Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 329 of 770
Found at i:100809044 original size:21 final size:21
Alignment explanation
Indices: 100808992--100809044 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
100808982 CCTATAGCAT
*
100808992 GGGCATGTCCAAGGGTCACAC
1 GGGCATGTCCCAGGGTCACAC
100809013 GGGCATGTCCCAGGGTCACAC
1 GGGCATGTCCCAGGGTCACAC
*
100809034 GGGCGTGTCCC
1 GGGCATGTCCC
100809045 TTAGACCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.32, G:0.36, T:0.15
Consensus pattern (21 bp):
GGGCATGTCCCAGGGTCACAC
Found at i:100810969 original size:71 final size:71
Alignment explanation
Indices: 100810870--100811016 Score: 258
Period size: 71 Copynumber: 2.1 Consensus size: 71
100810860 ATTAAAAATC
*
100810870 TTATAATTCTACAAATAAATTACATATTCGTATCTACCTTCATAACTTGGTATATTTAATTACTT
1 TTATAATTCTACAAATAAATTACATATTCGTATCTACCTTCATAACTTGGTATATTTAATCACTT
*
100810935 TTCTAT
66 TCCTAT
* *
100810941 TTATAATTCTACAAATACATTACATATTCGTATCTACCTTTATAACTTGGTATATTTAATCACTT
1 TTATAATTCTACAAATAAATTACATATTCGTATCTACCTTCATAACTTGGTATATTTAATCACTT
100811006 TCCTAT
66 TCCTAT
100811012 TTATA
1 TTATA
100811017 GTCTAATAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.46
Consensus pattern (71 bp):
TTATAATTCTACAAATAAATTACATATTCGTATCTACCTTCATAACTTGGTATATTTAATCACTT
TCCTAT
Found at i:100813814 original size:13 final size:13
Alignment explanation
Indices: 100813796--100813820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100813786 CCAAGCACAC
100813796 GCCCATGTCCCTG
1 GCCCATGTCCCTG
100813809 GCCCATGTCCCT
1 GCCCATGTCCCT
100813821 TACATATCCT
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:0.08, C:0.48, G:0.20, T:0.24
Consensus pattern (13 bp):
GCCCATGTCCCTG
Found at i:100815358 original size:23 final size:24
Alignment explanation
Indices: 100815328--100815380 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
100815318 ATTTCATGGA
100815328 TTATCATGCAATGAATATCT-AAT
1 TTATCATGCAATGAATATCTAAAT
100815351 TTATCATGCAATGAATATCTAAAT
1 TTATCATGCAATGAATATCTAAAT
100815375 TT-TCAT
1 TTATCAT
100815381 ACACTCAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (24 bp):
TTATCATGCAATGAATATCTAAAT
Found at i:100818357 original size:42 final size:43
Alignment explanation
Indices: 100818303--100818405 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
100818293 AATTTATGAA
** * *
100818303 TAAGACCATGTCTGGGACATTGGCATC-GTATCTG-ATTTCATG
1 TAAGACCATGTCTGGGACAGAGGCATCAATAT-TGAATTACATG
*
100818345 TAAGACCTTGTCTGGGACAGAGGCATCAATATTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGGCATCAATATTGAATTACATG
* *
100818388 TAAGACCACGTTTGGGAC
1 TAAGACCATGTCTGGGAC
100818406 GTCAGTGTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 26 0.51
43 25 0.49
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCAATATTGAATTACATG
Found at i:100825099 original size:31 final size:31
Alignment explanation
Indices: 100825045--100825104 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
100825035 TACAAAATAA
* *
100825045 TTATTGAATTATTCAAAATTTTTTATTTAAG
1 TTATCGAATTATTCAAAAGTTTTTATTTAAG
* *
100825076 TTATCGAATTGTTTAAAAGTTTTTATTTA
1 TTATCGAATTATTCAAAAGTTTTTATTTA
100825105 TGTCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
TTATCGAATTATTCAAAAGTTTTTATTTAAG
Found at i:100830422 original size:14 final size:14
Alignment explanation
Indices: 100830387--100830429 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
100830377 AATTTTAGTG
*
100830387 TTAATTAAATTATAG
1 TTAATTAAATTA-AA
*
100830402 TT-TTTAAATTAAA
1 TTAATTAAATTAAA
100830415 TTAATTAAATTAAA
1 TTAATTAAATTAAA
100830429 T
1 T
100830430 GTTGTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 3 0.12
14 19 0.79
15 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TTAATTAAATTAAA
Found at i:100830766 original size:44 final size:44
Alignment explanation
Indices: 100830704--100830790 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
100830694 CAAGATTAAA
*
100830704 ATTTCAAAAATTTCAAAGTACAAGGACAATAATTGATCAAATTG
1 ATTTCAAAAATTTAAAAGTACAAGGACAATAATTGATCAAATTG
*
100830748 ATTTCAAAATTTTAAAAGTACAAGGACAATAATTGATCAAATT
1 ATTTCAAAAATTTAAAAGTACAAGGACAATAATTGATCAAATT
100830791 AAAATACATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (44 bp):
ATTTCAAAAATTTAAAAGTACAAGGACAATAATTGATCAAATTG
Found at i:100830805 original size:29 final size:28
Alignment explanation
Indices: 100830759--100830818 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
100830749 TTTCAAAATT
*
100830759 TTAAAAGTACAAGGACAATAATTGATCAAA
1 TTAAAAGTACAAGGACAA-AATTCA-CAAA
* *
100830789 TTAAAA-TACATGTACAAAATTCACAAA
1 TTAAAAGTACAAGGACAAAATTCACAAA
100830816 TTA
1 TTA
100830819 CGCAAAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.26
28 5 0.19
29 9 0.33
30 6 0.22
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (28 bp):
TTAAAAGTACAAGGACAAAATTCACAAA
Found at i:100834470 original size:46 final size:46
Alignment explanation
Indices: 100834389--100834537 Score: 169
Period size: 46 Copynumber: 3.2 Consensus size: 46
100834379 ATGTCAATTC
*
100834389 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCG-GAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAG-GCTGATG
* *
100834436 CATGTCCCTGACATGTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATG
* * * *
100834482 CATGTCCCAGACATGTCTTACTCTAGCATT-CGTCTCGATGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTACATCTCGAGGCTGATG
100834528 CCATGTCCCA
1 -CATGTCCCA
100834538 TACTGGTCTT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
46 62 0.70
47 27 0.30
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATG
Found at i:100835989 original size:27 final size:27
Alignment explanation
Indices: 100835957--100836050 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 27
100835947 TAGGAAATGA
*
100835957 AATGAAATGAAAGCCTTTGTGATGAAT
1 AATGAAATGAAAGCCTTTGTGACGAAT
*
100835984 AATGAAATGAAAGCCTTTGTGGCGAAT
1 AATGAAATGAAAGCCTTTGTGACGAAT
* * *
100836011 CATGAAATGAAAGCCTTTGTGGCAAAT
1 AATGAAATGAAAGCCTTTGTGACGAAT
* *
100836038 CATGAAATTAAAG
1 AATGAAATGAAAG
100836051 GGAATGCCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATGAAATGAAAGCCTTTGTGACGAAT
Found at i:100838261 original size:46 final size:46
Alignment explanation
Indices: 100838194--100838327 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
100838184 ACATATATAC
* * *
100838194 ATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * *
100838240 ATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATATAT
1 ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
* * * *
100838286 A-CAT-GTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 ATC-TCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
100838328 CATACGCATG
Statistics
Matches: 73, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 6 0.08
46 43 0.59
47 24 0.33
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
ATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATCT
Found at i:100838319 original size:47 final size:47
Alignment explanation
Indices: 100838257--100838445 Score: 310
Period size: 47 Copynumber: 4.1 Consensus size: 47
100838247 ACACATTTCG
* * * *
100838257 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
100838304 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
100838351 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
*
100838398 CATTGGCCATTCGGCC--ATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
100838443 CAT
1 CAT
100838446 AAAATCCTAA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 31 0.23
47 104 0.77
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.30
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCA
Found at i:100844822 original size:40 final size:39
Alignment explanation
Indices: 100844777--100844906 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
100844767 CGGAATATAA
100844777 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
100844817 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
100844857 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
100844897 CCGGATATAA
1 CCGGATATAA
100844907 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:100844921 original size:40 final size:40
Alignment explanation
Indices: 100844793--100844944 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
100844783 ATAACCATGT
* * *
100844793 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
100844833 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
100844873 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
100844913 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
100844945 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:100844927 original size:80 final size:80
Alignment explanation
Indices: 100844793--100844942 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
100844783 ATAACCATGT
*
100844793 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
100844857 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
100844873 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
100844936 CCCGGAT
64 CCCGGAT
100844943 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:100852369 original size:27 final size:28
Alignment explanation
Indices: 100852339--100852408 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
100852329 ATAATAAGTC
*
100852339 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
100852366 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
100852394 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100852409 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:100860429 original size:27 final size:28
Alignment explanation
Indices: 100860399--100860468 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
100860389 ATAATAAGTC
*
100860399 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
100860426 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
100860454 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100860469 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:100862813 original size:19 final size:17
Alignment explanation
Indices: 100862784--100862834 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
100862774 ATAAAGAAAT
100862784 GAAAA-AAAAAAAAAGA
1 GAAAAGAAAAAAAAAGA
*
100862800 GAATATGAAGAAAAACAA-A
1 GAA-AAGAA-AAAAA-AAGA
100862819 GAAAAGAAAAAAAAAG
1 GAAAAGAAAAAAAAAG
100862835 TGTTCATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.18
17 6 0.21
18 6 0.21
19 9 0.32
20 2 0.07
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (17 bp):
GAAAAGAAAAAAAAAGA
Found at i:100864027 original size:29 final size:29
Alignment explanation
Indices: 100863994--100864072 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
100863984 CGAGATTGGA
*
100863994 ACTAAGTGTGCATGCTGGAAATATATGGC
1 ACTAAGTGTGCATGCTGGAAATATATGAC
100864023 ACTAAGTGTGCATGCTGGAAATATATGAC
1 ACTAAGTGTGCATGCTGGAAATATATGAC
100864052 ACTAAGTGTGCATGCTGGAAA
1 ACTAAGTGTGCATGCTGGAAA
100864073 AAATACGGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (29 bp):
ACTAAGTGTGCATGCTGGAAATATATGAC
Found at i:100864120 original size:59 final size:58
Alignment explanation
Indices: 100863994--100864120 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 58
100863984 CGAGATTGGA
* * * *
100863994 ACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGAC
1 ACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAAAGATATGAC
** * * *
100864052 ACTAAGTGTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGGC
1 ACTAAGTGTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGAC
*
100864111 ACTATGTGTG
1 ACTAAGTGTG
100864121 TGGGCTTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
58 18 0.32
59 38 0.67
60 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (58 bp):
ACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAAAGATATGAC
Found at i:100867630 original size:28 final size:29
Alignment explanation
Indices: 100867599--100867670 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
100867589 AAAATTGTAC
*
100867599 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATGTATAT
100867627 AGCACTAAGTGTGCGAGCTGAATGTATAT
1 AGCACTAAGTGTGCGAGCTGAATGTATAT
100867656 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
100867671 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATGTATAT
Found at i:100872237 original size:6 final size:6
Alignment explanation
Indices: 100872216--100872269 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
100872206 TATTAGAACT
* * *
100872216 AGAATC AAAATG AGAATC AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
100872265 AGAAT
1 AGAAT
100872270 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 2 0.05
6 33 0.85
7 3 0.08
8 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:100876441 original size:37 final size:37
Alignment explanation
Indices: 100876383--100876601 Score: 366
Period size: 37 Copynumber: 5.9 Consensus size: 37
100876373 GCTCAGACGA
* * *
100876383 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
100876420 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
* * *
100876457 ACTCTCCACACATAGTCATCGGGTCTTACCTGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
100876494 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
100876531 AATCTCCACACGTAGTCATCGGGTCTCACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
100876568 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
100876602 ATATATTTCC
Statistics
Matches: 172, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:100876816 original size:47 final size:47
Alignment explanation
Indices: 100876764--100876996 Score: 367
Period size: 47 Copynumber: 5.0 Consensus size: 47
100876754 TTTCACACTA
* * * * *
100876764 GCCATTCGGCTTTACCACATATATGCATGTTCATATTGACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
100876811 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
100876858 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
100876905 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
100876952 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
100876997 AAAATCCTAA
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 172 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:100876876 original size:22 final size:22
Alignment explanation
Indices: 100876849--100876971 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
100876839 GCTCACGTTC
100876849 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
100876871 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
100876895 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
100876918 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
100876942 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
100876965 ATCACAT
1 ATCACAT
100876972 ATATACACAT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 27 0.36
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:100879731 original size:40 final size:40
Alignment explanation
Indices: 100879659--100879859 Score: 271
Period size: 40 Copynumber: 5.0 Consensus size: 40
100879649 GTCACACCGA
* *
100879659 ATATCGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
100879699 ATATAGTAATTCGTACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
100879739 ATATAGTAACTCGCACAAATGCGTTCGGGACTTATCCCGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* * *
100879779 ATGTAATAACTCGCACAAATGCCTTCGGGACTTAGCCTGG
1 ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
100879819 A-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
100879860 TTATCATCCA
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 114 0.81
41 23 0.16
42 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
Found at i:100889060 original size:50 final size:49
Alignment explanation
Indices: 100888943--100889173 Score: 302
Period size: 50 Copynumber: 4.7 Consensus size: 49
100888933 CTAGTACGCA
* *
100888943 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* ** *
100888992 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * *
100889042 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TTATCCGA-TACACG
* * *
100889092 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* *
100889141 TAGTAGTCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
100889174 TCACAATAGA
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
49 72 0.46
50 83 0.54
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:100889139 original size:99 final size:99
Alignment explanation
Indices: 100888943--100889173 Score: 313
Period size: 99 Copynumber: 2.3 Consensus size: 99
100888933 CTAGTACGCA
* * *
100888943 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
100889008 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCCGATACACG
* *
100889042 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTAT-CGAGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAA-TTATCCG-GTACACATAGTAGCCTGCACT
* ** *
100889106 TAGTACTACACATGCGACC-AATTATCCGGTACACG
64 TAGTACTACACACGCGACCTAACCATCCGATACACG
* *
100889141 TAGTAGTCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
100889174 TCACAATAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 77 0.66
100 39 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCCGATACACG
Found at i:100894166 original size:49 final size:49
Alignment explanation
Indices: 100894107--100894286 Score: 243
Period size: 49 Copynumber: 3.7 Consensus size: 49
100894097 AGCTAGCTGG
* * * *
100894107 TACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGT
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGA
* * **
100894156 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGA
100894206 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGA
1 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGA
* * * *
100894255 TACACGTAGTAACCTACACTCAATACTACACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACA
100894287 CATGAACTCA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 71 0.62
50 43 0.38
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGA
Found at i:100894282 original size:99 final size:99
Alignment explanation
Indices: 100894107--100894287 Score: 290
Period size: 99 Copynumber: 1.8 Consensus size: 99
100894097 AGCTAGCTGG
* * *
100894107 TACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGTTACACGTAGTAGCCTG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAACCTA
* *
100894172 CACTTAGTACTACACACGTGACCTAACCATCTGA
66 CACTCAATACTACACACGTGACCTAACCATCTGA
* * *
100894206 TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAACCTA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAACCTA
100894271 CACTCAATACTACACAC
66 CACTCAATACTACACAC
100894288 ATGAACTCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (99 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGATACACGTAGTAACCTA
CACTCAATACTACACACGTGACCTAACCATCTGA
Found at i:100902688 original size:53 final size:53
Alignment explanation
Indices: 100902620--100902826 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
100902610 TTCCTTTTTA
* * * **
100902620 AACTAACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTACG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTACG
* * * * *
100902673 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTAACG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT-ACG
** * * * * * *
100902727 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCGTTGCCTTGTA-A
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC-T-TACG
* *
100902782 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
100902827 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 43 0.35
54 39 0.32
55 37 0.30
56 2 0.02
57 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTACG
Found at i:100903674 original size:6 final size:6
Alignment explanation
Indices: 100903665--100903743 Score: 72
Period size: 6 Copynumber: 12.8 Consensus size: 6
100903655 TATTAGAACT
* *
100903665 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGATTC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
100903714 AGTATC AGGTAAT- AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
100903744 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.07
6 48 0.80
7 5 0.08
8 3 0.05
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:100903707 original size:31 final size:31
Alignment explanation
Indices: 100903665--100903743 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
100903655 TATTAGAACT
*
100903665 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
100903696 AGATTCAGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
100903727 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
100903744 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:100903937 original size:29 final size:27
Alignment explanation
Indices: 100903866--100903943 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 27
100903856 GGCTGCCAGG
* *
100903866 TATTGTGACGAAGTCACCAGATACAGA
1 TATTGTGGCGAAGCCACCAGATACAGA
* *
100903893 TATTGTGGCTAGGCCACCAGA-ACAGATA
1 TATTGTGGCGAAGCCACCAGATACAG--A
100903921 TATATGTGGCGAAGCCACCAGAT
1 TAT-TGTGGCGAAGCCACCAGAT
100903944 TGTAGCGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
26 4 0.10
27 17 0.41
28 4 0.10
29 16 0.39
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (27 bp):
TATTGTGGCGAAGCCACCAGATACAGA
Found at i:100904006 original size:27 final size:26
Alignment explanation
Indices: 100903958--100904009 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
100903948 GCGAGGCTGC
*
100903958 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
100903984 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
100904010 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:100904018 original size:67 final size:68
Alignment explanation
Indices: 100903889--100904028 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
100903879 TCACCAGATA
* * * *
100903889 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCGAAGCCACCAGATTGTAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATGTGGCGAAGCCACCAGATTGCAGCGAGG
*
100903954 CTGC
65 CTAC
* *
100903958 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGC
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
100904022 TAC
66 TAC
100904025 CAGA
1 CAGA
100904029 ATGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 39 0.61
69 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATGTGGCGAAGCCACCAGATTGCAGCGAGGC
TAC
Found at i:100904311 original size:27 final size:27
Alignment explanation
Indices: 100904255--100904440 Score: 214
Period size: 27 Copynumber: 6.9 Consensus size: 27
100904245 GGGTAAAATG
* * * * *
100904255 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
100904281 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
100904308 GTAATTCTACCCTACTGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
100904335 GTATTTCTACCTTACAAGGGTATTTCAA
1 GTAATTCTACCCTACAGGGGTATTTC-A
*
100904363 G-AATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
100904389 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
100904416 GAAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
100904441 TAGGAATTTT
Statistics
Matches: 136, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.11
27 119 0.88
28 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:100904356 original size:54 final size:53
Alignment explanation
Indices: 100904285--100904443 Score: 237
Period size: 54 Copynumber: 2.9 Consensus size: 53
100904275 ATCTCGGTAA
* *
100904285 TTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTGGGGTATTTTAGTAT
1 TTCTACCCTACAAGGGTATTTCAG-AATTCTACCCTACAGGGGTATTTTAGTAT
* **
100904339 TTCTACCTTACAAGGGTATTTCAAGAATTCTACCCTACAGGGGTATTTCGGTAT
1 TTCTACCCTACAAGGGTATTTC-AGAATTCTACCCTACAGGGGTATTTTAGTAT
*
100904393 TTCTACCCTACAAGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTTAG
1 TTCTACCCTACAAGGGTATTTCAG-AATTCTACCCTACAGGGGTATTTTAG
100904444 GAATTTTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.01
54 91 0.97
55 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (53 bp):
TTCTACCCTACAAGGGTATTTCAGAATTCTACCCTACAGGGGTATTTTAGTAT
Found at i:100904463 original size:27 final size:26
Alignment explanation
Indices: 100904433--100904740 Score: 154
Period size: 27 Copynumber: 11.4 Consensus size: 26
100904423 TACCCTACAG
* *
100904433 GGGTATTTTAGGAATTTTATAAATCGA
1 GGGTATTTT-GGAATTTTACAAATCAA
** * * ** *
100904460 GGGTAAAATTGTAATTCTGTAAATCAG
1 GGGT-ATTTTGGAATTTTACAAATCAA
* * *
100904487 GGGAATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGG-AATTTTACAAATCAA
** ** *
100904514 GGGTA-TTTCAATAGTTTTACAGGTCGA
1 GGGTATTTTGGA-A-TTTTACAAATCAA
* * *
100904541 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTT-GGAATTTTACAAATCAA
*
100904568 GGGTATTTTGGTAATTTTGCAAA-CTAA
1 GGGTATTTTGG-AATTTTACAAATC-AA
* * * *
100904595 GGGTATTTTGATAATTTTAAAAACCAG
1 GGGTATTTTG-GAATTTTACAAATCAA
* *
100904622 GGGTGTTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGG-AATTTTACAAATC-AA
* *
100904649 GGGTATTTTGGTAATTTTATAAATAAA
1 GGGTATTTTGG-AATTTTACAAATCAA
* * *
100904676 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTT-GGAATTTTACAAATCAA
** *
100904703 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGG-AATTTTACAAATCAA
100904730 GGGTATTTTGG
1 GGGTATTTTGG
100904741 TAAACTAAAG
Statistics
Matches: 214, Mismatches: 52, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
25 1 0.00
26 12 0.06
27 191 0.89
28 9 0.04
29 1 0.00
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGAATTTTACAAATCAA
Found at i:100904463 original size:54 final size:53
Alignment explanation
Indices: 100904298--100904464 Score: 153
Period size: 54 Copynumber: 3.1 Consensus size: 53
100904288 TACCCTACAG
* * *
100904298 GGGTATTTCAGTAATTCTACCCTACTGGGGTATTTTA-GTATTTCTACCTTA-CAA
1 GGGTATTTC-GAAATTCTACCCTACAGGGGTATTTTAGGTATTTCTA--TAATCAA
* * ***
100904352 GGGTATTTCAAGAATTCTACCCTACAGGGGTA-TTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGA-AATTCTACCCTACAGGGGTATTTTAGGTATTTCTATAAT-CAA
* *
100904406 GGGTATTTCGGAAATTCTACCCTACAGGGGTATTTTAGGAATTT-TATAAATCGA
1 GGGTATTTC-GAAATTCTACCCTACAGGGGTATTTTAGGTATTTCTAT-AATCAA
100904460 GGGTA
1 GGGTA
100904465 AAATTGTAAT
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
53 3 0.03
54 78 0.85
55 11 0.12
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (53 bp):
GGGTATTTCGAAATTCTACCCTACAGGGGTATTTTAGGTATTTCTATAATCAA
Found at i:100904598 original size:81 final size:81
Alignment explanation
Indices: 100904480--100904743 Score: 255
Period size: 81 Copynumber: 3.3 Consensus size: 81
100904470 GTAATTCTGT
* * ** * * ***
100904480 AAATCAGGGGAATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAGTTTTACAGGTC-GAGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCAATAATTTTAAAAACCAG-GGG
100904544 TATTTTAGTAATTTCAC
65 TATTTTAGTAATTTCAC
* **
100904561 AAATCAGGGGTATTTTGGTAATTTTGCAAACT-AAGGGTATTTTGATAATTTTAAAAACCAGGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAA-TAAAGGGTATTTCAATAATTTTAAAAACCAGGGG
* * *
100904625 TGTTTTGGTAATTTTAC
65 TATTTTAGTAATTTCAC
* * * *
100904642 AAA-CTAGGGGTATTTTGGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACCAGGGG
1 AAATC-AGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCAATAATTTTAAAAACCAGGGG
* ***
100904706 TATTTTGGTAATTTTGT
65 TATTTTAGTAATTTCAC
* *
100904723 AAACCAAGGGTATTTTGGTAA
1 AAATCAGGGGTATTTTGGTAA
100904744 ACTAAAGTAT
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
80 2 0.01
81 150 0.97
82 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCAATAATTTTAAAAACCAGGGGT
ATTTTAGTAATTTCAC
Found at i:100904741 original size:27 final size:27
Alignment explanation
Indices: 100904540--100904743 Score: 237
Period size: 27 Copynumber: 7.6 Consensus size: 27
100904530 TTACAGGTCG
* * *
100904540 AGGGTATTTTAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
100904567 GGGGTATTTTGGTAATTTTGCAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
100904594 AGGGTATTTTGATAATTTTAAAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * *
100904621 GGGGTGTTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACCA
* * **
100904648 GGGGTATTTTGGTAATTTTATAAATAA
1 AGGGTATTTTGGTAATTTTACAAACCA
*
100904675 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* **
100904702 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
100904729 AGGGTATTTTGGTAA
1 AGGGTATTTTGGTAA
100904744 ACTAAAGTAT
Statistics
Matches: 147, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:100905800 original size:30 final size:30
Alignment explanation
Indices: 100905765--100905829 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
100905755 ATATTTATCA
100905765 CACATATATACAATTTCTATGTCCAAACAT
1 CACATATATACAATTTCTATGTCCAAACAT
100905795 CACATATATACAATTTCTATGTCCAAACAT
1 CACATATATACAATTTCTATGTCCAAACAT
100905825 CACAT
1 CACAT
100905830 CCACATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.40, C:0.25, G:0.03, T:0.32
Consensus pattern (30 bp):
CACATATATACAATTTCTATGTCCAAACAT
Found at i:100906764 original size:31 final size:31
Alignment explanation
Indices: 100906723--100906797 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
100906713 TATCAGAACT
* * *
100906723 AGAATTAGAATCAAAATTAGA-ATCAGGTGAC
1 AGAATCAGAATCAAAATCA-ATATCAGGTAAC
* *
100906754 AGATTCAGAATCAGAATCAATATCAGGTAAC
1 AGAATCAGAATCAAAATCAATATCAGGTAAC
*
100906785 AGAATCAAAATCA
1 AGAATCAGAATCA
100906798 GAATGTGAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAAAATCAATATCAGGTAAC
Found at i:100907082 original size:67 final size:69
Alignment explanation
Indices: 100906947--100907088 Score: 180
Period size: 67 Copynumber: 2.1 Consensus size: 69
100906937 TCACCAGATA
* * * *
100906947 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGTGAAGCCACCAGATTGCAGTAA
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATA-GTGGTGAAGCCACCAGATTGCAGCAA
*
100907012 GGCTGC
64 GGCTAC
* * *
100907018 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATA-TGGTGAGGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATAGTGGTGAAGCCACCAGATTGCAGCAAGG
100907081 CTAC
66 CTAC
100907085 CAGA
1 CAGA
100907089 ACGCTTTCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 31 0.49
69 7 0.11
71 25 0.40
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (69 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATAGTGGTGAAGCCACCAGATTGCAGCAAGG
CTAC
Found at i:100907362 original size:27 final size:27
Alignment explanation
Indices: 100907314--100907511 Score: 204
Period size: 27 Copynumber: 7.3 Consensus size: 27
100907304 GGGGTAAAAT
* * *
100907314 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
100907341 GGTAATTTTACCCTGCAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
100907368 AGTAATTCTACCCTACAGGGGTTTTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
100907395 GGT-ATTTCTACCCTACAGGGGTAGTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
100907422 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
100907449 GAT-ATTTCTACCCTACAAGGGTGTTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
100907476 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
*
100907503 AGTAATTTT
1 GGTAATTTT
100907512 GTAAATCGAG
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.02
27 139 0.96
28 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:100907441 original size:81 final size:81
Alignment explanation
Indices: 100907318--100907499 Score: 237
Period size: 81 Copynumber: 2.3 Consensus size: 81
100907308 TAAAATGGTA
* *
100907318 ATTT-TACCCCACAAGGGTATCTCGGTAATTTTACCCTGCAGGGGTATTTTAG-TAATTCTACCC
1 ATTTCTACCCTACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTA-TTTAGATAATTCTACCC
* *
100907381 TACAGGGGTTTTTCGGT
65 TACAAGGGTGTTTCGGT
* * *
100907398 ATTTCTACCCTACAGGGGTAGT-TCGGT-ATTTCTACCCTACAGGGGTATTTCGATATTTCTACC
1 ATTTCTACCCTACAAGGGTA-TCTCGGTAATTT-TACCCTACAGGGGTATTTAGATAATTCTACC
100907461 CTACAAGGGTGTTTCGGT
64 CTACAAGGGTGTTTCGGT
*
100907479 AATTCTACCCTACAAGGGTAT
1 ATTTCTACCCTACAAGGGTAT
100907500 TTTAGTAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 13 0.15
81 75 0.84
82 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTAGATAATTCTACCCT
ACAAGGGTGTTTCGGT
Found at i:100907523 original size:27 final size:28
Alignment explanation
Indices: 100907494--100907700 Score: 135
Period size: 27 Copynumber: 7.6 Consensus size: 28
100907484 TACCCTACAA
**
100907494 GGGTATTTTAGTAATTTTGTAAATCGA-
1 GGGTATTTTAGTAATTTTACAAATCGAG
**** * **
100907521 GGGTAAAACAGTAATTCTGTAAATC-AG
1 GGGTATTTTAGTAATTTTACAAATCGAG
* *
100907548 GGGTACTTT-GATAATTTTACAAGTCGA-
1 GGGTATTTTAG-TAATTTTACAAATCGAG
* * * **
100907575 AGGTATTTCAATAATTTTACAGGTCGA-
1 GGGTATTTTAGTAATTTTACAAATCGAG
* *
100907602 GGGTATTTCAGTAATTTCACAAATC-AG
1 GGGTATTTTAGTAATTTTACAAATCGAG
* *
100907629 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTAGTAATTTTACAAATCGAG
*
100907656 GGGTATTTT-GATAATTTTACAAA-CCAG
1 GGGTATTTTAG-TAATTTTACAAATCGAG
*
100907683 GGGTATTTTGGTAATTTT
1 GGGTATTTTAGTAATTTT
100907701 GTAGACAAAG
Statistics
Matches: 145, Mismatches: 27, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.03
27 138 0.95
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (28 bp):
GGGTATTTTAGTAATTTTACAAATCGAG
Found at i:100907591 original size:81 final size:81
Alignment explanation
Indices: 100907495--100907650 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 81
100907485 ACCCTACAAG
* * ** **
100907495 GGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAA-TTCTGTAAATCAGGGGTACTTTGA
1 GGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGGGGTACTTTGA
100907559 TAATTTTACAAGTCGAA
65 TAATTTTACAAGTCGAA
** *** * *
100907576 GGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGT
1 GGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTGAT
100907641 AATTTTACAA
66 AATTTTACAA
100907651 ACTAGGGGTA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 58 0.95
82 3 0.05
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (81 bp):
GGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTGAT
AATTTTACAAGTCGAA
Found at i:100907687 original size:81 final size:81
Alignment explanation
Indices: 100907541--100907699 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 81
100907531 GTAATTCTGT
* * ***
100907541 AAATCAGGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAATAATTTTACAGGTCGAGGGT
1 AAATCAGGGGTACTTTGATAATTTTACAACTAGAAGGTATTTCAATAATTTTACAAACCGAGGGT
100907606 ATTTCAGTAATTTCAC
66 ATTTCAGTAATTTCAC
* * * **
100907622 AAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACAAACC-AGGG
1 AAATCAGGGGTACTTTGATAATTTTAC-AACTAGAAGGTATTTCAATAATTTTACAAACCGA-GG
**
100907685 GTATTTTGGTAATTT
64 GTATTTCAGTAATTT
100907700 TGTAGACAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
80 1 0.02
81 59 0.92
82 4 0.06
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (81 bp):
AAATCAGGGGTACTTTGATAATTTTACAACTAGAAGGTATTTCAATAATTTTACAAACCGAGGGT
ATTTCAGTAATTTCAC
Found at i:100907713 original size:27 final size:27
Alignment explanation
Indices: 100907602--100907723 Score: 138
Period size: 27 Copynumber: 4.5 Consensus size: 27
100907592 TACAGGTCGA
** *
100907602 GGGTATTTCAGTAATTTCACAAATC-AG
1 GGGTATTTTGGTAATTTTACAAA-CAAG
*
100907629 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACAAG
* *
100907656 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAG
** * *
100907683 GGGTATTTTGGTAATTTTGTAGACAAA
1 GGGTATTTTGGTAATTTTACAAACAAG
100907710 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
100907724 ACTAAAGTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 82 0.99
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACAAG
Found at i:100921375 original size:28 final size:29
Alignment explanation
Indices: 100921260--100921373 Score: 167
Period size: 29 Copynumber: 4.0 Consensus size: 29
100921250 GCATGACTAT
*
100921260 GAATGTGATTTAGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
100921289 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
100921318 GAATGTGATTTGGGCCTATTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
** *
100921347 GAATAAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
100921374 TGCAAGTATG
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 18 0.23
29 61 0.77
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:100924382 original size:35 final size:35
Alignment explanation
Indices: 100924343--100924465 Score: 140
Period size: 35 Copynumber: 3.5 Consensus size: 35
100924333 GATATATTGG
*
100924343 ACTTGTATCTTTGGCCACATGTGATGTTATAATAA
1 ACTTGTATATTTGGCCACATGTGATGTTATAATAA
* * * * *
100924378 ACTTGAATATTTGACTACATGTGATGTTTTAATAT
1 ACTTGTATATTTGGCCACATGTGATGTTATAATAA
* *
100924413 ACTTGTATATTTGGCCATATGTGATGATATAATGAA
1 ACTTGTATATTTGGCCACATGTGATGTTATAAT-AA
*
100924449 CCTTG-AGTATTTGGCCA
1 ACTTGTA-TATTTGGCCA
100924466 TACATGTAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
35 57 0.79
36 15 0.21
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (35 bp):
ACTTGTATATTTGGCCACATGTGATGTTATAATAA
Found at i:100928068 original size:53 final size:54
Alignment explanation
Indices: 100927970--100928117 Score: 210
Period size: 53 Copynumber: 2.8 Consensus size: 54
100927960 ACCCTCATAA
* * * *
100927970 GGTAAAATGACCGAAATACCCTTATAAGGTAAAATGACCGAAATACCCCTGTAG
1 GGTAAAATGACTGTAATACCCTTGTAAGGTAAAATGACTGAAATACCCCTGTAG
* * *
100928024 GGTAAAATGACT-TAATA-CCTCTGTAGGGTAAAATGACTGTAATACCCTTGTAG
1 GGTAAAATGACTGTAATACCCT-TGTAAGGTAAAATGACTGAAATACCCCTGTAG
100928077 GGTAAAATGACTGTAATACCCTTGTAAGGTAAAATGACTGA
1 GGTAAAATGACTGTAATACCCTTGTAAGGTAAAATGACTGA
100928118 TTTGCCCTAC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 3 0.04
53 43 0.52
54 33 0.40
55 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (54 bp):
GGTAAAATGACTGTAATACCCTTGTAAGGTAAAATGACTGAAATACCCCTGTAG
Found at i:100928115 original size:27 final size:27
Alignment explanation
Indices: 100927957--100928116 Score: 198
Period size: 27 Copynumber: 6.0 Consensus size: 27
100927947 TGATGGCCGA
** * *
100927957 AATACCCTCATAAGGTAAAATGACCGA
1 AATACCCTTGTAAGGTAAAATGACTGT
* * *
100927984 AATACCCTTATAAGGTAAAATGACCGA
1 AATACCCTTGTAAGGTAAAATGACTGT
* *
100928011 AATACCCCTGTAGGGTAAAATGACT-T
1 AATACCCTTGTAAGGTAAAATGACTGT
*
100928037 AATA-CCTCTGTAGGGTAAAATGACTGT
1 AATACCCT-TGTAAGGTAAAATGACTGT
*
100928064 AATACCCTTGTAGGGTAAAATGACTGT
1 AATACCCTTGTAAGGTAAAATGACTGT
100928091 AATACCCTTGTAAGGTAAAATGACTG
1 AATACCCTTGTAAGGTAAAATGACTG
100928117 ATTTGCCCTA
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
25 2 0.02
26 21 0.17
27 96 0.79
28 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (27 bp):
AATACCCTTGTAAGGTAAAATGACTGT
Found at i:100928333 original size:36 final size:36
Alignment explanation
Indices: 100928293--100928363 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
100928283 GTGCTGATAT
* *
100928293 GGTTGCACGTGTCGCCTAAGACAACTGTGGACCTAA
1 GGTTGCACGAGTCGCCCAAGACAACTGTGGACCTAA
* *
100928329 GGTTGCACGAGTTGCCCAAGACGACTGTGGACCTA
1 GGTTGCACGAGTCGCCCAAGACAACTGTGGACCTA
100928364 CTGATGGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (36 bp):
GGTTGCACGAGTCGCCCAAGACAACTGTGGACCTAA
Found at i:100933621 original size:31 final size:31
Alignment explanation
Indices: 100933585--100933700 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
100933575 AGTATTATGA
100933585 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
100933616 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
100933652 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
100933685 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
100933701 TATGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:100933623 original size:38 final size:38
Alignment explanation
Indices: 100933575--100933723 Score: 213
Period size: 38 Copynumber: 4.1 Consensus size: 38
100933565 AATTTTAATT
100933575 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
1 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
*
100933613 AG-----T--AATATGAAATATGAAAAGGCTTCGGCCC
1 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
100933644 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
1 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
* *
100933682 AGTATTATGAAATATGAAATATGAAAAGGGCTACGGCCC
1 AGTATTATGAAATATGAAACATGAAAA-GGCTTCGGCCC
100933721 AGT
1 AGT
100933724 GCATGATTGA
Statistics
Matches: 99, Mismatches: 4, Indels: 15
0.84 0.03 0.13
Matches are distributed among these distances:
31 29 0.29
33 1 0.01
36 1 0.01
38 55 0.56
39 13 0.13
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
Found at i:100935712 original size:31 final size:31
Alignment explanation
Indices: 100935676--100935791 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
100935666 AGTATTATGA
100935676 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
100935707 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
100935743 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
100935776 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
100935792 TATGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:100935714 original size:38 final size:38
Alignment explanation
Indices: 100935666--100935814 Score: 213
Period size: 38 Copynumber: 4.1 Consensus size: 38
100935656 AACTTTAATT
100935666 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
1 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
*
100935704 AG-----T--AATATGAAATATGAAAAGGCTTCGGCCC
1 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
100935735 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
1 AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
* *
100935773 AGTATTATGAAATATGAAATATGAAAAGGGCTACGGCCC
1 AGTATTATGAAATATGAAACATGAAAA-GGCTTCGGCCC
100935812 AGT
1 AGT
100935815 GCATGATTGA
Statistics
Matches: 99, Mismatches: 4, Indels: 15
0.84 0.03 0.13
Matches are distributed among these distances:
31 29 0.29
33 1 0.01
36 1 0.01
38 55 0.56
39 13 0.13
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCC
Found at i:100937192 original size:31 final size:31
Alignment explanation
Indices: 100937154--100937217 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
100937144 CCTTTTCATA
100937154 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
* **
100937185 TTTCATATTTTATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
100937216 TT
1 TT
100937218 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:100937599 original size:23 final size:24
Alignment explanation
Indices: 100937433--100937597 Score: 280
Period size: 24 Copynumber: 7.0 Consensus size: 24
100937423 CTACCCTCTT
100937433 TTAATAACTGGGGCAAAAGCCCTG
1 TTAATAACTGGGGCAAAAGCCCTG
100937457 TTAATAACTGGGGCAAAAGCCCTG
1 TTAATAACTGGGGCAAAAGCCCTG
100937481 TTAATAACTGGGGCAAAAGCCCTG
1 TTAATAACTGGGGCAAAAGCCCTG
100937505 TTAATAACTGGGGCAAAAGCCCTG
1 TTAATAACTGGGGCAAAAGCCCTG
*
100937529 TTAATAACTGGGGCATAAGCCCT-
1 TTAATAACTGGGGCAAAAGCCCTG
* *
100937552 TTAATAACTAGGGCATAAGCCCT-
1 TTAATAACTGGGGCAAAAGCCCTG
*
100937575 TTAATAACTGGGGCATAAGCCCT
1 TTAATAACTGGGGCAAAAGCCCT
100937598 TTTACACTTC
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 44 0.32
24 94 0.68
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (24 bp):
TTAATAACTGGGGCAAAAGCCCTG
Found at i:100937675 original size:20 final size:20
Alignment explanation
Indices: 100937650--100937716 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
100937640 TTGTGATTAC
100937650 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
100937670 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
100937690 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
100937710 ACCATGT
1 ATCATGT
100937717 TAATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:100937681 original size:11 final size:11
Alignment explanation
Indices: 100937650--100937705 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
100937640 TTGTGATTAC
100937650 ATCATGTGCAT
1 ATCATGTGCAT
*
100937661 ATCA--TACAT
1 ATCATGTGCAT
100937670 ATCATGTGCAT
1 ATCATGTGCAT
*
100937681 ATCA--TACAT
1 ATCATGTGCAT
*
100937690 GTCATGTGCAT
1 ATCATGTGCAT
100937701 ATCAT
1 ATCAT
100937706 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:100945344 original size:31 final size:31
Alignment explanation
Indices: 100945306--100945369 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
100945296 CCTTTTCATA
100945306 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
100945337 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
100945368 TT
1 TT
100945370 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:100945614 original size:23 final size:23
Alignment explanation
Indices: 100945584--100945701 Score: 218
Period size: 23 Copynumber: 5.1 Consensus size: 23
100945574 CCTAGCCTCT
*
100945584 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
100945607 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
100945630 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
100945653 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
100945676 TTTCATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
100945699 TTT
1 TTT
100945702 TCACTTCCTC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 93 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:100945772 original size:20 final size:20
Alignment explanation
Indices: 100945749--100945815 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
100945739 TTATGATTAC
100945749 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
100945769 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
100945789 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
100945809 ACCATGT
1 ATCATGT
100945816 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:100945780 original size:11 final size:11
Alignment explanation
Indices: 100945749--100945804 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
100945739 TTATGATTAC
100945749 ATCATGTGCAT
1 ATCATGTGCAT
*
100945760 ATCA--TACAT
1 ATCATGTGCAT
100945769 ATCATGTGCAT
1 ATCATGTGCAT
*
100945780 ATCA--TACAT
1 ATCATGTGCAT
*
100945789 GTCATGTGCAT
1 ATCATGTGCAT
100945800 ATCAT
1 ATCAT
100945805 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:100958478 original size:63 final size:62
Alignment explanation
Indices: 100958379--100958500 Score: 181
Period size: 63 Copynumber: 2.0 Consensus size: 62
100958369 GACACACACT
* * *
100958379 CGTGTCTTTGGCTTGTGTGACACTAATTCCAAAATAGTGAGTTACATGGCCTAGACAAACGCC
1 CGTGTCTCTAGCTCGTGTGACACTAATTCCAAAATAGTGAGTTACATGGCCT-GACAAACGCC
* * *
100958442 CGTGTCTCTAGCTCGTGTGACTCTAATTCCTAAATAGTGAGTTACATGTCCTGACAAAC
1 CGTGTCTCTAGCTCGTGTGACACTAATTCCAAAATAGTGAGTTACATGGCCTGACAAAC
100958501 ACCCATGTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
62 7 0.13
63 46 0.87
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (62 bp):
CGTGTCTCTAGCTCGTGTGACACTAATTCCAAAATAGTGAGTTACATGGCCTGACAAACGCC
Found at i:100962281 original size:42 final size:43
Alignment explanation
Indices: 100962176--100962293 Score: 123
Period size: 42 Copynumber: 2.8 Consensus size: 43
100962166 CAATGCCAAC
* * * *
100962176 ATCCCAAACGTGGTCTTACATGTAATCACATATCCATGCCACG
1 ATCCCAAACATGGTCTTACACGAAATCACATATCCAGGCCACG
* * * * *
100962219 ATCCTAGACAGGGTCTTACACGAAATCACATA-CGAGGCCGATG
1 ATCCCAAACATGGTCTTACACGAAATCACATATCCAGGCC-ACG
*
100962262 -TCCCAAACATGGTCTTACACAAAATCACATAT
1 ATCCCAAACATGGTCTTACACGAAATCACATAT
100962294 AAGAATCTTG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 32 0.53
43 28 0.47
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
ATCCCAAACATGGTCTTACACGAAATCACATATCCAGGCCACG
Found at i:100964283 original size:41 final size:41
Alignment explanation
Indices: 100964238--100964355 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
100964228 TGAAAGATAA
100964238 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
100964279 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100964309 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100964350 ATGTAG
1 ATGTAG
100964356 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:100964294 original size:71 final size:71
Alignment explanation
Indices: 100964206--100964369 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100964196 GAGATGTATC
100964206 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100964271 AGGACA
66 AGGACA
100964277 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100964342 AGGACA
66 AGGACA
100964348 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
100964370 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:100971866 original size:41 final size:41
Alignment explanation
Indices: 100971821--100971938 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
100971811 TGAAAGATAA
100971821 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
100971862 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100971892 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
100971933 ATGTAG
1 ATGTAG
100971939 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:100971877 original size:71 final size:71
Alignment explanation
Indices: 100971789--100971952 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
100971779 GAGATGTATC
100971789 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100971854 AGGACA
66 AGGACA
100971860 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
100971925 AGGACA
66 AGGACA
100971931 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
100971953 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:100973566 original size:27 final size:27
Alignment explanation
Indices: 100973488--100973579 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
100973478 TGGATAAGTT
*
100973488 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
100973515 GTAGAAATACTGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * * *
100973542 GTAGAATTACCGAGATTCCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
100973569 GTAAAATTACC
1 GTAGAATTACC
100973580 ATTTTGTCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:100974274 original size:27 final size:26
Alignment explanation
Indices: 100974230--100974281 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
100974220 CTCGCTGCAA
*
100974230 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
100974257 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
100974282 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:100974333 original size:14 final size:14
Alignment explanation
Indices: 100974314--100974341 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
100974304 GCTTCGCCAC
100974314 ACATATATATATAT
1 ACATATATATATAT
100974328 ACATATATATATAT
1 ACATATATATATAT
100974342 TTGTTCGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ACATATATATATAT
Found at i:100981077 original size:26 final size:27
Alignment explanation
Indices: 100980996--100981086 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
100980986 TGGATAAGTT
*
100980996 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
100981023 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
100981050 GTAGAATTA-CGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
100981076 GTAAAATTACC
1 GTAGAATTACC
100981087 ATTTTTCCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.39
27 34 0.61
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:100981780 original size:27 final size:26
Alignment explanation
Indices: 100981736--100981786 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
100981726 CTCGCTATAA
*
100981736 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
100981763 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
100981787 AGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:100981855 original size:26 final size:27
Alignment explanation
Indices: 100981826--100981885 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
100981816 CCACATATAT
*
100981826 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
100981852 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
100981879 ATATCTG
1 ATATCTG
100981886 GTAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:100987941 original size:21 final size:21
Alignment explanation
Indices: 100987916--100987966 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
100987906 ATATTTGAGA
100987916 AGGAAGCTGTTGCT-ATAGAAG
1 AGGAAGCTGTTGCTGA-AGAAG
*
100987937 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGCTGTTGCTGAAGAAG
*
100987958 AAGAAGCTG
1 AGGAAGCTG
100987967 CTGAAAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (21 bp):
AGGAAGCTGTTGCTGAAGAAG
Found at i:100988291 original size:14 final size:15
Alignment explanation
Indices: 100988272--100988302 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
100988262 TAAAAAAATG
100988272 AAAGGAGGAG-AAGA
1 AAAGGAGGAGAAAGA
100988286 AAAGGAGGAGAAAGA
1 AAAGGAGGAGAAAGA
100988301 AA
1 AA
100988303 TATCATGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AAAGGAGGAGAAAGA
Found at i:100991906 original size:7 final size:7
Alignment explanation
Indices: 100991894--100991921 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
100991884 GTTGATGGGA
100991894 TGGTGAG
1 TGGTGAG
100991901 TGGTGAG
1 TGGTGAG
100991908 TGGTGAG
1 TGGTGAG
100991915 TGGTGAG
1 TGGTGAG
100991922 GGATGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
TGGTGAG
Found at i:100994032 original size:101 final size:99
Alignment explanation
Indices: 100993837--100994032 Score: 250
Period size: 101 Copynumber: 2.0 Consensus size: 99
100993827 AGCCAAAGCT
* * * *
100993837 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCCGGTACACATAGT
* *
100993902 ATCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACC
* * * *
100993936 ATCTGATACACATAGTAGCCTGCACTTAATACTACACACGTG-ATCGAAGTTATCGGGTACGCAT
1 ATCTGATACACATAGTAGCCTGCACTTAATACTACACA--TGCAACCAA-TTATCCGGTACACAT
* *
100994000 GGTAGCCTGCACTTAGTACTACACATGCGACCT
63 AGTAGCCTGCACTTAGTACTACACACGCGACCT
100994033 CACAATAGAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 35 0.43
100 4 0.05
101 43 0.52
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCCGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACC
Found at i:100997637 original size:37 final size:37
Alignment explanation
Indices: 100997587--100997738 Score: 268
Period size: 37 Copynumber: 4.1 Consensus size: 37
100997577 TCATTACGAA
*
100997587 GTCTTACCCGGACATAATTTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
100997624 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
100997661 GTCTTACCCTGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
100997698 GTCTTACCCGGACATAATCTCCACACGTAGTCTTCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
100997735 GTCT
1 GTCT
100997739 CACCTGGAAT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:100997849 original size:48 final size:48
Alignment explanation
Indices: 100997791--100998030 Score: 444
Period size: 48 Copynumber: 5.0 Consensus size: 48
100997781 TGTTACAACA
100997791 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
100997839 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
100997887 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
100997935 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
100997983 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
100998031 ATATTTATCT
Statistics
Matches: 184, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 184 1.00
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:100999241 original size:2 final size:2
Alignment explanation
Indices: 100999234--100999268 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
100999224 CCATTGCCGA
100999234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
100999269 AACAAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101007507 original size:40 final size:40
Alignment explanation
Indices: 101007483--101007585 Score: 188
Period size: 40 Copynumber: 2.6 Consensus size: 40
101007473 GTAATTTGCG
*
101007483 CAAATGCCTTTGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
*
101007523 CAATTGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
101007563 CAAATGCCTTCGGGAATTAACCC
1 CAAATGCCTTCGGGAATTAACCC
101007586 AGATATCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGAATTAACCCGGATTTGGTAACTCGCA
Found at i:101022071 original size:2 final size:2
Alignment explanation
Indices: 101022064--101022095 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101022054 GGCCACCGGG
101022064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101022096 GTGGCGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101023854 original size:40 final size:41
Alignment explanation
Indices: 101023798--101023984 Score: 249
Period size: 40 Copynumber: 4.7 Consensus size: 41
101023788 GAATGATACC
* * *
101023798 CGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCT
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCT
*
101023839 -GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT-T
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCT
*
101023878 CGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATC-
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCT
*
101023918 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-CT
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCT
* * *
101023958 CGGGTTAAGACCTGAAGGCAATTGTGC
1 CGGGCTAAGACCCGAAGGCATTTGTGC
101023985 TTGTGGTTAT
Statistics
Matches: 131, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 2 0.02
40 127 0.97
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCT
Found at i:101023941 original size:80 final size:80
Alignment explanation
Indices: 101023793--101024004 Score: 302
Period size: 80 Copynumber: 2.7 Consensus size: 80
101023783 CATTTGAATG
* * * * *
101023793 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCTGGGCTAAGACCCGAAGGC
1 ATACTCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
101023857 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
101023873 ATATTCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACTCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
101023938 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
101023953 ATACTCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACTCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
101024005 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 6 0.05
80 110 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATACTCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:101029592 original size:20 final size:20
Alignment explanation
Indices: 101029567--101029607 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
101029557 ATTGTTTTGG
101029567 ACCGAGCTCGGTGAAAGTAA
1 ACCGAGCTCGGTGAAAGTAA
101029587 ACCGAGCTCGGTGAAAGTAA
1 ACCGAGCTCGGTGAAAGTAA
101029607 A
1 A
101029608 ATTTTCGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.29, T:0.15
Consensus pattern (20 bp):
ACCGAGCTCGGTGAAAGTAA
Found at i:101031978 original size:40 final size:40
Alignment explanation
Indices: 101031921--101032128 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
101031911 TGAATGATAC
* * *
101031921 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* * *
101031961 CTGGGCTAAGACGCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
101032001 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
101032041 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
101032081 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
101032121 CC-GGCTAA
1 CCGGGCTAA
101032129 ATTCCAAAGA
Statistics
Matches: 146, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 5 0.03
40 139 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:101032058 original size:80 final size:80
Alignment explanation
Indices: 101031917--101032128 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
101031907 CATTTGAATG
* * * * *
101031917 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCTGGGCTAAGACGCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
101031981 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
101031997 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
101032062 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
101032077 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
101032129 ATTCCAAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:101035416 original size:91 final size:92
Alignment explanation
Indices: 101035307--101035476 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 92
101035297 CGCCCATAAG
* *
101035307 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
101035371 ACGAGTTCGGATGCCTAGTTACATTCA
66 ACGAGTTCGGATGCCTAGTTACATTCA
*
101035398 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
101035463 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
101035477 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 50 0.67
92 25 0.33
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTCA
Found at i:101035449 original size:46 final size:46
Alignment explanation
Indices: 101035300--101035473 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
101035290 TGTAACCCGC
* * *
101035300 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
101035346 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* *
101035391 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
101035437 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
101035474 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
45 31 0.29
46 68 0.63
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:101035492 original size:46 final size:46
Alignment explanation
Indices: 101035308--101035492 Score: 136
Period size: 46 Copynumber: 4.0 Consensus size: 46
101035298 GCCCATAAGC
* ** * *
101035308 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
101035354 GAACTC-GACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * * *
101035399 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
101035445 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
101035491 GA
1 GA
101035493 CATGTCACTT
Statistics
Matches: 111, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 10 0.09
45 28 0.25
46 64 0.58
48 4 0.04
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:101039674 original size:11 final size:12
Alignment explanation
Indices: 101039639--101039675 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
101039629 CCGGCACTGA
101039639 TTCAACTTTCTT
1 TTCAACTTTCTT
101039651 TTCAACTTTCTT
1 TTCAACTTTCTT
101039663 TTCAAC-TTCTT
1 TTCAACTTTCTT
101039674 TT
1 TT
101039676 GTATTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.28
12 18 0.72
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TTCAACTTTCTT
Found at i:101042971 original size:93 final size:93
Alignment explanation
Indices: 101042859--101043030 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
101042849 CGCCCATAAG
* *
101042859 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
101042924 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
101042952 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
101043017 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
101043031 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:101043027 original size:46 final size:46
Alignment explanation
Indices: 101042852--101043027 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
101042842 TGTAACCCGC
* * *
101042852 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
101042898 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
101042948 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
101042991 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
101043028 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:101046990 original size:66 final size:68
Alignment explanation
Indices: 101046914--101047100 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
101046904 TAGTACCACT
*
101046914 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
101046976 CACG
65 CACG
101046980 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
101047045 ATCACG
63 ATCACG
101047051 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
101047101 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:101047025 original size:71 final size:71
Alignment explanation
Indices: 101046937--101047100 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101046927 CGATTTGTCT
101046937 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101047002 CTTTCA
66 CTTTCA
101047008 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101047073 CTTTCA
66 CTTTCA
101047079 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
101047101 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:101047138 original size:71 final size:70
Alignment explanation
Indices: 101046937--101047134 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
101046927 CGATTTGTCT
* * *
101046937 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
101047002 CTTTCA
65 CTTTCA
* * *
101047008 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
101047073 CTTTCA
65 CTTTCA
* *
101047079 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
101047135 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:101054556 original size:66 final size:68
Alignment explanation
Indices: 101054480--101054666 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
101054470 TAGTACCACT
*
101054480 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
101054542 CACG
65 CACG
101054546 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
101054611 ATCACG
63 ATCACG
101054617 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
101054667 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:101054591 original size:71 final size:71
Alignment explanation
Indices: 101054503--101054666 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101054493 CGATTTGTCT
101054503 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101054568 CTTTCA
66 CTTTCA
101054574 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
101054639 CTTTCA
66 CTTTCA
101054645 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
101054667 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:101054704 original size:71 final size:70
Alignment explanation
Indices: 101054503--101054700 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
101054493 CGATTTGTCT
* * *
101054503 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
101054568 CTTTCA
65 CTTTCA
* * *
101054574 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
101054639 CTTTCA
65 CTTTCA
* *
101054645 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
101054701 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:101058482 original size:27 final size:27
Alignment explanation
Indices: 101058399--101058484 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
101058389 CAAAACAATC
* * * * *
101058399 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGATA
* *
101058426 ATTTTACACTACAAGCGTATTTTGGA-A
1 ATTTTACACTACAAGGGTA-TTTCGATA
*
101058453 ATTTTACACTATAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
101058480 ATTTT
1 ATTTT
101058485 TCAAATCAGG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.11
27 39 0.83
28 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:101058717 original size:27 final size:27
Alignment explanation
Indices: 101058466--101058716 Score: 231
Period size: 27 Copynumber: 9.3 Consensus size: 27
101058456 TTACACTATA
*
101058466 AGGGTATTTCGATAATTTTTCAAATC-
1 AGGGTATTTCGATAATTTTACAAATCG
* **
101058492 AGGAGTGTTTTAATAATTTTACAAATCG
1 AGG-GTATTTCGATAATTTTACAAATCG
** *
101058520 AGTTTATTTTGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
101058547 AGGGTGA-TTCGATAATTTTACAAATTG
1 AGGGT-ATTTCGATAATTTTACAAATCG
* * * **
101058574 AGTGTGTTTCGGTAATTACACAAATCCG
1 AGGGTATTTCGATAATTTTACAAAT-CG
* *
101058602 -GGGTATTTCGATAATTTTTCAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
101058628 AGGGTATTTCAATAATTTCAC-AATCA
1 AGGGTATTTCGATAATTTTACAAATCG
*
101058654 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
101058681 GGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*
101058708 AGGGCATTT
1 AGGGTATTT
101058717 TAGTAATTTA
Statistics
Matches: 179, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
26 25 0.14
27 150 0.84
28 4 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:101059105 original size:28 final size:28
Alignment explanation
Indices: 101059067--101059122 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
101059057 TTTGGCCCCT
*
101059067 TTAGGCCCAATCACATTCACATGGCCCA
1 TTAGACCCAATCACATTCACATGGCCCA
*
101059095 TTAGACCCAATCACATTCATATGGCCCA
1 TTAGACCCAATCACATTCACATGGCCCA
101059123 CCAAGCCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.23
Consensus pattern (28 bp):
TTAGACCCAATCACATTCACATGGCCCA
Found at i:101059142 original size:33 final size:30
Alignment explanation
Indices: 101059069--101059148 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 30
101059059 TGGCCCCTTT
**
101059069 AGGCCCAATCACATTCACATGGCCCATTAG
1 AGGCCCAATCACATTCACATGGCCCACAAG
*
101059099 A--CCCAATCACATTCATATGGCCCACCAAG
1 AGGCCCAATCACATTCACATGGCCCA-CAAG
101059128 CCAGGCCCAATCACATTCACA
1 --AGGCCCAATCACATTCACA
101059149 CCTAACAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 22 0.54
29 2 0.05
30 1 0.02
31 1 0.02
33 15 0.37
ACGTcount: A:0.33, C:0.38, G:0.12, T:0.17
Consensus pattern (30 bp):
AGGCCCAATCACATTCACATGGCCCACAAG
Found at i:101060990 original size:13 final size:13
Alignment explanation
Indices: 101060951--101061003 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
101060941 AGTTTGGCAA
101060951 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
101060964 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
101060977 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
101060990 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
101061003 T
1 T
101061004 TTGGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:101061224 original size:24 final size:23
Alignment explanation
Indices: 101061185--101061298 Score: 66
Period size: 24 Copynumber: 5.2 Consensus size: 23
101061175 TTAATATTTT
* *
101061185 AATATATA-AAATATAAATTTTA
1 AATATTTATAAATATAAATATTA
*
101061207 AATATTTTTAAATAATAAATATTA
1 AATATTTATAAAT-ATAAATATTA
* **
101061231 ATTATTTATAAA-ATTTA-ATTA
1 AATATTTATAAATATAAATATTA
*
101061252 GAATA--TATAAACTAT--ATTTTA
1 -AATATTTATAAA-TATAAATATTA
*
101061273 AATA-TT-TAAATATAACTATTA
1 AATATTTATAAATATAAATATTA
101061294 AATAT
1 AATAT
101061299 CGTAATTAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
19 3 0.04
20 15 0.21
21 16 0.23
22 14 0.20
23 4 0.06
24 19 0.27
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (23 bp):
AATATTTATAAATATAAATATTA
Found at i:101061741 original size:27 final size:25
Alignment explanation
Indices: 101061710--101061832 Score: 122
Period size: 27 Copynumber: 4.6 Consensus size: 25
101061700 TCCTTCCCAA
101061710 TAATTTTACAAATCGAAGGTGTTTCCG
1 TAATTTTACAAATCG-AGGTGTTT-CG
* *
101061737 TAATTTTATAAATCGAGGATGTTTTAG
1 TAATTTTACAAATCGAGG-TG-TTTCG
101061764 TAATTTTACAAATCGAGGGTGATTT-G
1 TAATTTTACAAATCGA-GGTG-TTTCG
101061790 ATAATTTTACAAATCGAGTGTGTTTCGG
1 -TAATTTTACAAATCGAG-GTGTTTC-G
* *
101061818 TAATTTCACACATCG
1 TAATTTTACAAATCG
101061833 GGTAATTTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
26 8 0.10
27 69 0.83
28 6 0.07
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (25 bp):
TAATTTTACAAATCGAGGTGTTTCG
Found at i:101061814 original size:54 final size:53
Alignment explanation
Indices: 101061710--101061953 Score: 147
Period size: 54 Copynumber: 4.7 Consensus size: 53
101061700 TCCTTCCCAA
* *
101061710 TAATTTTACAAATCGAAGGTGTTTCCGTAATTTTATAAATCGAGGATGTTTTAG
1 TAATTTTACAAATCGAAGGTGTTT-CGTAATTTTACAAATCGAGGATGTTTCAG
* *
101061764 TAATTTTACAAATCGAGGGTGATTT-GATAATTTTACAAATCGAGTG-TGTTTCGG
1 TAATTTTACAAATCGAAGGTG-TTTCG-TAATTTTACAAATCGAG-GATGTTTCAG
* * * * *
101061818 TAATTTCACACATC----G-G----GTAATTTTACAAATTGAGGGTATTTCAG
1 TAATTTTACAAATCGAAGGTGTTTCGTAATTTTACAAATCGAGGATGTTTCAG
* * * * * **
101061862 TAATTTCAC-AATC-AAGGGTATTTCGGTAATTTTACAAATCGGGGGTATTTTGG
1 TAATTTTACAAATCGAA-GGTGTTTC-GTAATTTTACAAATCGAGGATGTTTCAG
* * *
101061915 TAAGTTTACAAATTGAAGGCAT-TTTAGTAATTTTACAAA
1 TAATTTTACAAATCGAAGG--TGTTTCGTAATTTTACAAA
101061954 CTAGGGGTAC
Statistics
Matches: 153, Mismatches: 19, Indels: 36
0.74 0.09 0.17
Matches are distributed among these distances:
43 4 0.03
44 31 0.20
45 1 0.01
47 1 0.01
49 1 0.01
50 1 0.01
53 32 0.21
54 72 0.47
55 9 0.06
56 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
TAATTTTACAAATCGAAGGTGTTTCGTAATTTTACAAATCGAGGATGTTTCAG
Found at i:101061864 original size:27 final size:27
Alignment explanation
Indices: 101061834--101061953 Score: 125
Period size: 27 Copynumber: 4.5 Consensus size: 27
101061824 CACACATCGG
*
101061834 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
101061861 GTAATTTCAC-AATCAAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTCA
* **
101061887 GTAATTTTACAAATCGGGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCA
* * * * *
101061914 GTAAGTTTACAAATTGAAGGCATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
101061941 GTAATTTTACAAA
1 GTAATTTTACAAA
101061954 CTAGGGGTAC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.29
27 55 0.71
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:101062328 original size:28 final size:28
Alignment explanation
Indices: 101062289--101062344 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
101062279 TTTGGCCCCT
*
101062289 TTAGGCCCAATCACATTCACATGGCCCA
1 TTAGACCCAATCACATTCACATGGCCCA
*
101062317 TTAGACCCAATCACATTCATATGGCCCA
1 TTAGACCCAATCACATTCACATGGCCCA
101062345 CCAAGCCAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.23
Consensus pattern (28 bp):
TTAGACCCAATCACATTCACATGGCCCA
Found at i:101062364 original size:33 final size:30
Alignment explanation
Indices: 101062291--101062370 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 30
101062281 TGGCCCCTTT
**
101062291 AGGCCCAATCACATTCACATGGCCCATTAG
1 AGGCCCAATCACATTCACATGGCCCACAAG
*
101062321 A--CCCAATCACATTCATATGGCCCACCAAG
1 AGGCCCAATCACATTCACATGGCCCA-CAAG
101062350 CCAGGCCCAATCACATTCACA
1 --AGGCCCAATCACATTCACA
101062371 CCAAACAGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 22 0.54
29 2 0.05
30 1 0.02
31 1 0.02
33 15 0.37
ACGTcount: A:0.33, C:0.38, G:0.12, T:0.17
Consensus pattern (30 bp):
AGGCCCAATCACATTCACATGGCCCACAAG
Found at i:101064173 original size:13 final size:13
Alignment explanation
Indices: 101064155--101064220 Score: 98
Period size: 13 Copynumber: 5.1 Consensus size: 13
101064145 AGTTTGGCAA
101064155 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
101064168 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
101064181 TGC-TGTGAAAAAG
1 TGCTTTTG-AAAAG
*
101064194 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
101064207 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
101064220 T
1 T
101064221 TTGGTTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
12 3 0.06
13 41 0.87
14 3 0.06
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:101064441 original size:24 final size:23
Alignment explanation
Indices: 101064402--101064517 Score: 70
Period size: 24 Copynumber: 5.3 Consensus size: 23
101064392 TTAATATTTT
* *
101064402 AATATATA-AAATATAAATTTTA
1 AATATTTATAAATATAAATATTA
*
101064424 AATATTTTTAAATAATAAATATTA
1 AATATTTATAAAT-ATAAATATTA
* **
101064448 ATTATTTATAAA-ATTTA-ATTA
1 AATATTTATAAATATAAATATTA
*
101064469 GAATA--TATAAACTAT--ATTTTA
1 -AATATTTATAAA-TATAAATATTA
*
101064490 AATA-TT-TAAATATAACTATTA
1 AATATTTATAAATATAAATATTA
101064511 AATATTT
1 AATATTT
101064518 GTAATTAGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
19 3 0.04
20 15 0.21
21 16 0.22
22 16 0.22
23 4 0.05
24 19 0.26
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (23 bp):
AATATTTATAAATATAAATATTA
Done.