTAAGGCAACAGGCTGGAAATTA
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAATTA
* * * *
86607444 CAGATCTTATCCCCTTAAGCAGTAGTGGAGCAGATAGAAGACAGTGAGCCTTAACCCCCTAAGCA
66 CAGATCTGATCCCCTTAAGCAGTAGTGGAGCAGATAGAAGACAATAAACCTTAACCCCCTAAGCA
*
86607509 ATAAGG-CAACAGGCT-GAAGATTACAGATCTTATCTCCCTAAGAAAAT
131 AT-AGGACAACAGGCTGGAA-ATTACAGATCCTATCTCCCTAAG-AAAT
* * *
86607556 AGTGGAGTAGATCGAAGACAGTGAGCCTTAACCCCCCAAGTAGTAGGGCAACAGGCT-GAAAGTT
1 AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAA-TT
** * *
86607620 ACAGATCTGATCTCCC-TAATTAGTAGTGGAGCAGATCGAAGACAATAAACTTTAACCCCCTAAG
65 ACAGATCTGATC-CCCTTAAGCAGTAGTGGAGCAGATAGAAGACAATAAACCTTAACCCCCTAAG
* * * * *
86607684 TAGTGGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGCAGT
129 CAATAGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGAAAT
86607732 AGTGGAGCAGATCGAAGAC
1 AGTGGAGCAGATCGAAGAC
86607751 GGTAAGCAGT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
176 26 0.15
177 137 0.81
178 6 0.04
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (176 bp):
AGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCCAAGCAGTAAGGCAACAGGCTGGAAATTA
CAGATCTGATCCCCTTAAGCAGTAGTGGAGCAGATAGAAGACAATAAACCTTAACCCCCTAAGCA
ATAGGACAACAGGCTGGAAATTACAGATCCTATCTCCCTAAGAAAT
Found at i:86609369 original size:3 final size:3
Alignment explanation
Indices: 86609345--86609511 Score: 97
Period size: 3 Copynumber: 54.7 Consensus size: 3
86609335 TGGATTGCTA
* * * * *
86609345 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * *
86609391 GTT ATT ATT CTT ACT ATT ATAT GTT ATT ATT ATT ATCG A-T ACT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
86609437 TTT ATT ACT ATT ATT -TAT ATAC ATT ATT ATT ATT ACT ATT ATT TTT
1 ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* *
86609483 CATT ATT ATT ATT -TT ACT ATT ATT TTT AT
1 -ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
86609512 ATACTATAGT
Statistics
Matches: 121, Mismatches: 35, Indels: 16
0.70 0.20 0.09
Matches are distributed among these distances:
2 4 0.03
3 105 0.87
4 12 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:86609403 original size:28 final size:28
Alignment explanation
Indices: 86609361--86609506 Score: 119
Period size: 28 Copynumber: 5.4 Consensus size: 28
86609351 ATTATCATTG
86609361 TTATTATTATTCTTACTATTATATATTA
1 TTATTATTATTCTTACTATTATATATTA
* *
86609389 TTGTTATTATTCTTACTATTATATGTTA
1 TTATTATTATTCTTACTATTATATATTA
* *
86609417 TTATTATTA-TCGATACTATT-TTTATTA
1 TTATTATTATTC-TTACTATTATATATTA
* *
86609444 CTATTATT-TAT-ATAC-ATTAT-TATTA
1 TTATTATTAT-TCTTACTATTATATATTA
* * *
86609469 TTACTATTATTTTTCATTATTAT-TATT-
1 TTATTATTATTCTT-ACTATTATATATTA
*
86609496 TTACTATTATT
1 TTATTATTATT
86609507 TTTATATACT
Statistics
Matches: 99, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
25 15 0.15
26 7 0.07
27 26 0.26
28 51 0.52
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATTATTCTTACTATTATATATTA
Found at i:86609422 original size:68 final size:68
Alignment explanation
Indices: 86609350--86609506 Score: 176
Period size: 68 Copynumber: 2.3 Consensus size: 68
86609340 TGCTAATTAA
* * * ** *
86609350 TATTATCATTGTTATTATTATTCTTACTATTATATAT-TATTGTTATTATTCTTACTATTATATG
1 TATTATTATTGTTACTATTATTATTACTATTATATATATA-CATTATTATTATTACTATTAT-TG
86609414 TT-AT
64 TTCAT
* * * * *
86609418 TATTATTATCGATACTATTTTTATTACTATTATTTATATACATTATTATTATTACTATTATTTTT
1 TATTATTATTGTTACTATTATTATTACTATTATATATATACATTATTATTATTACTATTATTGTT
86609483 CAT
66 CAT
86609486 TATTATTATT-TTACTATTATT
1 TATTATTATTGTTACTATTATT
86609507 TTTATATACT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
67 12 0.16
68 59 0.81
69 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (68 bp):
TATTATTATTGTTACTATTATTATTACTATTATATATATACATTATTATTATTACTATTATTGTT
CAT
Found at i:86609462 original size:13 final size:13
Alignment explanation
Indices: 86609430--86609507 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 13
86609420 TTATTATCGA
86609430 TACTATT-TTTAT
1 TACTATTATTTAT
86609442 TACTATTATTTAT
1 TACTATTATTTAT
86609455 ATAC-ATTATTATTAT
1 -TACTATTA-T-TTAT
86609470 TACTATTATTT-T
1 TACTATTATTTAT
* *
86609482 TCATTATTATTATTT
1 T-ACTATTATT-TAT
86609497 TACTATTATTT
1 TACTATTATTT
86609508 TTATATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
12 9 0.16
13 20 0.36
14 17 0.30
15 10 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (13 bp):
TACTATTATTTAT
Found at i:86610769 original size:26 final size:26
Alignment explanation
Indices: 86610739--86610797 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
86610729 CAAAAATCAT
* *
86610739 ATTAAGAGAAATTATTTTATTAAAAG
1 ATTAAAAGAAACTATTTTATTAAAAG
**
86610765 ATTAAAATTAACTATTTTATTAAAAG
1 ATTAAAAGAAACTATTTTATTAAAAG
*
86610791 ATCAAAA
1 ATTAAAA
86610798 TTTTTAGGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (26 bp):
ATTAAAAGAAACTATTTTATTAAAAG
Found at i:86614865 original size:12 final size:12
Alignment explanation
Indices: 86614837--86614875 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
86614827 AGATTTAAAT
86614837 AATAAATATATCAA
1 AATAAATAT-TC-A
*
86614851 AATTAATATTCA
1 AATAAATATTCA
86614863 AATAAATATTCA
1 AATAAATATTCA
86614875 A
1 A
86614876 TCTGTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 2 0.09
14 8 0.35
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATATTCA
Found at i:86617308 original size:13 final size:14
Alignment explanation
Indices: 86617285--86617313 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
86617275 AAGTTACAGT
86617285 AAGAGAAAAAAGAA
1 AAGAGAAAAAAGAA
86617299 AAGA-AAAAAAGAA
1 AAGAGAAAAAAGAA
86617312 AA
1 AA
86617314 CAATGGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAAAGAA
Found at i:86625369 original size:2 final size:2
Alignment explanation
Indices: 86625362--86625388 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
86625352 AATCTTAAGG
86625362 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
86625389 CACAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86640614 original size:3 final size:3
Alignment explanation
Indices: 86640606--86640658 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
86640596 TTTCTAAGTT
86640606 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
86640654 TTC TT
1 TTC TT
86640659 TGTTTGTCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:86641286 original size:25 final size:24
Alignment explanation
Indices: 86641240--86641287 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
86641230 AAGTTATAAA
86641240 TAAAAAATATCTCTAGAAAATTTC
1 TAAAAAATATCTCTAGAAAATTTC
* * *
86641264 TAAAATAATTTCTTTAGAGAATTT
1 TAAAA-AATATCTCTAGAAAATTT
86641288 TCTCTCTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAAAAATATCTCTAGAAAATTTC
Found at i:86642335 original size:45 final size:45
Alignment explanation
Indices: 86642271--86642362 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
86642261 GGATTCAATC
86642271 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
1 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
86642316 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
1 CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
86642361 CA
1 CA
86642363 AAAGCAATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.35
Consensus pattern (45 bp):
CACATGAAGTATCATGATTGAAAACTCCCTATTGTATACTCTTTA
Found at i:86647625 original size:22 final size:20
Alignment explanation
Indices: 86647593--86647633 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
86647583 AAATGATCTC
86647593 TTAAATATAAGAACATGAAT
1 TTAAATATAAGAACATGAAT
*
86647613 TTAAAGTATTAAGAGCATGAA
1 TTAAA-TA-TAAGAACATGAA
86647634 AGTCACTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (20 bp):
TTAAATATAAGAACATGAAT
Found at i:86647678 original size:26 final size:26
Alignment explanation
Indices: 86647644--86647695 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
86647634 AGTCACTATT
86647644 TTACATCAAATAATCATCTAAAAATA
1 TTACATCAAATAATCATCTAAAAATA
86647670 TTACATCAAATAATCATCTAAAAATA
1 TTACATCAAATAATCATCTAAAAATA
86647696 CTTTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (26 bp):
TTACATCAAATAATCATCTAAAAATA
Found at i:86654714 original size:31 final size:31
Alignment explanation
Indices: 86654678--86654736 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
86654668 TCGTGCTTTT
86654678 TAGGATTATGAGAATTGATTTTAATGTATTG
1 TAGGATTATGAGAATTGATTTTAATGTATTG
86654709 TAGGATTATGAGAATTGATTTTAATGTA
1 TAGGATTATGAGAATTGATTTTAATGTA
86654737 ATGTTAATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (31 bp):
TAGGATTATGAGAATTGATTTTAATGTATTG
Found at i:86666688 original size:13 final size:13
Alignment explanation
Indices: 86666670--86666696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
86666660 ATTAATTATT
86666670 ATAAAAAATAAAA
1 ATAAAAAATAAAA
86666683 ATAAAAAATAAAA
1 ATAAAAAATAAAA
86666696 A
1 A
86666697 AACATGGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:86667305 original size:24 final size:25
Alignment explanation
Indices: 86667277--86667323 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
86667267 ATATTCGTAA
*
86667277 TTAAATTAAAA-TTAATCTTATTCT
1 TTAAATTAAAATTTAATATTATTCT
86667301 TTAAATTAAAATTTAATATTATT
1 TTAAATTAAAATTTAATATTATT
86667324 TTGATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (25 bp):
TTAAATTAAAATTTAATATTATTCT
Found at i:86676704 original size:22 final size:22
Alignment explanation
Indices: 86676679--86676726 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
86676669 GTGTAAGGTG
86676679 ATAATA-ATATACAAATGAAATA
1 ATAATATATATACAAATGAAA-A
* *
86676701 ATAATATCTATACAATTGAAAA
1 ATAATATATATACAAATGAAAA
86676723 ATAA
1 ATAA
86676727 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAATATATATACAAATGAAAA
Found at i:86683113 original size:12 final size:12
Alignment explanation
Indices: 86683096--86683120 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
86683086 CCCAACTCTC
86683096 CCTAAAATCACT
1 CCTAAAATCACT
86683108 CCTAAAATCACT
1 CCTAAAATCACT
86683120 C
1 C
86683121 AACCAAATCC
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:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (12 bp):
CCTAAAATCACT
Found at i:86685118 original size:24 final size:24
Alignment explanation
Indices: 86685091--86685158 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
86685081 TACAAAGTAG
86685091 TTTAAACTACATGATATATGAA-AA
1 TTTAAACTACATGATATAT-AAGAA
* * *
86685115 TTTAAAGTCCATGATATGTAAGAA
1 TTTAAACTACATGATATATAAGAA
* * *
86685139 TTTAAAATAAATAATATATA
1 TTTAAACTACATGATATATA
86685159 CATAAAAACG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (24 bp):
TTTAAACTACATGATATATAAGAA
Found at i:86687121 original size:25 final size:27
Alignment explanation
Indices: 86687080--86687129 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
86687070 TAGTCCTAAT
86687080 TAGTTTAAGATTAAATTGAAAATAAAC
1 TAGTTTAAGATTAAATTGAAAATAAAC
*
86687107 TAGTTT-AG-TTAAATTTAAAATAA
1 TAGTTTAAGATTAAATTGAAAATAA
86687130 TTGAAGAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 2 0.09
27 6 0.27
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (27 bp):
TAGTTTAAGATTAAATTGAAAATAAAC
Found at i:86698762 original size:35 final size:34
Alignment explanation
Indices: 86698716--86698852 Score: 132
Period size: 35 Copynumber: 3.9 Consensus size: 34
86698706 GTCAAATGCG
* *
86698716 ACCTTACAAAGGTTGAGATAGACCTTTTTAAGGCA
1 ACCTTAAAAAGGTTGAGATAGACC-GTTTAAGGCA
* * *
86698751 ACCTTAAAAAGGTT-AGGATAAACCCGTATAAGTCA
1 ACCTTAAAAAGGTTGA-GATAGA-CCGTTTAAGGCA
* * *
86698786 ACCTTAAAAATGTTGGGATAGACACGTCTAAGGCA
1 ACCTTAAAAAGGTTGAGATAGAC-CGTTTAAGGCA
* * *
86698821 ACCTTAAAAATGTTGGGATAGACCATTTAAGG
1 ACCTTAAAAAGGTTGAGATAGACCGTTTAAGG
86698853 GAAAAAAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
34 9 0.10
35 75 0.87
36 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (34 bp):
ACCTTAAAAAGGTTGAGATAGACCGTTTAAGGCA
Found at i:86717503 original size:40 final size:39
Alignment explanation
Indices: 86717440--86717525 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
86717430 TAACGACTTA
**
86717440 TCGGCTAAAATGACACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGACACTTAGTGTGCAATTTGAAATAGCT
* * * *
86717479 TCGGTTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGACACTTAGTGTGCAATTTGAAATAGCT
86717519 TCGGCTA
1 TCGGCTA
86717526 TATATATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGACACTTAGTGTGCAATTTGAAATAGCT
Found at i:86717608 original size:28 final size:29
Alignment explanation
Indices: 86717540--86717610 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
86717530 TATATAAATG
* * *
86717540 GCACTTAGTGTGC-AAAGTATCGAGAATG
1 GCACTTAGTGTGCGAAAGCATCCAGAATA
*
86717568 GCACTTAATGTGCGAAA-CATCCAGAATA
1 GCACTTAGTGTGCGAAAGCATCCAGAATA
*
86717596 GCACTTAGCGTGCGA
1 GCACTTAGTGTGCGA
86717611 GGTATCGAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 33 0.92
29 3 0.08
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (29 bp):
GCACTTAGTGTGCGAAAGCATCCAGAATA
Found at i:86722962 original size:129 final size:126
Alignment explanation
Indices: 86722774--86723103 Score: 399
Period size: 129 Copynumber: 2.6 Consensus size: 126
86722764 AAAATCCCTT
* * *
86722774 AAAACGAAGGCAATGTTTGATGTTTGGAAATTCGGAAAATTGTGTCCTACCGTGCTGGGTTTCGA
1 AAAAC-AAGGCAATGTTTGATGTTTGGAAATTCGG-GAATCGTGCCCTACCGTGCTGGGTTTCGA
* * * * * *
86722839 TTTCCCGTTTGTTCAAAATAATCGAACCTTCCTTTAGAATTTCATTGGTGTTTTTTCTAAATTCC
64 TTTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGT-ATTCTT-TAAATTCC
* * * *
86722904 AAAACAAGGCAATGTTTGATGCTTGGAAATTCAGGGAACCGTGCCCTATCGTGTTGGGTTTCGAT
1 AAAACAAGGCAATGTTTGATGTTTGGAAATTC-GGGAATCGTGCCCTACCGTGCTGGGTTTCGAT
* * *
86722969 TTCTCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCT
65 TTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCC
* ** * * *
86723031 AAAACGAGGCAATGTTCAATGTTTGGAAGTTCGAGGAATCGTGCTCTACCGTGCTGGGTTTCGGT
1 AAAACAAGGCAATGTTTGATGTTTGGAAATTCG-GGAATCGTGCCCTACCGTGCTGGGTTTCGAT
*
86723096 TTTCCGTT
65 TTCCCGTT
86723104 GGACTAAATA
Statistics
Matches: 170, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
126 1 0.01
127 66 0.39
128 4 0.02
129 92 0.54
130 7 0.04
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (126 bp):
AAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGAATCGTGCCCTACCGTGCTGGGTTTCGATT
TCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTCTTTAAATTCC
Found at i:86728240 original size:17 final size:17
Alignment explanation
Indices: 86728218--86728250 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
86728208 TTGTATAAAA
86728218 TTTCTT-TTATTGTTAAT
1 TTTCTTATTATT-TTAAT
86728235 TTTCTTATTATTTTAA
1 TTTCTTATTATTTTAA
86728251 AGGCATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTCTTATTATTTTAAT
Found at i:86728261 original size:30 final size:30
Alignment explanation
Indices: 86728227--86728289 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
86728217 ATTTCTTTTA
86728227 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
86728257 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
86728287 TTG
1 TTG
86728290 CTTCTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:86728427 original size:10 final size:11
Alignment explanation
Indices: 86728411--86728443 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
86728401 TATATATATG
86728411 TAAAAATAATA
1 TAAAAATAATA
86728422 -AAAAATAATA
1 TAAAAATAATA
86728432 TAAAAATTAATA
1 TAAAAA-TAATA
86728444 CGGGCGGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:86729984 original size:33 final size:32
Alignment explanation
Indices: 86729909--86729984 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
86729899 ATTTATATGC
*
86729909 GTAAGACCATAGATGGGTTATGACATCCTGAA
1 GTAAGACCATAGATGGGTTATGACATCATGAA
* * *
86729941 GATAATACCATAGTTGGGTTATGGCA-CTATGAA
1 G-TAAGACCATAGATGGGTTATGACATC-ATGAA
86729974 TGTAAGACCAT
1 -GTAAGACCAT
86729985 GGTAGGGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
32 2 0.06
33 33 0.92
34 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (32 bp):
GTAAGACCATAGATGGGTTATGACATCATGAA
Found at i:86733537 original size:23 final size:23
Alignment explanation
Indices: 86733484--86733596 Score: 99
Period size: 23 Copynumber: 4.9 Consensus size: 23
86733474 AAGCTCTTCA
* *
86733484 TGAGCTAATAAACAGTAGGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTC-AT
*
86733509 TGAGCTGAAAACGGTAAGCTCAT
1 TGAGCTGAAAACAGTAAGCTCAT
*
86733532 TGAGCTG--AACAGTAAGCTCTTT
1 TGAGCTGAAAACAGTAAGCTC-AT
* * *
86733554 TGAGCTG-AATCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCT-CAT
86733577 TGAGCT-AAAACAGTAAGCTC
1 TGAGCTGAAAACAGTAAGCTC
86733597 TTACTAGCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
21 11 0.15
22 9 0.12
23 34 0.47
24 12 0.16
25 7 0.10
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAAACAGTAAGCTCAT
Found at i:86733551 original size:45 final size:46
Alignment explanation
Indices: 86733470--86733597 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 46
86733460 AAGACATGGT
*
86733470 CGGTAAGCTCTTC-ATGAGCTAATAAACAGTAGGCTCTATTGAGCTGAAAA
1 CGGTAAGCTC--CAATGAGCT-A-AAACAGTAAGCTCTATTGAGCTG-AAA
* * * *
86733520 CGGTAAGCT-CATTGAGCT-GAACAGTAAGCTCTTTTGAGCTGAAT
1 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTATTGAGCTGAAA
86733564 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
1 CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCT
86733598 TACTAGCTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.16
45 28 0.41
46 13 0.19
47 1 0.01
48 6 0.09
50 9 0.13
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (46 bp):
CGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCTATTGAGCTGAAA
Found at i:86734319 original size:26 final size:26
Alignment explanation
Indices: 86734283--86734365 Score: 166
Period size: 26 Copynumber: 3.2 Consensus size: 26
86734273 TGATACAAAT
86734283 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86734309 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86734335 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86734361 TGATA
1 TGATA
86734366 GGAATTTCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:86743547 original size:24 final size:24
Alignment explanation
Indices: 86743515--86743566 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
86743505 AATCAAAGTC
* *
86743515 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
86743539 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
86743563 AAAT
1 AAAT
86743567 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:86746071 original size:23 final size:22
Alignment explanation
Indices: 86746019--86746071 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
86746009 TCCACGTCTT
*
86746019 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
86746041 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
86746064 TTTCTTTT
1 TTTCTTTT
86746072 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:86753300 original size:16 final size:16
Alignment explanation
Indices: 86753279--86753310 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
86753269 AATATGAATC
86753279 CACATTCGAAACACAT
1 CACATTCGAAACACAT
86753295 CACATTCGAAACACAT
1 CACATTCGAAACACAT
86753311 TCAGCTCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (16 bp):
CACATTCGAAACACAT
Found at i:86757616 original size:39 final size:39
Alignment explanation
Indices: 86757573--86757697 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
86757563 CTTTAACCCA
** *
86757573 GATATTTTTCCAGCACGTAGCATGCGGACCTCAAGTCCG
1 GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
* * *
86757612 GATATATTTCTAGCATATAGCATGCGGATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
*
86757651 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCG
1 GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
86757690 GATATTTT
1 GATATTTT
86757698 CAATCTCATA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCATGCGGACCTCATGTCCG
Found at i:86761318 original size:21 final size:21
Alignment explanation
Indices: 86761294--86761432 Score: 61
Period size: 21 Copynumber: 6.3 Consensus size: 21
86761284 TCTATAGTCG
86761294 TAAATCATAAACTATAAACCT
1 TAAATCATAAACTATAAACCT
* *
86761315 TAAACCCTAAA-TATTAAACCT
1 TAAATCATAAACTA-TAAACCT
* * * *
86761336 TGAATCCTAAACCATAATACCC
1 TAAATCATAAACTATAA-ACCT
86761358 TAAA-CTATAAACAGTACTAAACCTT
1 TAAATC-ATAAAC--TA-TAAACC-T
* * **
86761383 TAAACCCTTAAA-TATAGATTCT
1 TAAA-TCATAAACTATA-AACCT
*
86761405 TAAATCATAAAACTGTAAACC-
1 TAAATCAT-AAACTATAAACCT
86761426 TAAATCA
1 TAAATCA
86761433 GTAGACCTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
20 2 0.02
21 38 0.44
22 24 0.28
23 7 0.08
24 4 0.05
25 7 0.08
26 4 0.05
27 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (21 bp):
TAAATCATAAACTATAAACCT
Found at i:86761489 original size:21 final size:21
Alignment explanation
Indices: 86761455--86761511 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
86761445 TTATAAAACG
* *
86761455 TCTTAAAACTATAAATCCTAAA
1 TCTT-AAACCATAAACCCTAAA
86761477 TCTTAAACCATAAACCCTAAA
1 TCTTAAACCATAAACCCTAAA
**
86761498 TCCAAAACCATAAA
1 TCTTAAACCATAAA
86761512 ACCTTAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TCTTAAACCATAAACCCTAAA
Found at i:86765858 original size:19 final size:19
Alignment explanation
Indices: 86765834--86765933 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 19
86765824 CAATCTTATT
86765834 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTTGGA
* *
86765853 TTAATTTATTTAA-TT--A
1 TTAATTAATATAATTTGGA
* *
86765869 TTTACTTAATATAAATTGGA
1 -TTAATTAATATAATTTGGA
* *
86765889 TTAATTTATTTAAATATT--A
1 TTAATTAATAT-AAT-TTGGA
86765908 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTTGGA
86765928 TTAATT
1 TTAATT
86765934 TATTTAAATA
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
16 1 0.02
17 10 0.16
18 6 0.10
19 29 0.48
20 13 0.21
21 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (19 bp):
TTAATTAATATAATTTGGA
Found at i:86765871 original size:8 final size:9
Alignment explanation
Indices: 86765853--86765953 Score: 55
Period size: 9 Copynumber: 10.7 Consensus size: 9
86765843 ATAATTTGGA
86765853 TTAATTTAT
1 TTAATTTAT
86765862 TTAA-TTAT
1 TTAATTTAT
* *
86765870 TTACTTAAT
1 TTAATTTAT
* *
86765879 ATAAATTGGA-
1 -TTAATT-TAT
86765889 TTAATTTAT
1 TTAATTTAT
86765898 TTAAATATTAT
1 TT-AAT-TTAT
*
86765909 TTAATTAAT
1 TTAATTTAT
*
86765918 ATAATTTGGA-
1 TTAATTT--AT
86765928 TTAATTTAT
1 TTAATTTAT
86765937 TTAAATATTAT
1 TT-AAT-TTAT
86765948 TTAATT
1 TTAATT
86765954 AAAATAAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
8 9 0.13
9 25 0.36
10 22 0.31
11 14 0.20
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (9 bp):
TTAATTTAT
Found at i:86765914 original size:20 final size:20
Alignment explanation
Indices: 86765889--86765953 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
86765879 ATAAATTGGA
86765889 TTAATTTATTTAAATATTAT
1 TTAATTTATTTAAATATTAT
* *
86765909 TTAATTAATAT-AAT-TTGGA-
1 TTAATTTATTTAAATATT--AT
86765928 TTAATTTATTTAAATATTAT
1 TTAATTTATTTAAATATTAT
86765948 TTAATT
1 TTAATT
86765954 AAAATAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTAATTTATTTAAATATTAT
Found at i:86765915 original size:24 final size:23
Alignment explanation
Indices: 86765853--86765917 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
86765843 ATAATTTGGA
86765853 TTAAT-TTATTTAATT-ATTTAC
1 TTAATATTATTTAATTAATTTAC
* ** *
86765874 TTAATATAAATTGGATTAATTTAT
1 TTAATAT-TATTTAATTAATTTAC
86765898 TTAAATATTATTTAATTAAT
1 TT-AATATTATTTAATTAAT
86765918 ATAATTTGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
21 5 0.15
22 1 0.03
23 6 0.18
24 16 0.48
25 5 0.15
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (23 bp):
TTAATATTATTTAATTAATTTAC
Done.