Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold176
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: 960511
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:369564 original size:20 final size:20
Alignment explanation
Indices: 369539--369591 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
369529 CAGCTTTTCC
*
369539 AGGTCGCAACTGGCACACCT
1 AGGTCGCAACCGGCACACCT
*
369559 AGGTCGCGACCGGCACACGC-
1 AGGTCGCAACCGGCACAC-CT
*
369579 AGCTCGCAACCGG
1 AGGTCGCAACCGG
369592 GCAACTCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.09
Consensus pattern (20 bp):
AGGTCGCAACCGGCACACCT
Found at i:370798 original size:14 final size:14
Alignment explanation
Indices: 370779--370805 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
370769 AAGGGGGAGA
370779 AAGTTTTTGAAAAT
1 AAGTTTTTGAAAAT
370793 AAGTTTTTGAAAA
1 AAGTTTTTGAAAA
370806 CTTGACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
AAGTTTTTGAAAAT
Found at i:371592 original size:33 final size:32
Alignment explanation
Indices: 371548--371612 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
371538 TACCCCTGTT
*
371548 TGTATCGATACATG-GCACATTGTATCGATACAA
1 TGTATCAATACATGAG-A-ATTGTATCGATACAA
371581 TGTATCAATACATGAAGAATTGTATCGATACA
1 TGTATCAATACATG-AGAATTGTATCGATACA
371613 TTGACTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATACAA
Found at i:374341 original size:16 final size:15
Alignment explanation
Indices: 374299--374349 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
374289 CGGATTAATT
374299 GTTTGGGTCATTTTAG
1 GTTT-GGTCATTTTAG
*
374315 GTTTGATTCATTTTAG
1 GTTTG-GTCATTTTAG
*
374331 GTTTAGGTCATTTTGG
1 GTTT-GGTCATTTTAG
374347 GTT
1 GTT
374350 CAGATCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.14, C:0.06, G:0.27, T:0.53
Consensus pattern (15 bp):
GTTTGGTCATTTTAG
Found at i:374360 original size:16 final size:17
Alignment explanation
Indices: 374338--374399 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 17
374328 TAGGTTTAGG
374338 TCATTTT-GGGTTCAGA
1 TCATTTTCGGGTTCAGA
* * * *
374354 TCTTTTTTGGGTTTAGG
1 TCATTTTCGGGTTCAGA
*
374371 TTA-TTTCGGGTTCAGA
1 TCATTTTCGGGTTCAGA
374387 TCATTTTCGGGTT
1 TCATTTTCGGGTT
374400 TGAATTGGTC
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
16 18 0.51
17 17 0.49
ACGTcount: A:0.13, C:0.11, G:0.26, T:0.50
Consensus pattern (17 bp):
TCATTTTCGGGTTCAGA
Found at i:374363 original size:17 final size:17
Alignment explanation
Indices: 374341--374399 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
374331 GTTTAGGTCA
374341 TTTT-GGGTTCAGATCT
1 TTTTCGGGTTCAGATCT
* * *
374357 TTTTTGGGTTTAGGT-T
1 TTTTCGGGTTCAGATCT
* *
374373 ATTTCGGGTTCAGATCA
1 TTTTCGGGTTCAGATCT
374390 TTTTCGGGTT
1 TTTTCGGGTT
374400 TGAATTGGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
16 16 0.48
17 17 0.52
ACGTcount: A:0.12, C:0.10, G:0.27, T:0.51
Consensus pattern (17 bp):
TTTTCGGGTTCAGATCT
Found at i:374371 original size:33 final size:33
Alignment explanation
Indices: 374325--374400 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
374315 GTTTGATTCA
* * *
374325 TTTTAGGTTTAGGTCATTTTGGGTTCAGATCTT
1 TTTTGGGTTTAGGTCATTTCGGGTTCAGATCAT
*
374358 TTTTGGGTTTAGGTTATTTCGGGTTCAGATCAT
1 TTTTGGGTTTAGGTCATTTCGGGTTCAGATCAT
*
374391 TTTCGGGTTT
1 TTTTGGGTTT
374401 GAATTGGTCG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.13, C:0.09, G:0.26, T:0.51
Consensus pattern (33 bp):
TTTTGGGTTTAGGTCATTTCGGGTTCAGATCAT
Found at i:378807 original size:110 final size:110
Alignment explanation
Indices: 378550--378809 Score: 281
Period size: 111 Copynumber: 2.3 Consensus size: 110
378540 TTTACTTTAG
* * * * *
378550 ACATTATTTTGTTAAGATAAGCTTATCCATATTGCCTTATTAAGTCATTAAGACAACTTATCTTA
1 ACATTATTTT-TTAAGACAAGCTTATCCATTTTGTCTTATTAAGACATCAAGACAACTTATCTTA
* * **
378615 AGACATGTCTACTTATAAACATTTTATTGTTAAAACAAGTTTATCC
65 AGACATGTCTACTTATAAACATTGTATAGTTAAAACAACCTTATCC
* * *
378661 ACACTGT-TTTTTTAAGACAAGCATATCCATTCTGTCTTATTAAGACATCAATACAACTTATCTT
1 ACA-T-TATTTTTTAAGACAAGCTTATCCATTTTGTCTTATTAAGACATCAAGACAACTTATCTT
* * * * * * *
378725 AAGACGTGTCTA-TTTTAGACATTGTCTAGTTAAGATAACCTTATTC
64 AAGACATGTCTACTTATAAACATTGTATAGTTAAAACAACCTTATCC
**
378771 GTATTATCTTTTTAAGACAAGCTTATCCATTTTGTCTTA
1 ACATTAT-TTTTTAAGACAAGCTTATCCATTTTGTCTTA
378810 ACACATGTCT
Statistics
Matches: 122, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
108 1 0.01
109 2 0.02
110 54 0.44
111 59 0.48
112 5 0.04
113 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (110 bp):
ACATTATTTTTTAAGACAAGCTTATCCATTTTGTCTTATTAAGACATCAAGACAACTTATCTTAA
GACATGTCTACTTATAAACATTGTATAGTTAAAACAACCTTATCC
Found at i:378870 original size:84 final size:84
Alignment explanation
Indices: 378721--378883 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 84
378711 ATACAACTTA
* * * * * *
378721 TCTTAAGACGTGTCTATTTTAGACATTGTCTAGTTAAGATAACCTTATTCGTATTATCTTTTTAA
1 TCTTAACACATGTCTATTTTAGACATTATCTAGTTAAGATAACCTTATCCCTATTATCTTATTAA
378786 GACAAGCTTATCCATTTTG
66 GACAAGCTTATCCATTTTG
* * *
378805 TCTTAACACATGTCTACTTTT-GACATTATCTTGTTGAGATAACCTTATCCACT-TTGTCTTATT
1 TCTTAACACATGTCTA-TTTTAGACATTATCTAGTTAAGATAACCTTATCC-CTATTATCTTATT
* *
378868 AAGACGAGTTTATCCA
64 AAGACAAGCTTATCCA
378884 CATTCTCTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 61 0.92
85 5 0.08
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (84 bp):
TCTTAACACATGTCTATTTTAGACATTATCTAGTTAAGATAACCTTATCCCTATTATCTTATTAA
GACAAGCTTATCCATTTTG
Found at i:378908 original size:28 final size:30
Alignment explanation
Indices: 378847--378908 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 30
378837 GTTGAGATAA
* * *
378847 CCTTATCCACTTTGTCTTATTAAGACGAGT
1 CCTTATCCACATTCTCTTATTAAAACGAGT
378877 --TTATCCACATTCTCTTATTAAAAC-A-T
1 CCTTATCCACATTCTCTTATTAAAACGAGT
378903 CCTTAT
1 CCTTAT
378909 TCGGATTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.04
27 1 0.04
28 25 0.93
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (30 bp):
CCTTATCCACATTCTCTTATTAAAACGAGT
Found at i:384657 original size:13 final size:13
Alignment explanation
Indices: 384635--384693 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
384625 GGCAGTAGCT
*
384635 TTGTAGCGATACA
1 TTGTATCGATACA
384648 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
384664 CTTATGTATCGATACA
1 --T-TGTATCGATACA
384680 TTGTATCGATACA
1 TTGTATCGATACA
384693 T
1 T
384694 CACTTATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 22 0.56
14 1 0.03
16 6 0.15
18 1 0.03
19 9 0.23
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:384673 original size:19 final size:19
Alignment explanation
Indices: 384649--384711 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
384639 AGCGATACAT
384649 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
384668 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
384681 TGTATCGATACATCACTTA
1 TGTATCGATACAACACTTA
384700 TGTATCGATACA
1 TGTATCGATACA
384712 GTTACTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 5 0.14
18 1 0.03
19 21 0.57
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:384682 original size:32 final size:32
Alignment explanation
Indices: 384636--384711 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
384626 GCAGTAGCTT
*
384636 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
384668 TGTATCGATACATTGTATCGATACATCACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
384700 TGTATCGATACA
1 TGTATCGATACA
384712 GTTACTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:384726 original size:21 final size:19
Alignment explanation
Indices: 384648--384732 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
384638 TAGCGATACA
*
384648 TTGTATCGATACAACACTT
1 TTGTATCGATACATCACTT
*
384667 ATGTATCGAT--A-CA---
1 TTGTATCGATACATCACTT
384680 TTGTATCGATACATCACTT
1 TTGTATCGATACATCACTT
* *
384699 ATGTATCGATACAGTTACTGT
1 TTGTATCGATACA-TCACT-T
384720 TTGTATCGATACA
1 TTGTATCGATACA
384733 AATTGTTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 9 0.17
15 1 0.02
16 4 0.08
17 1 0.02
19 21 0.40
20 4 0.08
21 13 0.25
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATCACTT
Found at i:388028 original size:20 final size:21
Alignment explanation
Indices: 387988--388034 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
387978 TTCTACAATT
*
387988 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
388009 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
388029 TGTATC
1 TGTATC
388035 AATAAATGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:393435 original size:13 final size:13
Alignment explanation
Indices: 393417--393441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
393407 TATTATGCTT
393417 TGTATCGATACAA
1 TGTATCGATACAA
393430 TGTATCGATACA
1 TGTATCGATACA
393442 TGAAACTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:393497 original size:20 final size:19
Alignment explanation
Indices: 393472--393525 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
393462 CTACCACTGT
393472 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
393492 TTGTATCGATACACGATGAA
1 TTGTATCGATACATGA-GAA
393512 TTGTATCGATACAT
1 TTGTATCGATACAT
393526 TGGTTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:395131 original size:3 final size:3
Alignment explanation
Indices: 395116--395146 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
395106 AACCATCAAA
*
395116 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
395147 GTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:395705 original size:21 final size:21
Alignment explanation
Indices: 395672--395712 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
395662 CTAAGTAAAA
395672 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
395693 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
395713 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:395777 original size:20 final size:20
Alignment explanation
Indices: 395748--395821 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
395738 CAAAACCCTG
395748 AAAA-GTATCGATACACATT
1 AAAATGTATCGATACACATT
* *
395767 TAAATGTATCGATACAGATT
1 AAAATGTATCGATACACATT
** *
395787 GCAA-GTATCGATACACA-C
1 AAAATGTATCGATACACATT
395805 AAATATGTATCGATACA
1 AAA-ATGTATCGATACA
395822 GGACATTGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 27 0.61
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (20 bp):
AAAATGTATCGATACACATT
Found at i:395796 original size:19 final size:19
Alignment explanation
Indices: 395749--395803 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
395739 AAAACCCTGA
*
395749 AAAGTATCGATACACATTT
1 AAAGTATCGATACACATTG
*
395768 AAATGTATCGATACAGATTG
1 AAA-GTATCGATACACATTG
*
395788 CAAGTATCGATACACA
1 AAAGTATCGATACACA
395804 CAAATATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (19 bp):
AAAGTATCGATACACATTG
Found at i:395874 original size:53 final size:53
Alignment explanation
Indices: 395791--395927 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
395781 CAGATTGCAA
395791 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
395845 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
395898 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
395928 TTGGTAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:395970 original size:10 final size:10
Alignment explanation
Indices: 395951--395981 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
395941 AATCTCATTT
395951 TCACTGTTCA
1 TCACTGTTCA
*
395961 TCACTATTCA
1 TCACTGTTCA
395971 TCACTGTTCA
1 TCACTGTTCA
395981 T
1 T
395982 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:396026 original size:22 final size:22
Alignment explanation
Indices: 395969--396030 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 22
395959 CATCACTATT
*
395969 CATCACTGTTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
* *
395991 CATCAC-CTTCATGTATTGATA
1 CATCACTATTCATGTATCGATA
396012 CATCACTATTCATGTATCG
1 CATCACTATTCATGTATCG
396031 TTAAAAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.37
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:396076 original size:13 final size:13
Alignment explanation
Indices: 396058--396096 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
396048 TCACTATTCA
396058 TGTATCGATACAT
1 TGTATCGATACAT
*
396071 TGTATCGATACAG
1 TGTATCGATACAT
396084 TGTATCGATACAT
1 TGTATCGATACAT
396097 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:399867 original size:13 final size:13
Alignment explanation
Indices: 399849--399873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
399839 TTTTCCAGAT
399849 TGTATCGATACAA
1 TGTATCGATACAA
399862 TGTATCGATACA
1 TGTATCGATACA
399874 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:405588 original size:20 final size:20
Alignment explanation
Indices: 405549--405593 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
405539 TCTTCAACTT
405549 TCTT-ATTTTTCACTTCAAAA
1 TCTTCATTTTTCAC-TCAAAA
405569 TACTTCATTTTTCA-TCAAAA
1 T-CTTCATTTTTCACTCAAAA
405589 TCTTC
1 TCTTC
405594 TACAAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 3 0.13
22 8 0.35
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTTCATTTTTCACTCAAAA
Found at i:405890 original size:20 final size:20
Alignment explanation
Indices: 405851--405896 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
405841 TCTTCAACTT
405851 TCTT-ATTTTTCACTTCAAAA
1 TCTTCATTTTTCAC-TCAAAA
405871 TACTTCATTTTTCA-TCAAAA
1 T-CTTCATTTTTCACTCAAAA
405891 TCTTCA
1 TCTTCA
405897 ACAAAAACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 3 0.12
22 8 0.33
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (20 bp):
TCTTCATTTTTCACTCAAAA
Found at i:406029 original size:302 final size:302
Alignment explanation
Indices: 405502--406100 Score: 1135
Period size: 302 Copynumber: 2.0 Consensus size: 302
405492 AATCATCTCA
405502 AAACCCTAACATCCTTTCATCAAAATTCATCAAAGCTTCTTCAACTTTCTTATTTTTCACTTCAA
1 AAACCCTAACATCCTTTCATCAAAATTCATCAAAGCTTCTTCAACTTTCTTATTTTTCACTTCAA
* *
405567 AATACTTCATTTTTCATCAAAATCTTCTACAAAAACAGTTTTAAAATCATCAAATCTGTCATTCA
66 AATACTTCATTTTTCATCAAAATCTTCAACAAAAACAGTTTTAAAATCATCAAATATGTCATTCA
405632 AAATCTATCAAAAACCATTTTCTGTCACCCTTTTAATCCCTTCAAAACTCATCTTTAGGAGTGTT
131 AAATCTATCAAAAACCATTTTCTGTCACCCTTTTAATCCCTTCAAAACTCATCTTTAGGAGTGTT
405697 TTTAAGCTAAATCCTTGTTCCTTTCCATACATAAACACTCCTAGTTTAGGTTTATGGCCTTGGTT
196 TTTAAGCTAAATCCTTGTTCCTTTCCATACATAAACACTCCTAGTTTAGGTTTATGGCCTTGGTT
405762 TTCATCAAAAACTCCCTTATTTCAAAATCCAAGCCCTTAAAG
261 TTCATCAAAAACTCCCTTATTTCAAAATCCAAGCCCTTAAAG
*
405804 AAACCCTAACATCCTTTCATCAAAATTCATCAAATCTTCTTCAACTTTCTTATTTTTCACTTCAA
1 AAACCCTAACATCCTTTCATCAAAATTCATCAAAGCTTCTTCAACTTTCTTATTTTTCACTTCAA
405869 AATACTTCATTTTTCATCAAAATCTTCAACAAAAACAGTTTTAAAATCATCAAATATGTCATTCA
66 AATACTTCATTTTTCATCAAAATCTTCAACAAAAACAGTTTTAAAATCATCAAATATGTCATTCA
*
405934 AAATCTGTCAAAAACCATTTTCTGTCACCCTTTTAATCCCTTCAAAACTCATCTTTAGGAGTGTT
131 AAATCTATCAAAAACCATTTTCTGTCACCCTTTTAATCCCTTCAAAACTCATCTTTAGGAGTGTT
* *
405999 TTTAAGCTAAATCCTTGTTCCTTTCCATACATAAACACTCCTAGTTTAGGTTTGTGGTCTTGGTT
196 TTTAAGCTAAATCCTTGTTCCTTTCCATACATAAACACTCCTAGTTTAGGTTTATGGCCTTGGTT
*
406064 TTCATCAAAAACTCCTTTATTTCAAAATCCAAGCCCT
261 TTCATCAAAAACTCCCTTATTTCAAAATCCAAGCCCT
406101 CAACGTAGTG
Statistics
Matches: 290, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
302 290 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (302 bp):
AAACCCTAACATCCTTTCATCAAAATTCATCAAAGCTTCTTCAACTTTCTTATTTTTCACTTCAA
AATACTTCATTTTTCATCAAAATCTTCAACAAAAACAGTTTTAAAATCATCAAATATGTCATTCA
AAATCTATCAAAAACCATTTTCTGTCACCCTTTTAATCCCTTCAAAACTCATCTTTAGGAGTGTT
TTTAAGCTAAATCCTTGTTCCTTTCCATACATAAACACTCCTAGTTTAGGTTTATGGCCTTGGTT
TTCATCAAAAACTCCCTTATTTCAAAATCCAAGCCCTTAAAG
Found at i:408356 original size:13 final size:13
Alignment explanation
Indices: 408338--408389 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
408328 GATACATGGC
*
408338 ACATTGTGTCGAT
1 ACATTGTATCGAT
408351 ACATTGTATCGAT
1 ACATTGTATCGAT
408364 ACA-TG-AT-G--
1 ACATTGTATCGAT
408372 A-ATTGTATCGAT
1 ACATTGTATCGAT
408384 ACATTG
1 ACATTG
408390 CTTAAAACGG
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 19 0.59
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:408358 original size:33 final size:32
Alignment explanation
Indices: 408321--408389 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
408311 CTACCACTGT
*
408321 TTGTATCGATACATG-GCACATTGTGTCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
408354 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
408387 TTG
1 TTG
408390 CTTAAAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:414079 original size:162 final size:162
Alignment explanation
Indices: 413855--414367 Score: 854
Period size: 162 Copynumber: 3.2 Consensus size: 162
413845 GGTAAAAACA
* *
413855 AATATAAAAGATTAG-AAAAA-AAATATTAGAATTTATCCCAGTAATA-CAACTTTAATTTAATT
1 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAA-TTTAAGTTAATT
* *
413917 TTATTTATTTTTAAAAATATCATTTCGTACCCTAATGGAAG-CTCGAAAGAATATGAAAGGTTTT
65 TTATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCCT-GAAAGAATATGAAAGGTTTT
*
413981 TGAAATCTTTTATACCCCTACGAATGCCCATAGG
129 TGAAATCTTTTATACCCCTACGGATGCCCATAGG
414015 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
1 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
*
414080 TATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATATGAAAAGTTTTTG
66 TATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATATGAAAGGTTTTTG
* * *
414145 AAATCTTTTATACCCTTACGGATGCCCAAAAG
131 AAATCTTTTATACCCCTACGGATGCCCATAGG
*
414177 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCAAATAATACCAATTTAAGTTAATTT
1 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
* * * *
414242 TATTTTTTTTTGAAAATACCATTTTGTACCTTAATGGAAGCCTGAAAGAATAAGAAAGGTTTTTG
66 TATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATATGAAAGGTTTTTG
414307 AAATCTTTTATACCCCTACGGATGCCCATAGG
131 AAATCTTTTATACCCCTACGGATGCCCATAGG
414339 AATATAAAAGATTAGAAAAAATAAATATT
1 AATATAAAAGATTAGAAAAAATAAATATT
414368 GTTTAATTTT
Statistics
Matches: 331, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
160 15 0.05
161 5 0.02
162 306 0.92
163 5 0.02
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (162 bp):
AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
TATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCCTGAAAGAATATGAAAGGTTTTTG
AAATCTTTTATACCCCTACGGATGCCCATAGG
Found at i:415312 original size:22 final size:20
Alignment explanation
Indices: 415276--415327 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
415266 AAAAACTAGT
*
415276 TTTTTTTTCTAATTTTTCTACC
1 TTTTTCTTCTAATTTTTCT--C
415298 TATTTTCTTCT-ATTTTTCTC
1 T-TTTTCTTCTAATTTTTCTC
415318 TTTTTCTTCT
1 TTTTTCTTCT
415328 CTCTCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 9 0.32
20 2 0.07
22 9 0.32
23 8 0.29
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTCTTCTAATTTTTCTC
Found at i:415337 original size:15 final size:15
Alignment explanation
Indices: 415317--415352 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
415307 CTATTTTTCT
415317 CTTTTTCTTCTCTCTC
1 CTTTTTC-TCTCTCTC
*
415333 CTTTTTCTCTCTCTT
1 CTTTTTCTCTCTCTC
415348 CTTTT
1 CTTTT
415353 AGCTGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTTTCTCTCTCTC
Found at i:415644 original size:4 final size:4
Alignment explanation
Indices: 415631--415673 Score: 50
Period size: 4 Copynumber: 10.0 Consensus size: 4
415621 GATAAATGAC
*
415631 TAAA TAAAA TAAA TAAA TAAA TAAAA TAAA TTAAA AAAA TAAA
1 TAAA T-AAA TAAA TAAA TAAA T-AAA TAAA -TAAA TAAA TAAA
415674 AGGCTAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 22 0.65
5 12 0.35
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:415644 original size:17 final size:17
Alignment explanation
Indices: 415631--415674 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
415621 GATAAATGAC
415631 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
415648 TAAATAAAATAAATTAAA
1 TAAATAAAATAAA-TAAA
*
415666 AAAATAAAA
1 TAAATAAAA
415675 GGCTAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAATAAAATAAATAAA
Found at i:415645 original size:9 final size:9
Alignment explanation
Indices: 415631--415674 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
415621 GATAAATGAC
415631 TAAATAAAA
1 TAAATAAAA
415640 TAAAT-AAA
1 TAAATAAAA
415648 TAAATAAAA
1 TAAATAAAA
415657 TAAATTAAAA
1 TAAA-TAAAA
415667 -AAATAAAA
1 TAAATAAAA
415675 GGCTAAAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 13 0.39
9 15 0.45
10 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAATAAAA
Found at i:415647 original size:13 final size:12
Alignment explanation
Indices: 415631--415673 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 12
415621 GATAAATGAC
415631 TAAATAAAATAAA
1 TAAATAAAA-AAA
415644 TAAATAAATAAAA
1 TAAATAAA-AAAA
415657 TAAATTAAAAAAA
1 TAAA-TAAAAAAA
415670 TAAA
1 TAAA
415674 AGGCTAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 23 0.82
14 5 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
TAAATAAAAAAA
Found at i:416410 original size:165 final size:165
Alignment explanation
Indices: 415863--417366 Score: 1558
Period size: 166 Copynumber: 9.1 Consensus size: 165
415853 GCGTTCAATG
* ** *** * * *
415863 ATAATATTAGATGAATTTTAAAAATTTTAAATTGAGAAAAAT-TCTCTTGAAAAAATTTATGAAG
1 ATAATATTTGATGAATTTTAAAAA-TAAAAAACAAGAAAAATCCCTC-TGAAAAAATTTACGGAG
* * * * *
415927 TAGAAAACTCGGTATTTAAG-AAAAAGGGGATTTCAAGAGAAAAAAATT-AAAA-TCATGGAAAT
64 TAGAAAACTCCGTATTTCAGAAAAAAAGGAATTTCAAG-G-AAAAAATTCAAAATTTATGGAAAT
* *
415989 GAAAGAATTTTTGAAAA-TGAATTAATTTGAAATAAATA
127 GAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* *
416027 ATAATATTTGATGAATTTTAAAAATCAAGAAACAAGAAAAATCCCCCTGAAAAAATTTACGGAGT
1 ATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAATCCCTCTGAAAAAATTTACGGAGT
* * *
416092 AGAAAACTCCGTATTTCAAAAAAAAAGAGAATTTTAGGGTAAAAAATTCAAAATTTATGGAAATG
65 AGAAAACTCCGTATTTCAGAAAAAAAG-GAATTTCAAGG-AAAAAATTCAAAATTTATGGAAATG
* *
416157 AATGAATATTTGAAAACTGCATTAATATGAAATAAATA
128 AATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* ** *
416195 ATAATA-TT--TG-ATTTTAAAAATCAAAAACCAAGAAAAATTCCC-CAAAAAAAATTTATGGAG
1 ATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAA-TCCCTCTGAAAAAATTTACGGAG
** * * *
416255 TAGAAAACTAAGTATTTCGGAAAAAAAGG-ATTTCAAGGAAAGAATTCACAATTTATGGAAATGA
64 TAGAAAACTCCGTATTTCAGAAAAAAAGGAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGA
*
416319 ATGAATTTTTAAAAACTGAATTAATATGAAATAAATA
129 ATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* **
416356 ATAATATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCCTCT-AAAAAAATTACAAAGT
1 ATAATATTTGATGAATTTTAAAAATAAAAAA-CAAGAAAAATCCCTCTGAAAAAATTTACGGAGT
*
416420 AGAAAACTCCGTATTTTAGAAAAAAAAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAAT
65 AGAAAACTCCGTATTTCAG--AAAAAAAGG-AATTTCAAGGAAAAAATTCAAAATTTATGGAAAT
* * * * *
416485 GAATAAATTTTTGAAAAGTAAATTACTTTGAAATAAATA
127 GAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* *
416524 ATAATATTTGATGAATTTTAAAAATTAAGAAACAAGAAAAATCTCCTC-GAAAAAA-TTATGGAG
1 ATAATATTTGATGAATTTTAAAAA-TAAAAAACAAGAAAAATC-CCTCTGAAAAAATTTACGGAG
* * * * *
416587 TAGAAAACTCGGTATTT-A-AGAAAAGGGAGATTTCAAGGGAAAAAATTTAAAATTCATGGAAAT
64 TAGAAAACTCCGTATTTCAGAAAAAAAGGA-ATTTCAA-GGAAAAAATTCAAAATTTATGGAAAT
* *
416650 GAAT-ACATTTTTTAAAATTGAATTAATATGAAATAAATA
127 GAATGA-ATTTTTGAAAACTGAATTAATATGAAATAAATA
* * *
416689 ATAATATTTGATGAATTTTAAAAATCAAGAAATAAGAAAAATTCCC-ATGAAAAAATTTACGGAG
1 ATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAA-TCCCTCTGAAAAAATTTACGGAG
416753 TAGAAAACTCCGTATTTCA-AAAAAAAGAGAATTTCAAGGCAAAAAATTCAAAATTTATGGAAAT
64 TAGAAAACTCCGTATTTCAGAAAAAAAG-GAATTTCAAGG-AAAAAATTCAAAATTTATGGAAAT
* * * *
416817 AAATAAATTTTTGAAAACTAAATTAATATGAAATTAAT-
127 GAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* * *
416855 ATAATATTT--T--ATTTTAAAAATCAAAAACCAAGAAAAAT-TCTGCTGAAAAAATTTATGGAG
1 ATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAATCCCT-CTGAAAAAATTTACGGAG
* * * * * *
416915 TAGAAAACTCGGTATTTC-GAAGAAAAGGGATTTCAAGGAAAAAATTCAAAATTCATGAAAATTA
64 TAGAAAACTCCGTATTTCAGAAAAAAAGGAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGA
* * *
416979 ATGAAATTTTGAAAACTGAATTAATGTAAAATAAATA
129 ATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* * * * * * *
417016 ATAATATTTAATGAATTTTAAAAGTCGAAAACCAAGAAAAATCTCGC-GAAAAAAATTACGGAGT
1 ATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAATCCCTCTGAAAAAATTTACGGAGT
* * *
417080 AGAAAACTCCGTATTT-AGAAAAAAAGAGAAATTTCAAAGAAAAATTTCAAAATTCATGGAAATG
65 AGAAAACTCCGTATTTCAGAAAAAAAG-G-AATTTCAAGGAAAAAATTCAAAATTTATGGAAATG
* * * *
417144 AATGAATTTTTGAAAACAGAATTACTGTAAAATAAATA
128 AATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* * * * ** **
417182 ATAATATTTGATGAATTTTAAAAATTAAGAAATAATAAAAATCCCCCCAAAAAAATTTACAAAGT
1 ATAATATTTGATGAATTTTAAAAA-TAAAAAACAAGAAAAATCCCTCTGAAAAAATTTACGGAGT
* * * * * * **
417247 TGAAAACTCCGTATTTC-GGAAAAAGGGAAATTTCAAGAAAAAAATT-AAATTTTTTTTAAAATG
65 AGAAAACTCCGTATTTCAGAAAAAAAGG-AATTTCAAGGAAAAAATTCAAA-ATTTATGGAAATG
* * * * * *
417310 AATGAATTTTTGATAGCTGATTTAATAGGAATTAAATT
128 AATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
417348 ATAATATTTGA-GAAATTTT
1 ATAATATTTGATG-AATTTT
417367 GATGTTTAAA
Statistics
Matches: 1139, Mismatches: 152, Indels: 96
0.82 0.11 0.07
Matches are distributed among these distances:
160 54 0.05
161 84 0.07
162 73 0.06
163 4 0.00
164 222 0.19
165 179 0.16
166 229 0.20
167 130 0.11
168 148 0.13
169 16 0.01
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (165 bp):
ATAATATTTGATGAATTTTAAAAATAAAAAACAAGAAAAATCCCTCTGAAAAAATTTACGGAGTA
GAAAACTCCGTATTTCAGAAAAAAAGGAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAAT
GAATTTTTGAAAACTGAATTAATATGAAATAAATA
Found at i:417070 original size:660 final size:660
Alignment explanation
Indices: 415863--417292 Score: 2072
Period size: 660 Copynumber: 2.2 Consensus size: 660
415853 GCGTTCAATG
* * * * *
415863 ATAATATTAGATGAATTTTAAAAATTTTA-AATTGAGAAAAAT-TCTCTTGAAAAAATTTATGAA
1 ATAATATTTGATGAATTTTAAAAA-TTAAGAAATAAGAAAAATCTC-CTCGAAAAAATTTATGAA
* *
415926 GTAGAAAACTCGGTATTTAAGAAAAAGGG-GATTTCAAGAGAAAAAAATTAAAATCATGGAAATG
64 GTAGAAAACTCGGTATTTAAGAAAAAGGGAGATTTCAAGGGAAAAAATTTAAAATCATGGAAATG
*
415990 AAAGAATTTTTGAAAATGAATTAATTTGAAATAAATAATAATATTTGATGAATTTTAAAAATCAA
129 AAAGAATTTTTGAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATCAA
*
416055 GAAACAAGAAAAATCCCCCTGAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAAGA
194 GAAACAAGAAAAATCCCCATGAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAAGA
* * * * * **
416120 GAATTTTAGGGTAAAAAATTCAAAATTTATGGAAATGAATGAATATTTGAAAACTGCATTAATAT
259 GAATTTCAAGGCAAAAAATTCAAAATTTATGGAAATAAATAAATATTTGAAAACTAAATTAATAT
416185 GAAATAAATAATAATATTTGATTTTAAAAATCAAAAACCAAGAAAAATTCCCCAAAAAAAATTTA
324 GAAATAAATAATAATATTTGATTTTAAAAATCAAAAACCAAGAAAAATTCCCCAAAAAAAATTTA
* * * *
416250 TGGAGTAGAAAACTAAGTATTTCGGAAAAAAAGGATTTCAAGGAAAGAATTCACAATTTATGGAA
389 TGGAGTAGAAAACTAAGTATTTCGGAAAAAAAGGATTTCAAGGAAAAAATTCAAAATTCATGAAA
* * *
416315 ATGAATGAATTTTTAAAAACTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAA
454 ATGAATGAAATTTTAAAAACTGAATTAATATAAAATAAATAATAATATTTAATGAATTTTAAAAA
* *
416380 TAAAAAACCAAGAAAAATCCCTCTAAAAAAATTACAAAGTAGAAAACTCCGTATTTTAGAAAAAA
519 TAAAAAACCAAGAAAAATCCCGCGAAAAAAATTACAAAGTAGAAAACTCCGTA-TTTAGAAAAAA
* * *
416445 AAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATAAATTTTTGAAAAGTA-AATT
583 AAA-GAAATTTCAAAGAAAAAATTCAAAATTCATGGAAATGAATAAATTTTTGAAAA-CAGAATT
* *
416509 ACTTTGAAATAAATA
646 ACTGTAAAATAAATA
* *
416524 ATAATATTTGATGAATTTTAAAAATTAAGAAACAAGAAAAATCTCCTCGAAAAAA-TTATGGAGT
1 ATAATATTTGATGAATTTTAAAAATTAAGAAATAAGAAAAATCTCCTCGAAAAAATTTATGAAGT
416588 AGAAAACTCGGTATTTAAG-AAAAGGGAGATTTCAAGGGAAAAAATTTAAAATTCATGGAAATGA
66 AGAAAACTCGGTATTTAAGAAAAAGGGAGATTTCAAGGGAAAAAATTTAAAA-TCATGGAAATGA
* *
416652 ATA-CATTTTTTAAAATTGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATCA
130 A-AGAATTTTTGAAAA-TGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATCA
* *
416716 AGAAATAAGAAAAATTCCCATGAAAAAATTTACGGAGTAGAAAACTCCGTATTTC-AAAAAAAAG
193 AGAAACAAGAAAAATCCCCATGAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAAG
*
416780 AGAATTTCAAGGCAAAAAATTCAAAATTTATGGAAATAAATAAATTTTTGAAAACTAAATTAATA
258 AGAATTTCAAGGCAAAAAATTCAAAATTTATGGAAATAAATAAATATTTGAAAACTAAATTAATA
* * ** **
416845 TGAAATTAAT-ATAATATTTTATTTTAAAAATCAAAAACCAAGAAAAATTCTGCTGAAAAAATTT
323 TGAAATAAATAATAATATTTGATTTTAAAAATCAAAAACCAAGAAAAATTCCCCAAAAAAAATTT
** *
416909 ATGGAGTAGAAAACTCGGTATTTC-GAAGAAAAGGGATTTCAAGGAAAAAATTCAAAATTCATGA
388 ATGGAGTAGAAAACTAAGTATTTCGGAA-AAAAAGGATTTCAAGGAAAAAATTCAAAATTCATGA
* * *
416973 AAATTAATGAAATTTTGAAAACTGAATTAATGTAAAATAAATAATAATATTTAATGAATTTTAAA
452 AAATGAATGAAATTTTAAAAACTGAATTAATATAAAATAAATAATAATATTTAATGAATTTTAAA
* ** * **
417038 AGTCGAAAACCAAGAAAAATCTCGCGAAAAAAATTACGGAGTAGAAAACTCCGTATTTAGAAAAA
517 AATAAAAAACCAAGAAAAATCCCGCGAAAAAAATTACAAAGTAGAAAACTCCGTATTTAGAAAAA
* * *
417103 AAGAGAAATTTCAAAGAAAAATTTCAAAATTCATGGAAATGAATGAATTTTTGAAAACAGAATTA
582 AAAAGAAATTTCAAAGAAAAAATTCAAAATTCATGGAAATGAATAAATTTTTGAAAACAGAATTA
417168 CTGTAAAATAAATA
647 CTGTAAAATAAATA
* * * * **
417182 ATAATATTTGATGAATTTTAAAAATTAAGAAATAATAAAAATCCCCCCAAAAAAATTTACAAAGT
1 ATAATATTTGATGAATTTTAAAAATTAAGAAATAAGAAAAATCTCCTCGAAAAAATTTATGAAGT
* * ** * *
417247 TGAAAACTCCGTATTTCGGAAAAAGGGAAATTTCAA-GAAAAAAATT
66 AGAAAACTCGGTATTTAAGAAAAAGGGAGATTTCAAGGGAAAAAATT
417293 AAATTTTTTT
Statistics
Matches: 687, Mismatches: 72, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
657 1 0.00
658 116 0.17
659 53 0.08
660 275 0.40
661 140 0.20
662 102 0.15
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (660 bp):
ATAATATTTGATGAATTTTAAAAATTAAGAAATAAGAAAAATCTCCTCGAAAAAATTTATGAAGT
AGAAAACTCGGTATTTAAGAAAAAGGGAGATTTCAAGGGAAAAAATTTAAAATCATGGAAATGAA
AGAATTTTTGAAAATGAATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATCAAGA
AACAAGAAAAATCCCCATGAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAAGAGA
ATTTCAAGGCAAAAAATTCAAAATTTATGGAAATAAATAAATATTTGAAAACTAAATTAATATGA
AATAAATAATAATATTTGATTTTAAAAATCAAAAACCAAGAAAAATTCCCCAAAAAAAATTTATG
GAGTAGAAAACTAAGTATTTCGGAAAAAAAGGATTTCAAGGAAAAAATTCAAAATTCATGAAAAT
GAATGAAATTTTAAAAACTGAATTAATATAAAATAAATAATAATATTTAATGAATTTTAAAAATA
AAAAACCAAGAAAAATCCCGCGAAAAAAATTACAAAGTAGAAAACTCCGTATTTAGAAAAAAAAA
GAAATTTCAAAGAAAAAATTCAAAATTCATGGAAATGAATAAATTTTTGAAAACAGAATTACTGT
AAAATAAATA
Found at i:424853 original size:35 final size:35
Alignment explanation
Indices: 424737--424855 Score: 127
Period size: 35 Copynumber: 3.4 Consensus size: 35
424727 TTCATTTCCT
* * * *
424737 TTTTTCCTTTGTCCTTAAAGAGTAGG-ACACACTTC
1 TTTTTCCTTTTTCCTTAAGGAGCAGGAACA-ATTTC
* * *
424772 -TTTTCCTTTTGTCCTAAAGGAGCAGGATGC-ATTCC
1 TTTTTCCTTTT-TCCTTAAGGAGCAGGA-ACAATTTC
424807 TTTTTCCTTTTTCCTTAAGGAGCAGGAACAATTTC
1 TTTTTCCTTTTTCCTTAAGGAGCAGGAACAATTTC
424842 TTTTTCCTTTTTCC
1 TTTTTCCTTTTTCC
424856 CTTTGTCCTT
Statistics
Matches: 69, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
34 10 0.14
35 48 0.70
36 10 0.14
37 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (35 bp):
TTTTTCCTTTTTCCTTAAGGAGCAGGAACAATTTC
Found at i:424889 original size:43 final size:42
Alignment explanation
Indices: 424803--424953 Score: 114
Period size: 42 Copynumber: 3.5 Consensus size: 42
424793 GCAGGATGCA
* **
424803 TTCCTTTTT-CCTTTTTCCTTAAGGAGCAGGAACA-ATTTCTTT
1 TTCCTTTTTCCCTTTGTCCTTAAGGAGCAGG-ACATA-GACTTT
*
424845 TTCCTTTTTCCCTTTGTCCTTAGGGAGCAGGACATAGACATTT
1 TTCCTTTTTCCCTTTGTCCTTAAGGAGCAGGACATAGAC-TTT
** * **
424888 TTTTTGTTTTCCTTTTGTCCTTAAGGAATAGG--AT-GCACTTTAT
1 TTCCT-TTTTCCCTTTGTCCTTAAGGAGCAGGACATAG-AC-TT-T
*
424931 TTCCTTTTTTCCTTTGTCCTTAA
1 TTCCTTTTTCCCTTTGTCCTTAA
424954 ACAGTAAGAC
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 35 0.40
43 30 0.34
44 22 0.25
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (42 bp):
TTCCTTTTTCCCTTTGTCCTTAAGGAGCAGGACATAGACTTT
Found at i:424968 original size:42 final size:43
Alignment explanation
Indices: 424894--424980 Score: 106
Period size: 42 Copynumber: 2.0 Consensus size: 43
424884 ATTTTTTTTG
** * *
424894 TTTTCCTTTTGTCCTTAAGGAATAGGATGCACTT-TATTTCCTT
1 TTTTCCTTTTGTCCTTAAACAATAAGACGCACTTCT-TTTCCTT
*
424937 TTTTCC-TTTGTCCTTAAACAGTAAGACGCACTTCTTTTCCTT
1 TTTTCCTTTTGTCCTTAAACAATAAGACGCACTTCTTTTCCTT
424979 TT
1 TT
424981 GTCTTCAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 31 0.82
43 7 0.18
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.48
Consensus pattern (43 bp):
TTTTCCTTTTGTCCTTAAACAATAAGACGCACTTCTTTTCCTT
Found at i:425042 original size:199 final size:199
Alignment explanation
Indices: 424683--425074 Score: 561
Period size: 199 Copynumber: 2.0 Consensus size: 199
424673 AAAGCAGGAT
* * *
424683 ACATTTTTTTTGTTTTCCCTGTATCCTCAAGGAGTAGGATGTAGTTCATTTCCTTTTTTCCTTTG
1 ACATTTTTTTTGTTTTCCCTGTATCCTCAAGGAATAGGATGCACTTCATTTCCTTTTTTCCTTTG
* * * *
424748 TCCTTAAAGAGTAGGACACACTTCTTTTCCTTTTGTCCTAAAGGAGCAGGATGCATTCCTTTTTC
66 TCCTTAAACAGTAAGACACACTTCTTTTCCTTTTGTCCTAAAGGAACAGGATGCATTCCTTTCTC
* * *
424813 CTTTTTCCTTAAGGAGCAGGAACAATTTCTTTTTCCTTTTTCCCTTTGTCCTTAGGGAGCAGGAC
131 CTTTTTCCTCAAGGAGCAGGAACAATTTCTTTTTCCTTTTTCCCTTTGTCCTCAAGGAGCAGGAC
424878 ATAG
196 ATAG
* * * * *
424882 ACATTTTTTTTGTTTTCCTTTTGTCCTTAAGGAATAGGATGCACTTTATTTCCTTTTTTCCTTTG
1 ACATTTTTTTTGTTTTCCCTGTATCCTCAAGGAATAGGATGCACTTCATTTCCTTTTTTCCTTTG
* * * *
424947 TCCTTAAACAGTAAGACGCACTTCTTTTCCTTTTGTCTTCAAGGAACATGATGCATTCCTTTCT-
66 TCCTTAAACAGTAAGACACACTTCTTTTCCTTTTGTCCTAAAGGAACAGGATGCATTCCTTTCTC
* ** *
425011 CTTTTGTCCTCAAGGAGTAGGGCCCATTTCTTTTTCCTTTTTCCCTTTGTCCTCAAGGAGCAGG
131 CTTTT-TCCTCAAGGAGCAGGAACAATTTCTTTTTCCTTTTTCCCTTTGTCCTCAAGGAGCAGG
425075 GCACACTTCA
Statistics
Matches: 169, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
198 5 0.03
199 164 0.97
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (199 bp):
ACATTTTTTTTGTTTTCCCTGTATCCTCAAGGAATAGGATGCACTTCATTTCCTTTTTTCCTTTG
TCCTTAAACAGTAAGACACACTTCTTTTCCTTTTGTCCTAAAGGAACAGGATGCATTCCTTTCTC
CTTTTTCCTCAAGGAGCAGGAACAATTTCTTTTTCCTTTTTCCCTTTGTCCTCAAGGAGCAGGAC
ATAG
Found at i:425062 original size:43 final size:42
Alignment explanation
Indices: 425002--425158 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
424992 ACATGATGCA
* *
425002 TTCCTTTCTCTTTTGTCCTCAAGGAGTAGGGCCCATTTCTTT
1 TTCCTTTTTCCTTTGTCCTCAAGGAGTAGGGCCCATTTCTTT
* * * *
425044 TTCCTTTTTCCCTTTGTCCTCAAGGAGCAGGGCACACTTCATT
1 TTCCTTTTT-CCTTTGTCCTCAAGGAGTAGGGCCCATTTCTTT
* * *
425087 TTCCTTTTTTCTTTGTCCTCAAGGAGTAGGACCTATTTCATTCT
1 TTCCTTTTTCCTTTGTCCTCAAGGAGTAGGGCCCATTTC-TT-T
* *
425131 TT--TTTTTCCTTTATCCTCAAAGAGTAGG
1 TTCCTTTTTCCTTTGTCCTCAAGGAGTAGG
425159 ACATACTCTT
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 55 0.57
43 38 0.40
44 3 0.03
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (42 bp):
TTCCTTTTTCCTTTGTCCTCAAGGAGTAGGGCCCATTTCTTT
Found at i:425112 original size:85 final size:83
Alignment explanation
Indices: 425013--425176 Score: 206
Period size: 85 Copynumber: 2.0 Consensus size: 83
425003 TCCTTTCTCT
* * * *
425013 TTTGTCCTCAAGGAGTAGGGCCCATTTC-TT-TTTCCTTTTTCCCTTTGTCCTCAAGGAGCAGGG
1 TTTGTCCTCAAGGAGTAGGACCCATTTCATTCTTT--TTTTT-CCTTTATCCTCAAAGAGCAGGA
425076 CACACTTCATTTTCCTTTTTTC
63 CACAC-TCATTTTCCTTTTTTC
* * *
425098 TTTGTCCTCAAGGAGTAGGACCTATTTCATTCTTTTTTTTCCTTTATCCTCAAAGAGTAGGACAT
1 TTTGTCCTCAAGGAGTAGGACCCATTTCATTCTTTTTTTTCCTTTATCCTCAAAGAGCAGGACAC
*
425163 ACTCTTTTTCCTTT
66 ACTCATTTTCCTTT
425177 GTCCTTAAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
83 11 0.16
84 22 0.32
85 31 0.45
86 2 0.03
87 3 0.04
ACGTcount: A:0.17, C:0.24, G:0.15, T:0.44
Consensus pattern (83 bp):
TTTGTCCTCAAGGAGTAGGACCCATTTCATTCTTTTTTTTCCTTTATCCTCAAAGAGCAGGACAC
ACTCATTTTCCTTTTTTC
Found at i:425335 original size:31 final size:32
Alignment explanation
Indices: 425297--425850 Score: 232
Period size: 31 Copynumber: 16.9 Consensus size: 32
425287 GTCTTAGAAT
425297 GTCAAAGCCCACACAAGTTGGTGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
** * ***
425328 GTCAAAGCCTGCACAAGCTGGCAACACCTAAATCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACC-----CTGA
** * *
425365 GTCAAAGCCCACACAAGTTGCCGACA-CTTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* **
425396 GTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTTTGA
1 GTCAAAGCCCACACAAGTTGGTGGCA-C----CCTGA
* * *
425433 GTCAGAGCCTACACAAGTTGGTGGTACCCT-A
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
*** * *** * *
425464 GTCAAAGCTTGCATAAGCCAGCGTCA-CCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* * * * * *
425495 GTCTAAGCTCACACGAGTTAGCGGCA-CCTAA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* * *
425526 GTCATAGCCCACATAAGCTT-TTGGCACCTAAGTCTGA
1 GTCAAAGCCCACACAAG-TTGGTGGCACC-----CTGA
* *
425563 GTCAAAGCCCACACGAGTTGGTGGCACCTAAGTTTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACC-----CTGA
* * * *
425600 GTCAAAGCCCGCACAAGCTGGCGACA-CCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* * * * * *
425631 GTCTAAGCCCGCACGAGTTGGCGACA-CTTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* * *
425662 GTTAAAGCCCACACGAGTTAGTGGCACCCT-A
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* *
425693 ATCAAAGCGCACACAAGTTGGTGGCA-CCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* * **
425724 GTCTAAGCCCACACGAGTTGGCAGCA-CCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
* *
425755 GTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTCTGA
1 GTCAAAGCCCACACAAGTTGGTGGCA-C----CCTGA
* ** *
425792 GTCAAAGCCCACACAAGCTGGCAGCACTC-GA
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
*
425823 GTCAAAGCCCACACAAGCTGGTGGCACC
1 GTCAAAGCCCACACAAGTTGGTGGCACC
425851 TAAGTACGAG
Statistics
Matches: 400, Mismatches: 94, Indels: 58
0.72 0.17 0.11
Matches are distributed among these distances:
30 6 0.01
31 249 0.62
32 8 0.02
36 8 0.02
37 129 0.32
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (32 bp):
GTCAAAGCCCACACAAGTTGGTGGCACCCTGA
Found at i:425377 original size:68 final size:68
Alignment explanation
Indices: 425297--425481 Score: 201
Period size: 68 Copynumber: 2.7 Consensus size: 68
425287 GTCTTAGAAT
425297 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCACAAGCTGGCAACACCTAAATC
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCACAAGCTGGCAACACCTAAATC
425362 TGA
66 TGA
** * * ** *** * *
425365 GTCAAAGCCCACACAAGTTGCCGACA-CTTGAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGT
1 GTCAAAGCCCACACAAGTTGGTGGCACCCT-AGTCAAAGCCTGCACAAGCTGGCAACACCTAAAT
*
425429 TTGA
65 CTGA
* * * * *
425433 GTCAGAGCCTACACAAGTTGGTGGTACCCTAGTCAAAGCTTGCATAAGC
1 GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCACAAGC
425482 CAGCGTCACC
Statistics
Matches: 92, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
67 2 0.02
68 88 0.96
69 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.18
Consensus pattern (68 bp):
GTCAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCACAAGCTGGCAACACCTAAATC
TGA
Found at i:425572 original size:37 final size:38
Alignment explanation
Indices: 425525--425618 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 38
425515 GCGGCACCTA
* * *
425525 AGTCATAGCCCACATAAGCTT-TTGGCACCTAAGTCTG
1 AGTCAAAGCCCACACAAGCTTGGTGGCACCTAAGTCTG
* *
425562 AGTCAAAGCCCACACGAG-TTGGTGGCACCTAAGTTTG
1 AGTCAAAGCCCACACAAGCTTGGTGGCACCTAAGTCTG
*
425599 AGTCAAAGCCCGCACAAGCT
1 AGTCAAAGCCCACACAAGCT
425619 GGCGACACCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 2 0.04
37 45 0.94
38 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (38 bp):
AGTCAAAGCCCACACAAGCTTGGTGGCACCTAAGTCTG
Found at i:425628 original size:37 final size:37
Alignment explanation
Indices: 425550--425634 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
425540 AAGCTTTTGG
* * * *
425550 CACCTAAGTCTGAGTCAAAGCCCACACGAGTTGGTGG
1 CACCTAAGTCTGAGTCAAAGCCCACACAAGCTGGCGA
* *
425587 CACCTAAGTTTGAGTCAAAGCCCGCACAAGCTGGCGA
1 CACCTAAGTCTGAGTCAAAGCCCACACAAGCTGGCGA
*
425624 CACCTGAGTCT
1 CACCTAAGTCT
425635 AAGCCCGCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (37 bp):
CACCTAAGTCTGAGTCAAAGCCCACACAAGCTGGCGA
Found at i:425631 original size:68 final size:68
Alignment explanation
Indices: 425559--425864 Score: 264
Period size: 68 Copynumber: 4.7 Consensus size: 68
425549 GCACCTAAGT
* *
425559 CTGAGTCAAAGCCCACACGAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCGCACAAGCTGGC-G
1 CTGAGTCAAAGCCCACACAAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGCAG
425623 ACAC
66 -CAC
* * * * * * * * * **
425627 CTGAGTCTAAGCCCGCACGAGTTGG-CG-A-C--A-CTTGAGTTAAAGCCCACACGAGTTAGTGG
1 CTGAGTCAAAGCCCACACAAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGCAG
425686 CACC
66 CA-C
* * * * *
425690 CT-AATCAAAGCGCACACAAGTTGGTGGCACC------TGAGTCTAAGCCCACACGAGTTGGCAG
1 CTGAGTCAAAGCCCACACAAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGCAG
425748 CAC
66 CAC
* * *
425751 CTGAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTCTGAGTCAAAGCCCACACAAGCTGGCAG
1 CTGAGTCAAAGCCCACACAAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGCAG
425816 CA-
66 CAC
* **
425818 CTCGAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTACGAGTCAA
1 CT-GAGTCAAAGCCCACACAAGTTGGTGGCACCTAAGTTTGAGTCAA
425865 GTCAAACTTA
Statistics
Matches: 194, Mismatches: 31, Indels: 26
0.77 0.12 0.10
Matches are distributed among these distances:
61 3 0.02
62 88 0.45
63 6 0.03
64 1 0.01
65 2 0.01
66 1 0.01
67 3 0.02
68 90 0.46
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.16
Consensus pattern (68 bp):
CTGAGTCAAAGCCCACACAAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGCAG
CAC
Found at i:425720 original size:167 final size:167
Alignment explanation
Indices: 425393--425727 Score: 365
Period size: 167 Copynumber: 2.0 Consensus size: 167
425383 TGCCGACACT
* * * * *
425393 TGAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTTTGAGTCAGAGCCTACACAAGTTGGTGGT
1 TGAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGTCGT
** * * *
425458 ACCCTAGTCAAAGCTTGCATAAGCCAGCGTCACCTGAGTCTAAGCTCACACGAGTTAGCGGCACC
66 ACCCTAGTCAAAGCCCGCACAAGCCAGCGACACCTGAGTCTAAGCCCACACGAGTTAGCGGCACC
* * *
425523 TAAGTCATAGCCCACATAAGCTTTTGGCACCTAAGTC
131 TAAGTCAAAGCCCACACAAGCTTGTGGCACCTAAGTC
* * *
425560 TGAGTCAAAGCCCACACGAGTTGGTGGCACCTAAGTTTGAGTCAAAGCCCGCACAAGCTGG-CG-
1 TGAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGTCGT
* * *** * *
425623 ACACCTGAGTCTAAGCCCGCACGAGTTGGCGACACTTGAGT-TAAAGCCCACACGAGTTAGTGGC
66 AC-CCT-AGTCAAAGCCCGCACAAGCCAGCGACACCTGAGTCT-AAGCCCACACGAGTTAGCGGC
* *
425687 ACCCTAA-TCAAAGCGCACACAAG-TTGGTGGCACCTGAGTC
128 A-CCTAAGTCAAAGCCCACACAAGCTT-GTGGCACCTAAGTC
425727 T
1 T
425728 AAGCCCACAC
Statistics
Matches: 138, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
165 2 0.01
166 7 0.05
167 124 0.90
168 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (167 bp):
TGAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTTTGAGTCAAAGCCCACACAAGCTGGTCGT
ACCCTAGTCAAAGCCCGCACAAGCCAGCGACACCTGAGTCTAAGCCCACACGAGTTAGCGGCACC
TAAGTCAAAGCCCACACAAGCTTGTGGCACCTAAGTC
Found at i:425794 original size:37 final size:36
Alignment explanation
Indices: 425753--425864 Score: 153
Period size: 37 Copynumber: 3.2 Consensus size: 36
425743 GGCAGCACCT
425753 GAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTC
1 GAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTC
*
425789 TGAGTCAAAGCCCACACAAGC---TGGCAGC--ACTC
1 -GAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTC
*
425821 GAGTCAAAGCCCACACAAGCTGGTGGCACCTAAGTAC
1 GAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGT-C
425858 GAGTCAA
1 GAGTCAA
425865 GTCAAACTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
31 20 0.30
32 3 0.05
34 13 0.20
36 2 0.03
37 28 0.42
ACGTcount: A:0.32, C:0.29, G:0.25, T:0.13
Consensus pattern (36 bp):
GAGTCAAAGCCCACACAAGCTGGTGGCAGCTAAGTC
Found at i:431068 original size:151 final size:148
Alignment explanation
Indices: 430778--431074 Score: 316
Period size: 151 Copynumber: 2.0 Consensus size: 148
430768 CATTTATGAC
* * ** *
430778 CTTTTTAAGTCCCTTAGGATCACCGACACTTCTGAGTCAATGGTCAACCTTAGGGATATTTTAGC
1 CTTTTTAAGTCCCTTAGGATCACCAACACTTCTAAGTCAATGGAAAACCTTAAGGATATTTTAGC
* * ** * *
430843 ATTTCTCCAAAACCTAGTCCTATAAAATTATTGGGTTCATTTCTATGCCGAAAGTATGAATTAGG
66 ATTTCTCCAAAACCTAGTCATATAAAACTATCAGGTTCACTTCTATGCCGAAAGTACGAATTAGG
*
430908 AGTGGGTTT-GTTTTTAT
131 AGTAGGTTTGGTTTTTAT
*
430925 CTTTTTCAAGTCCTTTAGGATCACCAAGCACTTCTAAGTCAATGGAAAACCTTAAGGACCT-TTT
1 CTTTTT-AAGTCCCTTAGGATCACCAA-CACTTCTAAGTCAATGGAAAACCTTAAGGA--TATTT
* * * **
430989 TAGCATTTTTCCTCC-AAACCTAGTCATGTGAAACTATCAGG-TCGCTTCTATGCCGAGTGTACG
62 TAGCA--TTT-CTCCAAAACCTAGTCATATAAAACTATCAGGTTCACTTCTATGCCGAAAGTACG
*
431052 TATTAGG-GATAGGTTTGGTTTTT
124 AATTAGGAG-TAGGTTTGGTTTTT
431075 CCAATTCTAG
Statistics
Matches: 122, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
147 6 0.05
148 18 0.15
149 26 0.21
150 9 0.07
151 30 0.25
152 29 0.24
153 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (148 bp):
CTTTTTAAGTCCCTTAGGATCACCAACACTTCTAAGTCAATGGAAAACCTTAAGGATATTTTAGC
ATTTCTCCAAAACCTAGTCATATAAAACTATCAGGTTCACTTCTATGCCGAAAGTACGAATTAGG
AGTAGGTTTGGTTTTTAT
Found at i:443705 original size:47 final size:47
Alignment explanation
Indices: 443585--443707 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 47
443575 TTCTTTTTAA
* * * *
443585 CTCTATTTGACGTGATGGTTTTTGCCCTGGTCAAACTTTCTTTATAT
1 CTCTATTTGACATGATGGTTTTTGCCCTGGCCAAACTATCTTGATAT
* * ** * *
443632 AT-TGTTAAACATGATGGTTCTCGCCCTGGCCAAACTAAT-TTGATAT
1 CTCTATTTGACATGATGGTTTTTGCCCTGGCCAAACT-ATCTTGATAT
443678 CTCTATTTGACATGATGGTTTTTGCCCTGG
1 CTCTATTTGACATGATGGTTTTTGCCCTGG
443708 TTAGACTCTT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
46 34 0.59
47 24 0.41
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (47 bp):
CTCTATTTGACATGATGGTTTTTGCCCTGGCCAAACTATCTTGATAT
Found at i:443843 original size:44 final size:43
Alignment explanation
Indices: 443793--444023 Score: 155
Period size: 44 Copynumber: 5.2 Consensus size: 43
443783 GATGGTTCAG
* *
443793 GATCAAACTCTTTATATTTAATTTGACATGATGGTTTTTGCCCT
1 GATCAAACTCTTTATATTTCATTTGACATGATGG-TCTTGCCCT
* *
443837 GATCAAACTCTTTTAATACCTT-GTTTGACATGATGGTCTT-CACCT
1 GATCAAACTC-TTT-ATA-TTTCATTTGACATGATGGTCTTGC-CCT
* * * * * *
443882 TAGTCAAACTATTTTTTTTCTCATTTGACGTGATGGT-TCAGCCCT
1 GA-TCAAACTCTTTATATT-TCATTTGACATGATGGTCT-TGCCCT
* * * *
443927 GGTCAAACTCTTTATATCTCATTTGACGTGATGGTTCTCGCCCT
1 GATCAAACTCTTTATATTTCATTTGACATGATGG-TCTTGCCCT
** * * *
443971 CG-TCAAACTCTTTATATTTTGTTTTACATGATGGCCCTAGCCCT
1 -GATCAAACTCTTTATATTTCATTTGACATGATGG-TCTTGCCCT
*
444015 GGTCAAACT
1 GATCAAACT
444024 TGTTACATCT
Statistics
Matches: 148, Mismatches: 26, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
43 18 0.12
44 73 0.49
45 31 0.21
46 24 0.16
47 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (43 bp):
GATCAAACTCTTTATATTTCATTTGACATGATGGTCTTGCCCT
Found at i:443970 original size:134 final size:134
Alignment explanation
Indices: 443643--444004 Score: 375
Period size: 131 Copynumber: 2.7 Consensus size: 134
443633 TTGTTAAACA
* * *
443643 TGATGGTTCTCGCCCTGGCCAAACTAATTTGATATCTCTATTTGACATGATGGTTTTTGCCCTGG
1 TGATGGTTC-AGCCCTGGTCAAACT-CTTT-ATATCTC-ATTTGACATGATGGTTTTTGCCCT-G
* * * * * *
443708 TTAGACTCTTCTCAAT-CCCTGTTTAACGTGATGGTCTTCATCCTAGTCAAACCCTTTTTTCTTC
61 TCAAACTCTT-TTAATACCTTGTTTAACATGATGGTCTTCATCCTAGTCAAACCATTTTTTCTTC
*
443772 TAGTTTGATG
125 TAGTTTGACG
* * *
443782 TGATGGTTCAG----GATCAAACTCTTTATATTTAATTTGACATGATGGTTTTTGCCCTGATCAA
1 TGATGGTTCAGCCCTGGTCAAACTCTTTATATCTCATTTGACATGATGGTTTTTGCCCTG-TCAA
* *
443843 ACTCTTTTAATACCTTGTTTGACATGATGGTCTTCA-CCTTAGTCAAACTATTTTTT-TTCTCA-
65 ACTCTTTTAATACCTTGTTTAACATGATGGTCTTCATCC-TAGTCAAACCATTTTTTCTTCT-AG
443905 TTTGACG
128 TTTGACG
* * *
443912 TGATGGTTCAGCCCTGGTCAAACTCTTTATATCTCATTTGACGTGATGGTTCTCGCCCTCGTCAA
1 TGATGGTTCAGCCCTGGTCAAACTCTTTATATCTCATTTGACATGATGGTTTTTGCCCT-GTCAA
** *
443977 ACTC-TTT-ATATTTTGTTTTACATGATGG
65 ACTCTTTTAATACCTTGTTTAACATGATGG
444005 CCCTAGCCCT
Statistics
Matches: 190, Mismatches: 24, Indels: 25
0.79 0.10 0.10
Matches are distributed among these distances:
130 28 0.15
131 69 0.36
132 23 0.12
133 6 0.03
134 53 0.28
135 1 0.01
138 1 0.01
139 9 0.05
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (134 bp):
TGATGGTTCAGCCCTGGTCAAACTCTTTATATCTCATTTGACATGATGGTTTTTGCCCTGTCAAA
CTCTTTTAATACCTTGTTTAACATGATGGTCTTCATCCTAGTCAAACCATTTTTTCTTCTAGTTT
GACG
Found at i:444235 original size:83 final size:84
Alignment explanation
Indices: 444064--444245 Score: 222
Period size: 83 Copynumber: 2.2 Consensus size: 84
444054 AAATCTTTTC
* * * * * * *
444064 TTGACTTGTTGGTTCAATCCCGGTTAACTTTTTATCCTTTGTTCACCTATCAGCTTAGTCTTAGG
1 TTGACTTGTCGGTTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCAGCTTAATCCTAGG
** * *
444129 TAAATTTTTTTATCCTTTG
66 TAAATCCTTTCATCCTTTA
* **
444148 TTGACTTGTCGGTTTAATCCCGATCAACTTTTTATCC-TTATTCACCTGTTGGCTTAATCCTAGG
1 TTGACTTGTCGGTTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCAGCTTAATCCTAGG
444212 TAAATCCTTTCATCCTTTA
66 TAAATCCTTTCATCCTTTA
*
444231 TTGACTTGTCAGTTT
1 TTGACTTGTCGGTTT
444246 GTAGACACCT
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
83 50 0.60
84 33 0.40
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.47
Consensus pattern (84 bp):
TTGACTTGTCGGTTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCAGCTTAATCCTAGG
TAAATCCTTTCATCCTTTA
Found at i:444568 original size:13 final size:13
Alignment explanation
Indices: 444550--444574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
444540 CAAAAAGTGT
444550 TGTATCGATACAA
1 TGTATCGATACAA
444563 TGTATCGATACA
1 TGTATCGATACA
444575 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:444585 original size:32 final size:33
Alignment explanation
Indices: 444530--444591 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
444520 TTCAACGATT
444530 TGTATCGATACAAAAAGTGTTGTATCGATACAA
1 TGTATCGATACAAAAAGTGTTGTATCGATACAA
*
444563 TGTATCGATAC-ATAAGTGTTGTATCGATA
1 TGTATCGATACAAAAAGTGTTGTATCGATA
444592 TATAAGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAAAAAGTGTTGTATCGATACAA
Found at i:444587 original size:19 final size:19
Alignment explanation
Indices: 444529--444612 Score: 90
Period size: 19 Copynumber: 4.7 Consensus size: 19
444519 TTTCAACGAT
*
444529 TTGTATCGATACAAAAAGTG
1 TTGTATCGATAC-ATAAGTG
444549 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
444563 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
* *
444581 TTGTATCGATATATAAGTT
1 TTGTATCGATACATAAGTG
444600 TTGTATCGATACA
1 TTGTATCGATACA
444613 ATATATCGCT
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 28 0.51
20 12 0.22
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:444683 original size:13 final size:13
Alignment explanation
Indices: 444665--444689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
444655 ATTACTCAAA
444665 TGTATCGATACAT
1 TGTATCGATACAT
444678 TGTATCGATACA
1 TGTATCGATACA
444690 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:449565 original size:4 final size:5
Alignment explanation
Indices: 449539--449567 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
449529 ATTTTTAGAA
449539 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
449568 TTCCAACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:449568 original size:15 final size:15
Alignment explanation
Indices: 449539--449567 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
449529 ATTTTTAGAA
449539 ATTTTATTTTATTTT
1 ATTTTATTTTATTTT
449554 ATTTTA-TTTATTTT
1 ATTTTATTTTATTTT
449568 TTCCAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTATTTTATTTT
Found at i:450387 original size:40 final size:40
Alignment explanation
Indices: 450340--450464 Score: 216
Period size: 40 Copynumber: 3.1 Consensus size: 40
450330 CATTTTGAGC
* *
450340 TGATTTGAGGGATTATTGGTGTGTTTTAATGACATTTCGG
1 TGATTTGAGGGATTATTAGTGTGTTTTAATGACATTTCGA
450380 TGATTTGAGGGATTATTAGTGTGTTTTAATGACATTTCGA
1 TGATTTGAGGGATTATTAGTGTGTTTTAATGACATTTCGA
450420 TGATTTGAGGGATTATTAGTGTGTTTTAATGACATATT-GA
1 TGATTTGAGGGATTATTAGTGTGTTTTAATGACAT-TTCGA
450460 TGATT
1 TGATT
450465 AGGGACTAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
40 80 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (40 bp):
TGATTTGAGGGATTATTAGTGTGTTTTAATGACATTTCGA
Found at i:450842 original size:10 final size:10
Alignment explanation
Indices: 450827--450860 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
450817 TTCTGTAATA
450827 AAATAAAAAT
1 AAATAAAAAT
450837 AAATAAAAAT
1 AAATAAAAAT
*
450847 AAATTAAAAT
1 AAATAAAAAT
450857 AAAT
1 AAAT
450861 CAAACCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:451016 original size:14 final size:14
Alignment explanation
Indices: 450997--451030 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
450987 AATTTTTAAA
*
450997 AAATAAATAGTAAT
1 AAATAAATAATAAT
451011 AAATAAATAATAAT
1 AAATAAATAATAAT
451025 AAATAA
1 AAATAA
451031 GTACCAAACA
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:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAATAAATAATAAT
Found at i:453918 original size:20 final size:20
Alignment explanation
Indices: 453872--453924 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
453862 TTGTATCGAA
*
453872 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
453891 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
453910 ACAATTGTATCGATA
1 ACAATTGTATCGATA
453925 AATGAAACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 16 0.55
20 12 0.41
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:458087 original size:31 final size:31
Alignment explanation
Indices: 458052--458115 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
458042 TGAAATATGT
458052 AAATTTGCCTGCATGTATCGATACATTGAAG
1 AAATTTGCCTGCATGTATCGATACATTGAAG
458083 AAATTTGCCTGCATGTATCGATACATTGAAG
1 AAATTTGCCTGCATGTATCGATACATTGAAG
458114 AA
1 AA
458116 TGTATTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (31 bp):
AAATTTGCCTGCATGTATCGATACATTGAAG
Found at i:458154 original size:51 final size:52
Alignment explanation
Indices: 458099--458233 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 52
458089 GCCTGCATGT
* *
458099 ATCGATACATTGAAGAATGTATTGATACATTTAGGTC-AAAACCTAGAATGC
1 ATCGATACAATGAAAAATGTATTGATACATTTAGGTCAAAAACCTAGAATGC
* * ** * * * *
458150 ATCGATACAATGAATATTGTATCAACACCTTTGGGTCAAAAACCTAGAATGT
1 ATCGATACAATGAAAAATGTATTGATACATTTAGGTCAAAAACCTAGAATGC
* *
458202 ATCGATAAAATGAAAAATGTACTGATACATTT
1 ATCGATACAATGAAAAATGTATTGATACATTT
458234 TCTTTCCAGA
Statistics
Matches: 66, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
51 29 0.44
52 37 0.56
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (52 bp):
ATCGATACAATGAAAAATGTATTGATACATTTAGGTCAAAAACCTAGAATGC
Found at i:458316 original size:20 final size:21
Alignment explanation
Indices: 458293--458343 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
458283 TTCAAACATA
*
458293 TATCGATACATTCACTTA-TG
1 TATCAATACATTCACTTATTG
458313 TATCAATACATTCACTTATTG
1 TATCAATACATTCACTTATTG
458334 TATCAATACA
1 TATCAATACA
458344 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (21 bp):
TATCAATACATTCACTTATTG
Found at i:459179 original size:52 final size:52
Alignment explanation
Indices: 459103--459324 Score: 162
Period size: 52 Copynumber: 4.3 Consensus size: 52
459093 GAAAAGAGTG
* * *
459103 CCAATGTGCTAATTCAAGGCTAGTGACATTGGACTTAAAGATGAGAAGAA-CA
1 CCAATATGCTGATTTAAGGCTAGTGACATTGGACTTAAAGATGAGAA-AAGCA
* * * * *
459155 CCATTCTGCTGATTTAAGGCTAGTGACATTAGG-CTTAAAAATGATAAAAGTA
1 CCAATATGCTGATTTAAGGCTAGTGACATT-GGACTTAAAGATGAGAAAAGCA
* * *** * * **
459207 CCAATATACTGATTTAAGGCTAGTGATATCAAACTTAAAGATGACAAAGGTG
1 CCAATATGCTGATTTAAGGCTAGTGACATTGGACTTAAAGATGAGAAAAGCA
* * * * * * * **
459259 CTAATGTGCTAATTCAAGGCCAGCGACATTAGG-CTTAAAGATGAGAAGAGTG
1 CCAATATGCTGATTTAAGGCTAGTGACATT-GGACTTAAAGATGAGAAAAGCA
459311 CCAATATGCTGATT
1 CCAATATGCTGATT
459325 AATAGCCAAT
Statistics
Matches: 131, Mismatches: 35, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
51 2 0.02
52 127 0.97
53 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (52 bp):
CCAATATGCTGATTTAAGGCTAGTGACATTGGACTTAAAGATGAGAAAAGCA
Found at i:459589 original size:97 final size:97
Alignment explanation
Indices: 459423--459629 Score: 414
Period size: 97 Copynumber: 2.1 Consensus size: 97
459413 GATACCACCG
459423 ACTTGTGTGGGCTTTTGAAAGGGTTGCCAATGATTTGTGTAGGCTTTAGAAAAAGGTTGCCACCA
1 ACTTGTGTGGGCTTTTGAAAGGGTTGCCAATGATTTGTGTAGGCTTTAGAAAAAGGTTGCCACCA
459488 ACTTATATGGGTTATAAAAAGGGTTGCTACCA
66 ACTTATATGGGTTATAAAAAGGGTTGCTACCA
459520 ACTTGTGTGGGCTTTTGAAAGGGTTGCCAATGATTTGTGTAGGCTTTAGAAAAAGGTTGCCACCA
1 ACTTGTGTGGGCTTTTGAAAGGGTTGCCAATGATTTGTGTAGGCTTTAGAAAAAGGTTGCCACCA
459585 ACTTATATGGGTTATAAAAAGGGTTGCTACCA
66 ACTTATATGGGTTATAAAAAGGGTTGCTACCA
459617 ACTTGTGTGGGCT
1 ACTTGTGTGGGCT
459630 GTAAAAAGTG
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 110 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (97 bp):
ACTTGTGTGGGCTTTTGAAAGGGTTGCCAATGATTTGTGTAGGCTTTAGAAAAAGGTTGCCACCA
ACTTATATGGGTTATAAAAAGGGTTGCTACCA
Found at i:459635 original size:32 final size:32
Alignment explanation
Indices: 459417--459646 Score: 176
Period size: 32 Copynumber: 7.1 Consensus size: 32
459407 GAAGGAGATA
* **
459417 CCACCGACTTGTGTGGGCTTTTGAAAGGGTTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGGGTTG
*** * * *
459449 CCAATGATTTGTGTAGGCTTTAGAAAAAGGTTG
1 CCACCAACTTGTGTGGGCTTTA-AAAAGGGTTG
* *
459482 CCACCAACTTATATGGG-TTATAAAAAGGGTTG
1 CCACCAACTTGTGTGGGCTT-TAAAAAGGGTTG
* **
459514 CTACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGGGTTG
*** * * *
459546 CCAATGATTTGTGTAGGCTTTAGAAAAAGGTTG
1 CCACCAACTTGTGTGGGCTTTA-AAAAGGGTTG
* *
459579 CCACCAACTTATATGGG-TTATAAAAAGGGTTG
1 CCACCAACTTGTGTGGGCTT-TAAAAAGGGTTG
* * * *
459611 CTACCAACTTGTGTGGGCTGTAAAAAGTGTTA
1 CCACCAACTTGTGTGGGCTTTAAAAAGGGTTG
459643 CCAC
1 CCAC
459647 AGAGTTGTAG
Statistics
Matches: 148, Mismatches: 44, Indels: 12
0.73 0.22 0.06
Matches are distributed among these distances:
32 105 0.71
33 43 0.29
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (32 bp):
CCACCAACTTGTGTGGGCTTTAAAAAGGGTTG
Found at i:459736 original size:29 final size:29
Alignment explanation
Indices: 459643--460410 Score: 496
Period size: 29 Copynumber: 26.2 Consensus size: 29
459633 AAAAGTGTTA
* *
459643 CCACAGAGTTGTAGACTTTAAAAAAAGGTG
1 CCACAGAGTTGTGGACTTT-AAAAAGGGTG
* *
459673 CCATAGAGTTGTGCACTTTAAAAAGGGGTG
1 CCACAGAGTTGTGGACTTTAAAAA-GGGTG
*
459703 CCACAGAGTTATGGACTTTAAAAAGGGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* * * *
459732 TCACAAAGTTGTGGACTTTAAAAA-GCTA
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* *
459760 CCACGGAGTTATGGACTTTTGAAAAA-GGTG
1 CCACAGAGTTGTGGAC-TTT-AAAAAGGGTG
* * ***
459790 CCACAGAGTCGTGGACTTT-GAACTTGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
*
459818 CCACTA-AGTCT-TGCACTTT-AAAAGAGGTG
1 CCAC-AGAGT-TGTGGACTTTAAAAAG-GGTG
*
459847 CCAC-GAAGTTGTGGACATTTAAAAAAAATGGTG
1 CCACAG-AGTTGTGGAC-TTT---AAAAAGGGTG
* *
459880 CCACAGAGTTGTGCA-TTTAAAAAAAAAGGTG
1 CCACAGAGTTGTGGACTTT---AAAAAGGGTG
* * * *
459911 CCACGGAGTTGTGGACTTT-ACAAGAGTA
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
*
459939 CCACAGAGATGTGG----TAAAAAGGGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
** *
459964 CCATGGAGTTATGGACTTTTGAAAAAGGGTG
1 CCACAGAGTTGTGGAC-TTT-AAAAAGGGTG
** *
459995 CCACTA-AGTCATGGACTTTGAAAAA-TGTG
1 CCAC-AGAGTTGTGGACTTT-AAAAAGGGTG
* *
460024 CCATTA-AGTCGTGGACTTTGAAAAAGGGTG
1 CCA-CAGAGTTGTGGACTTT-AAAAAGGGTG
* * * *
460054 CCACGGAGTTATGGACTTTAAAAAGGATA
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* *
460083 CCACGGATTTGTGGACTTTGAAAAA-GGTG
1 CCACAGAGTTGTGGACTTT-AAAAAGGGTG
* * * **
460112 CCACGGAGTTATGGACTTTTGAAAACGTATG
1 CCACAGAGTTGTGGAC-TTT-AAAAAGGGTG
** *
460143 CCACTA-AGTCATGGACTTTGAAAAA-TGTG
1 CCAC-AGAGTTGTGGACTTT-AAAAAGGGTG
* **
460172 CCATTA-AGTCATGGACTTTGAAAAAGGGTG
1 CCA-CAGAGTTGTGGACTTT-AAAAAGGGTG
* * *
460202 CCACGGAGTTGTGGACTTTAAAAAAGATG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* *
460231 CCTCAGATTTGTGGACTTTAAAAAGGGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* * * *
460260 CTACGGAGTTGTAGACTTTAAAAAGTGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* * * *
460289 CCACGGATTTGTGGACTTTGAGAAGGGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
*
460318 CCACAGAGTTATGGACTTTAGAAAAGGGTG
1 CCACAGAGTTGTGGACTTTA-AAAAGGGTG
* * ** *
460348 CTATAGAGTAATGGACTTTGAAAAGGGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
* *
460377 CTACAGAGTTGTGGACTTTGAAAAGGGTG
1 CCACAGAGTTGTGGACTTTAAAAAGGGTG
460406 CCACA
1 CCACA
460411 AAGTCATGGA
Statistics
Matches: 589, Mismatches: 113, Indels: 73
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.00
25 16 0.03
27 2 0.00
28 51 0.09
29 277 0.47
30 153 0.26
31 65 0.11
32 3 0.01
33 16 0.03
34 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (29 bp):
CCACAGAGTTGTGGACTTTAAAAAGGGTG
Found at i:459785 original size:117 final size:118
Alignment explanation
Indices: 459643--460422 Score: 562
Period size: 117 Copynumber: 6.6 Consensus size: 118
459633 AAAAGTGTTA
* * ** * *
459643 CCACAGAGTTGTAGACTTTAAAAAAAGGTGCCATAGAGTTGTGCACTTTAAAAAGGGGTGCCACA
1 CCACAGAGTTATGGACTTTTGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAA-GGGTGCCACA
* ** * *
459708 GAGTTATGGACTTTAAAAAGGGTGTCACAAAGTTGTGGACTTT-AAAAA-GCTA
65 GAGTTATGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTG
* * * ***
459760 CCACGGAGTTATGGACTTTTGAAAAAGGTGCCACAGAGTCGTGGACTTT-GAACTTGTGCCACTA
1 CCACAGAGTTATGGACTTTTGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAAGGGTGCCAC-A
* * *
459824 -AGTCT-TGCACTTT-AAAAGAGGTGCCACGAAGTTGTGGACATTTAAAAAAAATGGTG
65 GAGT-TATGGACTTTAAAAAG-GGTGCCACGGAGTTGTGGAC-TTT--AAAAAAGGGTG
* * ** * * * *
459880 CCACAGAGTTGTGCA-TTTAAAAAAAAAGGTGCCACGGAGTTGTGGACTTT-ACAAGAGTACCAC
1 CCACAGAGTTATGGACTTT--TGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAAGGGTGCCAC
* * * * *
459943 AGAGATGTGG----TAAAAAGGGTGCCATGGAGTTATGGACTTTTGAAAAAGGGTG
64 AGAGTTATGGACTTTAAAAAGGGTGCCACGGAGTTGTGGAC-TTTAAAAAAGGGTG
* * * *
459995 CCACTA-AGTCATGGAC-TTTGAAAAATGTGCCATTA-AGTCGTGGACTTTGAAAAAGGGTGCCA
1 CCAC-AGAGTTATGGACTTTTGAAAAAGGTGCCA-CAGAGTTGTGGACTTT-AAAAAGGGTGCCA
* * * * *
460057 CGGAGTTATGGACTTTAAAAAGGATACCACGGATTTGTGGACTTTGAAAAA-GGTG
63 CAGAGTTATGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTG
* * * ** *
460112 CCACGGAGTTATGGACTTTTGAAAACGTATGCCACTA-AGTCATGGACTTTGAAAAA-TGTGCCA
1 CCACAGAGTTATGGACTTTTGAAAAAG-GTGCCAC-AGAGTTGTGGACTTT-AAAAAGGGTGCCA
* * *
460175 TTA-AGTCATGGACTTTGAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAA-GATG
63 -CAGAGTTATGGACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTG
* * * * * * * *
460231 CCTCAGATTTGTGGAC-TTT-AAAAAGGGTGCTACGGAGTTGTAGACTTTAAAAAGTGTGCCACG
1 CCACAGAGTTATGGACTTTTGAAAAA-GGTGCCACAGAGTTGTGGACTTTAAAAAGGGTGCCACA
* * * * * * *
460294 GATTTGTGGACTTTGAGAAGGGTGCCACAGAGTTATGGACTTTAGAAAAGGGTG
65 GAGTTATGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTG
* * * * * * *
460348 CTATAGAGTAATGGAC-TTTGAAAAGGGTGCTACAGAGTTGTGGACTTTGAAAAGGGTGCCACAA
1 CCACAGAGTTATGGACTTTTGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAAGGGTGCCACAG
*
460412 AGTCATGGACT
66 AGTTATGGACT
460423 CTGAGAAGTT
Statistics
Matches: 517, Mismatches: 112, Indels: 68
0.74 0.16 0.10
Matches are distributed among these distances:
113 23 0.04
114 5 0.01
115 73 0.14
116 43 0.08
117 172 0.33
118 48 0.09
119 100 0.19
120 16 0.03
121 37 0.07
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (118 bp):
CCACAGAGTTATGGACTTTTGAAAAAGGTGCCACAGAGTTGTGGACTTTAAAAAGGGTGCCACAG
AGTTATGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGGGTG
Found at i:459882 original size:33 final size:33
Alignment explanation
Indices: 459837--459930 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 33
459827 CTTGCACTTT
*
459837 AAAAGAGGTGCCACGAAGTTGTGGACATTTAAA
1 AAAAAAGGTGCCACGAAGTTGTGGACATTTAAA
*
459870 AAAAATGGTGCCAC-AGAGTTGT-G-CATTTAAA
1 AAAAAAGGTGCCACGA-AGTTGTGGACATTTAAA
*
459901 AAAAAAGGTGCCACGGAGTTGTGGAC-TTTA
1 AAAAAAGGTGCCACGAAGTTGTGGACATTTA
459931 CAAGAGTACC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
31 27 0.51
32 7 0.13
33 19 0.36
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (33 bp):
AAAAAAGGTGCCACGAAGTTGTGGACATTTAAA
Found at i:460010 original size:148 final size:146
Alignment explanation
Indices: 459837--460292 Score: 392
Period size: 148 Copynumber: 3.1 Consensus size: 146
459827 CTTGCACTTT
* ** *
459837 AAAAGAGGTGCCACGAAGTTGTGGACATTTAAAAAAAATGGTGCCA-CAGAGTTGTGCA-TTTAA
1 AAAAG-GGTGCCACTAAGTCATGGAC-TTT-AAAAAAAT-GTGCCATCA-AGTCGTGCACTTT--
* *
459900 AAAAAAAGGTGCCACGGAGTTGTGGACTTT-ACAA-GAGTACCACAGAGATGTGG-T-AAAAAGG
59 AAAAAAAGGTGCCACGGAGTTATGGACTTTAAAAAGGA-TACCACAGAGATGTGGTTGAAAAA-G
*
459961 GTGCCATGGAGTTATGGACTTTTGA
122 GTGCCACGGAGTTATGGACTTTTGA
* * * * *
459986 AAAAGGGTGCCACTAAGTCATGGACTTT-GAAAAATGTGCCATTAAGTCGTGGACTTTGAAAAAG
1 AAAAGGGTGCCACTAAGTCATGGACTTTAAAAAAATGTGCCATCAAGTCGTGCACTTTAAAAAAA
* **
460050 GGTGCCACGGAGTTATGGACTTTAAAAAGGATACCACGGATTTGTGGACTTTGAAAAAGGTGCCA
66 GGTGCCACGGAGTTATGGACTTTAAAAAGGATACCACAGAGATGTGG---TTGAAAAAGGTGCCA
460115 CGGAGTTATGGACTTTTGA
128 CGGAGTTATGGACTTTTGA
* ** * * * * * *
460134 AAACGTATGCCACTAAGTCATGGACTTT-GAAAAATGTGCCATTAAGTCATGGACTTTGAAAAAG
1 AAAAGGGTGCCACTAAGTCATGGACTTTAAAAAAATGTGCCATCAAGTCGTGCACTTTAAAAAAA
* * * * ** * *
460198 GGTGCCACGGAGTTGTGGACTTTAAAAAAGATGCCTCAGATTTGTGGACTTTAAAAAGGGTGCTA
66 GGTGCCACGGAGTTATGGACTTTAAAAAGGATACCACAGAGATGTGG--TTGAAAAA-GGTGCCA
* *
460263 CGGAGTTGTAGAC-TTT-A
128 CGGAGTTATGGACTTTTGA
*
460280 AAAAGTGTGCCAC
1 AAAAGGGTGCCAC
460293 GGATTTGTGG
Statistics
Matches: 265, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
143 27 0.10
144 29 0.11
145 12 0.05
146 12 0.05
147 13 0.05
148 162 0.61
149 10 0.04
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (146 bp):
AAAAGGGTGCCACTAAGTCATGGACTTTAAAAAAATGTGCCATCAAGTCGTGCACTTTAAAAAAA
GGTGCCACGGAGTTATGGACTTTAAAAAGGATACCACAGAGATGTGGTTGAAAAAGGTGCCACGG
AGTTATGGACTTTTGA
Found at i:460120 original size:58 final size:58
Alignment explanation
Indices: 459656--460409 Score: 494
Period size: 59 Copynumber: 12.8 Consensus size: 58
459646 CAGAGTTGTA
* ** * *
459656 GACTTTAAAAAAAGGTGCCATAGAGTTGTGCACTTT-AAAAAGGGGTGCCACAGAGTTATG
1 GACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAA--GGTGCCACGGAGTTATG
* ** * *
459716 GACTTTAAAAAGGGTGTCACAAAGTTGTGGACTTT-AAAAAGCTACCACGGAGTTATG
1 GACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCACGGAGTTATG
* * *** **
459773 GACTTTTGAAAAA-GGTGCCACAGAGTCGTGGACTTTG-AACTTGTGCCACTAAGTCT-TG
1 GAC-TTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCACGGAGT-TATG
* * * * *
459831 CACTTT-AAAAGAGGTGCCACGAAGTTGTGGACATTTAAAAAAAATGGTGCCACAGAGTTGTG
1 GACTTTAAAAAG-GGTGCCACGGAGTTGTGGAC-TTT--GAAAAA-GGTGCCACGGAGTTATG
* * * * * * *
459893 CA-TTTAAAAAAAAAGGTGCCACGGAGTTGTGGACTTT--ACAAGAGTACCACAGAGATGTG
1 GACTTT---AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAG-GTGCCACGGAGTTATG
* * ** *
459952 G----TAAAAAGGGTGCCATGGAGTTATGGACTTTTGAAAAAGGGTGCCACTAAGTCATG
1 GACTTTAAAAAGGGTGCCACGGAGTTGTGGAC-TTTGAAAAA-GGTGCCACGGAGTTATG
* *** *
460008 GACTTTGAAAAA-TGTGCCATTAAGTCGTGGACTTTGAAAAAGGGTGCCACGGAGTTATG
1 GACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAA-GGTGCCACGGAGTTATG
* * *
460067 GACTTTAAAAAGGATACCACGGATTTGTGGACTTTGAAAAAGGTGCCACGGAGTTATG
1 GACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCACGGAGTTATG
* ** ** ** * *** *
460125 GACTTTTGAAAACGTATGCCACTAAGTCATGGACTTTGAAAAATGTGCCATTAAGTCATG
1 GAC-TTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCACGGAGTTATG
* * * * * *
460185 GACTTTGAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAAAGATGCCTCAGATTTGTG
1 GACTTT-AAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCACGGAGTTATG
* * * *
460244 GACTTTAAAAAGGGTGCTACGGAGTTGTAGACTTT-AAAAAGTGTGCCACGGATTTGTG
1 GACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAG-GTGCCACGGAGTTATG
* * * * * * ** *
460302 GACTTTGAGAAGGGTGCCACAGAGTTATGGACTTTAGAAAAGGGTGCTATAGAGTAATG
1 GACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTT-GAAAAAGGTGCCACGGAGTTATG
* * * *
460361 GACTTTGAAAAGGGTGCTACAGAGTTGTGGACTTTGAAAAGGGTGCCAC
1 GACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCAC
460410 AAAGTCATGG
Statistics
Matches: 549, Mismatches: 113, Indels: 66
0.75 0.16 0.09
Matches are distributed among these distances:
53 23 0.04
54 3 0.01
55 4 0.01
56 15 0.03
57 44 0.08
58 147 0.27
59 193 0.35
60 69 0.13
61 11 0.02
62 14 0.03
63 3 0.01
64 19 0.03
65 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (58 bp):
GACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTGAAAAAGGTGCCACGGAGTTATG
Found at i:464454 original size:17 final size:18
Alignment explanation
Indices: 464432--464469 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
464422 TGAGCTTATA
464432 ATGAGA-TGACAATGAAT
1 ATGAGACTGACAATGAAT
464449 ATGAGATCGTGACAATGAAT
1 ATGAGA-C-TGACAATGAAT
464469 A
1 A
464470 ACTAGTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ATGAGACTGACAATGAAT
Found at i:469151 original size:51 final size:52
Alignment explanation
Indices: 469090--469227 Score: 163
Period size: 50 Copynumber: 2.7 Consensus size: 52
469080 ATTTGCTTAC
* * *
469090 ATGTATCAATATATTGAACAATGTATCAATACATTTGGGTCAAAA-CCCAGA
1 ATGTATCAATATAATGAAAAATGTATCAATACATTTGGGTCAAAATCCCAAA
* * * * *
469141 GTGTATCAATA-AATGAATAATATATCGATATATTTGGGTCAAAATCCCAAA
1 ATGTATCAATATAATGAAAAATGTATCAATACATTTGGGTCAAAATCCCAAA
** *
469192 ATGTATTGATATAATGAAAAATGTTTCAATACATTT
1 ATGTATCAATATAATGAAAAATGTATCAATACATTT
469228 TCTTTCTAGA
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
50 28 0.40
51 23 0.33
52 19 0.27
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (52 bp):
ATGTATCAATATAATGAAAAATGTATCAATACATTTGGGTCAAAATCCCAAA
Found at i:469308 original size:20 final size:20
Alignment explanation
Indices: 469264--469320 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
469254 GACATGGTCC
* *
469264 TGTATCGATACATTTTAGATA
1 TGTATCAATACA-TTCAGATA
*
469285 TGTATCAATACATTCAGCTA
1 TGTATCAATACATTCAGATA
469305 TGTATCAATACATTCA
1 TGTATCAATACATTCA
469321 CTTATTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 22 0.67
21 11 0.33
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCAATACATTCAGATA
Found at i:470176 original size:52 final size:52
Alignment explanation
Indices: 470082--470437 Score: 292
Period size: 52 Copynumber: 6.8 Consensus size: 52
470072 CTAGACTGAG
* * * * * * *
470082 AAGAGTGCCAATATGCTAATTAAAGGACAACGACATTAGACTTGAAGATGAA
1 AAGAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* *
470134 AAGAATGCCAATGTGCTGATTC-AGAGCCAGCGACATTGGACTTAAAAAT-AA
1 AAGAGTGCCAATGTGCTGATTCAAG-GCCAGCGACATTGGACTTAAAGATGAA
* * * ** * *
470185 TACGGGTGTCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTAAAAATGATA
1 -AAGAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-A
* * * * *
470239 AAG-GTACCAATATGCTGATTCAAGGCCAGCTATATCGGACTTAAAGATGACA
1 AAGAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-A
* * * *
470291 AAG-GTGCTC-ATGTGCTAATTCTAGGCCAGCGAAATTAGACTTAAAGAT-AA
1 AAGAGTGC-CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* * * * * *
470341 GTAGAGTGCCAATGTACTGATTCAAAGCCAACGACATTAGACTTAAAGATAAA
1 -AAGAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
* ** * *
470394 AAGAGTGCCAACGTATTGATTCAAGGCTAGTGACATTGGACTTA
1 AAGAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
470438 GAAAGAGATG
Statistics
Matches: 243, Mismatches: 51, Indels: 20
0.77 0.16 0.06
Matches are distributed among these distances:
50 1 0.00
51 8 0.03
52 225 0.93
53 8 0.03
54 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (52 bp):
AAGAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA
Found at i:470435 original size:156 final size:156
Alignment explanation
Indices: 470113--470437 Score: 342
Period size: 156 Copynumber: 2.1 Consensus size: 156
470103 AAAGGACAAC
* * * * *
470113 GACATTAGACTTGAAGATGAAAAGAATGCCAATGTGCTGATTCAGAGCCAGCGACATTGGACTTA
1 GACATTGGACTTAAAGATGAAAAGAATGCCAATGTGCTAATTCAGAGCCAGCGAAATTAGACTTA
* * * * * * * *
470178 AAAATAATACGGGTGTCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTAAAAATGATAAAGG
66 AAAATAATACGAGTGCCAATGTACTGATTCAAAGCCAACGACATTAGACTTAAAAATGAAAAAGG
470243 TACCAATATGCTGATTCAAGGCCAGCT
131 TACCAATAT-CTGATTCAAGGCCAGCT
* * *
470270 -ATATCGGACTTAAAGATGACAAAG-GTGCTC-ATGTGCTAATTCTAG-GCCAGCGAAATTAGAC
1 GACATTGGACTTAAAGATGA-AAAGAATGC-CAATGTGCTAATTC-AGAGCCAGCGAAATTAGAC
* *
470331 TTAAAGATAAGTA-GAGTGCCAATGTACTGATTCAAAGCCAACGACATTAGACTTAAAGAT-AAA
63 TTAAAAATAA-TACGAGTGCCAATGTACTGATTCAAAGCCAACGACATTAGACTTAAAAATGAAA
* *
470394 AAGAGTGCCAACGTAT-TGATTCAAGGCTAG-T
127 AAG-GTACCAA--TATCTGATTCAAGGCCAGCT
470425 GACATTGGACTTA
1 GACATTGGACTTA
470438 GAAAGAGATG
Statistics
Matches: 138, Mismatches: 22, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
155 6 0.04
156 120 0.87
157 9 0.07
158 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (156 bp):
GACATTGGACTTAAAGATGAAAAGAATGCCAATGTGCTAATTCAGAGCCAGCGAAATTAGACTTA
AAAATAATACGAGTGCCAATGTACTGATTCAAAGCCAACGACATTAGACTTAAAAATGAAAAAGG
TACCAATATCTGATTCAAGGCCAGCT
Found at i:470554 original size:32 final size:32
Alignment explanation
Indices: 470518--470687 Score: 109
Period size: 32 Copynumber: 5.5 Consensus size: 32
470508 CACCAACTCA
** *
470518 TGTGGGCTTTTGAAAGGGTTACCATCGA-TTT
1 TGTGGGCTTTAAAAAGGGTTACCACCGACTTT
*
470549 GTGTGGGCTTTAAAAAGGGTTGCCACCGACTTT
1 -TGTGGGCTTTAAAAAGGGTTACCACCGACTTT
* * * ** *
470582 TATGGGCTTTAAAAAGGGTTGCTACAAACTTG
1 TGTGGGCTTTAAAAAGGGTTACCACCGACTTT
* * * * *
470614 TGTGAGCTTTAAAAAAGGTTGCCACGGA--GT
1 TGTGGGCTTTAAAAAGGGTTACCACCGACTTT
* * * * *
470644 TGTGGACTTTAAAAAAGG-TGCCACGGA--GT
1 TGTGGGCTTTAAAAAGGGTTACCACCGACTTT
470673 TGTGGGCTTTAAAAA
1 TGTGGGCTTTAAAAA
470688 AGGTGCCATG
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
29 25 0.21
30 16 0.14
32 73 0.62
33 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (32 bp):
TGTGGGCTTTAAAAAGGGTTACCACCGACTTT
Found at i:470667 original size:29 final size:29
Alignment explanation
Indices: 470611--471231 Score: 404
Period size: 29 Copynumber: 20.9 Consensus size: 29
470601 TGCTACAAAC
470611 TTGTGTGAGCTTTAAAAAAGGTTGCCACGGAG
1 TTGTG-GA-CTTTAAAAAAGG-TGCCACGGAG
470643 TTGTGGACTTTAAAAAAGGTGCCACGGAG
1 TTGTGGACTTTAAAAAAGGTGCCACGGAG
* * *
470672 TTGTGGGCTTTAAAAAAGGTGCCATGAAG
1 TTGTGGACTTTAAAAAAGGTGCCACGGAG
* * * *
470701 TTGTGAACTTTTGAAAAATGATGCCACAGAG
1 TTGTGGAC-TTT-AAAAAAGGTGCCACGGAG
* ** * **
470732 TTGTGAACTTTGAAAATTGTTGCCACAAAG
1 TTGTGGACTTT-AAAAAAGGTGCCACGGAG
* * *** **
470762 TCGTGGACTTTGAACTTGGTGCCACTAAG
1 TTGTGGACTTTAAAAAAGGTGCCACGGAG
* * * *
470791 TTGTGGACTTTCAAAAGGGTGTCACGAAG
1 TTGTGGACTTTAAAAAAGGTGCCACGGAG
*
470820 TTGTGGACTTTTAGAAAAAAGTGCCACGGAG
1 TTGTGGAC-TTTA-AAAAAGGTGCCACGGAG
* * *
470851 TTGTGGACTTT-AAAAAGAGTGTCACAGAA
1 TTGTGGACTTTAAAAAAG-GTGCCACGGAG
* *
470880 TTGTAGACTTT-AAAAAGGATGCCACGAAG
1 TTGTGGACTTTAAAAAAGG-TGCCACGGAG
* * ***
470909 TTATGGACTTTTGAAAAATGGTGCCATTAAG
1 TTGTGGAC-TTT-AAAAAAGGTGCCACGGAG
* ** * * **
470940 TCGTGGACTTTGGAAAATGTGCTATTGAG
1 TTGTGGACTTTAAAAAAGGTGCCACGGAG
** * * ***
470969 TCATGGACTTTGAAAAATGGTACCTTAGAG
1 TTGTGGACTTT-AAAAAAGGTGCCACGGAG
* *
470999 TTGTGGACTTTAAAAATA-ATGCCATGGAG
1 TTGTGGACTTTAAAAA-AGGTGCCACGGAG
* * *
471028 TTGTGGACTTTGAAAAGGGTGCCACGAAG
1 TTGTGGACTTTAAAAAAGGTGCCACGGAG
*
471057 TTGTGGACTTTAGAAAAGGGTGCCACGGAG
1 TTGTGGACTTTA-AAAAAGGTGCCACGGAG
* * *
471087 TTGTGGACTTT-GAGAAGAGTTCCACGGAG
1 TTGTGGACTTTAAAAAAG-GTGCCACGGAG
* **
471116 TTGTGGACTTTAGAAAAGGATGCCATAGAG
1 TTGTGGACTTTAAAAAAGG-TGCCACGGAG
*
471146 TTGTGGACTTTAAAAAGGGGTGCCACGGAG
1 TTGTGGACTTTAAAAA-AGGTGCCACGGAG
*** * * *
471176 TTGCAAACTTTAGAAAAGGGTACCACGAAG
1 TTGTGGACTTTA-AAAAAGGTGCCACGGAG
* *
471206 TTGTGGACTTTGAAAAGGAGTGCCAC
1 TTGTGGACTTTAAAAAAG-GTGCCAC
471232 AGAGCCACGG
Statistics
Matches: 472, Mismatches: 98, Indels: 40
0.77 0.16 0.07
Matches are distributed among these distances:
28 9 0.02
29 218 0.46
30 170 0.36
31 64 0.14
32 11 0.02
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.28
Consensus pattern (29 bp):
TTGTGGACTTTAAAAAAGGTGCCACGGAG
Found at i:470733 original size:89 final size:87
Alignment explanation
Indices: 470611--471230 Score: 431
Period size: 89 Copynumber: 6.9 Consensus size: 87
470601 TGCTACAAAC
* *
470611 TTGTGTGAGCTTTAAAAAAGGTTGCCACGGAGTTGTGGACTTTAAAAAAGGTGCCACGGAGTTGT
1 TTGTG-GA-CTTTGAAAAAGGGTGCCAC-GAGTTGTGGACTTTAAAAAAGGTGCCACGGAGTTGT
* *
470676 GGGCTTTAAAAAAGGTGCCATGAAG
63 GGACTTTGAAAAAGGTGCCATGAAG
* * * * ** * ** *
470701 TTGTGAACTTTTGAAAAATGATGCCACAGAGTTGTGAACTTTGAAAATTGTTGCCACAAAGTCGT
1 TTGTGGAC-TTTGAAAAAGGGTGCCAC-GAGTTGTGGACTTT-AAAAAAGGTGCCACGGAGTTGT
***
470766 GGACTTTGAACTTGGTGCCACT-AAG
63 GGACTTTGAAAAAGGTGCCA-TGAAG
* * *
470791 TTGTGGACTTT-CAAAAGGGTGTCACGAAGTTGTGGACTTTTAGAAAAAAGTGCCACGGAGTTGT
1 TTGTGGACTTTGAAAAAGGGTGCCACG-AGTTGTGGAC-TTTA-AAAAAGGTGCCACGGAGTTGT
470855 GGACTTT-AAAAAGAGTGTCACA-GAA-
63 GGACTTTGAAAAAG-GTG-C-CATGAAG
* * * * *** *
470880 TTGTAGACTTT-AAAAAGGATGCCACGAAGTTATGGACTTTTGAAAAATGGTGCCATTAAGTCGT
1 TTGTGGACTTTGAAAAAGGGTGCCACG-AGTTGTGGAC-TTT-AAAAAAGGTGCCACGGAGTTGT
* * *
470944 GGACTTTGGAAAATGTGCTATTG-AG
63 GGACTTTGAAAAAGGTGCCA-TGAAG
** * * * *
470969 TCATGGACTTTGAAAAATGGTACCTTA-GAGTTGTGGACTTTAAAAATA-ATGCCATGGAGTTGT
1 TTGTGGACTTTGAAAAAGGGTGCC--ACGAGTTGTGGACTTTAAAAA-AGGTGCCACGGAGTTGT
* *
471032 GGACTTTGAAAAGGGTGCCACGAAG
63 GGACTTTGAAAAAGGTGCCATGAAG
* * *
471057 TTGTGGACTTT-AGAAAAGGGTGCCACGGAGTTGTGGACTTT-GAGAAGAGTTCCACGGAGTTGT
1 TTGTGGACTTTGA-AAAAGGGTGCCAC-GAGTTGTGGACTTTAAAAAAG-GTGCCACGGAGTTGT
471120 GGACTTT-AGAAAAGGATGCCAT-AGAG
63 GGACTTTGA-AAAAGG-TGCCATGA-AG
*** * * *
471146 TTGTGGACTTT-AAAAAGGGGTGCCACGGAGTTGCAAACTTTAGAAAAGGGTACCACGAAGTTGT
1 TTGTGGACTTTGAAAAA-GGGTGCCAC-GAGTTGTGGACTTTA-AAAAAGGTGCCACGGAGTTGT
*
471210 GGACTTTGAAAAGGAGTGCCA
63 GGACTTTGAAAAAG-GTGCCA
471231 CAGAGCCACG
Statistics
Matches: 413, Mismatches: 84, Indels: 66
0.73 0.15 0.12
Matches are distributed among these distances:
86 2 0.00
87 7 0.02
88 121 0.29
89 172 0.42
90 101 0.24
91 9 0.02
92 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.28
Consensus pattern (87 bp):
TTGTGGACTTTGAAAAAGGGTGCCACGAGTTGTGGACTTTAAAAAAGGTGCCACGGAGTTGTGGA
CTTTGAAAAAGGTGCCATGAAG
Found at i:472704 original size:14 final size:14
Alignment explanation
Indices: 472669--472708 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
472659 TTTGCCTTTG
*
472669 TTCTTTTTTTTTGT
1 TTCTTTTTTTGTGT
472683 TT-TTTTTTTGTGT
1 TTCTTTTTTTGTGT
*
472696 TTCTCTTTTTGTG
1 TTCTTTTTTTGTG
472709 CCTTTGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.07, G:0.12, T:0.80
Consensus pattern (14 bp):
TTCTTTTTTTGTGT
Found at i:478695 original size:19 final size:19
Alignment explanation
Indices: 478667--478707 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
478657 TGACTATAGA
478667 ATGGACATGT-CAAAATGC
1 ATGGACATGTACAAAATGC
478685 ATGGAACATGTCACAAAATGC
1 ATGG-ACATGT-ACAAAATGC
478706 AT
1 AT
478708 AAATATGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 6 0.30
21 10 0.50
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (19 bp):
ATGGACATGTACAAAATGC
Found at i:479630 original size:51 final size:53
Alignment explanation
Indices: 479570--479707 Score: 165
Period size: 53 Copynumber: 2.6 Consensus size: 53
479560 TTTTCTGCTC
* * * *
479570 GTATAGATACATTGAAGAATGTATCGATACATTT-GGAT-CAAAACCTAAAAT
1 GTATAGATACAATGAAAAATGTATCGATACATTTGGGATAAAAAACCCAAAAT
* * * *
479621 GTATTGATACAATGAATAATGTATTGATACATTTGGGGTAAAAAACCCAAAAT
1 GTATAGATACAATGAAAAATGTATCGATACATTTGGGATAAAAAACCCAAAAT
*
479674 GTATCA-ATACAATAAAAAATGTATCGATACATTT
1 GTAT-AGATACAATGAAAAATGTATCGATACATTT
479708 TCTTTTCAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
51 30 0.41
52 3 0.04
53 40 0.55
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (53 bp):
GTATAGATACAATGAAAAATGTATCGATACATTTGGGATAAAAAACCCAAAAT
Found at i:486242 original size:162 final size:162
Alignment explanation
Indices: 485977--486358 Score: 633
Period size: 162 Copynumber: 2.4 Consensus size: 162
485967 GGTAAAAACA
* * * *
485977 AATATAAAAGATTAG-AAAAA-AAATATTAGAATTTATCCCAGTAATACCACTTTAATTTTATTT
1 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
* *
486040 TATTTATTTTTAAAAATATCATTTCGTACCCTAATGGAAGCTCGAAAGAATATGAAAGGTTTTTG
66 TATTTATTTTTAAAAATACCATTTCGTACCCTAATGGAAGCTCGAAAGAATATGAAAAGTTTTTG
*
486105 AAATCTTTTATACCCCTATGAATGCCCATAGG
131 AAATCTTTTATACCCCTACGAATGCCCATAGG
*
486137 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTGAGTTAATTT
1 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
* *
486202 TATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCTTGAAAGAATATGAAAAGTTTTTG
66 TATTTATTTTTAAAAATACCATTTCGTACCCTAATGGAAGCTCGAAAGAATATGAAAAGTTTTTG
* *
486267 AAATCTTTTATACCCTTACGGATGCCCATAGG
131 AAATCTTTTATACCCCTACGAATGCCCATAGG
*
486299 AATATAAAATATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTT
1 AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTT
486359 TGTCGTAACG
Statistics
Matches: 206, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
160 15 0.07
161 5 0.02
162 186 0.90
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (162 bp):
AATATAAAAGATTAGAAAAAATAAATATTAGAATTTATCCCAATAATACCAATTTAAGTTAATTT
TATTTATTTTTAAAAATACCATTTCGTACCCTAATGGAAGCTCGAAAGAATATGAAAAGTTTTTG
AAATCTTTTATACCCCTACGAATGCCCATAGG
Found at i:489524 original size:52 final size:52
Alignment explanation
Indices: 489446--489574 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
489436 CGAAATATGA
* * *
489446 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGC
* *
489498 AAATTTGCCTGCATATATCGATACATTTTATAATGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGC
489550 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
489575 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGC
Found at i:489587 original size:52 final size:51
Alignment explanation
Indices: 489446--489594 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
489436 CGAAATATGA
* *
489446 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATATGGGC
* * *
489498 AAATTTGCCTGCATATATCGATACATTTTATAATGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATATGGGC
*
489550 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
489595 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATATGGGC
Found at i:489601 original size:13 final size:13
Alignment explanation
Indices: 489583--489607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
489573 CAAAGATCAG
489583 TGTATCGATACAA
1 TGTATCGATACAA
489596 TGTATCGATACA
1 TGTATCGATACA
489608 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:489685 original size:33 final size:33
Alignment explanation
Indices: 489648--489714 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
489638 AGTAGCTTAA
489648 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* * ***
489681 ATTGTATTGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
489714 A
1 A
489715 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:490613 original size:67 final size:68
Alignment explanation
Indices: 490491--490617 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
490481 ATTGGGTTTT
* * *
490491 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
490556 AGA
66 AGA
* * * *
490559 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
490618 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:490841 original size:49 final size:49
Alignment explanation
Indices: 490622--490948 Score: 410
Period size: 43 Copynumber: 6.9 Consensus size: 49
490612 AGATGAGAAA
* *
490622 AAGGATGCCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGG
1 AAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G
* * *
490673 AAAACGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
490718 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
490767 AA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* *
490815 AAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTT----A--
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
*
490858 AAGGTGCCAATGTGCTGATTCAAGGCCAGGTACATTGGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
** * *
490907 AAGGTGCCAACATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
490949 TAGAAGGGTT
Statistics
Matches: 241, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
43 77 0.32
45 1 0.00
47 2 0.01
48 48 0.20
49 76 0.32
52 34 0.14
53 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
Found at i:490882 original size:140 final size:143
Alignment explanation
Indices: 490622--490948 Score: 498
Period size: 140 Copynumber: 2.3 Consensus size: 143
490612 AGATGAGAAA
* *
490622 AAGGATGCCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAACGTGCCAATA
1 AAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG-AAACGTGCCAATA
* * *
490687 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
64 TGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACA
*
490752 TTGGGCTTAAAGATG
129 TTGGACTTAAAGATG
* *
490767 AA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATGTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAACGTGCCAATATG
*
490829 CTAAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGGTACATT
66 CTAAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
490894 GGACTTAAAGATG
131 GGACTTAAAGATG
** * *
490907 AAGGTGCCAACATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
490949 TAGAAGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
140 87 0.52
141 35 0.21
142 1 0.01
143 42 0.25
144 1 0.01
145 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (143 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAACGTGCCAATATG
CTAAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATT
GGACTTAAAGATG
Found at i:491029 original size:33 final size:33
Alignment explanation
Indices: 490946--491149 Score: 310
Period size: 33 Copynumber: 6.3 Consensus size: 33
490936 CGATATTGGA
*
490946 CTTTAGAAG--GGTTGCCACCAACTTGTGTGGG
1 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
* *
490977 CTTTAG-AGAGGGTTGCCACCAACTTGTGTGGG
1 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
*
491009 CTTTGGAAGAAGGTTGCCACCGACTTGTGTGGG
1 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
*
491042 CTTT-G-AGAAGGGTTGCCACTGACTTGTGTGGG
1 CTTTAGAAGAA-GGTTGCCACCGACTTGTGTGGG
491074 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
1 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
491107 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
1 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
491140 CTTTGAGAAG
1 CTTT-AGAAG
491150 GTGAAAGATG
Statistics
Matches: 161, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.01
31 10 0.06
32 53 0.33
33 87 0.54
34 9 0.06
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (33 bp):
CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
Found at i:491059 original size:65 final size:64
Alignment explanation
Indices: 490950--491149 Score: 310
Period size: 65 Copynumber: 3.0 Consensus size: 64
490940 ATTGGACTTT
* *
490950 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGCTTTGG
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTGG
491015 A
64 A
* *
491016 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
491081 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAG--GGTTGCCACCGACTTGTGTGGGCTTTG-
491146 GA
63 GA
491148 AG
1 AG
491150 GTGAAAGATG
Statistics
Matches: 124, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
64 5 0.04
65 83 0.67
66 32 0.26
67 4 0.03
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (64 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:491118 original size:98 final size:97
Alignment explanation
Indices: 490946--491150 Score: 349
Period size: 98 Copynumber: 2.1 Consensus size: 97
490936 CGATATTGGA
*
490946 CTTT-AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAGGGTTGCCACCAACTTGTGTGGGC
1 CTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGTGGGC
*
491010 TTTGGAAGAAGGTTGCCACCGACTTGTGTGGG
66 TTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
** *
491042 CTTTGAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
1 CTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCAACTTGTGTGGG
491107 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
65 CTTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
491140 CTTTGAGAAGG
1 CTTTGAGAAGG
491151 TGAAAGATGC
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
96 4 0.04
97 31 0.30
98 67 0.66
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.28
Consensus pattern (97 bp):
CTTTGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGTGGGC
TTTAGAAGAAGGTTGCCACCGACTTGTGTGGG
Found at i:491202 original size:33 final size:33
Alignment explanation
Indices: 491153--491356 Score: 189
Period size: 34 Copynumber: 6.4 Consensus size: 33
491143 TGAGAAGGTG
**
491153 AAAGA-TGCCACAAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
*
491185 ATAAG-GTGCCACGAAGTTGTGGACTTTAAAAGGGAA
1 A-AAGAGTGCCACGGAGTTGTGGAC-TTAAAA-GG-A
* **
491221 AAAGAGTGCCACGGAGTTGTGGGCTT-TGA-G-
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
491251 AATG-GTTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAG-TGCCACGGAGTTGTGGACTTAAAAGG-A
*
491285 AAAGAGTGCCACGGAGTTGTGGGCTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
491316 ---G-GTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
491345 AAAGAGTGCCAC
1 AAAGAGTGCCAC
491357 AGAATTGTAG
Statistics
Matches: 141, Mismatches: 13, Indels: 35
0.75 0.07 0.19
Matches are distributed among these distances:
27 24 0.17
28 2 0.01
29 1 0.01
30 22 0.16
31 1 0.01
32 4 0.03
33 28 0.20
34 32 0.23
35 8 0.06
36 19 0.13
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:491299 original size:64 final size:64
Alignment explanation
Indices: 491189--491402 Score: 265
Period size: 61 Copynumber: 3.3 Consensus size: 64
491179 AAAGGAATAA
* *
491189 GGTGCCACGAAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAT
1 GGTGCCACGGAGTTGTGGAC-TTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAA
491254 G
64 G
* *
491255 GTTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-A-AAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAAG
* * *
491316 GGTGCCACGGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACAGAATTGTAGGCTTTGCAGAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTG-AG-AAA
491380 G
64 G
* * * *
491381 GATGACACTGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
491403 TGAGAAGAGA
Statistics
Matches: 130, Mismatches: 13, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
60 22 0.17
61 31 0.24
62 1 0.01
63 3 0.02
64 28 0.22
65 27 0.21
66 18 0.14
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.22
Consensus pattern (64 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAGAAAG
Found at i:491343 original size:27 final size:27
Alignment explanation
Indices: 491284--491343 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
491274 CTTAGAAGGA
* *
491284 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
491311 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
491338 AAAAGG
1 AAAAGG
491344 AAAAGAGTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:492325 original size:21 final size:21
Alignment explanation
Indices: 492299--492352 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
492289 ACCCTTGAGA
492299 TTGCCCCATGTTGTTTTGTGG
1 TTGCCCCATGTTGTTTTGTGG
492320 TTGCCCCATGTTGTTTTGTGG
1 TTGCCCCATGTTGTTTTGTGG
*
492341 TTGCCCCTTGTT
1 TTGCCCCATGTT
492353 TAGGTGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.04, C:0.22, G:0.26, T:0.48
Consensus pattern (21 bp):
TTGCCCCATGTTGTTTTGTGG
Found at i:492425 original size:26 final size:26
Alignment explanation
Indices: 492396--492447 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
492386 GTGAAAAGGG
*
492396 GTTT-TTCCTTTCTTTTCTTTTTTTTT
1 GTTTGTTCCTTTC-TTCCTTTTTTTTT
**
492422 GTTTGTTTGTTTCTTCCTTTTTTTTT
1 GTTTGTTCCTTTCTTCCTTTTTTTTT
492448 CCTTTTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (26 bp):
GTTTGTTCCTTTCTTCCTTTTTTTTT
Found at i:492455 original size:36 final size:34
Alignment explanation
Indices: 492396--492471 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 34
492386 GTGAAAAGGG
*
492396 GTTTTTCCTTTCTTTTCTTTTTTTTTG-TTTGTTT
1 GTTTTTCCTTTCTTTTC-CTTTTTTTGCTTTGTTT
*
492430 GTTTCTTCCTTTTTTTTTCCTTTTTTTGCTTTGTTT
1 GTTT-TTCC-TTTCTTTTCCTTTTTTTGCTTTGTTT
*
492466 CTTTTT
1 GTTTTT
492472 TGGAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 4 0.11
35 14 0.39
36 18 0.50
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (34 bp):
GTTTTTCCTTTCTTTTCCTTTTTTTGCTTTGTTT
Found at i:492727 original size:11 final size:11
Alignment explanation
Indices: 492711--492767 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 11
492701 ACTTTGCACC
492711 TTTTTTTGTG-
1 TTTTTTTGTGT
492721 TTTTTTT-T-T
1 TTTTTTTGTGT
*
492730 TGTTTTTG-GT
1 TTTTTTTGTGT
492740 TTTGTTTTGT-T
1 TTT-TTTTGTGT
492751 TTTTTTT-TGT
1 TTTTTTTGTGT
492761 TTTTTTT
1 TTTTTTT
492768 TCATCACTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 8 0.21
10 22 0.56
11 9 0.23
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTGTGT
Found at i:492750 original size:28 final size:28
Alignment explanation
Indices: 492711--492764 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
492701 ACTTTGCACC
492711 TTTTTTTGTGTTTTTTTTTTGTTTTTGG
1 TTTTTTTGTGTTTTTTTTTTGTTTTTGG
492739 TTTTGTTT-TGTTTTTTTTTTGTTTTT
1 TTTT-TTTGTGTTTTTTTTTTGTTTTT
492765 TTTTCATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (28 bp):
TTTTTTTGTGTTTTTTTTTTGTTTTTGG
Found at i:492768 original size:11 final size:11
Alignment explanation
Indices: 492721--492768 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
492711 TTTTTTTGTG
492721 TTTTTT-TTTT
1 TTTTTTGTTTT
* *
492731 GTTTTTGGTTT
1 TTTTTTGTTTT
*
492742 TGTTTTGTTTT
1 TTTTTTGTTTT
492753 TTTTTTGTTTT
1 TTTTTTGTTTT
492764 TTTTT
1 TTTTT
492769 CATCACTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
10 5 0.16
11 26 0.84
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:499707 original size:52 final size:52
Alignment explanation
Indices: 499629--499754 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
499619 CGAAATATGA
* * *
499629 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGC
*
499681 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGC
499733 AAATTTGCCTGCATGTATCGAT
1 AAATTTGCCTGCATGTATCGAT
499755 TCAAAGATCA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATATGGGC
Found at i:499770 original size:52 final size:51
Alignment explanation
Indices: 499629--499777 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
499619 CGAAATATGA
* *
499629 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATATGGGC
* *
499681 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATATGGGC
* *
499733 AAATTTGCCTGCATGTATCGATTCA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
499778 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATATGGGC
Found at i:499784 original size:13 final size:13
Alignment explanation
Indices: 499766--499790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
499756 CAAAGATCAG
499766 TGTATCGATACAA
1 TGTATCGATACAA
499779 TGTATCGATACA
1 TGTATCGATACA
499791 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:499858 original size:20 final size:20
Alignment explanation
Indices: 499829--499886 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
499819 GCAGTAGCTT
499829 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
499848 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
499868 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
499887 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:501259 original size:13 final size:13
Alignment explanation
Indices: 501239--501281 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
501229 TTTTCTTCTA
501239 TTTTTCTCT-T-T
1 TTTTTCTCTCTCT
*
501250 TTCTTCTCTCTCT
1 TTTTTCTCTCTCT
501263 TTTTTCTCTCTCT
1 TTTTTCTCTCTCT
501276 TCTTTT
1 T-TTTT
501282 AGCTGAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 8 0.30
12 1 0.04
13 14 0.52
14 4 0.15
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCTCTCTCT
Found at i:501575 original size:17 final size:17
Alignment explanation
Indices: 501562--501605 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
501552 GATAAATGAC
501562 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
501579 TAAATAAAATAAATTTAAA
1 TAAATAAAATAAA--TAAA
501598 -AAATAAAA
1 TAAATAAAA
501606 GGCTAAAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.52
18 8 0.32
19 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATAAAATAAATAAA
Found at i:501576 original size:9 final size:9
Alignment explanation
Indices: 501562--501605 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
501552 GATAAATGAC
501562 TAAATAAAA
1 TAAATAAAA
501571 TAAAT-AAA
1 TAAATAAAA
501579 TAAATAAAA
1 TAAATAAAA
*
501588 TAAATTTAAA
1 TAAA-TAAAA
501598 -AAATAAAA
1 TAAATAAAA
501606 GGCTAAAACC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 12 0.39
9 15 0.48
10 4 0.13
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
TAAATAAAA
Found at i:502069 original size:165 final size:166
Alignment explanation
Indices: 501829--503298 Score: 1652
Period size: 165 Copynumber: 8.9 Consensus size: 166
501819 TTTTAAATTG
* * * * * *
501829 AGAAAAAT-TCTCCTTAAAAAATTTATGAAGTAGAAAACTCGGTATTTCAGAAAAAGGGAATTTC
1 AGAAAAATCTC-CCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGGAATTTC
* * *
501893 AAGAGAAAAAATTTAAAATTCATGGAAATGAATGAATTTTTGAAAA-TGAATTAATTTGAAATAA
65 AAG-GAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAA
501957 ATAATAATATTTGATGAATTTTAAAAATCAAGAAA-CA
129 ATAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* *
501994 AGAAAAATCTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAAGAATTTTA
1 AGAAAAATCTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGGAATTTCA
* * *
502059 GGGTAAAAAATTCAAAATTTATGAAAATGAATGAATATTTGAAAACTGAATTAATATGAAATAAA
66 AGG-AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAA
502124 TAATAATA-TT--TG-ATTTTAAAAATCAA-AAACCA
130 TAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* * * ** * *
502156 AGAAAAAT-TCCCCAAAAAAATTTATGGAGTAGAAAACTCGGTATTTCGGAAAAAAGGGACTTCA
1 AGAAAAATCTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGGAATTTCA
* * *
502220 AAGAAAAAATTCAAAATTTATGGAAATTAATGAATTTTTGAAAACTGAATTAATTTGAAATAAAT
66 AGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAAT
*
502285 AATAACATTTGATGAATTTTAAAAAT-AA-AAAGCCA
131 AATAATATTTGATGAATTTTAAAAATCAAGAAA-CCA
* * * *
502320 AGAAAAATCCCTCCGAAAAAAA-TTACGGAGTAGAAAACTCTGTATTTTAGAAAAAAAGGAAATT
1 AGAAAAATCTC-CCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCA-AAAAAAAGG-AATT
* * * *
502384 TCAAGGAAAAAATTCAAAATTTATGGAAATGAATAAATTTTTGAAAAGTGAATTACTGTGAAATA
63 TCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATA
*
502449 AATAATAATATTTGATGAATTTTAAAAATTAAGAAA-CA
128 AATAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* * * * *
502487 AGAAAAATCT--C-AAAAAAATTTATGGAGTGGAAAACTCGGTATTT-TAGAAAAAGGAGATTTC
1 AGAAAAATCTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGGA-ATTTC
* * * *
502548 AAGGGAAAAAATTTAAAATTCATGGAAATGAAT-ACATTTTTTAAAACTGAATTAATTTGAAATA
65 AA-GGAAAAAATTCAAAATTTATGGAAATGAATGA-ATTTTTGAAAACTGAATTAATATGAAATA
502612 AATAATAATATTTGATGAATTTTAAAAATCAAGAAA-CA
128 AATAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* * *
502650 AGAAAAAT-TCCCATGAAAAAATTTACGGAGTAGAAAACTCCATATTTCAAAAAAAAAAAAGAAT
1 AGAAAAATCTCCC-TAAAAAAATTTACGGAGTAGAAAACTCCGTATTTC---AAAAAAAAGGAAT
*
502714 TTCAAGGCAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAATATGAAA
62 TTCAAGG-AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
502779 TAAATAATAATATTT--T--ATTTTAAAAATCAA-AAACCA
126 TAAATAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* * * * * * *
502815 AGAAAAAT-TCTACTAAAAAAATTTATGGAGTAGAAAACTCGGTATTTCGAAGAAAGGGGATTTC
1 AGAAAAATCTC-CCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGGAATTTC
* * * * * * *
502879 AAGGAGAAAATTCAAAATTCATGAAAATTAATGAATTTTTGAAAACTAAATTAATGTCAAATAAA
65 AAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAA
* * * *
502944 TAAAAATATTTAATGAATTTTAAAAAT-AAAAAAGCA
130 TAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* * * * * *
502980 AGAAAAATCCCCCCGAAAAAAA-TTACAGAGTAGAAAACTTCGTATTTTAGAAACAAAGAGAAAT
1 AGAAAAAT-CTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCA-AAA-AAA-AGGAAT
* * * * * *
503044 TTGAAAGAAAAAATTCAAAATTCATGGAAATGAATGAATTTTTGAAAAGTGAATTACTGTGAAAT
62 TTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAAT
* * *
503109 AAATAATAATATTTGATGAATTTTAGAAATTATGAAA-CA
127 AAATAATAATATTTGATGAATTTTAAAAATCAAGAAACCA
* * * * *
503148 AG-AAAATCCCCCCCAAAAAAATTTACAGAGTTGAAAACTCCGTATTTC-GAAAAAAGTGAAATT
1 AGAAAAAT-CTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAG-G-AATT
* * * * * * * * *
503211 TCAAGAAAAAAATTAAAAATTTTTGAAAATGAATGAATTTTTGATAACTGATTTACTAGGAATTA
63 TCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATA
* *
503276 AATGATAATATTTGAGGAATTTT
128 AATAATAATATTTGATGAATTTT
503299 GAAGTTTAAT
Statistics
Matches: 1122, Mismatches: 138, Indels: 89
0.83 0.10 0.07
Matches are distributed among these distances:
160 64 0.06
161 119 0.11
162 56 0.05
163 115 0.10
164 54 0.05
165 223 0.20
166 163 0.15
167 123 0.11
168 117 0.10
169 79 0.07
170 9 0.01
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (166 bp):
AGAAAAATCTCCCTAAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGGAATTTCA
AGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAAT
AATAATATTTGATGAATTTTAAAAATCAAGAAACCA
Found at i:502101 original size:18 final size:19
Alignment explanation
Indices: 502080--502115 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
502070 TCAAAATTTA
502080 TGAAAA-TGAATGAATATT
1 TGAAAACTGAATGAATATT
*
502098 TGAAAACTGAATTAATAT
1 TGAAAACTGAATGAATAT
502116 GAAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (19 bp):
TGAAAACTGAATGAATATT
Found at i:507379 original size:13 final size:13
Alignment explanation
Indices: 507361--507386 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
507351 CAATTTTTTG
507361 TGTATCGATACAT
1 TGTATCGATACAT
507374 TGTATCGATACAT
1 TGTATCGATACAT
507387 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.