Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 120 of 202
Found at i:37185783 original size:9 final size:9
Alignment explanation
Indices: 37185758--37185802 Score: 63
Period size: 9 Copynumber: 4.7 Consensus size: 9
37185748 ACTTACAATC
37185758 AAACACATT
1 AAACACATT
37185767 AAAAACACATT
1 --AAACACATT
37185778 AAACACATT
1 AAACACATT
37185787 AAACACATTT
1 AAACACA-TT
37185797 AAACAC
1 AAACAC
37185803 TTATTAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.48
10 8 0.24
11 9 0.27
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (9 bp):
AAACACATT
Found at i:37185783 original size:20 final size:19
Alignment explanation
Indices: 37185758--37185802 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
37185748 ACTTACAATC
37185758 AAACACATTAAAAACACA-TT
1 AAACACATT--AAACACATTT
37185778 AAACACATTAAACACATTT
1 AAACACATTAAACACATTT
37185797 AAACAC
1 AAACAC
37185803 TTATTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (19 bp):
AAACACATTAAACACATTT
Found at i:37185932 original size:40 final size:40
Alignment explanation
Indices: 37185885--37185970 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
37185875 TTTTAATAGA
*
37185885 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTT
37185925 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTT
37185965 AATAAA
1 AATAAA
37185971 ATTAAAGTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTT
Found at i:37186037 original size:70 final size:70
Alignment explanation
Indices: 37185924--37186064 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
37185914 AAGATGAGTT
37185924 TAATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTTAATAAAATTAAAGTTCAGCTTGCA
1 TAATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTTAATAAAATTAAAGTTCAGCTTGCA
37185989 AAAGA
66 AAAGA
* * * * * *
37185994 TAATAAAGTCCAGCAACTGAATTATTAACTAAGATGAGTTTAATAAAATTAAAGTTTATCTTGTA
1 TAATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTTAATAAAATTAAAGTTCAGCTTGCA
37186059 AAAGA
66 AAAGA
37186064 T
1 T
37186065 TGCAAATGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (70 bp):
TAATAAAGTCCAACAACTCAATTATTAACTAAGATGAATTTAATAAAATTAAAGTTCAGCTTGCA
AAAGA
Found at i:37190235 original size:21 final size:21
Alignment explanation
Indices: 37190209--37190272 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
37190199 TATAATGTTT
37190209 TCCTTTAAATGATGTAACAAC
1 TCCTTTAAATGATGTAACAAC
* *
37190230 TCCTTTAAATGATGTATAGTGATC
1 TCCTTTAAATGATGTA-A--CAAC
*
37190254 TCCTTTAATTGATGTAACA
1 TCCTTTAAATGATGTAACA
37190273 GCCCCTTGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 17 0.47
22 1 0.03
23 1 0.03
24 17 0.47
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (21 bp):
TCCTTTAAATGATGTAACAAC
Found at i:37190261 original size:24 final size:23
Alignment explanation
Indices: 37190188--37190269 Score: 78
Period size: 24 Copynumber: 3.6 Consensus size: 23
37190178 GCTGCTAAAT
* * *
37190188 TTTAAAAGATGTATAATGTTTTCC
1 TTTAAATGATGTAT-ATGATCTCC
* *
37190212 TTTAAATGATGTA-A-CAACTCC
1 TTTAAATGATGTATATGATCTCC
37190233 TTTAAATGATGTATAGTGATCTCC
1 TTTAAATGATGTATA-TGATCTCC
*
37190257 TTTAATTGATGTA
1 TTTAAATGATGTA
37190270 ACAGCCCCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 16 0.34
22 2 0.04
24 29 0.62
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (23 bp):
TTTAAATGATGTATATGATCTCC
Found at i:37190388 original size:11 final size:11
Alignment explanation
Indices: 37190372--37190404 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
37190362 ATCTACAATC
37190372 AAACACATTTA
1 AAACACATTTA
37190383 AAACACA-TT-
1 AAACACATTTA
37190392 AAACACATTTA
1 AAACACATTTA
37190403 AA
1 AA
37190405 CACTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.35
10 4 0.20
11 9 0.45
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (11 bp):
AAACACATTTA
Found at i:37190403 original size:10 final size:10
Alignment explanation
Indices: 37190372--37190407 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
37190362 ATCTACAATC
37190372 AAACACATTT
1 AAACACATTT
37190382 AAAACACA-TT
1 -AAACACATTT
37190392 AAACACATTT
1 AAACACATTT
37190402 AAACAC
1 AAACAC
37190408 TTATTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.29
10 10 0.42
11 7 0.29
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (10 bp):
AAACACATTT
Found at i:37190546 original size:40 final size:40
Alignment explanation
Indices: 37190490--37190577 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
37190480 GTTTAACAAA
37190490 AATAAAATCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAATCCAACAACTCAATTATTAACTAAGATGAGTTT
* *
37190530 AATAAAGTCCAGCAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAATCCAACAACTCAATTATTAACTAAGATGAGTTT
37190570 AATAAAAT
1 AATAAAAT
37190578 TAAAGTTCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.30
Consensus pattern (40 bp):
AATAAAATCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:37190614 original size:70 final size:70
Alignment explanation
Indices: 37190529--37190669 Score: 219
Period size: 70 Copynumber: 2.0 Consensus size: 70
37190519 AAGATGAGTT
* * *
37190529 TAATAAAGTCCAGCAACTCAATTATTAACTAAGATGAGTTTAATAAAATTAAAGTTCAGCTTGCA
1 TAATAAAGTCCAGCAACTCAATCATTAACTAAGATGAGTTTAATAAAATTAAAGTTAAACTTGCA
37190594 AAAGA
66 AAAGA
* * * *
37190599 TAATAAAGTCTAGCAACTCAATCATTAACTATGATGAGTTTAATCAAATTAATGTTAAACTTGCA
1 TAATAAAGTCCAGCAACTCAATCATTAACTAAGATGAGTTTAATAAAATTAAAGTTAAACTTGCA
37190664 AAAGA
66 AAAGA
37190669 T
1 T
37190670 TGCAAATGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (70 bp):
TAATAAAGTCCAGCAACTCAATCATTAACTAAGATGAGTTTAATAAAATTAAAGTTAAACTTGCA
AAAGA
Found at i:37205043 original size:22 final size:21
Alignment explanation
Indices: 37205006--37205047 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
37204996 GCTATCAAAG
37205006 CTTTCACACTTATTGGACCATC
1 CTTTCACACTTATTGG-CCATC
* *
37205028 CTTTCACATTTTTTGGCCAT
1 CTTTCACACTTATTGGCCAT
37205048 TTGGTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.43
Consensus pattern (21 bp):
CTTTCACACTTATTGGCCATC
Found at i:37207648 original size:18 final size:19
Alignment explanation
Indices: 37207627--37207663 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
37207617 AAAGAAAGAC
37207627 AGAAAAAGA-AATCAAAAA
1 AGAAAAAGAGAATCAAAAA
*
37207645 AGAAAAAGAGAATGAAAAA
1 AGAAAAAGAGAATCAAAAA
37207664 GAGCAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAGAGAATCAAAAA
Found at i:37213167 original size:20 final size:20
Alignment explanation
Indices: 37213142--37213184 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37213132 AAAAGAAAAG
37213142 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
37213162 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
37213182 AAA
1 AAA
37213185 ACAAGAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:37225934 original size:30 final size:30
Alignment explanation
Indices: 37225878--37225935 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
37225868 AAACGAGCTG
* *
37225878 GAAAGAGCTCAAGTGAGCTGATTTGAGCAA
1 GAAAGAGCTCAAGGGAGCTGAATTGAGCAA
*
37225908 GAAAGAGCT-GAGGGAGCTGGAATTGAGC
1 GAAAGAGCTCAAGGGAGCT-GAATTGAGC
37225936 TAAAATCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.34, C:0.12, G:0.36, T:0.17
Consensus pattern (30 bp):
GAAAGAGCTCAAGGGAGCTGAATTGAGCAA
Found at i:37233536 original size:91 final size:91
Alignment explanation
Indices: 37233381--37233565 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
37233371 ACACGCAAAT
37233381 GCTCTCACAGCACTTGTGCCTTTTATTGCTCGCTTCACCTCTCAAACTTCATAATCGACTCGTTT
1 GCTCTCACAGCACTTGTGCCTTTTATTGCTCGCTTCACCTCTCAAACTTCATAATCGACTCGTTT
37233446 AGACTTATAACCAGGCCTAGGGTTCG
66 AGACTTATAACCAGGCCTAGGGTTCG
37233472 GCTCTCACAGCACTTGTGCCTTTTATTGCTCGCTTCACCTCTCAAACTTCATAATCGACTCGTTT
1 GCTCTCACAGCACTTGTGCCTTTTATTGCTCGCTTCACCTCTCAAACTTCATAATCGACTCGTTT
37233537 AGACTTATAACCAGGCCTAGGGTTCG
66 AGACTTATAACCAGGCCTAGGGTTCG
37233563 GCT
1 GCT
37233566 TCAAATGGGT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.33
Consensus pattern (91 bp):
GCTCTCACAGCACTTGTGCCTTTTATTGCTCGCTTCACCTCTCAAACTTCATAATCGACTCGTTT
AGACTTATAACCAGGCCTAGGGTTCG
Found at i:37245087 original size:49 final size:49
Alignment explanation
Indices: 37245015--37245147 Score: 230
Period size: 49 Copynumber: 2.7 Consensus size: 49
37245005 TAATAACATG
* * *
37245015 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTACTT
1 CCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTT
*
37245064 CCAATTCCATATCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTT
1 CCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTT
37245113 CCAATGCCATATCCCAGATATGGTCTTACATGGGA
1 CCAATGCCATATCCCAGATATGGTCTTACATGGGA
37245148 GTTCTCATAT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (49 bp):
CCAATGCCATATCCCAGATATGGTCTTACATGGGATGTTTCTTGTACTT
Found at i:37245191 original size:50 final size:50
Alignment explanation
Indices: 37245013--37245308 Score: 213
Period size: 49 Copynumber: 5.8 Consensus size: 50
37245003 AATAATAACA
* ** * * *
37245013 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * ** * * *
37245062 TTCCAATTCCATATCCCAGATATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
37245111 TTCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
37245161 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** *
37245211 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
37245267 TGCCAATTCCATGTCCCATACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37245309 TTACCCAAAT
Statistics
Matches: 206, Mismatches: 33, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.00
49 85 0.41
50 79 0.38
53 2 0.01
56 39 0.19
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:37245279 original size:56 final size:50
Alignment explanation
Indices: 37245119--37245308 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 50
37245109 ACTTCCAATG
* * ** * * * **
37245119 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACA
* ** *
37245169 CCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACA
**
37245219 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAATT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC---GATGCCAACA
* *
37245275 CCATGTCCCATACATGGTCTTACATGGGATCTCT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
37245309 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 73 0.63
53 3 0.03
56 39 0.34
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACA
Found at i:37249169 original size:8 final size:8
Alignment explanation
Indices: 37249156--37249184 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
37249146 ATATATACTT
37249156 AAATAATA
1 AAATAATA
37249164 AAATAATA
1 AAATAATA
37249172 AAATAATA
1 AAATAATA
37249180 AAATA
1 AAATA
37249185 TCAATTAAAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:37249993 original size:15 final size:15
Alignment explanation
Indices: 37249973--37250008 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
37249963 CAACATTTAA
*
37249973 GACTCCGTTAGGAAT
1 GACTCCATTAGGAAT
37249988 GACTCCATTAGGAAT
1 GACTCCATTAGGAAT
37250003 GACTCC
1 GACTCC
37250009 TTATCAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (15 bp):
GACTCCATTAGGAAT
Found at i:37258526 original size:21 final size:22
Alignment explanation
Indices: 37258482--37258528 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
37258472 GTGAAATCAG
* *
37258482 ATTTTGTAATGAACTTTTGATC
1 ATTTTGTAATGAAATTCTGATC
*
37258504 ATTTTG-AATGAAATTCTGTTC
1 ATTTTGTAATGAAATTCTGATC
37258525 ATTT
1 ATTT
37258529 GGTGAGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.51
Consensus pattern (22 bp):
ATTTTGTAATGAAATTCTGATC
Found at i:37264825 original size:20 final size:20
Alignment explanation
Indices: 37264787--37264826 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37264777 TCTAGCTTGT
*
37264787 CCAAGCTCATCTAGTTTAAC
1 CCAAGCTCATCTAGCTTAAC
37264807 CCAAGCTCAAT-TAGCTTAAC
1 CCAAGCTC-ATCTAGCTTAAC
37264827 TTCAACACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.28
Consensus pattern (20 bp):
CCAAGCTCATCTAGCTTAAC
Found at i:37264925 original size:54 final size:54
Alignment explanation
Indices: 37264862--37264983 Score: 190
Period size: 54 Copynumber: 2.3 Consensus size: 54
37264852 GTAAGTATTT
** *
37264862 AGTTGCTGGAATAAATTACTTATCCTAGTTAATTGAGTTCATCTTAATTAATTA
1 AGTTGCTGGAATAAATTACGCATCCTAGTTAATTAAGTTCATCTTAATTAATTA
* * *
37264916 AGTTGCTGGAATAAATTACGCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACGCATCCTAGTTAATTAAGTTCATCTTAATTAATTA
37264970 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
37264984 TTTATTGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACGCATCCTAGTTAATTAAGTTCATCTTAATTAATTA
Found at i:37264960 original size:19 final size:19
Alignment explanation
Indices: 37264936--37264973 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37264926 ATAAATTACG
37264936 CATCTTAGTTAATTAAGTT
1 CATCTTAGTTAATTAAGTT
*
37264955 CATCTTAGTTAATTTAGTT
1 CATCTTAGTTAATTAAGTT
37264974 GCTGGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
CATCTTAGTTAATTAAGTT
Found at i:37266756 original size:17 final size:17
Alignment explanation
Indices: 37266734--37266772 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
37266724 AAGTTGAGGA
37266734 ATGAAGACAAG-ATCCTC
1 ATGAAGACAAGCATCC-C
37266751 ATGAAGACAAGCATCCC
1 ATGAAGACAAGCATCCC
37266768 ATGAA
1 ATGAA
37266773 TATTCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.15
Consensus pattern (17 bp):
ATGAAGACAAGCATCCC
Found at i:37267153 original size:18 final size:18
Alignment explanation
Indices: 37267130--37267172 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37267120 AAAAGAAAAG
37267130 AAAGAAAAAGCA-ATTGAA
1 AAAGAAAAAG-ATATTGAA
37267148 AAAGAAAAAGATATTGAA
1 AAAGAAAAAGATATTGAA
*
37267166 AATGAAA
1 AAAGAAA
37267173 TAAAAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.14
Consensus pattern (18 bp):
AAAGAAAAAGATATTGAA
Found at i:37268939 original size:54 final size:54
Alignment explanation
Indices: 37268864--37268991 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
37268854 TGAAATAAGT
** * * *
37268864 ATTTAGTCACTGGAATGAATTACTCATCTTAGT-TAATTGAGTTCATCTTAGTTA
1 ATTTAGTTGCTGGAATTAATTACTCATCTTA-TATAATTAAGCTCATCTTAGTTA
37268918 A-TTATGTTGCTGGAATTAATTACTCATCTTATATAATTAAGCTCATCTTAGTTA
1 ATTTA-GTTGCTGGAATTAATTACTCATCTTATATAATTAAGCTCATCTTAGTTA
*
37268972 ATTTAGTTTCTGGAA-TAATT
1 ATTTAGTTGCTGGAATTAATT
37268992 TATTGTTGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
53 9 0.14
54 53 0.82
55 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (54 bp):
ATTTAGTTGCTGGAATTAATTACTCATCTTATATAATTAAGCTCATCTTAGTTA
Found at i:37268973 original size:19 final size:19
Alignment explanation
Indices: 37268886--37268974 Score: 64
Period size: 19 Copynumber: 4.8 Consensus size: 19
37268876 GAATGAATTA
*
37268886 CTCATCTTAGTTAATTGAG
1 CTCATCTTAGTTAATTAAG
* *
37268905 TTCATCTTAGTTAATTATG
1 CTCATCTTAGTTAATTAAG
* *
37268924 -T--TGCTGGAATTAATT-A-
1 CTCAT-CT-TAGTTAATTAAG
37268940 CTCATCTTA-TATAATTAAG
1 CTCATCTTAGT-TAATTAAG
37268959 CTCATCTTAGTTAATT
1 CTCATCTTAGTTAATT
37268975 TAGTTTCTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.04
17 9 0.17
18 11 0.20
19 31 0.57
20 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.46
Consensus pattern (19 bp):
CTCATCTTAGTTAATTAAG
Found at i:37269105 original size:9 final size:9
Alignment explanation
Indices: 37269082--37269118 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
37269072 TAAGTCTAAT
37269082 ATGTGTTTAA
1 ATGTGTTT-A
37269092 ATGTGTTTA
1 ATGTGTTTA
37269101 ATGTGTTTTA
1 ATGTG-TTTA
37269111 ATGTGTTT
1 ATGTGTTT
37269119 GTTAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:37269106 original size:19 final size:19
Alignment explanation
Indices: 37269082--37269118 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
37269072 TAAGTCTAAT
37269082 ATGTGTTTAAATGTGTTTA
1 ATGTGTTTAAATGTGTTTA
*
37269101 ATGTGTTTTAATGTGTTT
1 ATGTGTTTAAATGTGTTT
37269119 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (19 bp):
ATGTGTTTAAATGTGTTTA
Found at i:37280626 original size:21 final size:21
Alignment explanation
Indices: 37280601--37280645 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37280591 TCAAATTGAG
37280601 AAATAAAACTATAA-AAATTTA
1 AAATAAAACT-TAATAAATTTA
* *
37280622 AAATAATACTTAATGAATTTA
1 AAATAAAACTTAATAAATTTA
37280643 AAA
1 AAA
37280646 CATATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAATAAAACTTAATAAATTTA
Found at i:37282185 original size:11 final size:11
Alignment explanation
Indices: 37282171--37282200 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
37282161 TGGACTTTTA
37282171 TTATATTTATT
1 TTATATTTATT
*
37282182 TTATATATATT
1 TTATATTTATT
37282193 TTATATTT
1 TTATATTT
37282201 GGGTTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATTTATT
Found at i:37282712 original size:38 final size:39
Alignment explanation
Indices: 37282652--37282728 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
37282642 GTTATTAAAG
*
37282652 TTGAGTCTTTAATTATGCCATAATTTGAACATCATTAAT
1 TTGAGTCTTTAACTATGCCATAATTTGAACATCATTAAT
* *
37282691 TTGAGT-TTTAACTATGTCATAATTTGAACATCTTTAAT
1 TTGAGTCTTTAACTATGCCATAATTTGAACATCATTAAT
37282729 ATGTGATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 29 0.83
39 6 0.17
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (39 bp):
TTGAGTCTTTAACTATGCCATAATTTGAACATCATTAAT
Found at i:37293778 original size:33 final size:33
Alignment explanation
Indices: 37293736--37293804 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
37293726 AATAATCATA
37293736 TTACTCTCAGGACATTATTATAAAACAGTTTAT
1 TTACTCTCAGGACATTATTATAAAACAGTTTAT
37293769 TTACTCTCAGGACATTATTATAAAACAGTTTAT
1 TTACTCTCAGGACATTATTATAAAACAGTTTAT
37293802 TTA
1 TTA
37293805 TACACACAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (33 bp):
TTACTCTCAGGACATTATTATAAAACAGTTTAT
Found at i:37294255 original size:14 final size:14
Alignment explanation
Indices: 37294238--37294275 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
37294228 TATGCACAAA
**
37294238 TTTTTTTTCGGAAC
1 TTTTTTTTCAAAAC
37294252 TTTTTTTTCAAAAC
1 TTTTTTTTCAAAAC
37294266 TTTTTTTTCA
1 TTTTTTTTCA
37294276 CGAACCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.63
Consensus pattern (14 bp):
TTTTTTTTCAAAAC
Found at i:37295654 original size:20 final size:21
Alignment explanation
Indices: 37295629--37295668 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
37295619 GTTTATTCTA
37295629 GAAATAAAGT-AAATGAGCTG
1 GAAATAAAGTGAAATGAGCTG
*
37295649 GAAATAAATTGAAATGAGCT
1 GAAATAAAGTGAAATGAGCT
37295669 CAAACAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (21 bp):
GAAATAAAGTGAAATGAGCTG
Found at i:37297996 original size:43 final size:43
Alignment explanation
Indices: 37297935--37298021 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
37297925 AAGCAAAGTT
37297935 GATAGTACACGATTTACTACCTCGGTTTGGCCATCCGTTTGAG
1 GATAGTACACGATTTACTACCTCGGTTTGGCCATCCGTTTGAG
37297978 GATAGTACACGATTTACTACCTCGGTTTGGCCATCCGTTTGAG
1 GATAGTACACGATTTACTACCTCGGTTTGGCCATCCGTTTGAG
37298021 G
1 G
37298022 GTGGCATGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (43 bp):
GATAGTACACGATTTACTACCTCGGTTTGGCCATCCGTTTGAG
Found at i:37306088 original size:50 final size:47
Alignment explanation
Indices: 37306033--37306133 Score: 157
Period size: 50 Copynumber: 2.1 Consensus size: 47
37306023 TGTTTAGTTA
* *
37306033 AATTAGTTTAATTAATTAAGTTGTTTTTAATTTTCTTTAGTTGCTTAAAT
1 AATTAGTTTAATGAATTAAGTTGTTTTT--TTAT-TTTAGTTGCTTAAAT
37306083 AATTAGTTTAATGAATTAAGTTGTTTTTTTATTTTAGTTGCTTAAAT
1 AATTAGTTTAATGAATTAAGTTGTTTTTTTATTTTAGTTGCTTAAAT
37306130 AATT
1 AATT
37306134 TCGACATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
47 19 0.39
48 3 0.06
50 27 0.55
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (47 bp):
AATTAGTTTAATGAATTAAGTTGTTTTTTTATTTTAGTTGCTTAAAT
Found at i:37310747 original size:22 final size:21
Alignment explanation
Indices: 37310708--37310750 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
37310698 GCTGCTTAAA
* *
37310708 TAAATTTTAGTTAGTTTAGTT
1 TAAATTTTAATTAATTTAGTT
37310729 TAAATATTTAATTAATTTAGTT
1 TAAAT-TTTAATTAATTTAGTT
37310751 AAGTGTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TAAATTTTAATTAATTTAGTT
Found at i:37313169 original size:12 final size:12
Alignment explanation
Indices: 37313146--37313218 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 12
37313136 TGTGAGCGAG
37313146 AAAAGAACATTGA
1 AAAAGAA-ATTGA
37313159 AAAAGAAATTG-
1 AAAAGAAATTGA
*
37313170 -AAAGAAA-TGG
1 AAAAGAAATTGA
37313180 AAAAGAAA---A
1 AAAAGAAATTGA
* **
37313189 AGAAGAAAAAGA
1 AAAAGAAATTGA
*
37313201 GAAAGAAATTGA
1 AAAAGAAATTGA
37313213 AAAAGA
1 AAAAGA
37313219 GAGTGAGACT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 9 0.19
10 7 0.15
11 7 0.15
12 18 0.38
13 7 0.15
ACGTcount: A:0.68, C:0.01, G:0.21, T:0.10
Consensus pattern (12 bp):
AAAAGAAATTGA
Found at i:37313185 original size:21 final size:21
Alignment explanation
Indices: 37313159--37313214 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
37313149 AGAACATTGA
**
37313159 AAAAGAAATTGAAAGAAATGG
1 AAAAGAAATTGAAAGAAAAAG
**
37313180 AAAAGAAAAAG-AAGAAAAAG
1 AAAAGAAATTGAAAGAAAAAG
37313200 AGAAAGAAATTGAAA
1 A-AAAGAAATTGAAA
37313215 AAGAGAGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.30
21 17 0.63
22 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (21 bp):
AAAAGAAATTGAAAGAAAAAG
Found at i:37318192 original size:16 final size:16
Alignment explanation
Indices: 37318154--37318195 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
37318144 GTATGGGAGC
*
37318154 ATACATGAATGGCTGG
1 ATACATGGATGGCTGG
37318170 ATACATGGATGGCTGG
1 ATACATGGATGGCTGG
37318186 A-ATCATGGAT
1 ATA-CATGGAT
37318196 ATGGCTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (16 bp):
ATACATGGATGGCTGG
Found at i:37319283 original size:14 final size:13
Alignment explanation
Indices: 37319237--37319282 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
37319227 GTATTAGCTG
* *
37319237 AAAAAAACTTCAT
1 AAAAAAATTTCGT
37319250 AAAAAAATTTCGT
1 AAAAAAATTTCGT
37319263 AAAAAAATTT-GT
1 AAAAAAATTTCGT
37319275 GAAAAAAA
1 -AAAAAAA
37319283 AGAATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 2 0.07
13 28 0.93
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAAAAATTTCGT
Found at i:37327490 original size:33 final size:33
Alignment explanation
Indices: 37327452--37327551 Score: 100
Period size: 33 Copynumber: 3.1 Consensus size: 33
37327442 GATTACTCTC
*
37327452 TTCACTCGTTTCTTTTACAAACT-TTCTTTCTTT
1 TTCACTCGTTTCTTTTACAAACTCTT-TTTCCTT
* *
37327485 TTCACTCGATTTCTGTT-CAAGCTCTTTTTCCTT
1 TTCACTCG-TTTCTTTTACAAACTCTTTTTCCTT
**
37327518 TTCACTCGTTT-TCTTTACAATGTC-TTTTCCTT
1 TTCACTCGTTTCT-TTTACAAACTCTTTTTCCTT
37327550 TT
1 TT
37327552 TCTTTTCTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
31 1 0.02
32 15 0.26
33 32 0.56
34 9 0.16
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGTTTCTTTTACAAACTCTTTTTCCTT
Found at i:37327596 original size:21 final size:22
Alignment explanation
Indices: 37327571--37327613 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
37327561 TCAATTTATT
37327571 TTTCAATCTCTTTTTC-TTTTC
1 TTTCAATCTCTTTTTCATTTTC
*
37327592 TTTCAATTTCTTTTTCATTTTC
1 TTTCAATCTCTTTTTCATTTTC
37327614 ATTTTCTCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTCAATCTCTTTTTCATTTTC
Found at i:37327619 original size:33 final size:33
Alignment explanation
Indices: 37327549--37327620 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
37327539 GTCTTTTCCT
*
37327549 TTTTCTTTTCTTTCAATTTATTTTTCAATCTCT
1 TTTTCTTTTCTTTCAATTTATTTTTCAATCTCA
* * *
37327582 TTTTCTTTTCTTTCAATTTCTTTTTCATTTTCA
1 TTTTCTTTTCTTTCAATTTATTTTTCAATCTCA
37327615 TTTTCT
1 TTTTCT
37327621 CGCTCGCACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTCTTTTCTTTCAATTTATTTTTCAATCTCA
Found at i:37335520 original size:12 final size:13
Alignment explanation
Indices: 37335500--37335526 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37335490 TTTAGATTTG
37335500 AATTTTTTTTGAA
1 AATTTTTTTTGAA
37335513 AATTTTTTTTGAA
1 AATTTTTTTTGAA
37335526 A
1 A
37335527 CTACGATTAC
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:0.00, G:0.07, T:0.59
Consensus pattern (13 bp):
AATTTTTTTTGAA
Found at i:37336784 original size:20 final size:20
Alignment explanation
Indices: 37336761--37336830 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
37336751 TAAGACAAAC
37336761 TTAATTAAATCAGGACATAT
1 TTAATTAAATCAGGACATAT
* *
37336781 TTAATTCAACAAAAACA-AAGCATA-
1 TTAATT-----AAATCAGGA-CATAT
37336805 TTAATTAAATCAGGACATAT
1 TTAATTAAATCAGGACATAT
37336825 TTAATT
1 TTAATT
37336831 CAGCAAAGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
19 9 0.24
20 13 0.34
24 7 0.18
25 9 0.24
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (20 bp):
TTAATTAAATCAGGACATAT
Found at i:37336814 original size:44 final size:44
Alignment explanation
Indices: 37336761--37336852 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
37336751 TAAGACAAAC
37336761 TTAATTAAATCAGGACATATTTAATTCAACAAAAACAAAGCATA
1 TTAATTAAATCAGGACATATTTAATTCAACAAAAACAAAGCATA
* *
37336805 TTAATTAAATCAGGACATATTTAATTCAGCAAAGACAAAGCATA
1 TTAATTAAATCAGGACATATTTAATTCAACAAAAACAAAGCATA
37336849 TTAA
1 TTAA
37336853 AGACTTATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (44 bp):
TTAATTAAATCAGGACATATTTAATTCAACAAAAACAAAGCATA
Found at i:37338428 original size:16 final size:16
Alignment explanation
Indices: 37338389--37338430 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
37338379 GTATGGGAGC
*
37338389 ATACATGAATGGCTGG
1 ATACATGGATGGCTGG
37338405 ATACATGGATGGCTGG
1 ATACATGGATGGCTGG
*
37338421 ATTCATGGAT
1 ATACATGGAT
37338431 ATGGCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (16 bp):
ATACATGGATGGCTGG
Found at i:37340102 original size:92 final size:91
Alignment explanation
Indices: 37339916--37340119 Score: 241
Period size: 92 Copynumber: 2.2 Consensus size: 91
37339906 TCTCAAAATA
** * *
37339916 CATGCACAATCGGGTGCATGTTCTTCTTTAAAGCAGCTTCGTTGAATCTAGAAGATACATGTATA
1 CATGCACAATCGGGTGCATGTTCTTCAATAAAGCAGCTTCATTGAATCTAGAAGATACATGAATA
* * *
37339981 TTCAGCTAAAAAATAGCTTCGAACTTT
66 TCCAGCTAAAAAACAACTTCGAAC-TT
** * *
37340008 CATGCACAATAAGGTGCATGTTCTTCAATAAAGTAGCTTTATTGAATCT-GAAAGATACATGAAT
1 CATGCACAATCGGGTGCATGTTCTTCAATAAAGCAGCTTCATTGAATCTAG-AAGATACATGAAT
*
37340072 GTCCAGCTAAAAAACAACTCTCGATA-TT
65 ATCCAGCTAAAAAACAACT-TCGA-ACTT
*
37340100 CATGCATAATCGGGTGCATG
1 CATGCACAATCGGGTGCATG
37340120 CTCCATATTA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 1 0.01
92 88 0.94
93 4 0.04
94 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (91 bp):
CATGCACAATCGGGTGCATGTTCTTCAATAAAGCAGCTTCATTGAATCTAGAAGATACATGAATA
TCCAGCTAAAAAACAACTTCGAACTT
Found at i:37341378 original size:15 final size:15
Alignment explanation
Indices: 37341360--37341389 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37341350 TCTAAAAAAC
37341360 TTGTGAAAAAAAGAA
1 TTGTGAAAAAAAGAA
37341375 TTGTGAAAAAAAGAA
1 TTGTGAAAAAAAGAA
37341390 ATCAGCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TTGTGAAAAAAAGAA
Found at i:37344286 original size:39 final size:38
Alignment explanation
Indices: 37344232--37344323 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 38
37344222 AGTTTGAGTC
*
37344232 TTTAATTATGTCATAATTCGAACAACATTAATATGAGCT
1 TTTAATTATGTCATAATTCGAACAACATTAATAAG-GCT
* * *
37344271 TTTAATTGTGTCATAATTTGAACAACATTAATAAGGGT
1 TTTAATTATGTCATAATTCGAACAACATTAATAAGGCT
37344309 TTTAATTATGTCATA
1 TTTAATTATGTCATA
37344324 GTTTAGGACA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 16 0.33
39 32 0.67
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (38 bp):
TTTAATTATGTCATAATTCGAACAACATTAATAAGGCT
Found at i:37344341 original size:39 final size:38
Alignment explanation
Indices: 37344232--37344379 Score: 104
Period size: 39 Copynumber: 3.8 Consensus size: 38
37344222 AGTTTGAGTC
* * * * * * *
37344232 TTTAATTATGTCATAATTCGAACAACATTAATATGAGCT
1 TTTAATTATGTCATATTTAGGACATCTTTAATA-CAGGT
* * * *
37344271 TTTAATTGTGTCATAATTT-GAACAACATTAATA-AGGGT
1 TTTAATTATGTCAT-ATTTAGGACATCTTTAATACA-GGT
*
37344309 TTTAATTATGTCATAGTTTAGGACATCTTTAATACATGT
1 TTTAATTATGTCATA-TTTAGGACATCTTTAATACAGGT
* *
37344348 TTTAAGTATGT-TTATATTAGGACATCTTTAAT
1 TTTAATTATGTCATAT-TTAGGACATCTTTAAT
37344380 GTTTGTTAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
37 3 0.03
38 36 0.39
39 50 0.54
40 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (38 bp):
TTTAATTATGTCATATTTAGGACATCTTTAATACAGGT
Found at i:37354632 original size:6 final size:6
Alignment explanation
Indices: 37354621--37354687 Score: 95
Period size: 6 Copynumber: 11.7 Consensus size: 6
37354611 GTGCGAGCGA
* *
37354621 GAAAAT GAAAAT GAAAAA GAAATT G-AAA- GAAAAT -AAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
37354666 GAAAAT GAAAAT GAAAAT GAAA
1 GAAAAT GAAAAT GAAAAT GAAA
37354688 GAGAGTTTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
4 1 0.02
5 10 0.19
6 43 0.80
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (6 bp):
GAAAAT
Found at i:37358714 original size:18 final size:18
Alignment explanation
Indices: 37358691--37358729 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
37358681 CTCTTTTTGC
37358691 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
37358709 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
37358727 TCT
1 TCT
37358730 GTCTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:37360420 original size:30 final size:28
Alignment explanation
Indices: 37360386--37360441 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
37360376 GTGATTAAAT
37360386 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
37360416 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
37360442 TAAGTTCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:37361975 original size:24 final size:24
Alignment explanation
Indices: 37361943--37361991 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
37361933 TAATGGTGCC
37361943 AGGTACATGCAATGGACAGCATGA
1 AGGTACATGCAATGGACAGCATGA
37361967 AGGTACATGCAATGGACAGCATGA
1 AGGTACATGCAATGGACAGCATGA
37361991 A
1 A
37361992 TGTGGGACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (24 bp):
AGGTACATGCAATGGACAGCATGA
Found at i:37365269 original size:30 final size:31
Alignment explanation
Indices: 37365211--37365270 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
37365201 ATCAATAATG
* *
37365211 CAAGACATTAATTAAATATGCATTTAATAAA
1 CAAGACATTAATTAAAGATGCATATAATAAA
37365242 CAAGACA-TAATTAAAGACT-CATATAATAA
1 CAAGACATTAATTAAAGA-TGCATATAATAA
37365271 TAATAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (31 bp):
CAAGACATTAATTAAAGATGCATATAATAAA
Found at i:37371661 original size:33 final size:34
Alignment explanation
Indices: 37371624--37371690 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
37371614 AAAGAAATTA
*
37371624 AAAGAAAGCTT-GAAAAGAAATCGAGTGAA-AAAG
1 AAAGAAAGCTTACAAAAGAAAT-GAGTGAAGAAAG
*
37371657 AAAGAAAGTTTACAAAAGAAATGAGTGAAGAAAG
1 AAAGAAAGCTTACAAAAGAAATGAGTGAAGAAAG
37371691 CAATCCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 17 0.57
34 13 0.43
ACGTcount: A:0.58, C:0.04, G:0.24, T:0.13
Consensus pattern (34 bp):
AAAGAAAGCTTACAAAAGAAATGAGTGAAGAAAG
Found at i:37379386 original size:18 final size:18
Alignment explanation
Indices: 37379365--37379426 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
37379355 AGATAAGCAT
*
37379365 AAAAGAAATTGAAAAAGA
1 AAAAGAGATTGAAAAAGA
*
37379383 AAAAGAGAGTGAAGAAAGCA
1 AAAAGAGATTGAA-AAAG-A
*
37379403 AAACGAGATTGAAAAAGA
1 AAAAGAGATTGAAAAAGA
37379421 AAAAGA
1 AAAAGA
37379427 TTGCGAGCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 17 0.46
19 8 0.22
20 12 0.32
ACGTcount: A:0.66, C:0.03, G:0.23, T:0.08
Consensus pattern (18 bp):
AAAAGAGATTGAAAAAGA
Found at i:37379410 original size:20 final size:18
Alignment explanation
Indices: 37379374--37379426 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
37379364 TAAAAGAAAT
37379374 TGAAAAAGAAAAAGAGAG
1 TGAAAAAGAAAAAGAGAG
* *
37379392 TGAAGAAAGCAAAACGAGAT
1 TGAA-AAAG-AAAAAGAGAG
37379412 TGAAAAAGAAAAAGA
1 TGAAAAAGAAAAAGA
37379427 TTGCGAGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 10 0.33
19 8 0.27
20 12 0.40
ACGTcount: A:0.64, C:0.04, G:0.25, T:0.08
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAGAG
Found at i:37382022 original size:39 final size:39
Alignment explanation
Indices: 37381956--37382053 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
37381946 TGTCCTAAAC
* * * * *
37381956 TATGACATAATT-AAAACCCTTATTAATGTTGTTTAGAT
1 TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
37381994 TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
*
37382033 TATGACATAATTAAAGACTCA
1 TATGACATAATTAAAAACTCA
37382054 AACTAAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 12 0.23
39 41 0.77
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (39 bp):
TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
Found at i:37387973 original size:18 final size:18
Alignment explanation
Indices: 37387915--37387974 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
37387905 GCTCATTTTC
* *
37387915 TTTTCTTTCTCCAAACTCA
1 TTTTCTTTCT-CAAATTCT
* * *
37387934 CTTTCTTTTTC-AATTTT
1 TTTTCTTTCTCAAATTCT
37387951 CTTTTCTTTCTCAAATTCT
1 -TTTTCTTTCTCAAATTCT
37387970 TTTTC
1 TTTTC
37387975 GCTCTCAATC
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
17 3 0.10
18 15 0.48
19 13 0.42
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTCTTTCTCAAATTCT
Found at i:37390777 original size:25 final size:24
Alignment explanation
Indices: 37390742--37390791 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
37390732 TAATTGAATT
*
37390742 TGGCTAAGTGAAATGATGATGGAAA
1 TGGCTAAGTG-AATGAGGATGGAAA
* *
37390767 TGGCTAGGTGAGTGAGGATGGAAA
1 TGGCTAAGTGAATGAGGATGGAAA
37390791 T
1 T
37390792 TCAGCAAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.34, C:0.04, G:0.38, T:0.24
Consensus pattern (24 bp):
TGGCTAAGTGAATGAGGATGGAAA
Found at i:37392966 original size:43 final size:42
Alignment explanation
Indices: 37392912--37392997 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 42
37392902 TTAAAGCAAG
*
37392912 CATGCATGGGACAACATTAAAGGAGCTGCTGATTTCTCATTTT
1 CATGCAAGGGACAACATTAAAGGAGCTGCTGATTTCTC-TTTT
*** *
37392955 CATGCAAGGGACGGTATTCAAGGAGCTGCTGATTTCTCTTTT
1 CATGCAAGGGACAACATTAAAGGAGCTGCTGATTTCTCTTTT
37392997 C
1 C
37392998 TTGGTGCCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 5 0.13
43 33 0.87
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (42 bp):
CATGCAAGGGACAACATTAAAGGAGCTGCTGATTTCTCTTTT
Found at i:37394258 original size:12 final size:12
Alignment explanation
Indices: 37394235--37394268 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37394225 TAAGACAAAC
*
37394235 CCAAATTAAAGT
1 CCAAAATAAAGT
*
37394247 CCATAATAAAGT
1 CCAAAATAAAGT
37394259 CCAAAATAAA
1 CCAAAATAAA
37394269 ATCATATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.21
Consensus pattern (12 bp):
CCAAAATAAAGT
Found at i:37396501 original size:28 final size:29
Alignment explanation
Indices: 37396464--37396523 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 29
37396454 GTAGTATCAG
*
37396464 AGTGTAGGCCTTAGCCCAATACAGTAA-C
1 AGTGTAGGCCTTAGCCCAAAACAGTAATC
*
37396492 AGTGTGGGCCTTAGCCCAAAACAGTAATC
1 AGTGTAGGCCTTAGCCCAAAACAGTAATC
37396521 AGT
1 AGT
37396524 ACAAATGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (29 bp):
AGTGTAGGCCTTAGCCCAAAACAGTAATC
Found at i:37396659 original size:26 final size:25
Alignment explanation
Indices: 37396629--37396725 Score: 122
Period size: 26 Copynumber: 3.8 Consensus size: 25
37396619 CACGCTAATA
37396629 TCGCAGCAAAGCTGCCAGTATCAGT
1 TCGCAGCAAAGCTGCCAGTATCAGT
* * * *
37396654 AACGCAGCAAAGTTGCCAGTAACAATT
1 -TCGCAGCAAAGCTGCCAGTATC-AGT
* *
37396681 TCGCAGTAGAGCTGCCAGTATCAGT
1 TCGCAGCAAAGCTGCCAGTATCAGT
37396706 TCGCAGCAAAGCTGCCAGTA
1 TCGCAGCAAAGCTGCCAGTA
37396726 ACATTATTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
25 20 0.34
26 36 0.62
27 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.20
Consensus pattern (25 bp):
TCGCAGCAAAGCTGCCAGTATCAGT
Found at i:37396943 original size:28 final size:28
Alignment explanation
Indices: 37396907--37397067 Score: 118
Period size: 27 Copynumber: 5.9 Consensus size: 28
37396897 GTCATTTCAT
* *
37396907 CTTCTAGGGGTATAAT-GGTTATTTTACC
1 CTTCCAGGGGTAT-ATCGGTAATTTTACC
*
37396935 CTTCCA-GGGTATTTCGGTAATTTTACC
1 CTTCCAGGGGTATATCGGTAATTTTACC
* * * *
37396962 CTTCGA-GGGCATTTCGATAATTTTACC
1 CTTCCAGGGGTATATCGGTAATTTTACC
* * ** *
37396989 CTTCGA-GGGTATTTTAGTAATTTTTCC
1 CTTCCAGGGGTATATCGGTAATTTTACC
* *
37397016 CTT-CAGGGGTATTTCGATAACTTTTACC
1 CTTCCAGGGGTATATCGGTAA-TTTTACC
* *
37397044 CTT-CAGGGGTATTTCGATAATTTT
1 CTTCCAGGGGTATATCGGTAATTTT
37397068 TTGACATCAA
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.02
27 81 0.71
28 31 0.27
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (28 bp):
CTTCCAGGGGTATATCGGTAATTTTACC
Found at i:37397068 original size:28 final size:27
Alignment explanation
Indices: 37396927--37397067 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
37396917 TATAATGGTT
*
37396927 ATTTTACCCTTCCA-GGGTATTTCGGTA
1 ATTTTACCCTT-CAGGGGTATTTCGATA
*
37396954 ATTTTACCCTTC-GAGGGCATTTCGATA
1 ATTTTACCCTTCAG-GGGTATTTCGATA
*
37396981 ATTTTACCCTTC-GAGGGTATTT-TAGTA
1 ATTTTACCCTTCAG-GGGTATTTCGA-TA
*
37397008 ATTTTTCCCTTCAGGGGTATTTCGATA
1 ATTTTACCCTTCAGGGGTATTTCGATA
37397035 ACTTTTACCCTTCAGGGGTATTTCGATA
1 A-TTTTACCCTTCAGGGGTATTTCGATA
37397063 ATTTT
1 ATTTT
37397068 TTGACATCAA
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.02
27 71 0.70
28 28 0.28
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCAGGGGTATTTCGATA
Found at i:37404408 original size:41 final size:43
Alignment explanation
Indices: 37404329--37404431 Score: 138
Period size: 41 Copynumber: 2.4 Consensus size: 43
37404319 TCCCAAACGT
* *
37404329 GGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAG
* *
37404372 GGTCTTACATG-AATTAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAG
* *
37404413 GGTCTTACACGTAAACAAA
1 GGTCTTACATGTAATCAAA
37404432 AATTGACGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.56
42 12 0.23
43 11 0.21
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:37405346 original size:28 final size:28
Alignment explanation
Indices: 37405315--37405370 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
37405305 TTTTTTCTTT
*
37405315 TATTATAATAA-GTTTATAATATAATATA
1 TATTATAATAACCTTTATAA-ATAATATA
*
37405343 TATTATTATAACCTTTATAAATAATATA
1 TATTATAATAACCTTTATAAATAATATA
37405371 AAAGCTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TATTATAATAACCTTTATAAATAATATA
Found at i:37412693 original size:114 final size:114
Alignment explanation
Indices: 37412550--37413203 Score: 666
Period size: 114 Copynumber: 5.9 Consensus size: 114
37412540 TGATTTCCAA
* ** * * *
37412550 AAAGCGCCG-TAAAAAACCTAAGCCCAACGACATCGTTTACCGAGCTTTCGGGGATTTAGCGGCA
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
* * *
37412614 TTTTCAAGAAAGCGTCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * *
37412663 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCTGGGATTTAGCGGCA
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
* * * ** * *
37412728 TTTTTAATAAAGCGCCGCTAATGCTGAGGGATAAAACGGCGTTTTTGAA
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
** * * * *
37412777 AAAGCATCGCAAAAAAACCTAAGCCCAACGACGCCGTTTGCTGAGCTTTCCGGGATTTAGTGACG
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
* *
37412842 TTTTTAATAAAGCGCAGCTAATGCTCA-GGCTTTTAGCGGCG-TTTTGAG
66 TTTTTAAGAAAGCGCCGCTAATGCTCAGGGC-TTTAGCGGCGTTTTTGAG
* * * *
37412890 -AAGCG-CAC-AAAAAACCT-AGCCCCAACGATGCCATTTTCTGAGCTTTTCGAGGATTTA---G
1 AAAGCGCCGCAAAAAAACCTAAG-CCCAACGACGCCGTTTTCTGAGC-TTTCGGGGATTTAGCGG
* *
37412948 C--------G-AAGCGCCGCTAATGCTCATGGCTTTAGCGGTGTTTTTGAG
64 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * *
37412990 AAAGCGCCGCAAAAAAACCTAAGCCCAACAATGTCGTTTCCTGAGTTTTCGGGGATTTAGC-GCT
1 AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC-
* * *
37413054 GTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGG
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * * **
37413104 AAAGCCCCGGAAGAAAAA-CTAAGCCCAACAACACCGTTTTCTGTGCTTTCGGGGATTTAGTAGC
1 AAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
*
37413168 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGATTTA
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTA
37413204 AAATAATTTA
Statistics
Matches: 450, Mismatches: 67, Indels: 47
0.80 0.12 0.08
Matches are distributed among these distances:
99 26 0.06
100 10 0.02
101 5 0.01
102 14 0.03
103 27 0.06
104 4 0.01
108 1 0.00
109 2 0.00
110 29 0.06
111 13 0.03
112 4 0.01
113 17 0.04
114 291 0.65
115 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (114 bp):
AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
Found at i:37413487 original size:38 final size:36
Alignment explanation
Indices: 37413439--37413521 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 36
37413429 GGATTTAAGG
*
37413439 TTTAGGGGTTA-GGTCTTATGCTTTAAGGGTTAAGGGGA
1 TTTAAGGGTTATGG-CTTATGCTTTAAGGGTT-A-GGGA
* *
37413477 TTTAAGGGTTATGGGTTATGCTTTAGGGGTTAGGGA
1 TTTAAGGGTTATGGCTTATGCTTTAAGGGTTAGGGA
37413513 TTT-AGGGTT
1 TTTAAGGGTT
37413522 TAGGGTTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 6 0.15
36 7 0.17
37 1 0.02
38 25 0.61
39 2 0.05
ACGTcount: A:0.19, C:0.04, G:0.37, T:0.40
Consensus pattern (36 bp):
TTTAAGGGTTATGGCTTATGCTTTAAGGGTTAGGGA
Found at i:37413519 original size:8 final size:7
Alignment explanation
Indices: 37413418--37413529 Score: 52
Period size: 7 Copynumber: 15.4 Consensus size: 7
37413408 GGGGTATGGA
37413418 TTTAGGG
1 TTTAGGG
37413425 TTT-GGG
1 TTTAGGG
*
37413431 ATTTAAGG
1 -TTTAGGG
37413439 TTTAGGG
1 TTTAGGG
*
37413446 GTTA-GG
1 TTTAGGG
* *
37413452 TCTTATGC
1 T-TTAGGG
37413460 TTTAAGGG
1 TTT-AGGG
*
37413468 TTAAGGGG
1 TTTA-GGG
37413476 ATTTAAGGG
1 -TTT-AGGG
37413485 -TTATGGG
1 TTTA-GGG
* *
37413492 -TTATGC
1 TTTAGGG
37413498 TTTAGGG
1 TTTAGGG
*
37413505 GTTAGGG
1 TTTAGGG
37413512 ATTTAGGG
1 -TTTAGGG
37413520 TTTAGGG
1 TTTAGGG
37413527 TTT
1 TTT
37413530 CAATGGTTAG
Statistics
Matches: 79, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
6 7 0.09
7 49 0.62
8 17 0.22
9 5 0.06
10 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.38, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:37414310 original size:31 final size:32
Alignment explanation
Indices: 37414275--37414336 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
37414265 TTATTATTGG
* *
37414275 ATAAAAAAAT-ACATTTTTTATACCAAATTTT
1 ATAAAAAAATAAAAATTTTTATACCAAATTTT
37414306 ATAAAAAAATAAAAATTTTTATACCAAATTT
1 ATAAAAAAATAAAAATTTTTATACCAAATTT
37414337 CATCCGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (32 bp):
ATAAAAAAATAAAAATTTTTATACCAAATTTT
Found at i:37414599 original size:16 final size:16
Alignment explanation
Indices: 37414567--37414639 Score: 89
Period size: 16 Copynumber: 4.7 Consensus size: 16
37414557 GGGGTTATGC
37414567 TTTAGGGGTTAAGGGGA
1 TTTAGGGGTT-AGGGGA
37414584 TTTAGGGGTTAGGGGA
1 TTTAGGGGTTAGGGGA
*
37414600 TTTAGGGGTTATGGG-
1 TTTAGGGGTTAGGGGA
* *
37414615 TTT-GGGATT-TGGGA
1 TTTAGGGGTTAGGGGA
37414629 TTTAGGGGTTA
1 TTTAGGGGTTA
37414640 TTAATTTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
13 4 0.08
14 8 0.16
15 8 0.16
16 20 0.40
17 10 0.20
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (16 bp):
TTTAGGGGTTAGGGGA
Found at i:37414604 original size:9 final size:8
Alignment explanation
Indices: 37414567--37414638 Score: 62
Period size: 7 Copynumber: 9.2 Consensus size: 8
37414557 GGGGTTATGC
37414567 TTTAGGGG
1 TTTAGGGG
*
37414575 TTAAGGGG
1 TTTAGGGG
37414583 ATTTAGGGG
1 -TTTAGGGG
37414592 -TTAGGGG
1 TTTAGGGG
37414599 ATTTAGGGG
1 -TTTAGGGG
*
37414608 -TTATGGG
1 TTTAGGGG
*
37414615 TTT-GGGA
1 TTTAGGGG
*
37414622 TTT-GGGA
1 TTTAGGGG
37414629 TTTAGGGG
1 TTTAGGGG
37414637 TT
1 TT
37414639 ATTAATTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
7 25 0.47
8 14 0.26
9 14 0.26
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.38
Consensus pattern (8 bp):
TTTAGGGG
Found at i:37417152 original size:25 final size:25
Alignment explanation
Indices: 37417119--37417218 Score: 87
Period size: 25 Copynumber: 4.0 Consensus size: 25
37417109 TTCACATAAT
*
37417119 AACTTACATAACTTAACAACTTAAC
1 AACTCACATAACTTAACAACTTAAC
* * *
37417144 AACTCACATAA-TTTACATAATTTAC
1 AACTCACATAACTTAACA-ACTTAAC
* *
37417169 ATAAT-ACATAACTTAATAACTTAAC
1 A-ACTCACATAACTTAACAACTTAAC
* *
37417194 AACTCACATAATTTACATAACTTAA
1 AACTCACATAACTTA-ACAACTTAA
37417219 TAATTTTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
24 7 0.12
25 37 0.63
26 15 0.25
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (25 bp):
AACTCACATAACTTAACAACTTAAC
Found at i:37417190 original size:50 final size:49
Alignment explanation
Indices: 37417123--37417222 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 49
37417113 CATAATAACT
*
37417123 TACATAACTTAACAACTTAACAACTCACATAATTTACATAATTTACATAA
1 TACATAACTTAACAACTTAACAACTCACATAATTTACATAACTTA-ATAA
*
37417173 TACATAACTTAATAACTTAACAACTCACATAATTTACATAACTTAATAA
1 TACATAACTTAACAACTTAACAACTCACATAATTTACATAACTTAATAA
37417222 T
1 T
37417223 TTTAAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 5 0.10
50 43 0.90
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (49 bp):
TACATAACTTAACAACTTAACAACTCACATAATTTACATAACTTAATAA
Found at i:37419152 original size:21 final size:21
Alignment explanation
Indices: 37419126--37419196 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
37419116 CTACAACTTA
*
37419126 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
37419147 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
37419168 AAGCAGAGGTTGCAGTGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
37419189 AAGCAGAG
1 AAGCAGAG
37419197 CAGAGCAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.48, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:37419609 original size:43 final size:42
Alignment explanation
Indices: 37419539--37419762 Score: 279
Period size: 43 Copynumber: 5.2 Consensus size: 42
37419529 CAAAAAAATT
* * *
37419539 GCGGCGTTTGTGAGAAAAGGGCCGCTAAAGAACATGACATTTA
1 GCGGCGTTTGTGA-AAAAGCGCCGCTAAAGAACATTACCTTTA
* *
37419582 GCGGCGTTTGTGAAAAATGCGCTGCTAAAGAACCTTACCTTTA
1 GCGGCGTTTGTGAAAAA-GCGCCGCTAAAGAACATTACCTTTA
*
37419625 GCGGCGTTTGTGAAAAAAGTGCCGCTAAAGAACATTACCTTTCA
1 GCGGCGTTTGTG-AAAAAGCGCCGCTAAAGAACATTACCTTT-A
* *
37419669 -CGGCGTTTATGAATAAAGCACCGCTAAAGAACATTACCTTTA
1 GCGGCGTTTGTGAA-AAAGCGCCGCTAAAGAACATTACCTTTA
* ** *
37419711 GCGGCGTTTGTGGATAAAGCATCGCTAAAGAACATGACCTTTA
1 GCGGCGTTTGT-GAAAAAGCGCCGCTAAAGAACATTACCTTTA
37419754 GCGGCGTTT
1 GCGGCGTTT
37419763 ATAGAAATAA
Statistics
Matches: 160, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
42 7 0.04
43 145 0.91
44 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (42 bp):
GCGGCGTTTGTGAAAAAGCGCCGCTAAAGAACATTACCTTTA
Found at i:37420050 original size:43 final size:43
Alignment explanation
Indices: 37419984--37420111 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 43
37419974 GGCTCGTACA
*
37419984 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCACATATCG
* * * * *
37420027 TTGCCACTGTCCCAGACAGGGTCTTACCTG-AATTAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
* * *
37420068 ATGCCAATGTCCCAGACATGGTCTTACATGTAAACACAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
37420111 A
1 A
37420112 AGGTCCTATG
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
41 28 0.41
42 12 0.18
43 27 0.40
44 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCACATATCG
Found at i:37421018 original size:26 final size:26
Alignment explanation
Indices: 37420989--37421042 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
37420979 GTTTGTCTTT
*
37420989 TATTATAATAA-GTTTATAATATAATA
1 TATTATAATAACCTTTATAA-ATAATA
*
37421015 TATTATTATAACCTTTATAAATAATA
1 TATTATAATAACCTTTATAAATAATA
37421041 TA
1 TA
37421043 AAAACTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
TATTATAATAACCTTTATAAATAATA
Found at i:37435130 original size:43 final size:42
Alignment explanation
Indices: 37435083--37435196 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
37435073 AAAAGTTAGT
* * *
37435083 AGAATGCCATAAAGGCCATATCAGAATTACCACAGAGGTTAAC
1 AGAATGCCACAAAGGCCATATCA-AAATACCACAGAGGCTAAC
* *
37435126 AGAATGCCACAAAGGTCATATCAAAATACCACAGAGGCTAAG
1 AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAAC
*
37435168 AGAATGCCACAAAGGCAATATCAAAATAC
1 AGAATGCCACAAAGGCCATATCAAAATAC
37435197 ACCATAAAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 43 0.67
43 21 0.33
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.16
Consensus pattern (42 bp):
AGAATGCCACAAAGGCCATATCAAAATACCACAGAGGCTAAC
Found at i:37435157 original size:22 final size:22
Alignment explanation
Indices: 37435093--37435220 Score: 59
Period size: 20 Copynumber: 5.9 Consensus size: 22
37435083 AGAATGCCAT
* *
37435093 AAAGGCCATATCAGAATTACCAC
1 AAAGGTCATATCA-AAATACCAC
* * * *
37435116 AGAGGT--TAACAGAATGCCAC
1 AAAGGTCATATCAAAATACCAC
37435136 AAAGGTCATATCAAAATACCAC
1 AAAGGTCATATCAAAATACCAC
* ** * *
37435158 AGAGG-C-TAAGAGAATGCCAC
1 AAAGGTCATATCAAAATACCAC
*
37435178 AAAGG-CAATATCAAAATACACCAT
1 AAAGGTC-ATATCAAAAT--ACCAC
* *
37435202 AAAGTTCATATCAGAATAC
1 AAAGGTCATATCAAAATAC
37435221 AGCATAAAGG
Statistics
Matches: 75, Mismatches: 23, Indels: 15
0.66 0.20 0.13
Matches are distributed among these distances:
20 26 0.35
21 5 0.07
22 23 0.31
23 4 0.05
24 16 0.21
25 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.17
Consensus pattern (22 bp):
AAAGGTCATATCAAAATACCAC
Found at i:37435183 original size:20 final size:20
Alignment explanation
Indices: 37435083--37435183 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
37435073 AAAAGTTAGT
* *
37435083 AGAATGCCATAAAGGCCATATC
1 AGAATGCCACAAAGG-C-TAAC
* * *
37435105 AGAATTACCACAGAGGTTAAC
1 AGAA-TGCCACAAAGGCTAAC
*
37435126 AGAATGCCACAAAGGTCATATC
1 AGAATGCCACAAAGG-C-TAAC
* * * *
37435148 AAAATACCACAGAGGCTAAG
1 AGAATGCCACAAAGGCTAAC
37435168 AGAATGCCACAAAGGC
1 AGAATGCCACAAAGGC
37435184 AATATCAAAA
Statistics
Matches: 59, Mismatches: 17, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
20 24 0.41
21 8 0.14
22 19 0.32
23 8 0.14
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (20 bp):
AGAATGCCACAAAGGCTAAC
Found at i:37438898 original size:17 final size:18
Alignment explanation
Indices: 37438863--37438898 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37438853 CTAGCGGAAG
*
37438863 CAAACTTTTTTCATTTTC
1 CAAACTTTATTCATTTTC
37438881 CAAACTTTATTC-TTTTC
1 CAAACTTTATTCATTTTC
37438898 C
1 C
37438899 TTTCTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (18 bp):
CAAACTTTATTCATTTTC
Found at i:37441404 original size:52 final size:52
Alignment explanation
Indices: 37441321--37441421 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
37441311 TAAGGAAACG
* * *
37441321 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGATTGAAGCTCAAACAA
37441373 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGATTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGATTGAAGCTCAAA
37441422 TATGTGCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGATTGAAGCTCAAACAA
Found at i:37447854 original size:52 final size:52
Alignment explanation
Indices: 37447765--37447865 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 52
37447755 TAAGGAAACG
* * *
37447765 TAATGGACAACAGCTTAAGATCTCATTTCTAGTTCGGTTGAAGCTCAAACAA
1 TAATAGACAACAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
* *
37447817 TAATAGACAGCAGCTTAAGACCTCATTTGTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAACAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
37447866 TATGTGCATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (52 bp):
TAATAGACAACAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:37450986 original size:25 final size:25
Alignment explanation
Indices: 37450942--37451038 Score: 104
Period size: 25 Copynumber: 3.9 Consensus size: 25
37450932 TCGAAACGTG
* * *
37450942 AATCGGTATGCTCACTTGAGCTGTA
1 AATCGGTATGCTCTCATGAGCTATA
* * *
37450967 GATTGGTATGCTCTCATGAGCCATA
1 AATCGGTATGCTCTCATGAGCTATA
** * *
37450992 AATCAATATGCTCTCAGGACCTATA
1 AATCGGTATGCTCTCATGAGCTATA
37451017 AATCGGTATGCTCTCATGAGCT
1 AATCGGTATGCTCTCATGAGCT
37451039 TTGGGTTGGG
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (25 bp):
AATCGGTATGCTCTCATGAGCTATA
Found at i:37459770 original size:27 final size:27
Alignment explanation
Indices: 37459740--37459792 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
37459730 AGAGCATATC
*
37459740 GATTTACAGCTCAAAAGAGAACATACT
1 GATTTACAACTCAAAAGAGAACATACT
* * *
37459767 GATTTACAACTCGAGAGAGAGCATAC
1 GATTTACAACTCAAAAGAGAACATAC
37459793 CAATTCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (27 bp):
GATTTACAACTCAAAAGAGAACATACT
Found at i:37474182 original size:28 final size:28
Alignment explanation
Indices: 37474148--37474207 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
37474138 TTTATTAAAC
*
37474148 TAATTAAATTAATTA-TCCTAAAATAACT
1 TAATTAAATGAATTAGT-CTAAAATAACT
37474176 TAATTAAATGAATTAGTCTAAAATAACT
1 TAATTAAATGAATTAGTCTAAAATAACT
37474204 TAAT
1 TAAT
37474208 GGAATTTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (28 bp):
TAATTAAATGAATTAGTCTAAAATAACT
Found at i:37476617 original size:26 final size:26
Alignment explanation
Indices: 37476583--37476634 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
37476573 TTTGAGTAAA
37476583 AAAATTTCAAGTCGAATTAACGAATC
1 AAAATTTCAAGTCGAATTAACGAATC
37476609 AAAATTTCAAGTCGAATTAACGAATC
1 AAAATTTCAAGTCGAATTAACGAATC
37476635 TTATTATTTC
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:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (26 bp):
AAAATTTCAAGTCGAATTAACGAATC
Found at i:37476816 original size:21 final size:21
Alignment explanation
Indices: 37476790--37476829 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
37476780 CAAAACGACG
37476790 TAGTTTTG-CATTTTAACTTGA
1 TAGTTTTGAC-TTTTAACTTGA
37476811 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
37476830 TAGAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:37477155 original size:18 final size:18
Alignment explanation
Indices: 37477112--37477180 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 18
37477102 GATTCCAAAA
37477112 TTAT-TATTTTAAAATTT
1 TTATATATTTTAAAATTT
* * *
37477129 TT-TAAATTTTCAACTTT
1 TTATATATTTTAAAATTT
**
37477146 TTATATATTTTTAAAAAAT
1 TTATATA-TTTTAAAATTT
*
37477165 TTATAATTTTTTAAAA
1 TTAT-ATATTTTAAAA
37477181 ATACAAATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 3 0.08
19 19 0.49
20 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATATTTTAAAATTT
Found at i:37477181 original size:18 final size:19
Alignment explanation
Indices: 37477145--37477182 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
37477135 TTTTCAACTT
37477145 TTTATATATTTTTAAAAAA
1 TTTATATATTTTTAAAAAA
*
37477164 TTTATA-ATTTTTTAAAAA
1 TTTATATATTTTTAAAAAA
37477182 T
1 T
37477183 ACAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTATATATTTTTAAAAAA
Found at i:37477258 original size:20 final size:19
Alignment explanation
Indices: 37477197--37477256 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
37477187 ATTTTATAAT
*
37477197 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
37477215 TTTTAAAAATTATTTTCAAA
1 TTTTAAAAATTATTTT-GAA
*
37477235 TTTTGAAAATTATTTTG-A
1 TTTTAAAAATTATTTTGAA
37477253 TTTT
1 TTTT
37477257 TTTTGTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 13 0.36
19 6 0.17
20 17 0.47
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:37482817 original size:16 final size:15
Alignment explanation
Indices: 37482808--37482836 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37482798 AAACTGAAGC
37482808 AAATAAAAACTAAAA
1 AAATAAAAACTAAAA
37482823 AAATAAAAAC-AAAA
1 AAATAAAAACTAAAA
37482837 TAAAAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
AAATAAAAACTAAAA
Found at i:37482836 original size:21 final size:22
Alignment explanation
Indices: 37482812--37482854 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
37482802 TGAAGCAAAT
37482812 AAAAACTAAAAA-A-ATAAAAAC
1 AAAAA-TAAAAACATATAAAAAC
37482833 -AAAATAAAAACATATAAAAAC
1 AAAAATAAAAACATATAAAAAC
37482854 A
1 A
37482855 CTAGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAACATATAAAAAC
Found at i:37482838 original size:11 final size:11
Alignment explanation
Indices: 37482822--37482854 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37482812 AAAAACTAAA
37482822 AAAATAAAAAC
1 AAAATAAAAAC
37482833 AAAATAAAAAC
1 AAAATAAAAAC
*
37482844 -ATATAAAAAC
1 AAAATAAAAAC
37482854 A
1 A
37482855 CTAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAATAAAAAC
Found at i:37483054 original size:68 final size:68
Alignment explanation
Indices: 37482920--37483195 Score: 378
Period size: 68 Copynumber: 4.1 Consensus size: 68
37482910 TGACAAATTA
* * * * *
37482920 ATAACCCCATGTTTAATGTCTTGGAAGACTCTATTAGTTGGCATAGTTGAGTTATGGTCTTACAC
1 ATAACCCCATGTTTAATGTCCTGGAGGACTCTATTAGTTGTCATAGTCGAGCTATGGTCTTACAC
37482985 CTT
66 CTT
* * * * * * *
37482988 ATAACTCCATGTTTAATGTCCTGGTGGACTCTATTGGTTGTCATATTCGAGGTATGATCTTTCAC
1 ATAACCCCATGTTTAATGTCCTGGAGGACTCTATTAGTTGTCATAGTCGAGCTATGGTCTTACAC
37483053 CTT
66 CTT
* * *
37483056 ATAACCCCATCTTTAATGTCCTGGTGGACTCTATTGGTTGTCATAGTCGAGCTATGGTCTTACAC
1 ATAACCCCATGTTTAATGTCCTGGAGGACTCTATTAGTTGTCATAGTCGAGCTATGGTCTTACAC
37483121 CTT
66 CTT
* *
37483124 ATAA--CC-TGTTTAATGTCCTAGAGGACTCTATTAGTTGTCATAGTCGAGCTATTGTCTTACAC
1 ATAACCCCATGTTTAATGTCCTGGAGGACTCTATTAGTTGTCATAGTCGAGCTATGGTCTTACAC
37483186 CTT
66 CTT
37483189 ATAACCC
1 ATAACCC
37483196 TATTGAGGTG
Statistics
Matches: 184, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
65 58 0.32
66 2 0.01
67 1 0.01
68 123 0.67
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (68 bp):
ATAACCCCATGTTTAATGTCCTGGAGGACTCTATTAGTTGTCATAGTCGAGCTATGGTCTTACAC
CTT
Found at i:37499927 original size:275 final size:275
Alignment explanation
Indices: 37499436--37499981 Score: 950
Period size: 275 Copynumber: 2.0 Consensus size: 275
37499426 TATATATATA
* * *
37499436 TATTATTGTGTTATTTATCATGGAAACGATTGTTGGAAATCCAACGACGTTACGACGAATATTGA
1 TATTATTGTGTTATTTATCATGGAAACGATTGTTGGAAATCCAACAAAGTTACGACGAATATTAA
*
37499501 ACCCCGTATGAACCTTAGGAATATATAGGATACAAATGACATGTCACTAGGGTTACCATGTTTCG
66 ACCCCATATGAACCTTAGGAATATATAGGATACAAATGACATGTCACTAGGGTTACCATGTTTCG
* *
37499566 GGTGCTGGTCTTGAATGTCCTACTGATATTTGAGGTCTTGCATTTGTTGCAGATACTTGTCAGCT
131 GGTGCTGGTCTTGAATGTCCTACTGATAGTTGAGGTCCTGCATTTGTTGCAGATACTTGTCAGCT
* *
37499631 TGTGTGAGTGACATTGTGTAGCTTACATTCCGACCGTCAGCTTGTGTGAGTAGACCCATTTTATG
196 TGTGTGAGCGACATCGTGTAGCTTACATTCCGACCGTCAGCTTGTGTGAGTAGACCCATTTTATG
37499696 GCTCGAGTGAGCAAC
261 GCTCGAGTGAGCAAC
*
37499711 TATTATTGTGTTATTTATCATGTAAACGATTGTTGGAAATCCAACAAAGTTACGACGAATATTAA
1 TATTATTGTGTTATTTATCATGGAAACGATTGTTGGAAATCCAACAAAGTTACGACGAATATTAA
* *
37499776 ACCCCATGTGAACCTTAGGAATATATAGGATACAACTGACATGTCACTAGGGTTACCATGTTTCG
66 ACCCCATATGAACCTTAGGAATATATAGGATACAAATGACATGTCACTAGGGTTACCATGTTTCG
* *
37499841 GGTGCTGGTCTTGAATGTCCTACTGATGGTTGAGGTCCTGCATTTGTTGCGGA-AGCTTGTCAGC
131 GGTGCTGGTCTTGAATGTCCTACTGATAGTTGAGGTCCTGCATTTGTTGCAGATA-CTTGTCAGC
*
37499905 TTGTGTGAGCGACATCGTGTAGCTTACATTCTGACCGTCAGCTTGTGTGAGTAGACCCATTTTAT
195 TTGTGTGAGCGACATCGTGTAGCTTACATTCCGACCGTCAGCTTGTGTGAGTAGACCCATTTTAT
37499970 GGCTCGAGTGAG
260 GGCTCGAGTGAG
37499982 AAGCTATCTA
Statistics
Matches: 256, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
274 1 0.00
275 255 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (275 bp):
TATTATTGTGTTATTTATCATGGAAACGATTGTTGGAAATCCAACAAAGTTACGACGAATATTAA
ACCCCATATGAACCTTAGGAATATATAGGATACAAATGACATGTCACTAGGGTTACCATGTTTCG
GGTGCTGGTCTTGAATGTCCTACTGATAGTTGAGGTCCTGCATTTGTTGCAGATACTTGTCAGCT
TGTGTGAGCGACATCGTGTAGCTTACATTCCGACCGTCAGCTTGTGTGAGTAGACCCATTTTATG
GCTCGAGTGAGCAAC
Found at i:37511289 original size:50 final size:51
Alignment explanation
Indices: 37511208--37511317 Score: 186
Period size: 50 Copynumber: 2.2 Consensus size: 51
37511198 TTTCAACAGG
*
37511208 CATGAAAAGGGAAAGGAATGGTATGTGTTCAAATGAACTATGTCATGAAAT
1 CATGAAAAGGGAAAGGAATGGTATGTATTCAAATGAACTATGTCATGAAAT
* *
37511259 TA-GAAAAGGGAAAGGAATGGTATGTATTCAAATGAACTATGTTATGAAAT
1 CATGAAAAGGGAAAGGAATGGTATGTATTCAAATGAACTATGTCATGAAAT
37511309 CATGAAAAG
1 CATGAAAAG
37511318 AATTGAAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (51 bp):
CATGAAAAGGGAAAGGAATGGTATGTATTCAAATGAACTATGTCATGAAAT
Found at i:37513818 original size:51 final size:50
Alignment explanation
Indices: 37513749--37514173 Score: 358
Period size: 51 Copynumber: 8.4 Consensus size: 50
37513739 GTAGTATTGT
*
37513749 GTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAA
* * * * * * * **
37513800 GTGAAGGCTACAATGTGTACCAAGAAGCTTTGGTCACGTGTGTAGTACTGT
1 GTGAAGGCTACTACGTGTACCGATAA-ATATGGTCACATGTGTAGTACTAA
* *
37513851 GTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAA
* * * * * * **
37513902 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTACTGT
1 GTGAAGGCTACTACGTGTACCGATAA-ATATGGTCACATGTGTAGTACTAA
* *
37513953 GTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAA
1 GTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAA
* * * * *
37514004 GTGAAGGCTACTATGTGTACCGA-AAATCTTTGGTCACGTGTGTGGTACTAT
1 GTGAAGGCTACTACGTGTACCGATAAA--TATGGTCACATGTGTAGTACTAA
* * *
37514055 GTGATGGCTACTACGTGAACCG-TAAA-ACTTGATCACATGTGTAGTAC-AA
1 GTGAAGGCTACTACGTGTACCGATAAATA--TGGTCACATGTGTAGTACTAA
* * * * * * *
37514104 TCTGAAGGCTAGTACATGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 -GTGAAGGCTACTACGTGTACCGATAAATA--TGGTCACATGTGTAGTACTAA
*
37514155 CTGAAGGCTACTACGTGTA
1 GTGAAGGCTACTACGTGTA
37514174 TCGAGTGATA
Statistics
Matches: 298, Mismatches: 65, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
49 1 0.00
50 78 0.26
51 216 0.72
52 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGAAGGCTACTACGTGTACCGATAAATATGGTCACATGTGTAGTACTAA
Found at i:37513908 original size:102 final size:102
Alignment explanation
Indices: 37513732--37514177 Score: 616
Period size: 102 Copynumber: 4.4 Consensus size: 102
37513722 TATCAATGAA
* *
37513732 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
37513797 TAAGTGAAGGCTACAATGTGTACC-AAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAA-AAGCTTTGGT
37513834 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
37513899 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
*
37513936 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
37514001 TAAGTGAAGGCTACTATGTGTACCGAAAATCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * * * * *
37514038 CACGTGTGTGGTACTATGTGATGGCTACTACGTGAACCG-TAAA-ACTTGATCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* ** ** * *
37514101 C-AATCTGAAGGCTAGTACATGAACCGTAAAA-C-TTGAT
65 CTAA-GTGAAGGCTACAATGTGTACCG-AAAAGCTTTGGT
* * *
37514138 CACGTGTGTAGTACTATCTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGA
37514178 GTGATAAAAG
Statistics
Matches: 314, Mismatches: 25, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
100 40 0.13
101 39 0.12
102 234 0.75
103 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:37520747 original size:39 final size:39
Alignment explanation
Indices: 37520704--37520844 Score: 230
Period size: 39 Copynumber: 3.6 Consensus size: 39
37520694 AACATGTTTT
*
37520704 TGAGTATTGTGATATATACTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
37520743 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
37520782 T-ACGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGA-GTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
37520821 TGTGTAATGTGATATACGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
37520845 GGTGAATATG
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
38 1 0.01
39 95 0.99
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:37528795 original size:18 final size:17
Alignment explanation
Indices: 37528762--37528800 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37528752 TTTTATAAAT
37528762 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37528780 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37528797 TGTG
1 TGTG
37528801 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37530321 original size:23 final size:23
Alignment explanation
Indices: 37530290--37530411 Score: 147
Period size: 23 Copynumber: 5.3 Consensus size: 23
37530280 AGTGTTATTG
37530290 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
37530313 TTTAATGGTAGCTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
* *
37530336 ATCAGTGGTAACTTCGCCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
37530359 TTCAGTGGTTGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
37530382 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
37530405 ATCAGTG
1 ATCAGTG
37530412 TGGCACTTAT
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
22 1 0.01
23 77 0.97
24 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:37530410 original size:46 final size:46
Alignment explanation
Indices: 37530290--37530411 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
37530280 AGTGTTATTG
* * *
37530290 ATCAGTGGTAGCTTCGGCTACATTTTAATGGTAGCTATGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
* * * *
37530336 ATCAGTGGTAACTTCGCCTACATTTCAGTGGTTGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
*
37530382 ATCAGTGGTAGCTTCGGCTACATATCAGTG
1 ATCAGTGGTAGCTTCGGCTACATTTCAGTG
37530412 TGGCACTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTACGGCTACAT
Found at i:37539412 original size:27 final size:26
Alignment explanation
Indices: 37539315--37539405 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 26
37539305 GAGAGTCAAT
*
37539315 AAATGACTGAATTACCCCCTACAGGGTA
1 AAATGACTGAA-TACCCCC-ATAGGGTA
* * *
37539343 AATTGACTGAATTACCCTCATAAGGTA
1 AAATGACTGAA-TACCCCCATAGGGTA
**
37539370 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGA-CTGAATACCCCCATAGGGTA
37539397 AAATGACTG
1 AAATGACTG
37539406 TTATACCTCT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.02
27 30 0.59
28 20 0.39
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (26 bp):
AAATGACTGAATACCCCCATAGGGTA
Found at i:37539809 original size:28 final size:28
Alignment explanation
Indices: 37539768--37539884 Score: 128
Period size: 28 Copynumber: 4.2 Consensus size: 28
37539758 ATTGTACTGA
* * *
37539768 TACTGTATCGGGCTAACGCTTACATTGT
1 TACTGTATTGGGCTAAGGCTCACATTGT
* * * *
37539796 TACTATATTGGGCTAAGGCCCACGTTAT
1 TACTGTATTGGGCTAAGGCTCACATTGT
*
37539824 TAATGTATTGGGCTAAGGCTCACATTGT
1 TACTGTATTGGGCTAAGGCTCACATTGT
* * *
37539852 TACTGTATTGGGCTAAAGCCCACACTG-
1 TACTGTATTGGGCTAAGGCTCACATTGT
37539879 TACTGT
1 TACTGT
37539885 TACTGAACAA
Statistics
Matches: 73, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 6 0.08
28 67 0.92
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCTCACATTGT
Found at i:37545819 original size:3 final size:3
Alignment explanation
Indices: 37545811--37545845 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
37545801 TGTCGATAGA
*
37545811 AAC AAC AAC AAC AAC AAC AAA AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
37545846 ATGCAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:37547959 original size:22 final size:22
Alignment explanation
Indices: 37547931--37547977 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
37547921 GGCTGAGTCG
* * *
37547931 TAAACAGGATAGCTATAAGCTA
1 TAAACAGAATAGCTACAAGCCA
*
37547953 TAAACAGAATGGCTACAAGCCA
1 TAAACAGAATAGCTACAAGCCA
37547975 TAA
1 TAA
37547978 GTACAGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TAAACAGAATAGCTACAAGCCA
Found at i:37548030 original size:32 final size:32
Alignment explanation
Indices: 37547969--37548171 Score: 248
Period size: 32 Copynumber: 6.4 Consensus size: 32
37547959 GAATGGCTAC
* *
37547969 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
37548000 AAGCCATCAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
37548032 CAGCCATCAGTAACGGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
37548064 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
37548096 AAGCCATCAGTAGCAGTGATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
37548128 CAA-CCATCAATAACGGTAATATGATCGGGACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
37548160 AAGCCATCAGTA
1 AAGCCATCAGTA
37548172 GCATCGCAGC
Statistics
Matches: 145, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
31 12 0.08
32 131 0.90
33 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:37548147 original size:96 final size:96
Alignment explanation
Indices: 37547969--37548171 Score: 327
Period size: 96 Copynumber: 2.1 Consensus size: 96
37547959 GAATGGCTAC
* *
37547969 AAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACAC
1 AAGCCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACAC
* * *
37548033 AGCCATCAGTAACGGTAATATGATCGGTACA
66 AACCATCAATAACGGTAATATGATCGGGACA
* **
37548064 AAGCCATCAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATTGGCACAC
1 AAGCCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACAC
37548129 AACCATCAATAACGGTAATATGATCGGGACA
66 AACCATCAATAACGGTAATATGATCGGGACA
37548160 AAGCCATCAGTA
1 AAGCCATCAGTA
37548172 GCATCGCAGC
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 10 0.10
96 89 0.90
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (96 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACAC
AACCATCAATAACGGTAATATGATCGGGACA
Found at i:37548198 original size:26 final size:26
Alignment explanation
Indices: 37548162--37548218 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
37548152 TCGGGACAAA
* * *
37548162 GCCATCAGTAGCATCGCAGCAAAGCT
1 GCCAGCAGTAGCATCCCAACAAAGCT
*
37548188 GCCAGCAGTAGTATCCCAACAAAGCT
1 GCCAGCAGTAGCATCCCAACAAAGCT
37548214 GCCAG
1 GCCAG
37548219 TAATAGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.14
Consensus pattern (26 bp):
GCCAGCAGTAGCATCCCAACAAAGCT
Found at i:37548247 original size:27 final size:26
Alignment explanation
Indices: 37548215--37548281 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
37548205 AACAAAGCTG
37548215 CCAGTAATAGTATATGTGGCTA-AGACA
1 CCAGTAATAGTAT-TGTGGC-AGAGACA
* *
37548242 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAATAGT-ATTGTGGCAGAGACA
37548269 CCAGT-ATAGTATT
1 CCAGTAATAGTATT
37548282 TCCTCCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 3 0.09
26 5 0.14
27 25 0.71
28 2 0.06
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (26 bp):
CCAGTAATAGTATTGTGGCAGAGACA
Found at i:37548376 original size:24 final size:23
Alignment explanation
Indices: 37548343--37548424 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
37548333 CCATGCTCAG
* * *
37548343 AATCAGTCATTCAAATCACATACA
1 AATCAATCATT-AAAACACAGACA
37548367 AATCAATCATATAAAACACAGACA
1 AATCAATCAT-TAAAACACAGACA
* * * *
37548391 AATTAGTCATTTAACCACAGACA
1 AATCAATCATTAAAACACAGACA
37548414 AATCAATCATT
1 AATCAATCATT
37548425 TGGCCTCGAG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 20 0.42
24 27 0.56
25 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (23 bp):
AATCAATCATTAAAACACAGACA
Done.