Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 203 of 211
Found at i:62777512 original size:28 final size:27
Alignment explanation
Indices: 62777442--62777514 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
62777432 TTTATTATCA
*
62777442 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
62777470 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
62777497 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
62777515 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:62777652 original size:18 final size:17
Alignment explanation
Indices: 62777631--62777665 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62777621 TTATTATTAA
*
62777631 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62777649 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62777666 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62777677 original size:147 final size:149
Alignment explanation
Indices: 62777403--62777677 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
62777393 ATGATTATTG
*
62777403 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
62777468 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
62777533 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
62777552 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
62777615 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
62777678 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:62777773 original size:18 final size:17
Alignment explanation
Indices: 62777733--62777785 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
62777723 AAATATAAAT
62777733 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
62777747 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
62777762 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
62777780 TAAAAT
1 TAAAAT
62777786 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:62777843 original size:60 final size:59
Alignment explanation
Indices: 62777659--62777845 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
62777649 ATATAATTTA
*
62777659 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
62777720 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
62777778 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
62777839 ATAAAAT
1 ATAAAAT
62777846 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:62777844 original size:119 final size:120
Alignment explanation
Indices: 62777611--62777905 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
62777601 TTACTCATAT
*
62777611 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
62777676 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
62777732 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
62777796 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
62777851 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
62777906 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:62780132 original size:23 final size:23
Alignment explanation
Indices: 62780106--62780203 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
62780096 ATAAGTGCCA
62780106 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
62780129 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
62780152 CACTGA-ATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
62780174 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
62780197 CACTGAT
1 CACTGAT
62780204 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:62780171 original size:45 final size:46
Alignment explanation
Indices: 62780106--62780203 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
62780096 ATAAGTGCCA
* *
62780106 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
62780152 CACTGA-ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
62780197 CACTGAT
1 CACTGAT
62780204 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:62780303 original size:8 final size:8
Alignment explanation
Indices: 62780290--62780318 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
62780280 ACCCGGGACT
62780290 CACTGTAA
1 CACTGTAA
62780298 CACTGTAA
1 CACTGTAA
62780306 CACTGTAA
1 CACTGTAA
62780314 CACTG
1 CACTG
62780319 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:62786121 original size:41 final size:39
Alignment explanation
Indices: 62786073--62786179 Score: 128
Period size: 37 Copynumber: 2.7 Consensus size: 39
62786063 TTCGACTTCG
62786073 AGTCGATGAGACACTGGGTGTCAATTTACTACTTCGAATTA
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTTC-AATTA
* * * *
62786114 ATTCGATGAGGCACTGGGTGCCAA-TT-TACTTCAATTT
1 AGTCGATGAGACACTGGGTGTCAATTTATACTTCAATTA
* *
62786151 AGCCGATGAGACATTGGGTGTCAATTTAT
1 AGTCGATGAGACACTGGGTGTCAATTTAT
62786180 TTCTTCAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
37 23 0.42
38 8 0.15
39 1 0.02
40 2 0.04
41 21 0.38
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTTATACTTCAATTA
Found at i:62786411 original size:22 final size:20
Alignment explanation
Indices: 62786369--62786419 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
62786359 GTGAAAAGCT
62786369 AATTGAATAGCAAATATGAG
1 AATTGAATAGCAAATATGAG
* *
62786389 ATTTGAAGTAGCAAGTGATGAG
1 AATTGAA-TAGCAAAT-ATGAG
62786411 AATTGAATA
1 AATTGAATA
62786420 TGTTATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.45, C:0.04, G:0.24, T:0.27
Consensus pattern (20 bp):
AATTGAATAGCAAATATGAG
Found at i:62791093 original size:31 final size:31
Alignment explanation
Indices: 62791042--62791104 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
62791032 TATCATGAAT
* *
62791042 TAATTCTTTTCATAATGAAGCTAAGTGCAAA
1 TAATCCTTTTCATAACGAAGCTAAGTGCAAA
*
62791073 TAATCCTTTTTATAACGAAGCTAAGTGCAAA
1 TAATCCTTTTCATAACGAAGCTAAGTGCAAA
62791104 T
1 T
62791105 TTATTATAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (31 bp):
TAATCCTTTTCATAACGAAGCTAAGTGCAAA
Found at i:62791545 original size:35 final size:34
Alignment explanation
Indices: 62791464--62791546 Score: 80
Period size: 35 Copynumber: 2.4 Consensus size: 34
62791454 ATAAATAATA
** **
62791464 ATTTTTATTTAAATTTAAATTATATTAATTAACTT
1 ATTTTTA-TTAAATTTAAATTATAAAAATTAAAAT
62791499 ATTATTT-TTAAATGTTAAATTA-AAAAATATAAAAT
1 ATT-TTTATTAAAT-TTAAATTATAAAAAT-TAAAAT
62791534 ATTTTTATTAAAT
1 ATTTTTATTAAAT
62791547 ATTATCTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
34 13 0.32
35 24 0.60
36 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (34 bp):
ATTTTTATTAAATTTAAATTATAAAAATTAAAAT
Found at i:62798502 original size:2 final size:2
Alignment explanation
Indices: 62798495--62798519 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62798485 TAGTAATTTC
62798495 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
62798520 TTGTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62799073 original size:18 final size:18
Alignment explanation
Indices: 62799052--62799089 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
62799042 TTATTTTGGT
62799052 TTAATTTTACT-TTTTATA
1 TTAATTTTA-TATTTTATA
62799070 TTAATTTTATATTTTATA
1 TTAATTTTATATTTTATA
62799088 TT
1 TT
62799090 TTTGGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTAATTTTATATTTTATA
Found at i:62801227 original size:6 final size:6
Alignment explanation
Indices: 62801218--62801247 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
62801208 CTCTAAAATT
62801218 AAATAA AAATAA AAATAA AAAT-A AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
62801248 CCTGAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:62801237 original size:11 final size:11
Alignment explanation
Indices: 62801212--62801247 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
62801202 ATCTTCCTCT
*
62801212 AAAATTAAATA
1 AAAATAAAATA
62801223 AAAATAAAAATA
1 AAAAT-AAAATA
62801235 AAAATAAAATA
1 AAAATAAAATA
62801246 AA
1 AA
62801248 CCTGAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:62802692 original size:22 final size:22
Alignment explanation
Indices: 62802645--62802692 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
62802635 GTAATTTTTG
* * *
62802645 AAATTTTCAATTTTTTTTAATA
1 AAATTTTCAATTATTTATAAGA
62802667 AAATTTT-AATTATTTATAAGA
1 AAATTTTCAATTATTTATAAGA
62802688 TAAAT
1 -AAAT
62802693 ATTGTCACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATTTTCAATTATTTATAAGA
Found at i:62802846 original size:2 final size:2
Alignment explanation
Indices: 62802841--62802865 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62802831 CAAAATGATA
62802841 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
62802866 AACATTGAAA
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:62808931 original size:2 final size:2
Alignment explanation
Indices: 62808924--62808955 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
62808914 AAAGTTTGTG
62808924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62808956 AACTATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62809623 original size:29 final size:27
Alignment explanation
Indices: 62809590--62809657 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 27
62809580 GTTGGACCTG
62809590 AAATTTAAAAATTGAAAAATAAAGAAACT
1 AAATTTAAAAA-T-AAAAATAAAGAAACT
* * *
62809619 AAATTCTTAAAAATAAAAATATATAGACT
1 AAA-T-TTAAAAATAAAAATAAAGAAACT
62809648 AAATTCTAAA
1 AAATT-TAAA
62809658 TTTGTAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 1 0.03
28 5 0.15
29 18 0.55
30 2 0.06
31 7 0.21
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATTTAAAAATAAAAATAAAGAAACT
Found at i:62809629 original size:31 final size:29
Alignment explanation
Indices: 62809594--62809654 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
62809584 GACCTGAAAT
62809594 TTAAAAATTGAAAAATAAAGAAACTAAATTC
1 TTAAAAA-T-AAAAATAAAGAAACTAAATTC
* * *
62809625 TTAAAAATAAAAATATATAGACTAAATTC
1 TTAAAAATAAAAATAAAGAAACTAAATTC
62809654 T
1 T
62809655 AAATTTGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 19 0.70
30 1 0.04
31 7 0.26
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (29 bp):
TTAAAAATAAAAATAAAGAAACTAAATTC
Found at i:62811420 original size:15 final size:15
Alignment explanation
Indices: 62811397--62811427 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62811387 CTGCGATCAT
*
62811397 CGCTTAATTCGAAGC
1 CGCTAAATTCGAAGC
62811412 CGCTAAATTCGAAGC
1 CGCTAAATTCGAAGC
62811427 C
1 C
62811428 TTCGATTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (15 bp):
CGCTAAATTCGAAGC
Found at i:62814784 original size:29 final size:31
Alignment explanation
Indices: 62814723--62814794 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 31
62814713 AATTATACGT
* * *
62814723 AAACTTTAATTTAATGTGTAATTATATACATG
1 AAACTTTAATTT-AGGTGCAATTATACACATG
*
62814755 -AACTTTAATTT-GGTGCAATTATACATATG
1 AAACTTTAATTTAGGTGCAATTATACACATG
*
62814784 AAACTCTAATT
1 AAACTTTAATT
62814795 GCGGTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 14 0.41
30 9 0.26
31 11 0.32
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
AAACTTTAATTTAGGTGCAATTATACACATG
Found at i:62816012 original size:18 final size:19
Alignment explanation
Indices: 62815970--62816012 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
62815960 TAAAATGAGT
62815970 TTGATTGTGTAACGATTGC
1 TTGATTGTGTAACGATTGC
* * *
62815989 TGGATTGT-TAAGGTTTGC
1 TTGATTGTGTAACGATTGC
62816007 TTGATT
1 TTGATT
62816013 TCCTGGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.47
Consensus pattern (19 bp):
TTGATTGTGTAACGATTGC
Found at i:62818404 original size:82 final size:82
Alignment explanation
Indices: 62818267--62818435 Score: 338
Period size: 82 Copynumber: 2.1 Consensus size: 82
62818257 GACTAGCATG
62818267 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
1 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
62818332 TATCTCTACTTAATTTA
66 TATCTCTACTTAATTTA
62818349 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
1 CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
62818414 TATCTCTACTTAATTTA
66 TATCTCTACTTAATTTA
62818431 CTTGG
1 CTTGG
62818436 TGATGCAGCC
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (82 bp):
CTTGGATTAGGTAAATCCCCATAGTTTAATTTTAAACCGCATTTTTTAGTCATATAATCTTCTTA
TATCTCTACTTAATTTA
Found at i:62824456 original size:15 final size:15
Alignment explanation
Indices: 62824436--62824465 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62824426 TCATTGTGAT
62824436 TGGTTTATACAAAGG
1 TGGTTTATACAAAGG
*
62824451 TGGTTTATAGAAAGG
1 TGGTTTATACAAAGG
62824466 AAGTTAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (15 bp):
TGGTTTATACAAAGG
Found at i:62829719 original size:20 final size:20
Alignment explanation
Indices: 62829694--62829743 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
62829684 TGGCTTAAAA
62829694 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
62829714 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
62829731 GTGGTAGTGGATT
1 TTGGTAGTGGATT
62829744 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:62834358 original size:20 final size:20
Alignment explanation
Indices: 62834333--62834382 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
62834323 TGGCTTAAAA
62834333 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
62834353 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
62834370 GTGGTAGTGGATT
1 TTGGTAGTGGATT
62834383 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:62837960 original size:22 final size:22
Alignment explanation
Indices: 62837930--62837972 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62837920 ACACCAAAAC
* *
62837930 AGGCTTTTAGCGGTGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
62837952 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
62837973 AGCGCCGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:62838111 original size:43 final size:43
Alignment explanation
Indices: 62838062--62838292 Score: 241
Period size: 43 Copynumber: 5.3 Consensus size: 43
62838052 AACCTAATCT
* *
62838062 CAAACGCCGC-AATAGACCCTGATCTATAGCGGCACTTTGACCA
1 CAAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * * ** *
62838105 CAAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCT
1 CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * *
62838148 CAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACAA
1 CAAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * **
62838191 CAAAACGCCACTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 C-AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
*
62838235 CAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCA
1 CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* *
62838278 AAAACGCCACTAAAG
1 CAAACGCCGCTAAAG
62838293 GCCAACACCT
Statistics
Matches: 151, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
42 2 0.01
43 113 0.75
44 34 0.23
45 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (43 bp):
CAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
Found at i:62838674 original size:21 final size:21
Alignment explanation
Indices: 62838648--62838714 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
62838638 ACGCTGCTCG
62838648 GCTTCCCTCGCTGCAGCCTCT
1 GCTTCCCTCGCTGCAGCCTCT
**
62838669 GCTTCCCTCGCTTTAGCCTCT
1 GCTTCCCTCGCTGCAGCCTCT
* * * * *
62838690 ACTTCTCTTGCTGCTGCATCT
1 GCTTCCCTCGCTGCAGCCTCT
62838711 GCTT
1 GCTT
62838715 TAAGCTGCTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.06, C:0.40, G:0.16, T:0.37
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCCTCT
Found at i:62838763 original size:66 final size:66
Alignment explanation
Indices: 62838691--62838850 Score: 216
Period size: 66 Copynumber: 2.4 Consensus size: 66
62838681 TTAGCCTCTA
*
62838691 CTTCTCTTGCTGCTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 CTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCT
62838754 CAG
64 CAG
* * *
62838757 CTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCA
1 CTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
62838822 G
66 G
* * * *
62838823 CTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CTTCTCTCGCTGCTGCATCTGCTTTAAG
62838851 TTGTGTAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 78 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (66 bp):
CTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCA
G
Found at i:62840692 original size:41 final size:42
Alignment explanation
Indices: 62840640--62841058 Score: 129
Period size: 42 Copynumber: 9.3 Consensus size: 42
62840630 TTTATTATTA
* *
62840640 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGT
1 ATAATATTAAAATATAGCTTACATACGTAAATGAATATATGT
* * ** *
62840682 ATAATATTAAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-T
1 ATAATATT-AAAATATAGCT--TACATACGTAA---ATGAA--TA-TATGT
* * * *
62840731 AATAAAATTTAAATATAGCTTACATACATAAATGACTATATGT
1 -ATAATATTAAAATATAGCTTACATACGTAAATGAATATATGT
* * ** *
62840774 ATAATATTAAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-T
1 ATAATATT-AAAATATAGCT--TACATACGTAA---ATGAA--TA-TATGT
* *
62840823 AATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGT
1 -ATAATATTAAAATATAGCTTACATACGTAAATGAATATATGT
* * ** *
62840866 ATAATATTAAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-T
1 ATAATATT-AAAATATAGCT--TACATACGTAA---ATGAA--TA-TATGT
* *
62840915 AATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGT
1 -ATAATATTAAAATATAGCTTACATACGTAAATGAATATATGT
* * ** *
62840958 ATAATATTAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-T
1 ATAATATTAAAATATAGCT--TACATACGTAA---ATGAA--TA-TATGT
* *
62841006 AATAAAATTTAAATATAGCTTACATACGTAAATGAATATA--T
1 -ATAATATTAAAATATAGCTTACATACGTAAATGAATATATGT
62841047 ATAATATTAAAA
1 ATAATATTAAAA
62841059 AAATAGTAAT
Statistics
Matches: 271, Mismatches: 60, Indels: 94
0.64 0.14 0.22
Matches are distributed among these distances:
40 10 0.04
41 2 0.01
42 49 0.18
43 40 0.15
44 24 0.09
45 15 0.06
46 4 0.01
47 11 0.04
48 35 0.13
49 47 0.17
50 34 0.13
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (42 bp):
ATAATATTAAAATATAGCTTACATACGTAAATGAATATATGT
Found at i:62840773 original size:92 final size:92
Alignment explanation
Indices: 62840616--62841132 Score: 986
Period size: 92 Copynumber: 5.7 Consensus size: 92
62840606 TCTATTGTAA
62840616 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
1 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
62840681 TATAATATTAAAAAAATAGTAATACTT
66 TATAATATTAAAAAAATAGTAATACTT
* *
62840708 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACATAAATGACTATATG
1 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
62840773 TATAATATTAAAAAAATAGTAATACTT
66 TATAATATTAAAAAAATAGTAATACTT
62840800 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
1 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
62840865 TATAATATTAAAAAAATAGTAATACTT
66 TATAATATTAAAAAAATAGTAATACTT
62840892 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
1 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
62840957 TATAATATT-AAAAAATAGTAATACTT
66 TATAATATTAAAAAAATAGTAATACTT
62840983 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATA--
1 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
62841046 TATAATATTAAAAAAATAGTAATACTT
66 TATAATATTAAAAAAATAGTAATACTT
*
62841073 ATTTAAGTTATGAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAAT
1 ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAAT
62841133 GCTTTTAAAC
Statistics
Matches: 419, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
89 9 0.02
90 76 0.18
91 80 0.19
92 254 0.61
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (92 bp):
ATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATG
TATAATATTAAAAAAATAGTAATACTT
Found at i:62841055 original size:49 final size:45
Alignment explanation
Indices: 62840628--62841132 Score: 251
Period size: 45 Copynumber: 11.1 Consensus size: 45
62840618 TTAAGTTATA
62840628 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
1 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
* * * ** * * *
62840673 AATATATGTA-TAATATTAAA--AAAATAGTAATACTTATTTAAGT-TATA
1 AATTTAT-TATTAATA--AAATTTAAATA-T-A-GCTTACATACGTAAATG
*
62840720 AATTTATTATTAATAAAATTTAAATATAGCTTACATACATAAATG
1 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
* * ** * * *
62840765 ACTATATGTATAATATTAA-AAAA-AT-AGTAATA-CTTATTTAAGT-TATA
1 A--AT-T-TAT--TATTAATAAAATTTAAAT-ATAGCTTACATACGTAAATG
62840812 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
1 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
* * * ** * * *
62840857 AATATATGTA-TAATATTAAA--AAAATAGTAATACTTATTTAAGT-TATA
1 AATTTAT-TATTAATA--AAATTTAAATA-T-A-GCTTACATACGTAAATG
62840904 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
1 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
* * ** * ** * * *
62840949 AATATATGTATAATATTAAAAAAT-AGTAATA-CTTATTTAAGT-TATA
1 AATTTAT-TAT--TAATAAAATTTAAAT-ATAGCTTACATACGTAAATG
62840995 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
1 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
* * ** * *
62841040 AATATATATAATATTAA-AAAA-AT-AGTAATA-CTTATTTAAGT-TATG
1 AAT-T-TAT--TATTAATAAAATTTAAAT-ATAGCTTACATACGTAAATG
62841085 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
1 AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
62841130 AAT
1 AAT
62841133 GCTTTTAAAC
Statistics
Matches: 331, Mismatches: 80, Indels: 98
0.65 0.16 0.19
Matches are distributed among these distances:
41 12 0.04
42 8 0.02
43 25 0.08
44 47 0.14
45 75 0.23
46 34 0.10
47 66 0.20
48 41 0.12
49 13 0.04
50 4 0.01
51 6 0.02
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (45 bp):
AATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATG
Found at i:62842256 original size:16 final size:16
Alignment explanation
Indices: 62842235--62842270 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
62842225 TTTGGTTCGC
62842235 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62842251 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62842267 TGTA
1 TGTA
62842271 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62842527 original size:18 final size:17
Alignment explanation
Indices: 62842506--62842540 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62842496 TTATTATTAA
*
62842506 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62842524 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62842541 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62842665 original size:162 final size:163
Alignment explanation
Indices: 62842420--62842713 Score: 545
Period size: 162 Copynumber: 1.8 Consensus size: 163
62842410 TGGTAAATGA
* * *
62842420 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATA
1 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
*
62842485 TTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAA
66 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
62842549 TTGACAGAAATTTGTTTTGGTAAATTATTATTG
131 TTGACAGAAATTTGTTTTGGTAAATTATTATTG
62842582 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
1 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
62842647 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
66 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
62842712 TT
131 TT
62842714 CATATTCTTA
Statistics
Matches: 127, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
162 121 0.95
163 6 0.05
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (163 bp):
TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTGACAGAAATTTGTTTTGGTAAATTATTATTG
Found at i:62842685 original size:16 final size:16
Alignment explanation
Indices: 62842648--62842689 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62842638 TTAATCATAT
*
62842648 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
62842664 TT-AAATATATTATAA
1 TTAAAATATATTATAA
62842679 TTAAAATATAT
1 TTAAAATATAT
62842690 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:62842696 original size:14 final size:15
Alignment explanation
Indices: 62842657--62842698 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62842647 TTTAAACATA
*
62842657 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62842672 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
62842686 A-TATAATTTAATA
1 ATTATAATTAAATA
62842699 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62846205 original size:97 final size:97
Alignment explanation
Indices: 62846094--62846329 Score: 445
Period size: 97 Copynumber: 2.4 Consensus size: 97
62846084 TTTAATAACA
62846094 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
*
62846159 TAAAATATGCAGATTTAATCTTAAATTTGGAT
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
62846191 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACTGAATTATATTTTAAT
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
62846256 TAAAATATGCAGATTTAATCTTAAATTTGGAC
66 TAAAATATGCAGATTTAATCTTAAATTTGGAC
*
62846288 ATTATATAAGCATCAAAATTGGAACTTGATTGATTGTTTATA
1 ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATA
62846330 CATACTTCAA
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 136 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (97 bp):
ATTATATAAGCATCGAAATTGGAACTTGATTGATTGTTTATATAAGTACCGAATTATATTTTAAT
TAAAATATGCAGATTTAATCTTAAATTTGGAC
Found at i:62846432 original size:13 final size:13
Alignment explanation
Indices: 62846414--62846440 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62846404 TAATAACAAC
62846414 TATATTGTTTAAA
1 TATATTGTTTAAA
62846427 TATATTGTTTAAA
1 TATATTGTTTAAA
62846440 T
1 T
62846441 TAAACCGAAA
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:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TATATTGTTTAAA
Found at i:62849709 original size:23 final size:23
Alignment explanation
Indices: 62849679--62849723 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
62849669 CAATATTAAT
*
62849679 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
62849702 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
62849724 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:62851143 original size:14 final size:14
Alignment explanation
Indices: 62851124--62851150 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62851114 CGCTTAATTC
62851124 GAAGAAATTTGGAA
1 GAAGAAATTTGGAA
62851138 GAAGAAATTTGGA
1 GAAGAAATTTGGA
62851151 GGAATCGCTT
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:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (14 bp):
GAAGAAATTTGGAA
Found at i:62853320 original size:15 final size:16
Alignment explanation
Indices: 62853302--62853337 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
62853292 TTTTAGGTAA
62853302 TTTAT-TTTTTCCTTC
1 TTTATATTTTTCCTTC
62853317 TTTATAATTTTTCCTTC
1 TTTAT-ATTTTTCCTTC
62853334 TTTA
1 TTTA
62853338 ATGTTTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
17 14 0.74
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATATTTTTCCTTC
Found at i:62855890 original size:50 final size:49
Alignment explanation
Indices: 62855831--62856049 Score: 204
Period size: 50 Copynumber: 4.6 Consensus size: 49
62855821 CATTGAGATT
* *
62855831 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGTGCTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACC-AG
* * *
62855881 ATGAGAGGTCTCATATAAGACCATGTCTGGGACAAGGTGTTGG---C--
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAG
* *
62855925 AT-CGA---CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACC-AG
* ** * *
62855971 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACC-AG
* ** *
62856021 ATAAGAACTCCCATGTAAGACCATATCTG
1 ATGAGAGGTCCCATGTAAGACCATGTCTG
62856050 AGATATGACA
Statistics
Matches: 140, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
40 30 0.21
43 3 0.02
44 2 0.01
46 2 0.01
47 3 0.02
50 100 0.71
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCAG
Found at i:62856036 original size:90 final size:90
Alignment explanation
Indices: 62855845--62856019 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 90
62855835 GAGGTCTCAT
* * * *
62855845 GTAAGACCATGTCTGGGACATGGTGCTGGCACCGAGATGAGAGGTCTCATATAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCGCTGGCACCAAGATGAGAGGTCCCACATAAGACCATGTCTG
** * * * *
62855910 GGACAAGGTGTTGGCATCGACCCAT
66 GGACAAGGCATGGGCACCGACACAA
* *
62855935 GTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCGCTGGCACCAAGATGAGAGGTCCCACATAAGACCATGTCTG
*
62856000 GGACATGGCATGGGCACCGA
66 GGACAAGGCATGGGCACCGA
62856020 TATAAGAACT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (90 bp):
GTAAGACCATGTCTGGGACATGGCGCTGGCACCAAGATGAGAGGTCCCACATAAGACCATGTCTG
GGACAAGGCATGGGCACCGACACAA
Found at i:62856042 original size:140 final size:141
Alignment explanation
Indices: 62855784--62856049 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 141
62855774 GGAATAAGAT
** * *
62855784 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCGTCATTGAGATTATGAGAGGTCTCATGTAA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGAGAGGTCCCACGTAA
* ** * *
62855849 GACCATGTCTGGGACATGGTGCTGGCACCGAGATGAGAGGTCTCATATAAGACCATGTCTGGGAC
62 GACCATGTCTGGGACATGGTGC-GGCACCGAGATAAGAACTCCCATATAAGACCATATCTGGGAC
62855914 AAGGTGTTGGCATCGA
126 AAGGTGTTGGCATCGA
*
62855930 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGAGAGGTCCCACGTAAGACC
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCCCACGTAAGACC
* *
62855993 ATGTCTGGGACATGGCATG-GGCACCGATATAAGAACTCCCATGTAAGACCATATCTG
66 ATGTCTGGGACATGG--TGCGGCACCGAGATAAGAACTCCCATATAAGACCATATCTG
62856050 AGATATGACA
Statistics
Matches: 106, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
140 66 0.62
142 2 0.02
143 2 0.02
146 36 0.34
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (141 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCCCACGTAAGACC
ATGTCTGGGACATGGTGCGGCACCGAGATAAGAACTCCCATATAAGACCATATCTGGGACAAGGT
GTTGGCATCGA
Found at i:62856331 original size:12 final size:12
Alignment explanation
Indices: 62856314--62856352 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
62856304 ATGAGTTATT
62856314 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
62856326 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
62856338 TAAGTGAGTAAG
1 TAAGTAAGCAAG
62856350 TAA
1 TAA
62856353 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:62859144 original size:21 final size:21
Alignment explanation
Indices: 62859103--62859145 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
62859093 AATAAAGTAG
*
62859103 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
62859124 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
62859145 A
1 A
62859146 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:62859224 original size:58 final size:58
Alignment explanation
Indices: 62859128--62859292 Score: 178
Period size: 58 Copynumber: 2.9 Consensus size: 58
62859118 TATAGTATTA
* * * *
62859128 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATATTATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGACTAAAT
* * * *
62859186 TATA-TATTATTTTATTAAATTATATTTAATAATAATTATGTTTAAATATGGCTAAAT
1 TATATTATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGACTAAAT
*
62859243 TA-ATTATTATTTTTATTAAATTATTTTTAATAATAATCT-TATTAAAATTT
1 TATATTATTA-TTTTATTAAATTATATTTAATAATAAT-TATATTAAAATTT
62859293 AATAACACTA
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
56 4 0.04
57 31 0.34
58 54 0.60
59 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (58 bp):
TATATTATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGACTAAAT
Found at i:62867833 original size:9 final size:9
Alignment explanation
Indices: 62867819--62867846 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
62867809 AACCCAGCTT
62867819 TCTTTCACC
1 TCTTTCACC
62867828 TCTTTCACC
1 TCTTTCACC
62867837 TCTTTCACC
1 TCTTTCACC
62867846 T
1 T
62867847 AAAATAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.43, G:0.00, T:0.46
Consensus pattern (9 bp):
TCTTTCACC
Found at i:62869621 original size:7 final size:7
Alignment explanation
Indices: 62869605--62869634 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
62869595 GTTGTAATTA
*
62869605 ATTTTGT
1 ATTTTAT
62869612 ATTTTAT
1 ATTTTAT
62869619 ATTTTAT
1 ATTTTAT
62869626 ATTTTAT
1 ATTTTAT
62869633 AT
1 AT
62869635 ATATGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:62875763 original size:32 final size:31
Alignment explanation
Indices: 62875719--62875790 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 31
62875709 TAGTAGTAAC
* **
62875719 ATAATAATAAAATGGTAACAAAACAGTAAAAA
1 ATAATAACAAAATAATAACAAAACAGT-AAAA
62875751 ATAATAACAAAATAATAACAAAACAGTAAAA
1 ATAATAACAAAATAATAACAAAACAGTAAAA
62875782 A-AATAACAA
1 ATAATAACAA
62875791 TTTTTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 8 0.22
31 5 0.14
32 24 0.65
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.17
Consensus pattern (31 bp):
ATAATAACAAAATAATAACAAAACAGTAAAA
Found at i:62875784 original size:11 final size:11
Alignment explanation
Indices: 62875733--62875783 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
62875723 TAATAAAATG
62875733 GTAACAAAACA
1 GTAACAAAACA
*
62875744 GTAA-AAAATA
1 GTAACAAAACA
* *
62875754 ATAACAAAATA
1 GTAACAAAACA
*
62875765 ATAACAAAACA
1 GTAACAAAACA
62875776 GTAA-AAAA
1 GTAACAAAA
62875784 ATAACAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 12 0.34
11 23 0.66
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.14
Consensus pattern (11 bp):
GTAACAAAACA
Found at i:62876488 original size:19 final size:19
Alignment explanation
Indices: 62876451--62876490 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62876441 ACTATTTTAC
* * *
62876451 ATTATGTTATTTTTTATAT
1 ATTATGTAATTTATAATAT
62876470 ATTATGTAATTTATAATAT
1 ATTATGTAATTTATAATAT
62876489 AT
1 AT
62876491 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTATGTAATTTATAATAT
Found at i:62889596 original size:3 final size:3
Alignment explanation
Indices: 62889588--62889630 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
62889578 AGCCTTGCCC
62889588 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62889631 ATAGTGATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:62906443 original size:21 final size:21
Alignment explanation
Indices: 62906419--62906468 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
62906409 GGTGGCGGTG
*
62906419 AGATTAGTTACTGTAGCAGTA
1 AGATTAGATACTGTAGCAGTA
* *
62906440 AGATTTGATACTGTAGCAGTG
1 AGATTAGATACTGTAGCAGTA
62906461 AGATTAGA
1 AGATTAGA
62906469 AACAATGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (21 bp):
AGATTAGATACTGTAGCAGTA
Found at i:62913218 original size:18 final size:18
Alignment explanation
Indices: 62913186--62913221 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62913176 CTTCTTACAT
62913186 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62913204 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62913222 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62915358 original size:18 final size:18
Alignment explanation
Indices: 62915326--62915361 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62915316 CTTCTTACAT
62915326 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62915344 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62915362 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62920502 original size:29 final size:30
Alignment explanation
Indices: 62920444--62920520 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
62920434 GAACGGGATC
*
62920444 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * *
62920474 AAATCAAAGTTCATGTATATAGTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
62920505 AAACCATAGTTCATGT
1 AAATCAAAGTTCATGT
62920521 GTAATTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.51
30 5 0.13
31 14 0.36
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:62920604 original size:25 final size:25
Alignment explanation
Indices: 62920576--62920625 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62920566 CAATATTTAC
* *
62920576 TTTTCAAATTTAAAATAAATGATTT
1 TTTTAAAATCTAAAATAAATGATTT
* *
62920601 TTTTAAAATCTATAATAAATTATTT
1 TTTTAAAATCTAAAATAAATGATTT
62920626 AATTTCATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTAAAATCTAAAATAAATGATTT
Found at i:62921291 original size:21 final size:22
Alignment explanation
Indices: 62921267--62921307 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62921257 TTATTATTAA
62921267 TTTCAAACAATG-TATTTTATT
1 TTTCAAACAATGTTATTTTATT
**
62921288 TTTCATTCAATGTTATTTTA
1 TTTCAAACAATGTTATTTTA
62921308 CAAATGCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTCAAACAATGTTATTTTATT
Found at i:62922321 original size:18 final size:18
Alignment explanation
Indices: 62922289--62922324 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62922279 CTTCTTACAT
62922289 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62922307 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62922325 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62924462 original size:18 final size:18
Alignment explanation
Indices: 62924430--62924465 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62924420 CTTCTTACAT
62924430 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62924448 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62924466 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62929585 original size:29 final size:30
Alignment explanation
Indices: 62929527--62929603 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
62929517 GAACGGGATC
*
62929527 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * *
62929557 AAATCAAAGTTCATGTATATAGTTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
62929588 AAACCATAGTTCATGT
1 AAATCAAAGTTCATGT
62929604 GTAATTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 20 0.51
30 5 0.13
31 14 0.36
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:62929687 original size:25 final size:25
Alignment explanation
Indices: 62929659--62929708 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62929649 CAATATTTAC
* *
62929659 TTTTCAAATTTAAAATAAATGATTT
1 TTTTAAAATCTAAAATAAATGATTT
* *
62929684 TTTTAAAATCTATAATAAATTATTT
1 TTTTAAAATCTAAAATAAATGATTT
62929709 AATTTCATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTAAAATCTAAAATAAATGATTT
Found at i:62930374 original size:21 final size:22
Alignment explanation
Indices: 62930350--62930390 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
62930340 TTATTATTAA
62930350 TTTCAAACAATG-TATTTTATT
1 TTTCAAACAATGTTATTTTATT
**
62930371 TTTCATTCAATGTTATTTTA
1 TTTCAAACAATGTTATTTTA
62930391 CAAATGCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTCAAACAATGTTATTTTATT
Found at i:62932266 original size:18 final size:18
Alignment explanation
Indices: 62932234--62932269 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62932224 CTTCTTACAT
62932234 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62932252 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62932270 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62934406 original size:18 final size:18
Alignment explanation
Indices: 62934374--62934409 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62934364 CTTCTTACAT
62934374 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62934392 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62934410 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62936547 original size:18 final size:18
Alignment explanation
Indices: 62936515--62936550 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62936505 CTTCTTACAT
62936515 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62936533 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62936551 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62938688 original size:18 final size:18
Alignment explanation
Indices: 62938656--62938691 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
62938646 CTTCTTACAT
62938656 ATATTAAAATCTATAAAA
1 ATATTAAAATCTATAAAA
62938674 ATATTGAAAAT-TATAAAA
1 ATATT-AAAATCTATAAAA
62938692 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTAAAATCTATAAAA
Found at i:62941100 original size:29 final size:30
Alignment explanation
Indices: 62941058--62941138 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
62941048 GGACGGAATC
*
62941058 AAATCGAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * *
62941088 AAATCAAAGTTCATATATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
62941119 AAACCATAGTTCATGTATAA
1 AAATCAAAGTTCATGTATAA
62941139 TTTTTAGATT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 20 0.49
30 5 0.12
31 16 0.39
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:62941218 original size:25 final size:25
Alignment explanation
Indices: 62941190--62941239 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
62941180 CAATATTTAC
* *
62941190 TTTTCAAATTTAAAATAAATGATTT
1 TTTTAAAATCTAAAATAAATGATTT
* *
62941215 TTTTAAAATCTATAATAAATTATTT
1 TTTTAAAATCTAAAATAAATGATTT
62941240 AATTTCATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTTAAAATCTAAAATAAATGATTT
Found at i:62941547 original size:41 final size:41
Alignment explanation
Indices: 62941490--62941571 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
62941480 AACGCATTAT
*
62941490 CCTCCTATTTATGGGTTGGGAATGGTCTATGTGTAATTCTA
1 CCTCCTATTTATGGGTTGGGAATGGACTATGTGTAATTCTA
62941531 CCTCCTATTTATGGGTTGGGAATGGACTATGTGTAATTCTA
1 CCTCCTATTTATGGGTTGGGAATGGACTATGTGTAATTCTA
62941572 AGTATTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.40
Consensus pattern (41 bp):
CCTCCTATTTATGGGTTGGGAATGGACTATGTGTAATTCTA
Found at i:62948847 original size:18 final size:18
Alignment explanation
Indices: 62948821--62948855 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
62948811 GTATGTTTAT
*
62948821 ATATTTAATTTGTAATAA
1 ATATATAATTTGTAATAA
62948839 ATATATAATTTGTAATA
1 ATATATAATTTGTAATA
62948856 CATAAAAATA
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:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
ATATATAATTTGTAATAA
Found at i:62949598 original size:12 final size:12
Alignment explanation
Indices: 62949565--62949598 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
62949555 CAAATTATTA
62949565 TTTTTCTGATTT
1 TTTTTCTGATTT
62949577 TTTTT-TGATTT
1 TTTTTCTGATTT
*
62949588 TTTTTCAGATT
1 TTTTTCTGATT
62949599 CAACTGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTTTCTGATTT
Found at i:62969652 original size:46 final size:43
Alignment explanation
Indices: 62969500--62969829 Score: 223
Period size: 44 Copynumber: 7.6 Consensus size: 43
62969490 TTTTAATCCA
* * * *
62969500 CTCCACTGTAA-CTTCAGGGAGATAGGATAGT-GTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-CTAATCTTTGATCTG
* * * **
62969543 CTTCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAAT--CTTTGATCTG
* * *
62969587 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTTTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT--AA-TCTTTGATCTG
* * * * *
62969633 TTCCACTGTAATCTCAGGGAGATAAGACCTGA--TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTAATCTTTGATCTG
* * * *
62969674 CTCTACTGTAA-CTTCAGAGAGATAAGATC----CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTAATCTTTGATCTG
* * *
62969713 CTCCATTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTA--ATCTTTGATCTG
* *
62969757 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT--AA-TCTTTGATCTG
*
62969803 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
62969830 CCTGTATAAT
Statistics
Matches: 224, Mismatches: 43, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
39 26 0.12
40 2 0.01
41 29 0.13
42 2 0.01
43 23 0.10
44 70 0.31
45 2 0.01
46 68 0.30
47 1 0.00
48 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (43 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTAATCTTTGATCTG
Found at i:62990740 original size:77 final size:77
Alignment explanation
Indices: 62990608--62990761 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
62990598 AACCAAGCAG
62990608 ACTGAATGTTAAGTGACGTCAGACTCGACCACTATTGAGTTCTGATTGTCATTACATCGGCTATC
1 ACTGAATGTTAAGTGACGTCAGACTCGACCACTATTGAGTTCTGATTGTCATTACATCGGCTATC
62990673 CTTATTATTGTT
66 CTTATTATTGTT
* * * *
62990685 ACTGAATGTTAAGTGACGTCAGACTTGACCACTTTTGAGTTCTGATTGTCCTTACATCGTCTATC
1 ACTGAATGTTAAGTGACGTCAGACTCGACCACTATTGAGTTCTGATTGTCATTACATCGGCTATC
62990750 CTTATTATTGTT
66 CTTATTATTGTT
62990762 GATTCTACTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (77 bp):
ACTGAATGTTAAGTGACGTCAGACTCGACCACTATTGAGTTCTGATTGTCATTACATCGGCTATC
CTTATTATTGTT
Found at i:62999606 original size:16 final size:18
Alignment explanation
Indices: 62999585--62999617 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62999575 AAATTTGTGA
62999585 TTATT-AATT-TAAAATT
1 TTATTAAATTATAAAATT
62999601 TTATTAAATTATAAAAT
1 TTATTAAATTATAAAAT
62999618 AATATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATTAAATTATAAAATT
Found at i:63001195 original size:6 final size:6
Alignment explanation
Indices: 63001184--63001212 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
63001174 AAATTATTAA
63001184 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
63001213 AACAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:63001836 original size:23 final size:20
Alignment explanation
Indices: 63001809--63001858 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 20
63001799 ATATATTTAT
63001809 TAAAATTTTATATAAAAATCAAA
1 TAAAATTTTA-ATAAAAAT--AA
* *
63001832 TAAAACTTTAATTAAAATAA
1 TAAAATTTTAATAAAAATAA
63001852 TAAAATT
1 TAAAATT
63001859 GATAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATTTTAATAAAAATAA
Found at i:63006612 original size:21 final size:19
Alignment explanation
Indices: 63006586--63006632 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
63006576 ACACATCTTT
*
63006586 AATTTAATTAAGGTTAAATAA
1 AATTTAATT-AGATTAAA-AA
*
63006607 AATTTAATTCGATTAAAAA
1 AATTTAATTAGATTAAAAA
63006626 AATTTAA
1 AATTTAA
63006633 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 6 0.25
21 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (19 bp):
AATTTAATTAGATTAAAAA
Found at i:63019046 original size:2 final size:2
Alignment explanation
Indices: 63019039--63019069 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
63019029 ATGTAAGAGC
*
63019039 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63019070 CACATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:63024118 original size:36 final size:36
Alignment explanation
Indices: 63024071--63024142 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63024061 CAAAAATAAA
63024071 CATTGAATTAACTCAATCTTAATATAGCTTTAATTT
1 CATTGAATTAACTCAATCTTAATATAGCTTTAATTT
63024107 CATTGAATTAACTCAATCTTAATATAGCTTTAATTT
1 CATTGAATTAACTCAATCTTAATATAGCTTTAATTT
63024143 AAAATGACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (36 bp):
CATTGAATTAACTCAATCTTAATATAGCTTTAATTT
Found at i:63039960 original size:21 final size:22
Alignment explanation
Indices: 63039906--63039962 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
63039896 AGGTGTGGTA
* *
63039906 AATATTATATTTATAAATTCAT
1 AATATAATATTTATAAAATCAT
* * *
63039928 AATAAAAAATTTA-AAAATCTT
1 AATATAATATTTATAAAATCAT
63039949 AATATAATATTTAT
1 AATATAATATTTAT
63039963 CGAAATTCTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATAATATTTATAAAATCAT
Found at i:63040913 original size:17 final size:16
Alignment explanation
Indices: 63040870--63040917 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
63040860 TGCAACTAAT
* *
63040870 ATATTGTTGTTATGTA
1 ATATTGTTGTAATGAA
*
63040886 ATAATTTTTGTAACTGAA
1 AT-ATTGTTGTAA-TGAA
63040904 ATATTGTTGTAATG
1 ATATTGTTGTAATG
63040918 GAGTTATAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.15
17 17 0.65
18 5 0.19
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (16 bp):
ATATTGTTGTAATGAA
Found at i:63041764 original size:19 final size:22
Alignment explanation
Indices: 63041718--63041765 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
63041708 AATTAGTTTC
63041718 AAATCATATGTTTTATTATTTAT
1 AAAT-ATATGTTTTATTATTTAT
63041741 AAATATAT-TTTTA-TATTT-T
1 AAATATATGTTTTATTATTTAT
63041760 AAATAT
1 AAATAT
63041766 GTAGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 5 0.20
21 5 0.20
22 4 0.16
23 4 0.16
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AAATATATGTTTTATTATTTAT
Found at i:63041773 original size:21 final size:21
Alignment explanation
Indices: 63041723--63041765 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
63041713 GTTTCAAATC
63041723 ATAT-GTTTTATTATTTATAA
1 ATATAGTTTTATTATTTATAA
*
63041743 ATATATTTTTA-TATTT-TAA
1 ATATAGTTTTATTATTTATAA
63041762 ATAT
1 ATAT
63041766 GTAGTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATAGTTTTATTATTTATAA
Found at i:63042075 original size:11 final size:11
Alignment explanation
Indices: 63042055--63042131 Score: 110
Period size: 11 Copynumber: 7.4 Consensus size: 11
63042045 ACAAAAATTA
63042055 AAAAAGTATTTT
1 AAAAA-TATTTT
63042067 AAAAATATTTT
1 AAAAATATTTT
63042078 --AAA-A--TT
1 AAAAATATTTT
63042084 AAAAATATTTT
1 AAAAATATTTT
63042095 AAAAATATTTT
1 AAAAATATTTT
63042106 AAAAATATTTT
1 AAAAATATTTT
63042117 AAAAATATTTT
1 AAAAATATTTT
63042128 AAAA
1 AAAA
63042132 TTAAAAAATT
Statistics
Matches: 60, Mismatches: 0, Indels: 11
0.85 0.00 0.15
Matches are distributed among these distances:
6 2 0.03
8 4 0.07
9 4 0.07
11 45 0.75
12 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:63042138 original size:17 final size:17
Alignment explanation
Indices: 63042065--63042098 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
63042055 AAAAAGTATT
63042065 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
63042082 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
63042099 ATATTTTAAA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:63042139 original size:40 final size:40
Alignment explanation
Indices: 63042048--63042179 Score: 137
Period size: 40 Copynumber: 3.3 Consensus size: 40
63042038 AATTAAAACA
**
63042048 AAAATTAAAAAAGTATTTTAAAAATATTTT--AAA-ATTAA
1 AAAATTAAAAAA-TATTTTAAAAATATTTTAAAAATATTTT
*
63042086 AAATATTTTAAAAATATTTTAAAAATATTTTAAAAATATTTT
1 AAA-A-TTAAAAAATATTTTAAAAATATTTTAAAAATATTTT
*** *
63042128 AAAATTAAAAAAT-TAAAAAAAAGTATTTTAAAATTATTTT
1 AAAATTAAAAAATATTTTAAAAA-TATTTTAAAAATATTTT
63042168 AAAATTAAAAAA
1 AAAATTAAAAAA
63042180 AATAAAAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.04
39 24 0.30
40 43 0.54
41 4 0.05
42 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (40 bp):
AAAATTAAAAAATATTTTAAAAATATTTTAAAAATATTTT
Found at i:63042172 original size:11 final size:11
Alignment explanation
Indices: 63042056--63042174 Score: 85
Period size: 11 Copynumber: 11.6 Consensus size: 11
63042046 CAAAAATTAA
*
63042056 AAAAGTATTTT
1 AAAATTATTTT
*
63042067 AAAAATATTTT
1 AAAATTATTTT
63042078 AAAATTA----
1 AAAATTATTTT
63042085 AAAA-TATTTT
1 AAAATTATTTT
*
63042095 AAAAATATTTT
1 AAAATTATTTT
*
63042106 AAAAATATTTT
1 AAAATTATTTT
*
63042117 AAAAATATTTT
1 AAAATTATTTT
*
63042128 AAAATTA---A
1 AAAATTATTTT
***
63042136 AAAATTA-AAA
1 AAAATTATTTT
*
63042146 AAAAGTATTTT
1 AAAATTATTTT
63042157 AAAATTATTTT
1 AAAATTATTTT
63042168 AAAATTA
1 AAAATTA
63042175 AAAAAAATAA
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
6 2 0.02
7 4 0.04
8 7 0.08
10 11 0.12
11 67 0.74
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:63042172 original size:50 final size:50
Alignment explanation
Indices: 63042055--63042171 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 50
63042045 ACAAAAATTA
**
63042055 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAATATTTTAAAAATATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAATATTAAAAAAATATTTT
63042106 AAAAATATTTTAAAAATATTTTAAAATTAAAAA-ATTAAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAATATT-AAAAAAA-TATTTT
*
63042157 AAAATTATTTTAAAA
1 AAAAATATTTTAAAA
63042172 TTAAAAAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
49 3 0.05
50 33 0.54
51 25 0.41
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (50 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAATATTAAAAAAATATTTT
Found at i:63042187 original size:40 final size:39
Alignment explanation
Indices: 63042106--63042192 Score: 138
Period size: 40 Copynumber: 2.2 Consensus size: 39
63042096 AAAATATTTT
*
63042106 AAAAATATTTTAAAAATATTTTAAAATTAAAAAATTAAA
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATAAA
*
63042145 AAAAAGTATTTTAAAATTATTTTAAAATTAAAAAAAATAAA
1 AAAAA-TATTTTAAAAATATTTTAAAATT-AAAAAAATAAA
63042186 AAAAATA
1 AAAAATA
63042193 AAAATATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 5 0.11
40 24 0.55
41 15 0.34
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (39 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATAAA
Found at i:63043012 original size:21 final size:22
Alignment explanation
Indices: 63042988--63043028 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
63042978 TTCGGGATTT
63042988 AGGGTTC-GGGCTCA-ATGTTCA
1 AGGGTTCAGGG-TCACATGTTCA
63043009 AGGGTTCAGGGTCACATGTT
1 AGGGTTCAGGGTCACATGTT
63043029 ACTAGTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (22 bp):
AGGGTTCAGGGTCACATGTTCA
Found at i:63043676 original size:20 final size:20
Alignment explanation
Indices: 63043647--63043684 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
63043637 ATGTACTTTA
63043647 ATTTGATCAATTTTAGTCCC
1 ATTTGATCAATTTTAGTCCC
*
63043667 ATTTGGTCAATTTTAGTC
1 ATTTGATCAATTTTAGTC
63043685 TTGACTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (20 bp):
ATTTGATCAATTTTAGTCCC
Found at i:63045934 original size:106 final size:106
Alignment explanation
Indices: 63045764--63045964 Score: 384
Period size: 106 Copynumber: 1.9 Consensus size: 106
63045754 AAGCTTTAAG
63045764 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
63045829 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
63045870 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
63045935 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
63045965 GAAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:63052914 original size:34 final size:33
Alignment explanation
Indices: 63052854--63052961 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
63052844 AATAAATAAA
* *
63052854 GGTTTAGAGCTTTAAAAAAATTAATTAAATTAG
1 GGTTTAGAGGTTTTAAAAAATTAATTAAATTAG
* * *
63052887 GTTTTAGGGGTTTTAAATAAATAAATTAAATTAG
1 GGTTTAGAGGTTTTAAA-AAATTAATTAAATTAG
* * *
63052921 GGTTTAAAGTTTTTAAGAAAATTAGTTAAATTAG
1 GGTTTAGAGGTTTTAA-AAAATTAATTAAATTAG
63052955 GGTTTAG
1 GGTTTAG
63052962 TTTTTAAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
33 13 0.21
34 47 0.77
35 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.19, T:0.40
Consensus pattern (33 bp):
GGTTTAGAGGTTTTAAAAAATTAATTAAATTAG
Found at i:63053340 original size:126 final size:126
Alignment explanation
Indices: 63053035--63053926 Score: 1200
Period size: 126 Copynumber: 7.1 Consensus size: 126
63053025 GATTTTATTT
* * * * * *
63053035 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAA-AACGATTCTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAG-TTCTGAAAAAATAGTGTCAAA
* * *
63053099 AACGCTTCAAGCAGGATGAACTGTCAACAAAATTACT-AAAAAAGCTCTCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * ** * *
63053160 TTTTT-TGACAGTAGTTCTTGAAAAAATAATTTTGAAAAGACGGTTCT-ATAAAAATAGTTTTAA
1 TTTTTCT-ACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGA-AAAAATAGTGTCAA
* *
63053223 AAACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACCTGGACGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
63053286 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTTTGAAAAAATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAGTGTCAAAA
* * ** *
63053351 ATGTTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
63053412 TTTTTCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAG-ACGATTCT-AAAAAA-A-TGTCAA
1 TTTTTCTACAGTAGTTCCTG-AAAAAATAATTTTGAGAAGAAAG-TTCTGAAAAAATAGTGTCAA
* *
63053473 AAACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCCCACGTGGATGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
63053535 TTTTTCTA-AGGTAGTTCCTGAAAAAATAATTTTGAGAAGACAA-TTCTGAAAAAATAATGTCAA
1 TTTTTCTACA-GTAGTTCCTGAAAAAATAATTTTGAGAAGA-AAGTTCTGAAAAAATAGTGTCAA
*
63053598 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCTCACGTGGACGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * **
63053660 TTTTTCTAAAGTAGTTTCTGAAAAAA-CA-CTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAGTGTCAAAA
* * * *
63053723 ACTCTTCAAGCAGAATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
63053784 TTTCTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAAAGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAGTGTCAAAA
* * * * *
63053849 ATGCTTCAAGCAAGATACACTGTTAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
63053910 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
63053927 TTGTTTGGCC
Statistics
Matches: 675, Mismatches: 73, Indels: 37
0.86 0.09 0.05
Matches are distributed among these distances:
122 24 0.04
123 109 0.16
124 87 0.13
125 170 0.25
126 261 0.39
127 24 0.04
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:63053344 original size:14 final size:14
Alignment explanation
Indices: 63053304--63053345 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
63053294 CAGTAGTTCC
*
63053304 TGAAAAAATAATTT
1 TGAAAAAATAGTTT
*
63053318 TGAGAAGAA-AGTTT
1 TGA-AAAAATAGTTT
63053332 TGAAAAAATAGTTT
1 TGAAAAAATAGTTT
63053346 CAAAAATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (14 bp):
TGAAAAAATAGTTT
Found at i:63053574 original size:249 final size:251
Alignment explanation
Indices: 63053035--63053926 Score: 1275
Period size: 249 Copynumber: 3.6 Consensus size: 251
63053025 GATTTTATTT
* * * * *
63053035 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAA-AACGATTCTGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAG-TTCTGAAAAAATAATGTCAAA
* * *
63053099 AACGCTTCAAGCAGGATGAACTGTCAACAAAATTACT-AAAAAAGCTCTCACGTGGACGCTCTTT
65 AACGCTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
* * * *
63053163 TT-TGACAGTAGTTCTTGAAAAAATAATTTTGAAAAGACGGTTCTATAAAAATAGTTTTAAAAAC
130 TTCT-ACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTA-AAAAATAGTGTCAAAAAC
* *
63053227 ACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACCTGGACGCTC
193 ACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* * *
63053286 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTTTGAAAAAATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAATGTCAAAA
* * *
63053351 ATGTTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGAACGCTCTTTT
66 ACGCTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
*
63053416 TCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAGACGATTCTAAAAAA-A-TGTCAAAAACAC
131 TCTACAGTAGTTCCTG-AAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAACAC
63053479 TTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCCCACGTGGATGCTC
195 TTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
63053535 TTTTTCTA-AGGTAGTTCCTGAAAAAATAATTTTGAGAAGACAA-TTCTGAAAAAATAATGTCAA
1 TTTTTCTACA-GTAGTTCCTGAAAAAATAATTTTGAGAAGA-AAGTTCTGAAAAAATAATGTCAA
** *
63053598 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAA-CTCTCACGTGGACGCTCTT
64 AAACGCTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* * * * *
63053662 TTTCTAAAGTAGTTTCTGAAAAAA-CA-CTTGAGAAGATGGTTCTGAAAAAATAGTGTCAAAAAC
129 TTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAATAGTGTCAAAAAC
* * *
63053725 TCTTCAAGCAGAATGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
193 ACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
* * * *
63053784 TTTCTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGAAAGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAATGTCAAAA
* * * * *
63053849 ATGCTTCAAGCAAGATACACTGTTAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTT
66 ACGCTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
63053914 TCTACAGTAGTTC
131 TCTACAGTAGTTC
63053927 TTGTTTGGCC
Statistics
Matches: 577, Mismatches: 51, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
245 14 0.02
246 7 0.01
247 7 0.01
248 84 0.15
249 222 0.38
250 83 0.14
251 86 0.15
252 47 0.08
253 27 0.05
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (251 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAAAGTTCTGAAAAAATAATGTCAAAA
ACGCTTCAAGCAGGATAAACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAATAGTGTCAAAAACACT
TCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
Found at i:63056102 original size:57 final size:62
Alignment explanation
Indices: 63055995--63056110 Score: 154
Period size: 62 Copynumber: 1.9 Consensus size: 62
63055985 TCAAAAGAAT
63055995 TTTTATTTTATTAAATAAGATAAAATATAAAAATAATTTACTATTAAAATAT-TTAAAACAAC
1 TTTTATTTTATTAAATAAGATAAAATATAAAAATAATTTA-TATTAAAATATATTAAAACAAC
* *
63056057 TTTTATTTTATTAAATAA-A-ATATTATAAAAATAA-TT-T-TTACAAATATATTAAAA
1 TTTTATTTTATTAAATAAGATAAAATATAAAAATAATTTATATTA-AAATATATTAAAA
63056111 AAATCAATGT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
56 3 0.06
57 7 0.14
58 6 0.12
59 2 0.04
60 13 0.26
61 1 0.02
62 18 0.36
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (62 bp):
TTTTATTTTATTAAATAAGATAAAATATAAAAATAATTTATATTAAAATATATTAAAACAAC
Found at i:63056245 original size:20 final size:21
Alignment explanation
Indices: 63056200--63056246 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
63056190 GCTTTCGGCA
63056200 GGGGTTATGGTTGCTCCAGCG
1 GGGGTTATGGTTGCTCCAGCG
*
63056221 GGGGTTATGGTTGCTCC-GGG
1 GGGGTTATGGTTGCTCCAGCG
63056241 GGGGTT
1 GGGGTT
63056247 GTGGGTGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.06, C:0.15, G:0.49, T:0.30
Consensus pattern (21 bp):
GGGGTTATGGTTGCTCCAGCG
Found at i:63056514 original size:18 final size:18
Alignment explanation
Indices: 63056488--63056530 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
63056478 GACTGGGAAA
* *
63056488 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
63056506 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
63056524 AGGATAC
1 AGGATAC
63056531 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:63057628 original size:24 final size:24
Alignment explanation
Indices: 63057588--63057638 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
63057578 ACTATTATAA
* **
63057588 AAAATTATAAAATTAAAATTAATT
1 AAAATTACAAAATTAAAAAAAATT
63057612 AAAATTACATAAA-TAAAAAAAATT
1 AAAATTACA-AAATTAAAAAAAATT
63057636 AAA
1 AAA
63057639 CAATATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATTAAAAAAAATT
Found at i:63058278 original size:31 final size:32
Alignment explanation
Indices: 63058235--63058300 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
63058225 ATTAAGAAAA
**
63058235 AAAATTCAAATACTTAATTA-ATTATTAATACT
1 AAAATTCAAATACCAAATTATA-TATTAATACT
*
63058267 AAAATT-AAATACCAAATTATATATTAATCCT
1 AAAATTCAAATACCAAATTATATATTAATACT
63058298 AAA
1 AAA
63058301 TTTTGTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
AAAATTCAAATACCAAATTATATATTAATACT
Found at i:63066695 original size:54 final size:54
Alignment explanation
Indices: 63066613--63066720 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
63066603 GAAATGAGAA
63066613 AACGATCTAGAAATATTATACCATTAAAAATAAAATAACAGAATATAACTTTAG
1 AACGATCTAGAAATATTATACCATTAAAAATAAAATAACAGAATATAACTTTAG
63066667 AACGATCTAGAAATATTATACCATTAAAAATAAAATAACAGAATATAACTTTAG
1 AACGATCTAGAAATATTATACCATTAAAAATAAAATAACAGAATATAACTTTAG
63066721 GGGAACCTGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (54 bp):
AACGATCTAGAAATATTATACCATTAAAAATAAAATAACAGAATATAACTTTAG
Found at i:63074864 original size:23 final size:24
Alignment explanation
Indices: 63074821--63074865 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
63074811 TTCGCTTAAC
63074821 GTTCACAAACATATAAATGAACAT
1 GTTCACAAACATATAAATGAACAT
63074845 GTTCACAAACAT-TAAATGAAC
1 GTTCACAAACATATAAATGAAC
63074866 CAAGCCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (24 bp):
GTTCACAAACATATAAATGAACAT
Found at i:63078022 original size:57 final size:58
Alignment explanation
Indices: 63077909--63078028 Score: 156
Period size: 57 Copynumber: 2.1 Consensus size: 58
63077899 ACCTTTTTCA
*
63077909 TATTAAAAGTTTATATAAAAATTAAATGAAATTTTTATTAAAATGATAGAATTAAATGTT
1 TATTAAAAGTTTATATAAAAATAAAATG-AATTTTTATTAAAATGATAGAATTAAAT-TT
* * *
63077969 TATTAAAATTTTAT-TAAAAATAAAATG-ATTTCTTATT-AAATGGTATAATTAAATTT
1 TATTAAAAGTTTATATAAAAATAAAATGAATTT-TTATTAAAATGATAGAATTAAATTT
63078025 TATT
1 TATT
63078029 GTTCTAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
56 6 0.11
57 19 0.35
58 5 0.09
59 12 0.22
60 13 0.24
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.45
Consensus pattern (58 bp):
TATTAAAAGTTTATATAAAAATAAAATGAATTTTTATTAAAATGATAGAATTAAATTT
Found at i:63080252 original size:86 final size:86
Alignment explanation
Indices: 63080158--63080326 Score: 320
Period size: 86 Copynumber: 2.0 Consensus size: 86
63080148 CTTTGGCCCT
63080158 TTTCAATTTTATATTTCAAAAATTTATCCTAATAAAATGCTCAAATTTAATTTCATTGTTTAATT
1 TTTCAATTTTATATTTCAAAAATTTATCCTAATAAAATGCTCAAATTTAATTTCATTGTTTAATT
63080223 TGATATTTTAATTATTTTATA
66 TGATATTTTAATTATTTTATA
* *
63080244 TTTCAATTTTATATTTCAAAATTTTATCCTAATTAAATGCTCAAATTTAATTTCATTGTTTAATT
1 TTTCAATTTTATATTTCAAAAATTTATCCTAATAAAATGCTCAAATTTAATTTCATTGTTTAATT
63080309 TGATATTTTAATTATTTT
66 TGATATTTTAATTATTTT
63080327 TTCAATTAAG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (86 bp):
TTTCAATTTTATATTTCAAAAATTTATCCTAATAAAATGCTCAAATTTAATTTCATTGTTTAATT
TGATATTTTAATTATTTTATA
Found at i:63080270 original size:15 final size:13
Alignment explanation
Indices: 63080236--63080262 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63080226 TATTTTAATT
63080236 ATTTTATATTTCA
1 ATTTTATATTTCA
63080249 ATTTTATATTTCA
1 ATTTTATATTTCA
63080262 A
1 A
63080263 AATTTTATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTATATTTCA
Found at i:63080724 original size:18 final size:19
Alignment explanation
Indices: 63080701--63080736 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
63080691 AACTCAGGTA
63080701 TTAAATTGAA-CATTAAAG
1 TTAAATTGAAGCATTAAAG
*
63080719 TTAAATTTAAGCATTAAA
1 TTAAATTGAAGCATTAAA
63080737 TGATATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (19 bp):
TTAAATTGAAGCATTAAAG
Found at i:63086967 original size:85 final size:83
Alignment explanation
Indices: 63086826--63086994 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 83
63086816 GTGGCTTTCT
*
63086826 TCTTAAGAAAGGTTTTTTTTTCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATGTACT
1 TCTTAAGAAAGGTTTTTTTTTCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATCTACT
63086891 AGGTGCTTTTATCTTGTA
66 AGGTGCTTTTATCTTGTA
*
63086909 TCTTAAGAAAGGTTTTTTTTTTTCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATCTA
1 TCTTAAGAAAGG--TTTTTTTTTCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATCTA
63086974 CTAGGTGCTTTTATCTTGTA
64 CTAGGTGCTTTTATCTTGTA
63086994 T
1 T
63086995 AAAGATGCCT
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
83 12 0.15
85 70 0.85
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (83 bp):
TCTTAAGAAAGGTTTTTTTTTCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATCTACT
AGGTGCTTTTATCTTGTA
Found at i:63087020 original size:85 final size:84
Alignment explanation
Indices: 63086846--63087021 Score: 194
Period size: 85 Copynumber: 2.1 Consensus size: 84
63086836 GGTTTTTTTT
*
63086846 TCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATGTACTAGGTGCTTTTATCTTGTATC
1 TCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATCTACTAGGTGCTTTTATCTTGTA-C
* *** *****
63086911 TTAAGAAAGGTTTTTTTTTT
65 TAAAGAAAGGTAAATGGAAC
*
63086931 TCTTCTTGCAATGATTTGTATACTTCACCTGTAAAGATATCTACTAGGTGCTTTTATCTTGTA-T
1 TCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATCTACTAGGTGCTTTTATCTTGTACT
*
63086995 AAAG-ATGCCTGTAAATGGAAC
66 AAAGAAAG---GTAAATGGAAC
63087016 TCTTCT
1 TCTTCT
63087022 ATCTTCAGAA
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
82 2 0.03
83 4 0.05
85 70 0.92
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (84 bp):
TCTTCTTGCAATGAGTTGTATACTTCACCTGTAAAGATATCTACTAGGTGCTTTTATCTTGTACT
AAAGAAAGGTAAATGGAAC
Found at i:63095674 original size:63 final size:63
Alignment explanation
Indices: 63095594--63095856 Score: 438
Period size: 63 Copynumber: 4.2 Consensus size: 63
63095584 ATTGTAGTTT
* * *
63095594 GAAAGGAAGATCTTAAATTTTATTTGAATTCTGCAAGTATTTACATTTATAATGAT-CTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGC-TGATA
* *
63095657 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCCAGTATTTACATTTATAGTGTTGCTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGCTGATA
* *
63095720 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCCAGTATTTACATTTATAGTGTTGCTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGCTGATA
*
63095783 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGTTGATA
1 GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGCTGATA
63095846 GAAAGGAAGAT
1 GAAAGGAAGAT
63095857 AATCCCAAAT
Statistics
Matches: 191, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
63 190 0.99
64 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (63 bp):
GAAAGGAAGATCATAAATTTTAGTTGAATTCTGCAAGTATTTACATTTATAATGTTGCTGATA
Found at i:63101288 original size:19 final size:18
Alignment explanation
Indices: 63101241--63101295 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
63101231 ACATGCTATT
63101241 TTAAAAAAATTATTAATTAAA
1 TTAAAAAAATTA--AA-TAAA
*
63101262 TTATAAAAATTAAATAATA
1 TTAAAAAAATTAAATAA-A
*
63101281 TTAAAAAAATAAAAT
1 TTAAAAAAATTAAAT
63101296 TAACCCTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 16 0.53
21 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAAAATTAAATAAA
Found at i:63108325 original size:17 final size:18
Alignment explanation
Indices: 63108295--63108340 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
63108285 ATTTAAATTG
63108295 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
63108313 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
63108329 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
63108341 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:63113354 original size:14 final size:14
Alignment explanation
Indices: 63113335--63113364 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63113325 CTTGTTTTTC
*
63113335 TTTTTCCTTTTCCT
1 TTTTTCCTTTACCT
63113349 TTTTTCCTTTACCT
1 TTTTTCCTTTACCT
63113363 TT
1 TT
63113365 AATCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTCCTTTACCT
Done.