Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 162 of 230
Found at i:48024430 original size:23 final size:23
Alignment explanation
Indices: 48024404--48024518 Score: 187
Period size: 23 Copynumber: 5.0 Consensus size: 23
48024394 ACTTTGCCGA
* *
48024404 TCAGACACTTTATGTGTTGTA-C
1 TCAGGCACTTTATGTGTCGTATC
*
48024426 ATCAGGCACTTTATATGTCGTATC
1 -TCAGGCACTTTATGTGTCGTATC
48024450 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
48024473 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
48024496 TCAGGCACTTTATGTGTCGTATC
1 TCAGGCACTTTATGTGTCGTATC
48024519 ATTCACCTCG
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 86 0.99
24 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATC
Found at i:48027303 original size:22 final size:21
Alignment explanation
Indices: 48027278--48027320 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
48027268 GAGTTGGGAA
*
48027278 AGTTAAAATCTGAAATGTCTAG
1 AGTTAAAAT-AGAAATGTCTAG
**
48027300 AGTTTTAATAGAAATGTCTAG
1 AGTTAAAATAGAAATGTCTAG
48027321 CCCTTTGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.35
Consensus pattern (21 bp):
AGTTAAAATAGAAATGTCTAG
Found at i:48031051 original size:3 final size:3
Alignment explanation
Indices: 48031043--48031092 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
48031033 TTGAATAAAA
* *
48031043 TAT TAT TA- TAT GAT TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
48031088 TAT TA
1 TAT TA
48031093 ACTAATGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:48032233 original size:21 final size:21
Alignment explanation
Indices: 48032160--48032269 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 21
48032150 GGAAGAGCCA
48032160 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
48032181 ACATCAGGCACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
48032204 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
* **
48032227 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* *
48032248 TTTAGGCAC-TTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
48032268 AT
1 AT
48032270 ACTGATCAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
20 10 0.13
21 25 0.32
23 42 0.55
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:48036695 original size:86 final size:86
Alignment explanation
Indices: 48036521--48036745 Score: 337
Period size: 86 Copynumber: 2.6 Consensus size: 86
48036511 TGAACACGTC
* *
48036521 AGAAAATGGAAGTCTTTGTGGCATATCTAAGAAAATGGAAGACTTTGTGGCAATCTAAGAAAATA
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAATCTAAGAAAATA
*
48036586 GAAGCCTTTGTGACATATCTA
66 GAAGCCTTTGTGACAAATCTA
48036607 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAAT
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCA-ATCTAAGAAAAT
*
48036672 GGAAGCCTTTGTGGA-AAAT-TA
65 AGAAGCCTTTGT-GACAAATCTA
* * * * *
48036693 AGAAAATTGAAGCCTTTGTGGCGTATTTATGAAAATGAAAGCCTTTGTGGCAA
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAA
48036746 ATTTTGCAAA
Statistics
Matches: 128, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
85 1 0.01
86 99 0.77
87 26 0.20
88 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (86 bp):
AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAATCTAAGAAAATA
GAAGCCTTTGTGACAAATCTA
Found at i:48036727 original size:115 final size:115
Alignment explanation
Indices: 48036521--48036744 Score: 351
Period size: 115 Copynumber: 1.9 Consensus size: 115
48036511 TGAACACGTC
* *
48036521 AGAAAATGGAAGTCTTTGTGGCATATCTAAGAAAATGGAAGACTTTGTGGCAATCTAAGAAAATA
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGACTTTGTGGAAATCTAAGAAAATA
*
48036586 GAAGCCTTTGTGACATATCTAAGAAAATGGAAGCCTTTGTGGCATATCTA
66 GAAGCCTTTGTGACATATCTAAGAAAATGAAAGCCTTTGTGGCATATCTA
*
48036636 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGAAAAT-TAAGAAAAT
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGACTTTGTGG-AAATCTAAGAAAAT
* * * * *
48036700 TGAAGCCTTTGTGGCGTATTTATGAAAATGAAAGCCTTTGTGGCA
65 AGAAGCCTTTGTGACATATCTAAGAAAATGAAAGCCTTTGTGGCA
48036745 AATTTTGCAA
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
115 96 0.97
116 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (115 bp):
AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGACTTTGTGGAAATCTAAGAAAATA
GAAGCCTTTGTGACATATCTAAGAAAATGAAAGCCTTTGTGGCATATCTA
Found at i:48036748 original size:57 final size:58
Alignment explanation
Indices: 48036521--48036747 Score: 341
Period size: 57 Copynumber: 3.9 Consensus size: 58
48036511 TGAACACGTC
* *
48036521 AGAAAATGGAAGTCTTTGTGGCATATCTAAGAAAATGGAAGACTTTGTGGC-AATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATCTA
* * *
48036578 AGAAAATAGAAGCCTTTGTGACATATCTAAGAAAATGGAAGCCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATCTA
*
48036636 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGAAAAT-TA
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATCTA
* * * * *
48036693 AGAAAATTGAAGCCTTTGTGGCGTATTTATGAAAATGAAAGCCTTTGTGGCAAAT
1 AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAAT
48036748 TTTGCAAAAG
Statistics
Matches: 154, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
57 98 0.64
58 56 0.36
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (58 bp):
AGAAAATGGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATCTA
Found at i:48036749 original size:29 final size:29
Alignment explanation
Indices: 48036521--48036744 Score: 335
Period size: 29 Copynumber: 7.8 Consensus size: 29
48036511 TGAACACGTC
*
48036521 AGAAAATGGAAGTCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
*
48036550 AGAAAATGGAAGACTTTGTGGCA-ATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* *
48036578 AGAAAATAGAAGCCTTTGTGACATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
48036607 AGAAAATGGAAGCCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
48036636 AGAAAATGGAAGCCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* *
48036665 AGAAAATGGAAGCCTTTGTGGAAAAT-TA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* * *
48036693 AGAAAATTGAAGCCTTTGTGGCGTATTTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* *
48036722 TGAAAATGAAAGCCTTTGTGGCA
1 AGAAAATGGAAGCCTTTGTGGCA
48036745 AATTTTGCAA
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
28 49 0.28
29 128 0.72
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (29 bp):
AGAAAATGGAAGCCTTTGTGGCATATCTA
Found at i:48041872 original size:9 final size:10
Alignment explanation
Indices: 48041848--48041872 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48041838 TTCCATAATT
48041848 ATTTTTTACA
1 ATTTTTTACA
48041858 ATTTTTTACA
1 ATTTTTTACA
48041868 ATTTT
1 ATTTT
48041873 CTAAAGTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTACA
Found at i:48042217 original size:23 final size:22
Alignment explanation
Indices: 48042174--48042217 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
48042164 TTCTAAGTCG
48042174 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
48042197 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
48042218 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:48042419 original size:51 final size:52
Alignment explanation
Indices: 48042361--48042496 Score: 197
Period size: 50 Copynumber: 2.7 Consensus size: 52
48042351 TTGGTTCACA
*
48042361 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATTC-GATACATG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATTCTGATACACG
* * * *
48042412 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATTCTGATACACG
*
48042462 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT
48042497 CACTTTCACT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 7 0.09
50 36 0.49
51 31 0.42
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (52 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATTCTGATACACG
Found at i:48044247 original size:13 final size:13
Alignment explanation
Indices: 48044229--48044256 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48044219 AAGTCAGTCA
48044229 TGTACCCACTCGT
1 TGTACCCACTCGT
48044242 TGTACCCACTCGT
1 TGTACCCACTCGT
48044255 TG
1 TG
48044257 ATAGACTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTACCCACTCGT
Found at i:48048678 original size:9 final size:9
Alignment explanation
Indices: 48048660--48048699 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
48048650 TTTAGTTAAA
48048660 AATTAACCG
1 AATTAACCG
*
48048669 AATTACCCG
1 AATTAACCG
*
48048678 AATTAACTG
1 AATTAACCG
48048687 AATTAACCG
1 AATTAACCG
48048696 AATT
1 AATT
48048700 GAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:48048842 original size:18 final size:18
Alignment explanation
Indices: 48048802--48048845 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
48048792 AATTTTTATG
**
48048802 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
48048820 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
48048838 CTTGGGTT
1 ATTGGGTT
48048846 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:48066766 original size:39 final size:40
Alignment explanation
Indices: 48066721--48066892 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
48066711 GCTCCTCGTT
* * *
48066721 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
48066761 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
48066800 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
48066840 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
48066880 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48066893 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48066821 original size:40 final size:39
Alignment explanation
Indices: 48066723--48066945 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
48066713 TCCTCGTTCA
* * * *
48066723 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
48066762 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
48066801 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
48066841 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
48066881 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
48066922 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48066946 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:48066905 original size:80 final size:79
Alignment explanation
Indices: 48066721--48066945 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
48066711 GCTCCTCGTT
* * * * *
48066721 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
48066785 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
48066800 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
48066865 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
48066880 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
48066944 GA
63 GA
48066946 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:48066954 original size:41 final size:41
Alignment explanation
Indices: 48066877--48066954 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48066867 TTTGTATCTC
* * *
48066877 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48066918 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48066955 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:48069323 original size:15 final size:15
Alignment explanation
Indices: 48069305--48069350 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
48069295 TAAAAAATAA
48069305 AAAAATTAAATTACT
1 AAAAATTAAATTACT
* *
48069320 AAAAATAAAAATAC-
1 AAAAATTAAATTACT
*
48069334 AAACATTAAATT-CT
1 AAAAATTAAATTACT
48069348 AAA
1 AAA
48069351 TTTATGAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
13 1 0.04
14 12 0.48
15 12 0.48
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATTAAATTACT
Found at i:48073791 original size:51 final size:50
Alignment explanation
Indices: 48073632--48073822 Score: 190
Period size: 50 Copynumber: 3.8 Consensus size: 50
48073622 TTATTATCAT
* * * *
48073632 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTT
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATC-TA
* * * *
48073682 TCGGTTCACGTAGTAGCCTGCACATAGTAC-ACACACGTGACCAAAGCCT-
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATA-TCTA
* * * *
48073731 TCCGGTACACATAGTAGCCTGTACATAGTACTACACATGTGACCATTATCTA
1 T-CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCTA
* * *
48073783 TCGATACACGTTGTAGCCTGCACTTAGTACTTCACACGTG
1 TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTG
48073823 TTTATAGGCA
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 13 0.11
50 55 0.47
51 47 0.40
52 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCTA
Found at i:48089235 original size:31 final size:30
Alignment explanation
Indices: 48089166--48089257 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
48089156 TTAACATCCT
* * *
48089166 AGTGACTTAAATAAAAACTTTTCAATAATTC
1 AGTGACTTAAATGAAAA-TTTTGAATAGTTC
48089197 AGTGACTTAAATGAAAATTTTAGAATAGTTC
1 AGTGACTTAAATGAAAATTTT-GAATAGTTC
**
48089228 AAG-GACTTGGATGAAAATTTTTGAATAGTT
1 -AGTGACTTAAATGAAAA-TTTTGAATAGTT
48089258 TAATGATCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 4 0.08
31 43 0.81
32 6 0.11
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (30 bp):
AGTGACTTAAATGAAAATTTTGAATAGTTC
Found at i:48092973 original size:20 final size:21
Alignment explanation
Indices: 48092936--48092978 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
48092926 ATTTAATTTA
*
48092936 ATAATAATTACAA-TTTTTTT
1 ATAATAATTACAACTTTTATT
48092956 ATAACTAATTA-AACTTTTATT
1 ATAA-TAATTACAACTTTTATT
48092977 AT
1 AT
48092979 TTTTAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAATAATTACAACTTTTATT
Found at i:48093482 original size:93 final size:93
Alignment explanation
Indices: 48093310--48093484 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 93
48093300 TTTAGCCCCA
* * * *
48093310 TGCCATTAACATGATTAAAAAAAATCAATAACCAATCAGAACATACCATGTGTCCCTATTGACTG
1 TGCCATTAACAAGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
*
48093375 TTAATATCATCGATGACTTTTTGGTCCC
66 TTAATATCACCGATGACTTTTTGGTCCC
* * * *
48093403 TGCCATTAATAAGGTTAAAAAAAATCAACAACCAATCAGAGCACACCACGTGTCCTTATTGACTG
1 TGCCATTAACAAGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
* * *
48093468 TTGATGTGACCGATGAC
66 TTAATATCACCGATGAC
48093485 GTGGTCGTGA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (93 bp):
TGCCATTAACAAGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
TTAATATCACCGATGACTTTTTGGTCCC
Found at i:48093573 original size:20 final size:19
Alignment explanation
Indices: 48093534--48093731 Score: 98
Period size: 20 Copynumber: 10.6 Consensus size: 19
48093524 GACCAAAACA
*
48093534 AAAATATTGTAAAAATTATT
1 AAAA-ATTGTAAAAAATATT
*
48093554 AAAAATTGTAAGAAA-A-T
1 AAAAATTGTAAAAAATATT
48093571 ----ATT-TA-AAAATATT
1 AAAAATTGTAAAAAATATT
*
48093584 TAAAATTGTAAAAAA-A-T
1 AAAAATTGTAAAAAATATT
** *
48093601 AAACAATTG--AAAGTTAAT
1 AAA-AATTGTAAAAAATATT
48093619 AAAAATTGTAAAAGAATATT
1 AAAAATTGTAAAA-AATATT
* *
48093639 AAAAATGGTAAAAAGTATTT
1 AAAAATTGTAAAAAATA-TT
48093659 AAAAA-TGTAAAATAAATTATT
1 AAAAATTGT-AAA-AAA-TATT
* *
48093680 AAAAATTATAAAACATTATAT
1 AAAAATTGTAAAA-AATAT-T
* * *
48093701 AAAATTTGTAAGAATTATT
1 AAAAATTGTAAAAAATATT
*
48093720 AAAAATAGTAAA
1 AAAAATTGTAAA
48093732 TAATTAACAA
Statistics
Matches: 136, Mismatches: 21, Indels: 43
0.68 0.10 0.22
Matches are distributed among these distances:
11 3 0.02
12 3 0.02
13 4 0.03
16 3 0.02
17 13 0.10
18 13 0.10
19 31 0.23
20 38 0.28
21 24 0.18
22 4 0.03
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (19 bp):
AAAAATTGTAAAAAATATT
Found at i:48093589 original size:9 final size:10
Alignment explanation
Indices: 48093533--48093588 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
48093523 TGACCAAAAC
48093533 AAAAATATTGT
1 AAAAATATT-T
48093544 AAAAAT-TATT
1 AAAAATAT-TT
*
48093554 AAAAAT-TGTA
1 AAAAATAT-TT
48093564 AGAAAATATTT
1 A-AAAATATTT
48093575 AAAAATATTT
1 AAAAATATTT
48093585 AAAA
1 AAAA
48093589 TTGTAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 24 0.62
11 14 0.36
12 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (10 bp):
AAAAATATTT
Found at i:48093591 original size:30 final size:32
Alignment explanation
Indices: 48093533--48093601 Score: 106
Period size: 30 Copynumber: 2.2 Consensus size: 32
48093523 TGACCAAAAC
48093533 AAAAATATTGTAAAAATTATTAAAAATTGTAA
1 AAAAATATTGTAAAAATTATTAAAAATTGTAA
* *
48093565 GAAAATATT-TAAAAA-TATTTAAAATTGTAA
1 AAAAATATTGTAAAAATTATTAAAAATTGTAA
48093595 AAAAATA
1 AAAAATA
48093602 AACAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 20 0.59
31 6 0.18
32 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (32 bp):
AAAAATATTGTAAAAATTATTAAAAATTGTAA
Found at i:48093636 original size:17 final size:17
Alignment explanation
Indices: 48093585--48093636 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
48093575 AAAAATATTT
*
48093585 AAAATTGTAAAAAAATA
1 AAAATTGTAAAAGAATA
48093602 AACAATTG--AAAGTTAATA
1 AA-AATTGTAAAAG--AATA
48093620 AAAATTGTAAAAGAATA
1 AAAATTGTAAAAGAATA
48093637 TTAAAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
16 3 0.10
17 11 0.38
18 11 0.38
19 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (17 bp):
AAAATTGTAAAAGAATA
Found at i:48093687 original size:10 final size:10
Alignment explanation
Indices: 48093672--48093725 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
48093662 AATGTAAAAT
48093672 AAATTATTAA
1 AAATTATTAA
48093682 AAATTA-TAA
1 AAATTATTAA
48093691 AACATTA-TATA
1 AA-ATTATTA-A
48093702 AAATT-TGTAA
1 AAATTAT-TAA
*
48093712 GAATTATTAA
1 AAATTATTAA
48093722 AAAT
1 AAAT
48093726 AGTAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 5 0.14
10 26 0.70
11 6 0.16
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Found at i:48099253 original size:11 final size:11
Alignment explanation
Indices: 48099237--48099265 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
48099227 GGCCGAATAT
48099237 AGAAAAGAAAA
1 AGAAAAGAAAA
48099248 AGAAAAG-AAA
1 AGAAAAGAAAA
48099258 AGAAAAGA
1 AGAAAAGA
48099266 GAACAACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:48099258 original size:16 final size:17
Alignment explanation
Indices: 48099237--48099268 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48099227 GGCCGAATAT
48099237 AGAAAAGAAAA-AGAAA
1 AGAAAAGAAAAGAGAAA
48099253 AGAAAAGAAAAGAGAA
1 AGAAAAGAAAAGAGAA
48099269 CAACAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAAAGAGAAA
Found at i:48102514 original size:43 final size:43
Alignment explanation
Indices: 48102455--48102556 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
48102445 GTTAGGATAT
* * * * *
48102455 TATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGA
1 TATTATAAGACATTATCTCTTAGCAATTTGATTCCTAATAAGA
* *
48102498 TATTATAGGACATTATCTCTTAGTAATTTGATTCCTAATAAGA
1 TATTATAAGACATTATCTCTTAGCAATTTGATTCCTAATAAGA
*
48102541 TATTATAAGATATTAT
1 TATTATAAGACATTAT
48102557 TATGATATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (43 bp):
TATTATAAGACATTATCTCTTAGCAATTTGATTCCTAATAAGA
Found at i:48102558 original size:56 final size:56
Alignment explanation
Indices: 48102495--48102612 Score: 134
Period size: 56 Copynumber: 2.2 Consensus size: 56
48102485 ATTCCTAATG
*
48102495 AGATATTA-TA-G-GACATTATCTCTTAGTAATTTGATTCCTAATAAGATATTATA
1 AGATATTATTATGAGACATTATCTCTTAGCAATTTGATTCCTAATAAGATATTATA
* * * * ** *
48102548 AGATATTATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGGTATTATA
1 AGATATTATTATGAGACATTATCTCTTAGCAATTTGATTCCTAATAAGATATTATA
*
48102604 GGATATTAT
1 AGATATTAT
48102613 CTCTTAGCAA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
53 8 0.15
54 2 0.04
55 1 0.02
56 42 0.79
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (56 bp):
AGATATTATTATGAGACATTATCTCTTAGCAATTTGATTCCTAATAAGATATTATA
Found at i:48102620 original size:43 final size:43
Alignment explanation
Indices: 48102554--48102676 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
48102544 TATAAGATAT
* * * * *
48102554 TATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGG
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
* * * *
48102597 TATTATAGGATATTATCTCTTAGCAATTTCATTTCTAATGAGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
*
48102640 TATTATAAGATATTATCTTTTAACAATTTGATTCCTA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTA
48102677 TGTAACTACT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (43 bp):
TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
Found at i:48102625 original size:99 final size:99
Alignment explanation
Indices: 48102450--48102655 Score: 340
Period size: 99 Copynumber: 2.1 Consensus size: 99
48102440 GGGGTGTTAG
48102450 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
* *
48102515 TCTTAGTAATTTGATTCCTAATAAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
* * * *
48102549 GATATTATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGGTATTATAGGATATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
* *
48102614 TCTTAGCAATTTCATTTCTAATGAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
48102648 GATATTAT
1 GATATTAT
48102656 CTTTTAACAA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (99 bp):
GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATGAGATATTATAGGACATTATC
TCTTAGCAATTTCATTCCTAATAAGATATTATAA
Found at i:48103034 original size:8 final size:9
Alignment explanation
Indices: 48102974--48103058 Score: 66
Period size: 9 Copynumber: 8.8 Consensus size: 9
48102964 AATTTCAAAT
48102974 AATTTTTAA
1 AATTTTTAA
48102983 AATTTTTAAA
1 AATTTTT-AA
48102993 TAATGTTTTATA
1 -AAT-TTTTA-A
48103005 AA-TTTTAA
1 AATTTTTAA
48103013 TATATTTTTAA
1 -A-ATTTTTAA
48103024 AATTTTTAAA
1 AATTTTT-AA
*
48103034 TAATTTTTAC
1 -AATTTTTAA
48103044 AA-TTTTAA
1 AATTTTTAA
*
48103052 TATTTTT
1 AATTTTT
48103059 CTATAATTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
8 7 0.11
9 25 0.40
10 7 0.11
11 19 0.30
12 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (9 bp):
AATTTTTAA
Found at i:48103096 original size:10 final size:10
Alignment explanation
Indices: 48103069--48103165 Score: 56
Period size: 10 Copynumber: 9.7 Consensus size: 10
48103059 CTATAATTAG
*
48103069 TAATTTTTTT
1 TAATTTTTAT
48103079 TCAA-TTTTAT
1 T-AATTTTTAT
48103089 TAATTTTTTAGT
1 TAA-TTTTTA-T
*
48103101 T-A-TTTTAA
1 TAATTTTTAT
*
48103109 TATTTTTTAT
1 TAATTTTTAT
* *
48103119 AAATTTTAAT
1 TAATTTTTAT
* *
48103129 AAATTTTTAA
1 TAATTTTTAT
* *
48103139 TAAATTTTAA
1 TAATTTTTAT
48103149 TAATTTTTAT
1 TAATTTTTAT
*
48103159 TTATTTT
1 TAATTTT
48103166 AAAAATATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
8 1 0.01
9 7 0.10
10 49 0.73
11 8 0.12
12 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
TAATTTTTAT
Found at i:48103124 original size:11 final size:11
Alignment explanation
Indices: 48103110--48103157 Score: 66
Period size: 10 Copynumber: 4.6 Consensus size: 11
48103100 TTATTTTAAT
*
48103110 ATTTTTTATAA
1 ATTTTTAATAA
48103121 A-TTTTAATAA
1 ATTTTTAATAA
48103131 ATTTTTAATAA
1 ATTTTTAATAA
48103142 A-TTTTAAT-A
1 ATTTTTAATAA
48103151 ATTTTTA
1 ATTTTTA
48103158 TTTATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 2 0.06
10 21 0.62
11 11 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTTAATAA
Found at i:48103164 original size:19 final size:19
Alignment explanation
Indices: 48102971--48103167 Score: 120
Period size: 20 Copynumber: 10.1 Consensus size: 19
48102961 CGCAATTTCA
*
48102971 AATAATTTTTA-AAATTTTT
1 AATAATTTTTATATA-TTTT
*
48102990 AAATAATGTTTTATAAATTTT
1 -AATAAT-TTTTATATATTTT
*
48103011 AATATATTTTTA-AAATTTTT
1 AATA-ATTTTTATATA-TTTT
*
48103031 AAATAATTTTTACA-ATTTT
1 -AATAATTTTTATATATTTT
* *
48103050 AAT-ATTTTTCTATA-ATT
1 AATAATTTTTATATATTTT
* *
48103067 AGTAATTTTT-TTTCAATTTT
1 AATAATTTTTATAT--ATTTT
*
48103087 ATTAATTTTT-TAGTTATTTT
1 AATAATTTTTATA--TATTTT
* *
48103107 AATATTTTTTATAAATTTT
1 AATAATTTTTATATATTTT
*
48103126 AATAAATTTTTAATAAATTTT
1 AAT-AATTTTT-ATATATTTT
*
48103147 AATAATTTTTATTTATTTT
1 AATAATTTTTATATATTTT
48103166 AA
1 AA
48103168 AAATATTTTT
Statistics
Matches: 147, Mismatches: 14, Indels: 33
0.76 0.07 0.17
Matches are distributed among these distances:
17 13 0.09
18 10 0.07
19 25 0.17
20 65 0.44
21 30 0.20
22 4 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
AATAATTTTTATATATTTT
Found at i:48110636 original size:185 final size:184
Alignment explanation
Indices: 48110278--48110650 Score: 656
Period size: 185 Copynumber: 2.0 Consensus size: 184
48110268 TCTAAGATTC
* *
48110278 CCTTCATTGTGACGTAGGCGTCATGCCTTGCTTTGAAACAATAACTTGGTATACATATCATAGAC
1 CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGATATACATATCATAGAC
48110343 ACCACCTTTAGGTTCTTTCTTTATCTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTTA
66 ACCACCTTTAGGTTCTTTCTTTATCTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTTA
* *
48110408 CAAACAAAATACTTTTATTTTGCCATTTATGTTGGTGCAGTCAAGCTTCTTTGT
131 CAAAAAAAATACTTTTATTTTGCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
* * *
48110462 CCTTCATTGTGACGTAGGTGTCACGCCTTGCTTTGAGACTATAACTTGATATACATATCATAGAC
1 CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGATATACATATCATAGAC
*
48110527 ACCACCTTTATGTTCTTTCTTTATCTTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
66 ACCACCTTTAGGTTCTTTCTTTATC-TTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTT
*
48110592 ACAAAAAAAATACTTTTATTTTTCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
130 ACAAAAAAAATACTTTTATTTTGCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
48110647 CCTT
1 CCTT
48110651 AATTTGATAC
Statistics
Matches: 179, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
184 84 0.47
185 95 0.53
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (184 bp):
CCTTCATTGTGACGTAGGCGTCACGCCTTGCTTTGAAACAATAACTTGATATACATATCATAGAC
ACCACCTTTAGGTTCTTTCTTTATCTTTCATGATTTCCTAACCATTCTAGTTATAGATGGCCTTA
CAAAAAAAATACTTTTATTTTGCCATTTATGTTGGCGCAGTCAAGCTTCTTTGT
Found at i:48111006 original size:32 final size:32
Alignment explanation
Indices: 48110933--48110994 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
48110923 CTGAGTTTTT
*
48110933 CCACAAAGGCGTTCCTTAACATTTAGTACTCA
1 CCACAAAGGCGTTCCTTAACATTCAGTACTCA
*
48110965 CTACAAAGGCGTTCCTTAACATTCAGTACT
1 CCACAAAGGCGTTCCTTAACATTCAGTACT
48110995 TGCCATAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (32 bp):
CCACAAAGGCGTTCCTTAACATTCAGTACTCA
Found at i:48111274 original size:53 final size:53
Alignment explanation
Indices: 48111211--48111316 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
48111201 TCCTTAACTT
* *
48111211 TTTCCATATGATGTCATAACCCACCAGTTACAATCTTACACGATATGGTCTTC
1 TTTCCATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
***
48111264 TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACAATATGGTCTTC
1 TTTCCATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
48111317 AGTGCCATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.34
Consensus pattern (53 bp):
TTTCCATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
Found at i:48111682 original size:202 final size:202
Alignment explanation
Indices: 48111336--48111709 Score: 703
Period size: 202 Copynumber: 1.9 Consensus size: 202
48111326 GCCATGGACC
* *
48111336 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACGACTTCGAAGACAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
* *
48111401 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTTATGCCTACTAGGCACACATGCACTT
66 GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
*
48111466 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCGTTCAGACTCGTTCTTCCTA
131 CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATAGTCGTTCAGACTCGTTCTTCCTA
48111531 TCAGACT
196 TCAGACT
48111538 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
48111603 GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
66 GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
48111668 CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATA
131 CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATA
48111710 TTCATTCAAA
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 167 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (202 bp):
TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACAGACCCTTTTGACCACTTCGAAGACAGACAC
GGACTCATCATGTATCAACTCACTCATGACAGACATTCTTATGCCTACTAGACACACATGCACTT
CCTATCAGACTCGTTCTTACTTTTAGAAATAACCACACCATAGTCGTTCAGACTCGTTCTTCCTA
TCAGACT
Found at i:48116618 original size:51 final size:51
Alignment explanation
Indices: 48116558--48116796 Score: 248
Period size: 51 Copynumber: 4.7 Consensus size: 51
48116548 TAGGTCGTAT
* * *
48116558 ATAGTACTTTACATAATTAGTATGCATATAATTTGCATTCACAGTTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
* * * * * * * * *
48116609 ATATAACTTTACATAATCT-GCACGCACACACTTTACATTAATAGTTGACAT
1 ATAGAACTTTACATAAT-TAGTACGCATATACTTTGCATTCACAGTTCACAC
* * *
48116660 ATAGAACTTTTCATAATTAGTACGTATATACTTTGCATTCATAGTTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
* * * * *
48116711 ATAAAACTTTACATAATTAGTACACATATGCTTTACATTCACAATTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
* * *
48116762 ATAGAAATTTATATAA-TAGTAAGCATATACTTTGC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGC
48116797 TTTGGAAGAT
Statistics
Matches: 149, Mismatches: 37, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
50 16 0.11
51 132 0.89
52 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (51 bp):
ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAGTTCACAC
Found at i:48123661 original size:30 final size:30
Alignment explanation
Indices: 48123627--48123686 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
48123617 ACTTAACAAG
48123627 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
48123657 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
48123687 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:48123815 original size:12 final size:13
Alignment explanation
Indices: 48123797--48123829 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
48123787 AACATTTAAA
48123797 AATGTTGGCATAG
1 AATGTTGGCATAG
48123810 AA-GTTGGCATAG
1 AATGTTGGCATAG
48123822 AATGTTGG
1 AATGTTGG
48123830 AACACCGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (13 bp):
AATGTTGGCATAG
Found at i:48131233 original size:12 final size:12
Alignment explanation
Indices: 48131216--48131240 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48131206 TGAACGTTTT
48131216 GCTGTTGTATCG
1 GCTGTTGTATCG
48131228 GCTGTTGTATCG
1 GCTGTTGTATCG
48131240 G
1 G
48131241 GGTATGGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (12 bp):
GCTGTTGTATCG
Found at i:48137528 original size:12 final size:12
Alignment explanation
Indices: 48137511--48137538 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48137501 TTTTGGGAAA
48137511 AATAAAAATAAT
1 AATAAAAATAAT
48137523 AATAAAAATAAT
1 AATAAAAATAAT
48137535 AATA
1 AATA
48137539 GGAAAAGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAAAAATAAT
Found at i:48138207 original size:31 final size:31
Alignment explanation
Indices: 48138169--48138230 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
48138159 AGGCAAATTA
48138169 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
48138200 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
48138231 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:48146171 original size:50 final size:51
Alignment explanation
Indices: 48146056--48146183 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
48146046 AAAGGTCGCA
* * * * *
48146056 TGTGTAGTACTATGCGCAGGCTACTATGCGTACCGGAAAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGAGCACG
* * *
48146107 TGTGTAGTACTATGTGCAGGATACTACGTGAACCGAAAAG-TTTGAGCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGAGCACG
* *
48146157 TGTGTAATACTATGTGAAGGCTACTAC
1 TGTGTAGTACTATGTGCAGGCTACTAC
48146184 ATGTATTGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 32 0.48
51 34 0.52
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGCGAACCGAAAAGCTTCGAGCACG
Found at i:48149876 original size:40 final size:40
Alignment explanation
Indices: 48149787--48149921 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
48149777 CGATCAACCG
* * *
48149787 AACACACCAGACAGAAGCTCATAAGAGTTGGTCCACCCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
* * *
48149827 AATATGCCAAACAAAAGCTCATAAGAGCTGGTCCACCCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
* ** *
48149867 AACACGCC-AATAGAAGCTCATAATTGCTGATCCACCCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
* *
48149906 AACAAGCCAAAAAGAA
1 AACACGCCAAACAGAA
48149922 AGTATAACGC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 33 0.42
40 46 0.58
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.13
Consensus pattern (40 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
Found at i:48149901 original size:39 final size:39
Alignment explanation
Indices: 48149797--48149915 Score: 148
Period size: 39 Copynumber: 3.0 Consensus size: 39
48149787 AACACACCAG
* * *
48149797 ACAGAAGCTCATAAGAGTTGGTCCACCCGAAATATGCCAA
1 ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCC-A
* *
48149837 ACAAAAGCTCATAAGAGCTGGTCCACCCGAAACACGCCA
1 ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCCA
* ** *
48149876 ATAGAAGCTCATAATTGCTGATCCACCCGAAACAAGCCA
1 ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCCA
48149915 A
1 A
48149916 AAAGAAAGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 35 0.51
40 34 0.49
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.15
Consensus pattern (39 bp):
ACAGAAGCTCATAAGAGCTGGTCCACCCGAAACAAGCCA
Found at i:48150866 original size:10 final size:10
Alignment explanation
Indices: 48150851--48150875 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48150841 TTCTTCATTC
48150851 TTTAATTTTG
1 TTTAATTTTG
48150861 TTTAATTTTG
1 TTTAATTTTG
48150871 TTTAA
1 TTTAA
48150876 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:48169189 original size:30 final size:30
Alignment explanation
Indices: 48169155--48169212 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
48169145 TTTTATGTAA
48169155 AATTTGACACATTTATGTACATGAGTCATG
1 AATTTGACACATTTATGTACATGAGTCATG
48169185 AATTTGACACATTTATGTACATGAGTCA
1 AATTTGACACATTTATGTACATGAGTCA
48169213 GTGTTCTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (30 bp):
AATTTGACACATTTATGTACATGAGTCATG
Found at i:48174981 original size:14 final size:15
Alignment explanation
Indices: 48174958--48174986 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48174948 CTTTATTTTG
48174958 CTTTTAACTTTTTCA
1 CTTTTAACTTTTTCA
48174973 CTTTT-ACTTTTTCA
1 CTTTTAACTTTTTCA
48174987 TCTCAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTTTAACTTTTTCA
Found at i:48176275 original size:12 final size:12
Alignment explanation
Indices: 48176241--48176277 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
48176231 GTAAAGGAAA
48176241 TAAA-AATA-TT
1 TAAATAATATTT
48176251 TAAATAATGATTT
1 TAAATAAT-ATTT
48176264 TAAATAATATTT
1 TAAATAATATTT
48176276 TA
1 TA
48176278 TTAAGAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 3 0.12
12 7 0.29
13 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (12 bp):
TAAATAATATTT
Found at i:48180701 original size:16 final size:16
Alignment explanation
Indices: 48180676--48180706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48180666 TCAAAAGAGT
48180676 TTTCAAATATATATAG
1 TTTCAAATATATATAG
*
48180692 TTTCACATATATATA
1 TTTCAAATATATATA
48180707 CACGTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTCAAATATATATAG
Found at i:48181688 original size:21 final size:19
Alignment explanation
Indices: 48181660--48181699 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
48181650 TTCTTTAAAT
48181660 AAATTAAAAATATAGAAAAA
1 AAATTAAAAATATA-AAAAA
*
48181680 AAATGTAAAATTATAAAAAA
1 AAAT-TAAAAATATAAAAAA
48181700 TCCTAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AAATTAAAAATATAAAAAA
Found at i:48181922 original size:19 final size:20
Alignment explanation
Indices: 48181897--48181941 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
48181887 GAACAAAAAT
48181897 GAAAAAAGAAAA-AAAATCA
1 GAAAAAAGAAAAGAAAATCA
*
48181916 TAAAAAAGAAAAGAAAATCA
1 GAAAAAAGAAAAGAAAATCA
48181936 GAAAAA
1 GAAAAA
48181942 TAGTCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (20 bp):
GAAAAAAGAAAAGAAAATCA
Found at i:48191495 original size:19 final size:19
Alignment explanation
Indices: 48191471--48191507 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48191461 CTTACATGCC
*
48191471 AAAGTGAAAAATTGATTTG
1 AAAGTGAAAAAGTGATTTG
48191490 AAAGTGAAAAAGTGATTT
1 AAAGTGAAAAAGTGATTT
48191508 TTGTGGCTAT
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:0.49, C:0.00, G:0.22, T:0.30
Consensus pattern (19 bp):
AAAGTGAAAAAGTGATTTG
Found at i:48192657 original size:15 final size:15
Alignment explanation
Indices: 48192637--48192669 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48192627 TATTTATACT
*
48192637 TGAAACTTTAGATTA
1 TGAAACCTTAGATTA
48192652 TGAAACCTTAGATTA
1 TGAAACCTTAGATTA
48192667 TGA
1 TGA
48192670 GATGATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (15 bp):
TGAAACCTTAGATTA
Found at i:48194086 original size:19 final size:19
Alignment explanation
Indices: 48194062--48194098 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48194052 CTCACATGTC
*
48194062 AAAGTGAAAAATTGATTTG
1 AAAGTGAAAAAATGATTTG
48194081 AAAGTGAAAAAATGATTT
1 AAAGTGAAAAAATGATTT
48194099 TTGTGGCCAT
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:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (19 bp):
AAAGTGAAAAAATGATTTG
Found at i:48207050 original size:42 final size:42
Alignment explanation
Indices: 48206998--48207097 Score: 166
Period size: 42 Copynumber: 2.4 Consensus size: 42
48206988 ATTAAAATCC
* *
48206998 AAAAGTTAGAACTCAAGTTGTCGTAAATATTAAAGTAAAAAT
1 AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
48207040 AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
1 AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
48207082 AAAAATTTAGAA-TCAA
1 AAAAA-TTAGAACTCAA
48207098 AACTAAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
42 49 0.89
43 6 0.11
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (42 bp):
AAAAATTAGAACTCAAGTTGTCATAAATATTAAAGTAAAAAT
Found at i:48207109 original size:43 final size:42
Alignment explanation
Indices: 48207021--48207111 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
48207011 CAAGTTGTCG
** ***
48207021 TAAATATTAAAGTAAAAATAAAAATTAGAACTCAAGTTGTCA
1 TAAATATTAAAGTAAAAATAAAAATTAGAACTCAAACTAAAA
48207063 TAAATATTAAAGTAAAAATAAAAATTTAGAA-TCAAAACTAAAA
1 TAAATATTAAAGTAAAAATAAAAA-TTAGAACTC-AAACTAAAA
48207106 TAAATA
1 TAAATA
48207112 ATACATATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 26 0.62
43 16 0.38
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.27
Consensus pattern (42 bp):
TAAATATTAAAGTAAAAATAAAAATTAGAACTCAAACTAAAA
Found at i:48209346 original size:17 final size:17
Alignment explanation
Indices: 48209324--48209357 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
48209314 TAAAAGAACA
48209324 TTCTACATACCAGTCAG
1 TTCTACATACCAGTCAG
48209341 TTCTACATACCAGTCAG
1 TTCTACATACCAGTCAG
48209358 CAAAATCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (17 bp):
TTCTACATACCAGTCAG
Found at i:48211773 original size:120 final size:121
Alignment explanation
Indices: 48211624--48211850 Score: 307
Period size: 120 Copynumber: 1.9 Consensus size: 121
48211614 ATGAACTTAA
* * *
48211624 TTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAACCCTAACCCGAC-CCTGAATCT
1 TTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACATC-GAATCT
* * *
48211688 CTAAACCCTAAGTCAC-TCACTCTTAACCTCTAACCCCAAACCCCTAACTACTAACAT
65 ATAAACCCTAAATC-CTTAACTCTTAACCTCTAACCCCAAACCCCTAACTACTAACAT
* ** *
48211745 TTAATATATAAATT-AAAAACACTAATTAATCTAAACCCTAAACTCTAACTTGATATCGAATCTA
1 TTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACATCGAATCTA
* *
48211809 TAAACCCTAAATCCTTAACTCTTAATCTCTAACCCCTAACCC
66 TAAACCCTAAATCCTTAACTCTTAACCTCTAACCCCAAACCC
48211851 TTAAACCAGA
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
119 1 0.01
120 76 0.83
121 15 0.16
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.29
Consensus pattern (121 bp):
TTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCCTAACCCGACATCGAATCTA
TAAACCCTAAATCCTTAACTCTTAACCTCTAACCCCAAACCCCTAACTACTAACAT
Found at i:48211879 original size:14 final size:15
Alignment explanation
Indices: 48211860--48211892 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
48211850 CTTAAACCAG
48211860 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
48211874 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
48211889 AATC
1 AATC
48211893 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:48212361 original size:41 final size:41
Alignment explanation
Indices: 48212293--48212401 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
48212283 AAATGTTTTT
* *
48212293 GCGGCGCTTTAT-AAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACACCGCTAAAAGCCTGAGCATTA
* *
48212333 GCGGCGCTTTTTCAAAAATACCGTTAAAAGCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACACCGCTAAAAGCCTGAGCATTA
*
48212374 GCGGCGCTTTTTCAAAAACGCCGCTAAA
1 GCGGCGCTTTTTCAAAAACACCGCTAAA
48212402 GCCCCAAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
40 11 0.18
41 50 0.82
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACACCGCTAAAAGCCTGAGCATTA
Found at i:48217870 original size:21 final size:21
Alignment explanation
Indices: 48217844--48217898 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
48217834 AACAATGGCG
* *
48217844 GTGGTGTGATTAATTACTATA
1 GTGGTGAGATTAAGTACTATA
* *
48217865 GTGGTGAGATTAGGTATTATA
1 GTGGTGAGATTAAGTACTATA
*
48217886 GTGGTGAGCTTAA
1 GTGGTGAGATTAA
48217899 AATTAGTGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (21 bp):
GTGGTGAGATTAAGTACTATA
Found at i:48220023 original size:35 final size:35
Alignment explanation
Indices: 48219984--48220052 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
48219974 AGTTTATTAA
48219984 TTTGAATACATTTGA-TTCCGAAGGAAGTTTATATG
1 TTTGAATACATTTGATTTCC-AAGGAAGTTTATATG
* *
48220019 TTTGAATAGATTTGATTTCCAATGAAGTTTATAT
1 TTTGAATACATTTGATTTCCAAGGAAGTTTATAT
48220053 CGATAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.43
Consensus pattern (35 bp):
TTTGAATACATTTGATTTCCAAGGAAGTTTATATG
Found at i:48221908 original size:10 final size:10
Alignment explanation
Indices: 48221882--48221928 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
48221872 AAATAAAACC
48221882 CTAAA-AAAA
1 CTAAAGAAAA
48221891 CTACAAAGAAAA
1 CT--AAAGAAAA
48221903 CTAAAGAAAA
1 CTAAAGAAAA
*
48221913 CCTAGAGAAAA
1 -CTAAAGAAAA
48221924 CTAAA
1 CTAAA
48221929 CCTAAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 2 0.06
10 12 0.38
11 12 0.38
12 6 0.19
ACGTcount: A:0.66, C:0.15, G:0.09, T:0.11
Consensus pattern (10 bp):
CTAAAGAAAA
Found at i:48225933 original size:18 final size:18
Alignment explanation
Indices: 48225910--48225947 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48225900 GCTTTTATGG
48225910 TGAAAGGTATCACCTACA
1 TGAAAGGTATCACCTACA
48225928 TGAAAGGTATCACCTACA
1 TGAAAGGTATCACCTACA
48225946 TG
1 TG
48225948 GCAAACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (18 bp):
TGAAAGGTATCACCTACA
Found at i:48228830 original size:13 final size:13
Alignment explanation
Indices: 48228812--48228837 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48228802 CCCCTTTTTA
48228812 GTTACAAACCATT
1 GTTACAAACCATT
48228825 GTTACAAACCATT
1 GTTACAAACCATT
48228838 CTTCTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GTTACAAACCATT
Found at i:48236288 original size:45 final size:44
Alignment explanation
Indices: 48236235--48236330 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
48236225 TTTGGTTCGC
48236235 TGTAATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAA
* *
48236280 TGTAATGGAATAGATGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
*
48236324 TGGAATG
1 TGTAATG
48236331 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:48236605 original size:120 final size:120
Alignment explanation
Indices: 48236470--48237104 Score: 1028
Period size: 120 Copynumber: 5.3 Consensus size: 120
48236460 TTAATCATAT
*
48236470 TTTAACATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * *
48236535 AAATATTCTTATATGACTTTTCTAAAATTATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
48236590 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
48236655 AAATATTCTTATATGAATTTTCTAAAATCAAAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
48236710 TTTAACACAATTATTATTGAATATAATTTAATACAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
48236775 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
48236830 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * * *
48236895 AAATATTCTTAAATGCATTTACTAAAATCATAATATATAATACTACAACATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
48236950 TTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTAATA
1 TTTAACATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
*
48237015 TTAAAGATTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
48237069 TTTAA-ATTAATTATT-TTCAAATATAATTTAATAAAA
1 TTTAACA-TAATTATTATT-AAATATAATTTAATAAAA
48237105 TTCTTAATAT
Statistics
Matches: 483, Mismatches: 29, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
117 17 0.04
118 3 0.01
119 51 0.11
120 358 0.74
121 1 0.00
122 53 0.11
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:48236753 original size:18 final size:17
Alignment explanation
Indices: 48236730--48236884 Score: 74
Period size: 18 Copynumber: 9.0 Consensus size: 17
48236720 TTATTATTGA
48236730 ATATAATTTAATACAAAT
1 ATATAATTTAATA-AAAT
48236748 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
* ***
48236765 -TCTTAATATTAAATATTCTT
1 AT-ATAAT-TT-AATA-AAAT
48236785 ATATGAATTTAATAAAAT
1 ATAT-AATTTAATAAAAT
* * *
48236803 -CATAATAT-ATAATACT
1 ATATAATTTAATAA-AAT
*
48236819 ATATAATATAATTTAAAAT
1 ATATAATTTAA--TAAAAT
* *
48236838 A-ATTA-TT-AT-TAA-
1 ATATAATTTAATAAAAT
48236850 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
48236868 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48236885 TCTTAATATT
Statistics
Matches: 102, Mismatches: 18, Indels: 35
0.66 0.12 0.23
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 3 0.03
15 6 0.06
16 8 0.08
17 25 0.25
18 32 0.31
19 11 0.11
20 7 0.07
21 4 0.04
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48236993 original size:18 final size:17
Alignment explanation
Indices: 48236968--48237005 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
48236958 AATTATTATT
*
48236968 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
48236985 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
48237003 AAA
1 AAA
48237006 TTCTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:48237100 original size:99 final size:102
Alignment explanation
Indices: 48236990--48237171 Score: 298
Period size: 102 Copynumber: 1.8 Consensus size: 102
48236980 TAGTAAAAAT
*
48236990 ATATAATTTAATAAAATTCTTAATATTAAAGA-TTCT-TA-GAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAAGATTTCTATATGAATTTACTAAAATCAGAATATAT
48237052 AATACTATAAAATATAATTTAAATTAATTATTTTCAA
66 AATACTATAAAATATAATTTAAATTAATTATTTTCAA
* * *
48237089 ATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTACTAAAATCAGGATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAAGATTTCTATATGAATTTACTAAAATCAGAATATAT
*
48237154 AATACTATAATATATAAT
66 AATACTATAAAATATAAT
48237172 ACTAGAAAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
99 31 0.41
100 3 0.04
101 2 0.03
102 39 0.52
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAAGATTTCTATATGAATTTACTAAAATCAGAATATAT
AATACTATAAAATATAATTTAAATTAATTATTTTCAA
Found at i:48241970 original size:47 final size:47
Alignment explanation
Indices: 48241878--48242198 Score: 484
Period size: 47 Copynumber: 6.7 Consensus size: 47
48241868 TCTGTACATG
* *
48241878 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
48241927 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
48241974 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
* *
48242023 ATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
48242070 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCA
48242117 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* * * *
48242164 ATGTGATGGATATGGAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48242199 TCCCGAAGGG
Statistics
Matches: 254, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 187 0.74
49 65 0.26
50 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:48242053 original size:96 final size:96
Alignment explanation
Indices: 48241878--48242198 Score: 501
Period size: 96 Copynumber: 3.4 Consensus size: 96
48241868 TCTGTACATG
* *
48241878 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
48241943 AGTGTATATATGTGATAAGGCCGAATGGCCA
66 AGTGTATATATGTGATAAGGCCGAATGGCCA
48241974 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
48242039 CA-TGTGTATGTGTGATAAGGCCGAATGGCCA
66 -AGTGTATATATGTGATAAGGCCGAATGGCCA
* *
48242070 ATGTGATGAATGTGAACA-TG--CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
48242132 AAGTGTATATATGTGATAAGGCCGAATGGCCA
65 AAGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
48242164 ATGTGATGGATATGGAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
48242199 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
93 2 0.01
94 92 0.45
95 1 0.00
96 109 0.53
97 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:48242075 original size:143 final size:142
Alignment explanation
Indices: 48241878--48242198 Score: 479
Period size: 143 Copynumber: 2.3 Consensus size: 142
48241868 TCTGTACATG
* *
48241878 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
48241943 -AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGA
65 CA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGA
48242007 TAAGGCCGAATGGCCA
127 TAAGGCCGAATGGCCA
* *
48242023 ATGTGATGAATGTGAACA-TG-TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA-AGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
48242086 CATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
65 CATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
48242151 GGCCGAATGGCCA
130 GGCCGAATGGCCA
* * * *
48242164 ATGTGATGGATATGGAAGTG-TATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGATATATATGTGATAAG
48242199 TCCCGAAGGG
Statistics
Matches: 161, Mismatches: 12, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
140 1 0.01
141 54 0.34
143 86 0.53
144 1 0.01
145 18 0.11
146 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (142 bp):
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
ATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCA
Found at i:48244707 original size:6 final size:6
Alignment explanation
Indices: 48244693--48244734 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
48244683 TCCAGATTTG
* * *
48244693 AGCACA AGCAAA AGCAAA AGCAAA A-CAAA ATCAAA ATCAAA A
1 AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA A
48244735 TTGATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.67, C:0.19, G:0.10, T:0.05
Consensus pattern (6 bp):
AGCAAA
Found at i:48244727 original size:17 final size:17
Alignment explanation
Indices: 48244701--48244734 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48244691 TGAGCACAAG
48244701 CAAAAGCAAAAGCAAAA
1 CAAAAGCAAAAGCAAAA
* *
48244718 CAAAATCAAAATCAAAA
1 CAAAAGCAAAAGCAAAA
48244735 TTGATTTTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.18, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAGCAAAAGCAAAA
Found at i:48244814 original size:14 final size:14
Alignment explanation
Indices: 48244795--48244822 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48244785 AGCAGAAATC
48244795 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
48244809 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
48244823 GAAATGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:48253423 original size:16 final size:17
Alignment explanation
Indices: 48253396--48253430 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48253386 TAGACTTGGG
*
48253396 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
48253413 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
48253429 TT
1 TT
48253431 TAAATTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:48254852 original size:50 final size:50
Alignment explanation
Indices: 48254788--48254882 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
48254778 TAAATGATAC
* *
48254788 CCGGTTCACATAGTAGCCTGCACATAGTACTACACAAGCGACCTATCATT
1 CCGGTACACATAGTAGCCTGCACATAATACTACACAAGCGACCTATCATT
* * *
48254838 CCGGTACACGTAGTAGCCTGCACATAATACTACACATGTGACCTA
1 CCGGTACACATAGTAGCCTGCACATAATACTACACAAGCGACCTA
48254883 GCAACTTCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CCGGTACACATAGTAGCCTGCACATAATACTACACAAGCGACCTATCATT
Found at i:48256857 original size:50 final size:50
Alignment explanation
Indices: 48256474--48256864 Score: 525
Period size: 50 Copynumber: 7.8 Consensus size: 50
48256464 TAATAACATC
* * ** *
48256474 CCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG
* * * * *
48256525 CCCATGCCAAGTCCTAGACATGGTCTTAC-GGGAGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGGTG
*
48256575 CCAACGCCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
** * *
48256625 CCAACGCCATGTCCCAGACATGGTCTTTTATGGGAACTCTCATTTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* *
48256675 CCAACGCCATGTCCCAGACTTTGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
48256725 CCAATGTCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
48256775 CCAACGCCATGTCCCAAACTTGGTCCTT-CATGGGACCTCTCAACTCGGTG
1 CCAACGCCATGTCCCAGACATGGT-CTTACATGGGACCTCTCATCTCGGTG
*
48256825 CCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
48256865 TTACCCAAAT
Statistics
Matches: 297, Mismatches: 39, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
49 3 0.01
50 262 0.88
51 32 0.11
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:48260228 original size:50 final size:50
Alignment explanation
Indices: 48260103--48260296 Score: 262
Period size: 50 Copynumber: 3.9 Consensus size: 50
48260093 TGATAATAAC
* ** *
48260103 ATGCCAAGGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATAG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTAG
* * * * * *
48260154 GTGCCCATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
* * *
48260204 ATGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
48260254 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
48260297 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 91 0.73
51 33 0.27
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAG
Found at i:48262203 original size:737 final size:733
Alignment explanation
Indices: 48260808--48262215 Score: 1876
Period size: 737 Copynumber: 1.9 Consensus size: 733
48260798 TATATTAGGG
* * *
48260808 ATTTTTACCGATTATGTCAACTTACTCGTTTACGCTTAAAATCGGCTAGCAAAAGTTGTTTAACA
1 ATTTTTACCGATTATGTCAACTTACTCGTTTACACTGAAAATCGGCTAGCAAAAATTGTTTAACA
* ** * * *
48260873 TAATTTTTGACTTCATATTCTATCATAAAACATCAAAATAAACACTTTTCACCTATGGGTATTTT
66 CAATTTAAGACTTCATATTCCACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTT
* * * *
48260938 TCCAAATATAAATCCTAGGTTAATTATTGCTAGAATAAGCTAAATTAAGCTATCGAGATTTCAAA
131 TCCAAATATAAACCCTAGGTTAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACTTCAAA
* * *
48261003 AACATAAAGAGAATTAAAAACGGGGCTTGGGACCACTTACTATGGAGCTTGGAAGCTTGAAAACC
196 AACATAAAGAGAATTAAAAACAGGGCTTAGAACCACTTACTATGGAGCTTGGAAGCTTGAAAACC
* * *
48261068 CTAACTATGGCTTCTCCCCTTGCTAAATTTGGCCAAATGAAGAAGATGATCAAAAATTGGCTTTT
261 CTAACCATGGCATCTCCCCTTACTAAATTTGGCCAAATGAAGAAGATGATCAAAAATTGGC--TT
* * **
48261133 AATTTTGTTTTTAATTCATTTTAATAACTAAATGACTAAAATGCCCTTAATGAAAAACTTTGGAA
324 AATTTTGTTTTTAATTCATTTTAATAACTAAATGACCAAAATGCCCTCAATGAAAAACTTCCGAA
** *
48261198 ACATGCCTAACCATGTCCATTTTTTGTCCACCAACTTAAGCAATGGTCTAATTACCATATAAAGA
389 ACA-GCCTAACCATGTCCATTTTTTGTCCAAAAACTTAACCAATGGTCTAATTACCATATAAAGA
* *
48261263 CCTCCAATTTAAAATTTCATAACAATTGGACACCTCTAACATATAGACTCAACTTTTGCACTTTT
453 CCTCCAATTTAAAATTTCATAACAACTAGACACCTCTAACATATAGACTCAACTTTTGCACTTTT
48261328 TACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACGAAATTTTCAC
518 TACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACGAAATTTTCAC
* * * *
48261393 AAAATCTTTCCGTGAAATTGTAGGCCATAGAAATATAGTAAAAATAAATTTTTCCTCATCGGATT
583 AAAATCTTTCCGTGAAATTGTAGACCATAAAAATATAATAAAAATAAATTTTTCCTCATCGAATT
48261458 TATGGTCCCGAAACCACTGTTTCGATAACCTTAAATTTGGGCCATTACAAAATTCTTGCTCTAAC
648 TATGGTCCCGAAACCACTGTTTCGATAACCTTAAATTTGGGCCATTACAAAATTCTTGCTCTAAC
48261523 ATACACTTATGAACAGTAATA
713 ATACACTTATGAACAGTAATA
** * *
48261544 ATTTTTACCGATTATGTC-GTTTCACTTGTTTTCACTGAAAATC-GCTTAGCAAAAATTGTTTAA
1 ATTTTTACCGATTATGTCAACTT-ACTCGTTTACACTGAAAATCGGC-TAGCAAAAATTGTTTAA
48261607 CACAATTTCAAG-CTTCATATTCCACCATAAAACATCAAAAATAAACACATTTCACCTATGGGTA
64 CACAATTT-AAGACTTCATATTCCACCATAAAACATC-AAAATAAACACATTTCACCTATGGGTA
*
48261671 TTTTTCCAAATATAAACCCTAGTTTAAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACT
127 TTTTTCCAAATATAAACCCTAGGTT-AATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACT
* *
48261736 TCAAAAACGTAAAGA-ACATTAAAAACAGGGCTTAGAATCACTTACTATGGAGCTTGGAAGCTTG
191 TCAAAAACATAAAGAGA-ATTAAAAACAGGGCTTAGAACCACTTACTATGGAGCTTGGAAGCTTG
* ** * * *
48261800 AAAACCCTAACCATGGCATC-CCCCTTACT-ATTTTCGTTCATCATGGAGAAGATGGA-CAAATT
255 AAAACCCTAACCATGGCATCTCCCCTTACTAAATTT-GGCCA-AATGAAGAAGAT-GATCAAA-A
* * *
48261862 TTTGGC-T-ATTTTGACCTTTTTAATTC-TTTTAATTACTAAATGACCAAAATGCCC-CAACTTA
316 ATTGGCTTAATTTTG---TTTTTAATTCATTTTAATAACTAAATGACCAAAATGCCCTCAA-TGA
* ** * * * *
48261923 AAAA-TATCCTATTCCA-CTTATCTCTTGTCCA-TTTTTGTCCAAAAAGTTAACCAATGGTCTAA
377 AAAACT-TCCGA-AACAGCCTAAC-CATGTCCATTTTTTGTCCAAAAACTTAACCAATGGTCTAA
* * ** * *
48261985 TTACCATTTAAGGACCTCCAATTTAAAATTTCATAACAACTAGACAGTTCTAACATGTAGAACTT
439 TTACCATATAAAGACCTCCAATTTAAAATTTCATAACAACTAGACACCTCTAACATATAG-ACTC
* *
48262050 AACTTTTTCACTTTTTACAATTTAGTCCTTTT-AGCTAAATTGAGTGCCCAAACGTCGAAATTTT
503 AACTTTTGCACTTTTTACAATTTAGTCCTTTTGA-CTAAATTGAGTGCCCAAACGTCAAAATTTT
* * **
48262114 TGAACTAAATTTTTATGAAATCATTT-CGTGAAATTGTAGACCATAAAAATATAATAAAAATAAA
567 TGAACGAAATTTTCACAAAATC-TTTCCGTGAAATTGTAGACCATAAAAATATAATAAAAATAAA
* *
48262178 TTTTTCCTCGTCGAATTTGTGGTCCCGAAACCACTGTT
631 TTTTTCCTCATCGAATTTATGGTCCCGAAACCACTGTT
48262216 CCGACTAGGC
Statistics
Matches: 583, Mismatches: 69, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
735 10 0.02
736 172 0.30
737 254 0.44
738 140 0.24
739 7 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (733 bp):
ATTTTTACCGATTATGTCAACTTACTCGTTTACACTGAAAATCGGCTAGCAAAAATTGTTTAACA
CAATTTAAGACTTCATATTCCACCATAAAACATCAAAATAAACACATTTCACCTATGGGTATTTT
TCCAAATATAAACCCTAGGTTAATTATTACTAGAATAAGCTAAATTAAGCTACCGAGACTTCAAA
AACATAAAGAGAATTAAAAACAGGGCTTAGAACCACTTACTATGGAGCTTGGAAGCTTGAAAACC
CTAACCATGGCATCTCCCCTTACTAAATTTGGCCAAATGAAGAAGATGATCAAAAATTGGCTTAA
TTTTGTTTTTAATTCATTTTAATAACTAAATGACCAAAATGCCCTCAATGAAAAACTTCCGAAAC
AGCCTAACCATGTCCATTTTTTGTCCAAAAACTTAACCAATGGTCTAATTACCATATAAAGACCT
CCAATTTAAAATTTCATAACAACTAGACACCTCTAACATATAGACTCAACTTTTGCACTTTTTAC
AATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACGAAATTTTCACAAA
ATCTTTCCGTGAAATTGTAGACCATAAAAATATAATAAAAATAAATTTTTCCTCATCGAATTTAT
GGTCCCGAAACCACTGTTTCGATAACCTTAAATTTGGGCCATTACAAAATTCTTGCTCTAACATA
CACTTATGAACAGTAATA
Found at i:48264794 original size:48 final size:48
Alignment explanation
Indices: 48264735--48264932 Score: 243
Period size: 48 Copynumber: 4.1 Consensus size: 48
48264725 ACTAGATTTC
* * * * * *
48264735 TCGGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAATAATAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * * * *
48264783 TCGGTGTCCTGCACATAATCTGTGCCACCCTTGTATCTTAACAGTTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* *
48264831 TTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
48264879 TTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
48264927 TCGGTG
1 TCGGTG
48264933 CACATAGTAG
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:48268009 original size:42 final size:42
Alignment explanation
Indices: 48267929--48268010 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
48267919 CGTTTTCTCT
* **
48267929 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTC
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTC
* *
48267971 ATGCCATAGCCCAGCTATGGTCTTACATAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
48268011 CACACCAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTC
Found at i:48270338 original size:48 final size:48
Alignment explanation
Indices: 48270289--48270486 Score: 243
Period size: 48 Copynumber: 4.1 Consensus size: 48
48270279 AATAGATTTC
* * * * *
48270289 TCGGTGGCCTGCACACAGTCCGTACCACCTTTGTGTAATAACAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
48270337 TCGGTGGCCTGCACATAGTTCGTGCCACCCTTGTATCTTAACAGTTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * *
48270385 TTGGTGACCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * * *
48270433 TTGGTGGCTTGCACACAGTCCGTGCCACCCTTTTGTCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
48270481 TCGGTG
1 TCGGTG
48270487 CGCATAGTAG
Statistics
Matches: 129, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:48271758 original size:41 final size:41
Alignment explanation
Indices: 48271706--48271878 Score: 197
Period size: 41 Copynumber: 4.2 Consensus size: 41
48271696 ACAACGTATA
*
48271706 TGCAATTCAGGGGTACTAAAGTAGAAATAGGGGCACATATG
1 TGCAATTCAGGGGTACTAAAGTACAAATAGGGGCACATATG
* ****
48271747 TGCAATTCAGGGGTAAC-GAAGTACAAATAGGGGCATGCGTG
1 TGCAATTCAGGGGT-ACTAAAGTACAAATAGGGGCACATATG
* * * **
48271788 TGCAATTTAGGGGTA-TCGAAGTACAAATAGGGGCACGTAAA
1 TGCAATTCAGGGGTACT-AAAGTACAAATAGGGGCACATATG
* *
48271829 TGCAATTCAGTGGTACTAAAGTACAAATAGGGGCACATTTG
1 TGCAATTCAGGGGTACTAAAGTACAAATAGGGGCACATATG
48271870 TGCAATTCA
1 TGCAATTCA
48271879 ACAATATTCT
Statistics
Matches: 109, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 105 0.96
42 3 0.03
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (41 bp):
TGCAATTCAGGGGTACTAAAGTACAAATAGGGGCACATATG
Found at i:48271820 original size:20 final size:20
Alignment explanation
Indices: 48271755--48271820 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
48271745 TGTGCAATTC
*
48271755 AGGGGTAACGAAGTACAAAT
1 AGGGGTATCGAAGTACAAAT
* * * *
48271775 AGGGGCATGCG-TGTGCAATTT
1 AGGGGTAT-CGAAGTACAA-AT
48271796 AGGGGTATCGAAGTACAAAT
1 AGGGGTATCGAAGTACAAAT
48271816 AGGGG
1 AGGGG
48271821 CACGTAAATG
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.33, C:0.11, G:0.36, T:0.20
Consensus pattern (20 bp):
AGGGGTATCGAAGTACAAAT
Found at i:48280499 original size:41 final size:41
Alignment explanation
Indices: 48280442--48280629 Score: 268
Period size: 41 Copynumber: 4.6 Consensus size: 41
48280432 AACCCCTCGA
* *
48280442 GGAATTTGCACTTAGCAACCCCTTTTTGATCAGAGTTTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
* * *
48280483 GGAATCTGCACTTAGCAACCCCTTTTTTATTAGAGTTTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
* * * * *
48280524 GGAATCTGCACTTGGAAACCCCTTTTTGATTAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
*
48280565 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCAG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
*
48280606 GGAATCTGCACTAAGCAACCCCTT
1 GGAATCTGCACTTAGCAACCCCTT
48280630 ACATTCAATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 133 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGATTCAG
Found at i:48284332 original size:15 final size:15
Alignment explanation
Indices: 48284312--48284341 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48284302 GGCACATTTG
48284312 ACTATTTAACTCTTA
1 ACTATTTAACTCTTA
48284327 ACTATTTAACTCTTA
1 ACTATTTAACTCTTA
48284342 GCTGATAGTA
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:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
ACTATTTAACTCTTA
Found at i:48288140 original size:41 final size:41
Alignment explanation
Indices: 48288095--48288286 Score: 278
Period size: 41 Copynumber: 4.7 Consensus size: 41
48288085 TAGCAACCCC
*
48288095 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* *
48288136 TCGGGGAATCTGCACTTAGCAACCCCTTTTTTATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* * *
48288177 TCAGGGAATCTGCACTTGGCAACCACTTTTTGATCA-ATGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGA-GAT
* *
48288218 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
* *
48288259 TCAGGGAATCTGCACTAAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
48288287 ACATTTAATG
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 135 0.99
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGAT
Found at i:48288378 original size:19 final size:20
Alignment explanation
Indices: 48288328--48288378 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 20
48288318 TTCAATCGGG
* *
48288328 AACCTTATTTTCCAACATTT
1 AACCATATTTTTCAACATTT
* * *
48288348 TACCAAAATTTTC-ACATTT
1 AACCATATTTTTCAACATTT
48288367 AACCATATTTTT
1 AACCATATTTTT
48288379 GTAATCTACA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (20 bp):
AACCATATTTTTCAACATTT
Found at i:48306549 original size:39 final size:40
Alignment explanation
Indices: 48306345--48306567 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
48306335 TTGAATGCTG
* * * * * *
48306345 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
48306385 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
48306425 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
48306465 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48306505 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48306544 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48306568 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48306587 original size:79 final size:80
Alignment explanation
Indices: 48306420--48306602 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
48306410 GTGCGAGATA
* * *
48306420 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
48306485 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
48306500 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
48306564 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
48306579 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
48306603 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:48310997 original size:20 final size:19
Alignment explanation
Indices: 48310969--48311027 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
48310959 ATAGTATTTT
48310969 ATTAACTTAATATTAAAGTA
1 ATTAACTTAATATTAAA-TA
*
48310989 ATTATCTTAATATTAAATTAA
1 ATTAACTTAATATTAAA-T-A
*
48311010 ATTAAATTAA-ATTAAATA
1 ATTAACTTAATATTAAATA
48311028 TTTATCTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 23 0.68
21 9 0.26
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAACTTAATATTAAATA
Found at i:48311010 original size:5 final size:5
Alignment explanation
Indices: 48310995--48311026 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
48310985 AGTAATTATC
48310995 TTAATA TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAA-A TTAAA TTAAA TTAAA TTAAA TTAAA T
48311027 ATTTATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:48311091 original size:61 final size:57
Alignment explanation
Indices: 48311006--48311120 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 57
48310996 TAATATTAAA
* * *
48311006 TTAAATTAAATTAAATTAAATATTTATCTTATAGATCATTATTCTATTAATTTAATAGAT
1 TTAAATTAAATTAAATTAAATATTTATC-T-T-GATAAGTATTATATTAATTTAATAGAT
* * *
48311066 TTAATATTAAATTTAATTTATTATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAA-ATTAAATTAAATTAAATATTTATCTTGATAAGTATTATATTAATTTAATA
48311121 TGAAAGTGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 21 0.44
59 1 0.02
60 5 0.10
61 21 0.44
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (57 bp):
TTAAATTAAATTAAATTAAATATTTATCTTGATAAGTATTATATTAATTTAATAGAT
Found at i:48314271 original size:114 final size:114
Alignment explanation
Indices: 48314073--48314498 Score: 468
Period size: 114 Copynumber: 3.7 Consensus size: 114
48314063 GTTTACTACC
** * * * *
48314073 AAGCGCCGCAAAAGCTCTTATCCAAAACGCAGCGCTTTGGTCTTGATGTATAGTA-GACTTAGTG
1 AAGCGCCGC-AAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGGA-TTAGTG
* *
48314137 GCGCTTATATTCAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAA
64 GCGCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
*
48314188 AAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGGATTAGTGG
* * * ** * *
48314252 CGCTTAT-TTAAAAACGCCGCTAACGCATAGTAGTAGCGGCGCTTATTGTA
65 CGCTTATATT-AAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * * * * * ** *
48314302 AAGCGTCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGGATTAGTGGC
* ** * *
48314366 ACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAA
66 GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
*
48314415 AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGGATTAGTGG
*
48314479 CGCTTAT-TGGAAAACGCCGC
65 CGCTTATAT-TAAAACGCCGC
48314499 AAAATATTAA
Statistics
Matches: 253, Mismatches: 50, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
112 17 0.07
113 74 0.29
114 116 0.46
115 46 0.18
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (114 bp):
AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGGATTAGTGGC
GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
Found at i:48314606 original size:188 final size:188
Alignment explanation
Indices: 48314289--48314686 Score: 688
Period size: 188 Copynumber: 2.1 Consensus size: 188
48314279 TAGTAGTAGC
* * *
48314289 GGCGCTTATTGTAAAGCGTCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
48314354 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
* * *
48314419 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
48314477 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
* * * *
48314542 AGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
*
48314607 GCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
*
48314665 GGCGCTTATTTGAAAACGCCGC
1 GGCGCTTATTGGAAAACGCCGC
48314687 TAAAGCATAG
Statistics
Matches: 198, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 198 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
Found at i:48314814 original size:113 final size:112
Alignment explanation
Indices: 48314471--48314821 Score: 415
Period size: 113 Copynumber: 3.1 Consensus size: 112
48314461 GTATATTAGG
* *
48314471 ATTAGTGGCGCTTATTGGAAAA-CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCTTATT-GAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGAT
* * *
48314535 GTATACTAGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGA-ATAGT
65 GTATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAA-ACATAGT
** * * *
48314584 ATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATTTC-TTAACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAA-A--ACATTAACCAAAACGCAGCGCTTTGGTCTTG
* * * * *
48314647 AGGTACATTACGA-TTAGTGGCGCTTATTTGAAAACGCCGCTAAAGCATAGT
63 ATGTATACTACCAGTT-GTGGCGCTTATTT-AAAACGCCGCTAAAACATAGT
*
48314698 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * *
48314763 TATACTACCAGTTGTGGCGCTTATGGTAAAACGCCGGTAAAACATATT
66 TATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAACATAGT
48314811 ATTAGCGGCGC
1 ATTAGCGGCGC
48314822 GTTGTGGGAA
Statistics
Matches: 198, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 21 0.11
113 83 0.42
114 77 0.39
115 16 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (112 bp):
ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTACCAGTTGTGGCGCTTATTTAAAACGCCGCTAAAACATAGT
Found at i:48314874 original size:17 final size:17
Alignment explanation
Indices: 48314843--48314892 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
48314833 CGCCGCTAGA
*
48314843 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGG
48314859 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
48314876 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
48314893 AAATAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATTATATAATGTAGG
Found at i:48314945 original size:7 final size:7
Alignment explanation
Indices: 48314933--48315008 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
48314923 TTGAATTCTA
48314933 GTTTAGG
1 GTTTAGG
*
48314940 GTTTAGA
1 GTTTAGG
48314947 GTTTAGG
1 GTTTAGG
48314954 GTTTAGG
1 GTTTAGG
*
48314961 GTTTACG
1 GTTTAGG
* *
48314968 ATGTA-G
1 GTTTAGG
*
48314974 GTTTAGT
1 GTTTAGG
**
48314981 GTTTTTG
1 GTTTAGG
48314988 GTTTAGG
1 GTTTAGG
*
48314995 GTTTGAGA
1 GTTT-AGG
48315003 GTTTAG
1 GTTTAG
48315009 TGATTAAGGT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:48317646 original size:26 final size:26
Alignment explanation
Indices: 48317587--48317968 Score: 531
Period size: 26 Copynumber: 15.2 Consensus size: 26
48317577 AATCTTGTCG
*
48317587 ACATAATACAT-TTAACTTACAATACTT
1 ACATAATACATAATAACTTAC-A-ACTT
48317614 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
48317640 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
48317665 ACATAATAC---AT---TT--GACTG
1 ACATAATACATAATAACTTACAACTT
*
48317683 ACATAATACATT-TAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
48317708 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
48317734 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
48317760 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
48317786 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
48317812 ACATAATACAT-TTAACTTGCAACTT
1 ACATAATACATAATAACTTACAACTT
*
48317837 ACACAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
48317863 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
*
48317889 ACATAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
* *
48317914 ACACAATACAT-TTAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
48317939 ACATAATACATAATAACTTACAACTT
1 ACATAATACATAATAACTTACAACTT
48317965 ACAT
1 ACAT
48317969 TTAACTTACA
Statistics
Matches: 321, Mismatches: 22, Indels: 25
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.04
20 3 0.01
23 3 0.01
25 104 0.32
26 179 0.56
27 12 0.04
28 8 0.02
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ACATAATACATAATAACTTACAACTT
Found at i:48317658 original size:18 final size:18
Alignment explanation
Indices: 48317587--48317703 Score: 64
Period size: 18 Copynumber: 6.2 Consensus size: 18
48317577 AATCTTGTCG
48317587 ACATAATACATTTAACTT
1 ACATAATACATTTAACTT
*
48317605 ACAATACTTACA--TAA--T
1 AC-ATA-ATACATTTAACTT
*
48317621 ACATAATA-ACTTACAACTT
1 ACATAATACA-TT-TAACTT
48317640 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAAC-T------T
* *
48317665 ACATAATACATTTGACTG
1 ACATAATACATTTAACTT
48317683 ACATAATACATTTAACTT
1 ACATAATACATTTAACTT
48317701 ACA
1 ACA
48317704 ACTTACACAA
Statistics
Matches: 75, Mismatches: 8, Indels: 32
0.65 0.07 0.28
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 3 0.04
16 3 0.04
17 2 0.03
18 27 0.36
19 15 0.20
20 5 0.07
24 1 0.01
25 16 0.21
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (18 bp):
ACATAATACATTTAACTT
Found at i:48317814 original size:19 final size:19
Alignment explanation
Indices: 48317740--48317870 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
48317730 ACTTACATAA
48317740 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
48317759 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
48317778 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
48317792 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
48317811 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
48317829 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
48317843 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
48317862 TACATAATA
1 TACATAATA
48317871 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:48317844 original size:77 final size:76
Alignment explanation
Indices: 48317687--48317968 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
48317677 TGACTGACAT
* * *
48317687 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
48317752 TACAACTTACAC
65 TACAACTTACAC
48317764 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
48317829 TGCAACTTACAC
65 TACAACTTACAC
48317841 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
48317906 TACAACTTACAC
65 TACAACTTACAC
*
48317918 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
48317969 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:48317976 original size:11 final size:10
Alignment explanation
Indices: 48317960--48318013 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
48317950 AATAACTTAC
48317960 AACTTACATTT
1 AACTTACA-TT
48317971 AACTTACA-T
1 AACTTACATT
48317980 AA--TACATTT
1 AACTTACA-TT
48317989 AACTTACA-T
1 AACTTACATT
48317998 AACTTACA-T
1 AACTTACATT
48318007 AACTTAC
1 AACTTAC
48318014 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:48317997 original size:18 final size:18
Alignment explanation
Indices: 48317934--48317999 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
48317924 TTTAACTTAC
*
48317934 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
48317953 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
48317971 AACTTACATAATACATTT
1 AACTTACATAATACATTT
48317989 AACTTACATAA
1 AACTTACATAA
48318000 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:48318009 original size:18 final size:18
Alignment explanation
Indices: 48317849--48318013 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
48317839 ACAATACATA
48317849 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
48317865 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
48317884 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
48317898 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
48317916 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
48317934 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
48317951 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
48317967 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
48317985 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
48318005 ATAACTTAC
1 ATAACTTAC
48318014 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:48323490 original size:21 final size:21
Alignment explanation
Indices: 48323464--48323533 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
48323454 CTACAACTTA
* *
48323464 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
48323485 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
48323506 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
48323527 AAGCAGA
1 AAGCAGA
48323534 ACAGAGCAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.19, G:0.44, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:48323777 original size:14 final size:14
Alignment explanation
Indices: 48323758--48323791 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48323748 ATTGCTATTG
48323758 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
48323772 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
48323786 TTTGCT
1 GTTGCT
48323792 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:48323911 original size:41 final size:42
Alignment explanation
Indices: 48323858--48324189 Score: 198
Period size: 42 Copynumber: 7.9 Consensus size: 42
48323848 GTTTTTGTAT
* * *
48323858 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
48323899 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAAA
* * ****
48323942 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * ****
48323984 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * * * ****
48324026 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* * ****
48324068 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * ****
48324110 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
48324152 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
48324190 TTTTTTAAGC
Statistics
Matches: 255, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
41 32 0.13
42 190 0.75
43 33 0.13
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:48324000 original size:126 final size:125
Alignment explanation
Indices: 48323860--48324185 Score: 357
Period size: 126 Copynumber: 2.6 Consensus size: 125
48323850 TTTTGTATAA
* * * *
48323860 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCACTAAAGAACATGGTCT
48323925 TTAGCGGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTT
66 TTAGCGGC-ATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-T
* *** * *
48323986 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCACTAAAGAACATGGTC
* ***** * * **
48324051 TTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
* * *** * * *
48324112 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCACTAAAGAACATGGTC
48324177 TTTAGCGGC
65 TTTAGCGGC
48324186 GTTTTTTTTT
Statistics
Matches: 174, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
126 142 0.82
127 32 0.18
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCACTAAAGAACATGGTCT
TTAGCGGCATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCT
Found at i:48324011 original size:42 final size:41
Alignment explanation
Indices: 48323947--48324233 Score: 412
Period size: 42 Copynumber: 6.9 Consensus size: 41
48323937 AGAAAAAAAA
**
48323947 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTTAAG
* *
48323989 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-TTAAG
* * * * *
48324031 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
*
48324073 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
48324115 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAG
48324157 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTTAAG
* *
48324199 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
48324234 GTTTGTAAAC
Statistics
Matches: 223, Mismatches: 19, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
41 5 0.02
42 211 0.95
43 7 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAG
Found at i:48324035 original size:84 final size:82
Alignment explanation
Indices: 48323860--48324233 Score: 433
Period size: 84 Copynumber: 4.5 Consensus size: 82
48323850 TTTTGTATAA
* * * *** ** *
48323860 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTTAAGCGCCGCTAAAGAACATGTTCT
*******
48323925 TTAGCGGCGATTAGAAAAA
65 TTAGCGGCG-TTTTTTTCT
* *
48323944 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--TTTAAGCGCCGCTAAAGAACATGTTC
*
48324009 TTTAGCGGCGTTTTTTCCT
64 TTTAGCGGCGTTTTTTTCT
* * * *
48324028 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--AAGCGCCGCTAAAGAACATGTTC
48324093 TTTAGCGGCGTTTTTTTCT
64 TTTAGCGGCGTTTTTTTCT
*
48324112 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTT-TAAGCGCCGCTAAAGAACATGTTC
*
48324177 TTTAGCGGCGTTTTTTTTT
64 TTTAGCGGCGTTTTTTTCT
* *
48324196 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
48324234 GTTTGTAAAC
Statistics
Matches: 252, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
82 2 0.01
83 6 0.02
84 207 0.82
85 36 0.14
86 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (82 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAAGCGCCGCTAAAGAACATGTTCTT
TAGCGGCGTTTTTTTCT
Done.