Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 289 of 438
Found at i:90513523 original size:45 final size:45
Alignment explanation
Indices: 90513472--90513643 Score: 292
Period size: 45 Copynumber: 3.8 Consensus size: 45
90513462 TATCGTACGG
*
90513472 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
90513517 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
90513562 TACTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
90513607 TACTATTCGGGCCTTCGAGCCTAGCAGGCGA-AATGCC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
90513644 AGTGGATGAA
Statistics
Matches: 120, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
44 6 0.05
45 114 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:90519203 original size:49 final size:49
Alignment explanation
Indices: 90519122--90519281 Score: 243
Period size: 49 Copynumber: 3.3 Consensus size: 49
90519112 CCCTTCGGGA
* * * * * *
90519122 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
90519169 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
90519218 CTTATCACATATATACACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
90519267 CTTATCACATATATA
1 CTTATCACATATATA
90519282 TATCTCATAC
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 10 0.10
48 1 0.01
49 93 0.89
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:90527530 original size:40 final size:40
Alignment explanation
Indices: 90527486--90527670 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
90527476 GTTCAAAACA
* * ***
90527486 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
90527526 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
90527566 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* ** *
90527605 CCTTCTGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
90527644 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
90527671 TTCGTACATT
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:90527674 original size:39 final size:39
Alignment explanation
Indices: 90527516--90527670 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
90527506 TATGGTAACC
* *
90527516 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
90527556 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
90527595 CGCACAATTGCCTTCTGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
90527634 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
90527671 TTCGTACATT
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:90539089 original size:40 final size:39
Alignment explanation
Indices: 90538924--90539107 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
90538914 AAATTGATTG
* * *
90538924 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
90538964 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
90539004 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
90539044 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
90539083 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
90539108 CTTGGTGGGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:90540731 original size:55 final size:54
Alignment explanation
Indices: 90540659--90540777 Score: 127
Period size: 55 Copynumber: 2.2 Consensus size: 54
90540649 CATGTGCGAC
* * * *
90540659 ACTGACTTTAGGGCACGGC-CATGACACACGCCCCTGTGGCCTACCCGTGGGCAAT
1 ACTGACTTTAGGACACGGCACA-G-CACACGCCCCTGTGGCCTAACCATGGACAAT
* *
90540714 ACTGACTTATA-GACACGGCTACAGCACATGCCCGTGTGGCCTAACCATGGACAAT
1 ACTGACTT-TAGGACACGGC-ACAGCACACGCCCCTGTGGCCTAACCATGGACAAT
90540769 ACTGA-TTTA
1 ACTGACTTTA
90540778 AAAGGTTTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 46 0.84
56 3 0.05
57 2 0.04
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (54 bp):
ACTGACTTTAGGACACGGCACAGCACACGCCCCTGTGGCCTAACCATGGACAAT
Found at i:90541653 original size:48 final size:46
Alignment explanation
Indices: 90541576--90541796 Score: 148
Period size: 44 Copynumber: 4.7 Consensus size: 46
90541566 TGCATCGAGG
* * * *
90541576 CTGATGCTATGCCCCAAACATGGTCTTACACTAGCTCTCATGTATACGT
1 CTGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATCT-TACGT
* ** *
90541625 ACTGATGCATGTCCCAGACATGTCTTACAGTAGCACGAAACTTA-GT
1 -CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTACGT
* *
90541671 C-GATGCATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACG-
1 CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCT-TACGT
* * * ** * *
90541716 CCGATGCCATGTCCCAAACGTGGTCTTACAC--GGGCT-ATCATGAGGT
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATC-TTACGT
*
90541762 GGCTGATGCATGTCCCAGACACGTCTTACACTAGC
1 --CTGATGCATGTCCCAGACATGTCTTACACTAGC
90541797 CTTTGTCTCA
Statistics
Matches: 135, Mismatches: 25, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
44 34 0.25
45 8 0.06
46 20 0.15
47 25 0.19
48 30 0.22
49 11 0.08
50 7 0.05
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTTACGT
Found at i:90542677 original size:15 final size:16
Alignment explanation
Indices: 90542648--90542680 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
90542638 ATGATAGTTT
90542648 TGGAGAAGAAAGAAAA
1 TGGAGAAGAAAGAAAA
90542664 TGGAGAAG-AAGAAAA
1 TGGAGAAGAAAGAAAA
90542679 TG
1 TG
90542681 ATAGCTAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (16 bp):
TGGAGAAGAAAGAAAA
Found at i:90544738 original size:42 final size:41
Alignment explanation
Indices: 90544630--90544742 Score: 118
Period size: 44 Copynumber: 2.7 Consensus size: 41
90544620 TTCTGATGTG
* * * *
90544630 TGATTTCGTGTAAGACCATGTTTGGGACGTTGGTATCGATT
1 TGATTTCGTGTAAGACCATATCTGGGACATTGGCATCGATT
* * *
90544671 TGAGATTTAAGTGTAAGACTATATCTGGGACATTGGCATTGTATT
1 T--GATTT-CGTGTAAGACCATATCTGGGACATTGGCATCG-ATT
*
90544716 TGATTTCGTGTAAGACCCTATCTGGGA
1 TGATTTCGTGTAAGACCATATCTGGGA
90544743 TTGCGGCAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
41 1 0.02
42 18 0.31
43 10 0.17
44 25 0.43
45 4 0.07
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATATCTGGGACATTGGCATCGATT
Found at i:90559534 original size:24 final size:23
Alignment explanation
Indices: 90559483--90559536 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
90559473 TTTGTTTTTC
90559483 TTTTCATTTTTTTTTATTTTAGCA
1 TTTTC-TTTTTTTTTATTTTAGCA
*
90559507 -TTTCTTTTTGTCTTTA-TTTATCA
1 TTTTCTTTTT-T-TTTATTTTAGCA
90559530 TTTTCTT
1 TTTTCTT
90559537 AAAAGACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.19
23 11 0.42
24 10 0.38
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTCTTTTTTTTTATTTTAGCA
Found at i:90570661 original size:27 final size:26
Alignment explanation
Indices: 90570624--90570735 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
90570614 AGCATGGCTG
* *
90570624 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
90570650 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
90570678 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
90570705 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
90570732 CCAG
1 CCAG
90570736 GACGCTTCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:90570688 original size:54 final size:54
Alignment explanation
Indices: 90570624--90570735 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
90570614 AGCATGGCTG
*
90570624 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
90570678 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
90570732 CCAG
1 CCAG
90570736 GACGCTTCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:90572185 original size:24 final size:24
Alignment explanation
Indices: 90572153--90572202 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
90572143 ACACAGTTCA
90572153 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
90572177 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
90572201 CC
1 CC
90572203 AGACAGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.42, G:0.04, T:0.32
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:90578458 original size:27 final size:26
Alignment explanation
Indices: 90578423--90578534 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
90578413 AGCATGGCTG
* *
90578423 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
90578449 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
90578477 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
90578504 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
90578531 CCAG
1 CCAG
90578535 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:90578487 original size:54 final size:54
Alignment explanation
Indices: 90578423--90578534 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
90578413 AGCATGGCTG
*
90578423 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
90578477 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
90578531 CCAG
1 CCAG
90578535 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:90582927 original size:40 final size:40
Alignment explanation
Indices: 90582882--90583129 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 40
90582872 CGGAATACGA
*
90582882 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTCTTAGC
* * * * *
90582922 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* *
90582962 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* *
90583002 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
90583042 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTAGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
90583082 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
90583122 CCGGATAT
1 CCGGATAT
90583130 CATTCAATTG
Statistics
Matches: 180, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
39 2 0.01
40 175 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:90583112 original size:120 final size:120
Alignment explanation
Indices: 90582882--90583129 Score: 320
Period size: 120 Copynumber: 2.1 Consensus size: 120
90582872 CGGAATACGA
* *
90582882 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
* * * * *
90582947 CCTTCGGGTATTAGCCCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
66 CCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGC
* * * *
90583002 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
* ** * *
90583065 TGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
64 TGCCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGC
90583122 CCGGATAT
1 CCGGATAT
90583130 CATTCAATTG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
118 1 0.01
119 2 0.02
120 106 0.97
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (120 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAACCCGGATATAACAACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:90588264 original size:40 final size:39
Alignment explanation
Indices: 90588104--90588266 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
90588094 TGTGTATGAA
*
90588104 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
90588143 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
90588182 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
90588221 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
90588261 TGTGCG
1 TGTGCG
90588267 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:90588282 original size:40 final size:39
Alignment explanation
Indices: 90588104--90588297 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
90588094 TGTGTATGAA
* *
90588104 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
90588143 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
90588182 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
90588221 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
90588261 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
90588298 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:90596177 original size:40 final size:39
Alignment explanation
Indices: 90596017--90596179 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
90596007 TGTGTATGAA
*
90596017 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
90596056 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
90596095 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
90596134 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
90596174 TGTGCG
1 TGTGCG
90596180 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:90596195 original size:40 final size:39
Alignment explanation
Indices: 90596017--90596210 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
90596007 TGTGTATGAA
* *
90596017 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
90596056 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
90596095 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
90596134 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
90596174 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
90596211 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:90608523 original size:40 final size:40
Alignment explanation
Indices: 90608478--90608644 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
90608468 CGGAATATAA
90608478 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
90608518 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
90608558 CCGGATATAGCCACTAGCACAATTGCCTTC-GGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
90608597 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
90608637 CCGGATAT
1 CCGGATAT
90608645 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 32 0.30
40 73 0.70
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90610406 original size:40 final size:39
Alignment explanation
Indices: 90610336--90610466 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
90610326 TGTCACATAA
* * *
90610336 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCAC-AATGCCTTCGGGTCTTAG
* *
90610376 CCTGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCAC-AATGCCTTCGGGTCTTAG
* * * *
90610416 CCCGGATATAGCTACTAGCACAACTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAA-TGCCTTCGGGTCTTAG
*
90610456 CCCGGTTATAA
1 CCCGGATATAA
90610467 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (39 bp):
CCCGGATATAACAACTTGCACAATGCCTTCGGGTCTTAG
Found at i:90616604 original size:27 final size:27
Alignment explanation
Indices: 90616574--90616771 Score: 272
Period size: 27 Copynumber: 7.3 Consensus size: 27
90616564 TACAGAAATG
**
90616574 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
90616601 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
90616628 CCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
90616655 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
90616682 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
90616709 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
90616736 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
90616763 CCCTCGATT
1 CCCTCGATT
90616772 GTGAAATTAC
Statistics
Matches: 153, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 151 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:90616689 original size:81 final size:81
Alignment explanation
Indices: 90616574--90616771 Score: 317
Period size: 81 Copynumber: 2.4 Consensus size: 81
90616564 TACAGAAATG
* *
90616574 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
90616639 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* *
90616655 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
90616720 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * *
90616736 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
90616772 GTGAAATTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.01
81 108 0.99
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.38
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCAATTTA
CAAAATTACCATTTTA
Found at i:90616793 original size:27 final size:27
Alignment explanation
Indices: 90616763--90616953 Score: 124
Period size: 27 Copynumber: 7.1 Consensus size: 27
90616753 TACCGTTTTA
* * *
90616763 CCCTCGATTGTGAAATTACTAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* * * *
90616790 CCCTATA-AGATAGAATTACCGAAATAC
1 CCCTAGATTG-TAAAATTACCAAAATAC
* *
90616817 CTCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
* *
90616844 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTAGATTGTAAAATTACCAAAATAC
** * * * * *
90616871 CATTGGTTTGTGAAATTATCGAAATA-
1 CCCTAGATTGTAAAATTACCAAAATAC
90616897 CCCTCA-ATTTGTAAAATTACCAAAATAC
1 CCCT-AGA-TTGTAAAATTACCAAAATAC
90616925 CCCTA-ATT-TACAAAATTA-CAGAAATAC
1 CCCTAGATTGT--AAAATTACCA-AAATAC
90616952 CC
1 CC
90616954 TTGACTTTCT
Statistics
Matches: 129, Mismatches: 27, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.01
26 7 0.05
27 116 0.90
28 5 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
CCCTAGATTGTAAAATTACCAAAATAC
Found at i:90616842 original size:54 final size:54
Alignment explanation
Indices: 90616770--90616925 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 54
90616760 TTACCCTCGA
* *
90616770 TTGTGAAATTACTAAAATACCCCTA-TAAGATAGAATTACCGAAATACC-TCTAGT
1 TTGTGAAATTACCAAAATACCCCTAGTAAG-TAAAATTACCGAAATACCAT-TAGT
* ** *
90616824 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCATTGGT
1 TTGTGAAATTACCAAAATACCCCTAGTAAGTAAAATTACCGAAATACCATTAGT
* * * ** *
90616878 TTGTGAAATTATCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCAAAATACCCCT-AGTAAGTAAAATTACCGAAATACC
90616926 CCTAATTTAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.05
54 81 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTGTGAAATTACCAAAATACCCCTAGTAAGTAAAATTACCGAAATACCATTAGT
Found at i:90616894 original size:81 final size:81
Alignment explanation
Indices: 90616803--90616952 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 81
90616793 TATAAGATAG
* * ** *
90616803 AATTACCGAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAA
1 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAA
90616867 ATACCATTGGTTTGTGA
65 ATACCATTGGTTTGTGA
*
90616884 AATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
1 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
90616949 TACC
66 TACC
90616953 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 58 0.94
82 4 0.06
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACAGAAA
TACCATTGGTTTGTGA
Found at i:90616941 original size:54 final size:54
Alignment explanation
Indices: 90616803--90616954 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
90616793 TATAAGATAG
* * *
90616803 AATTACCGAAATACCTCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCGAAATACCACTAGTTTGTAAAATTA-CGAAATACCCTCTAATTTGTAA
* * *
90616857 AATTACCGAAATACCATTGGTTTGTGAAATTATCGAAATACCCTC-AATTTGTAA
1 AATTACCGAAATACCACTAGTTTGTAAAATTA-CGAAATACCCTCTAATTTGTAA
* * * **
90616911 AATTACCAAAATACCCCTAATTTACAAAATTACAGAAATACCCT
1 AATTACCGAAATACCACTAGTTTGTAAAATTAC-GAAATACCCT
90616955 TGACTTTCTA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 79 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACCGAAATACCACTAGTTTGTAAAATTACGAAATACCCTCTAATTTGTAA
Found at i:90617111 original size:27 final size:27
Alignment explanation
Indices: 90617070--90617134 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
90617060 ACCCTTAATA
* *
90617070 GGTAAAAAGATCGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA-CCCCTGTAG
* * *
90617097 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
90617124 GGTAAAATGAC
1 GGTAAAATGAC
90617135 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:90621876 original size:25 final size:24
Alignment explanation
Indices: 90621838--90621907 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
90621828 AGGAAGTGCT
*
90621838 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
90621862 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
90621887 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
90621908 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:90621920 original size:24 final size:24
Alignment explanation
Indices: 90621837--90621920 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
90621827 GAGGAAGTGC
* *
90621837 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
90621862 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
90621886 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
90621910 TAAAAGAGGCT
1 TAAAAG-GGCT
90621921 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:90622114 original size:42 final size:42
Alignment explanation
Indices: 90622055--90622146 Score: 184
Period size: 42 Copynumber: 2.2 Consensus size: 42
90622045 TAGTCTCCCC
90622055 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
90622097 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
90622139 AAATGGGC
1 AAATGGGC
90622147 CTAAGGGCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:90637037 original size:17 final size:15
Alignment explanation
Indices: 90637007--90637040 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
90636997 ACGAAGTCCC
90637007 CCTCCCTTTCCCTCA
1 CCTCCCTTTCCCTCA
90637022 CCTCCCTCTCTCCCTCA
1 CCTCCCT-T-TCCCTCA
90637039 CC
1 CC
90637041 CGTTGCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.06, C:0.65, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTCCCTTTCCCTCA
Found at i:90641135 original size:2 final size:2
Alignment explanation
Indices: 90641123--90641156 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
90641113 TACTTATGAT
*
90641123 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90641157 GTGGAAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:90642710 original size:46 final size:46
Alignment explanation
Indices: 90642626--90642787 Score: 175
Period size: 47 Copynumber: 3.5 Consensus size: 46
90642616 TGTGAGAGCT
* * *
90642626 AGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCAT-TGACTCGAGATGTAAGCC
* * *
90642673 AGTGTAAGA-CATGTCTGGGACATGCGTTGGCTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATTGACT-CGAGATGTA-AGCC
* * * *
90642719 AGTGTAAGACCATGTTTGGGACATGGCTTTGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGACTCGAGATGTAAGCC
*
90642766 AGTGTAAGACCGTGTCTGGGAC
1 AGTGTAAGACCATGTCTGGGAC
90642788 CTGGCATCGG
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 4 0.04
46 35 0.36
47 50 0.52
48 8 0.08
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGACTCGAGATGTAAGCC
Found at i:90643768 original size:13 final size:13
Alignment explanation
Indices: 90643750--90643785 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
90643740 GCTATGTGAA
90643750 GGACACGGGTCAG
1 GGACACGGGTCAG
90643763 GGACACGGGTCAG
1 GGACACGGGTCAG
90643776 GGACACGGGT
1 GGACACGGGT
90643786 GTGTGCTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.47, T:0.08
Consensus pattern (13 bp):
GGACACGGGTCAG
Found at i:90649873 original size:46 final size:47
Alignment explanation
Indices: 90649805--90649922 Score: 161
Period size: 46 Copynumber: 2.5 Consensus size: 47
90649795 TGTGAGAGCT
90649805 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CTACGAGACGAT-AGCC
* * * *
90649852 AGTGTAAGA-CATGTCTGGGACATACGTCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGACGATAGCC
90649898 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
90649923 GCTTTGACTT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
45 2 0.03
46 37 0.59
47 24 0.38
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGACGATAGCC
Found at i:90649948 original size:47 final size:46
Alignment explanation
Indices: 90649805--90649966 Score: 141
Period size: 47 Copynumber: 3.5 Consensus size: 46
90649795 TGTGAGAGCT
* * ** **
90649805 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCTTC-GACTTAAGATATAAGCC
* * * *
90649852 AGTGTAAGA-CATGTCTGGGACATACGTCGGC-TACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCTTCGACTTA--AGAT-ATAAGCC
*
90649898 AGTGTAAGACCATGTCTGGGACATGGCTTTGACTTAAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCTTCGACTTAAGATATAAGCC
* *
90649945 AGTGTAAGACCGTGTATGGGAC
1 AGTGTAAGACCATGTCTGGGAC
90649967 CTGGCATCGG
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 34 0.37
47 51 0.55
48 4 0.04
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCTTCGACTTAAGATATAAGCC
Found at i:90655739 original size:2 final size:2
Alignment explanation
Indices: 90655732--90655758 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90655722 AACGCATGTG
90655732 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
90655759 GTCACAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90657150 original size:40 final size:40
Alignment explanation
Indices: 90657114--90657210 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
90657104 CGGCTATTTG
* *
90657114 TGGCACTTAGTGTGTGACTTGACATAGCTTCAGCTATAAA
1 TGGCACTTAGTGTGTGACTTAACATAGCTTCAGCTATATA
* * * * *
90657154 TGGCACTTAGTGTGCGATTTAAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGTGACTTAACATAGCTTCAGCTATATA
* *
90657194 CGACACTTAGTGTGTGA
1 TGGCACTTAGTGTGTGA
90657211 GATATCGAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGTGACTTAACATAGCTTCAGCTATATA
Found at i:90657248 original size:28 final size:28
Alignment explanation
Indices: 90657197--90657250 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
90657187 CTATGTACGA
** *
90657197 CACTTAGTGTGTGAGATATCGAGTATGG
1 CACTTAGTGTGCAAGACATCGAGTATGG
*
90657225 CACTTAGTGTGCAAGACATTGAGTAT
1 CACTTAGTGTGCAAGACATCGAGTAT
90657251 TCAACGGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCAAGACATCGAGTATGG
Found at i:90659759 original size:49 final size:46
Alignment explanation
Indices: 90659641--90659858 Score: 185
Period size: 49 Copynumber: 4.6 Consensus size: 46
90659631 TAATGTCAAT
* * *
90659641 TCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGA
1 TCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGA
*
90659687 TGCCATGTCCCAGACATGGTCTTACATTGACT-ATCGAAATCAAGGCCGA
1 T-CCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAA-GCCGA
* * **
90659736 CTCCATGTTCCAGACATGGTCTTACACTAGCTCTCA-CATATCCGTGCCGA
1 -TCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-AT-CAAGCCGA
* * * *
90659786 TGCCATGTCCTAGACATGGTCTTATACTGACACATC--TCGTAGCCGA
1 T-CCATGTCCCAGACATGGTCTTACACTGACTCATCAATC-AAGCCGA
*
90659832 TGCATGTCCCAGACAT-GTCTTACACTG
1 TCCATGTCCCAGACATGGTCTTACACTG
90659859 GCATTTCATA
Statistics
Matches: 140, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 11 0.08
47 28 0.20
48 8 0.06
49 32 0.23
50 32 0.23
51 4 0.03
52 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
TCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGA
Found at i:90659831 original size:96 final size:95
Alignment explanation
Indices: 90659641--90659857 Score: 232
Period size: 96 Copynumber: 2.3 Consensus size: 95
90659631 TAATGTCAAT
*
90659641 TCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
1 TCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
*
90659706 TCTTACATTGACTATCGAAATCAAGGCCGA
66 TCTTACACTGACTATCGAAATCAAGGCCGA
* * *
90659736 CTCCATGTTCCAGACATGGTCTTACACTAGCTC-TCACAT-ATCCGTGCCGATGCCATGTCCTAG
1 -TCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCA--AGT--CGATGCCATGTCCCAG
* ** *
90659799 ACATGGTCTTATACTGAC-A-C-ATCTCGTA-GCCGA
60 ACATGGTCTTACACTGACTATCGAAATC-AAGGCCGA
*
90659832 TGCATGTCCCAGACAT-GTCTTACACT
1 TCCATGTCCCAGACATGGTCTTACACT
90659858 GGCATTTCAT
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
94 10 0.10
95 17 0.16
96 41 0.39
97 4 0.04
98 1 0.01
99 31 0.30
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
TCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACTATCGAAATCAAGGCCGA
Found at i:90662483 original size:15 final size:15
Alignment explanation
Indices: 90662463--90662504 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
90662453 TCCATAACGG
90662463 AGAAATCCAGAATATA
1 AGAAATCCAGAATA-A
90662479 A-AAATCCA-ACATAA
1 AGAAATCCAGA-ATAA
90662493 AGAAATCCAGAA
1 AGAAATCCAGAA
90662505 GAAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.13
15 18 0.78
16 2 0.09
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.14
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:90666221 original size:50 final size:50
Alignment explanation
Indices: 90666053--90666279 Score: 178
Period size: 49 Copynumber: 4.7 Consensus size: 50
90666043 ATATAATGCT
* * * **
90666053 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC-C--ATC-AAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCGTAGCC
* * *
90666100 GATGCCATGTCCCAGACATGGTCTTACATTTA-CTATCGA-A-ATTG-AGGCC
1 GATGCCATGTCCCAGACATGGTCTTACA-CTAGCTCTC-ACATATCGTA-GCC
*
90666149 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-CGTAGCC
* ** *
90666199 GATGCCATGTCCTAGACATGGTCTT--A-TA-CTGACACATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCGTAGCC
*
90666245 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
90666280 GTCTCAATGC
Statistics
Matches: 144, Mismatches: 20, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
44 5 0.03
45 16 0.11
46 18 0.12
47 32 0.22
48 11 0.08
49 33 0.23
50 28 0.19
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCGTAGCC
Found at i:90666262 original size:45 final size:46
Alignment explanation
Indices: 90666146--90666273 Score: 136
Period size: 50 Copynumber: 2.7 Consensus size: 46
90666136 CGAAATTGAG
* **
90666146 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTT--A-TA-CTGACACATATCCGT
* *
90666196 GCCGATGCCATGTCCTAGACATGGTCTTATACTGACACATCT-CGT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACACATATCCGT
*
90666241 AGCCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTATACTG
90666274 GCTCTCGTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
44 10 0.14
45 16 0.23
46 15 0.21
47 2 0.03
48 1 0.01
50 26 0.37
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTGACACATATCCGT
Found at i:90679043 original size:55 final size:57
Alignment explanation
Indices: 90678982--90679109 Score: 140
Period size: 55 Copynumber: 2.3 Consensus size: 57
90678972 CCCGTACTAA
* *
90678982 TTTAACAGGTTCGACCACA-GG-TGTTCCACAC-GGGCGTGTTGGACGCCCGTGCTGT
1 TTTAACAGGTTCGACCACATGGTTCTTCCACACAGGGC-TGTCGGACGCCCGTGCTGT
* * *
90679037 TTTAACAGGTTCG-CC-CATGGTTCTTCCACACAGGTCTGTCGTATGCCCGTGCTGT
1 TTTAACAGGTTCGACCACATGGTTCTTCCACACAGGGCTGTCGGACGCCCGTGCTGT
** *
90679092 TTTGGCAGGCTCGACCAC
1 TTTAACAGGTTCGACCAC
90679110 GGCCATATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
53 2 0.03
54 4 0.07
55 48 0.80
56 5 0.08
57 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.28
Consensus pattern (57 bp):
TTTAACAGGTTCGACCACATGGTTCTTCCACACAGGGCTGTCGGACGCCCGTGCTGT
Found at i:90683610 original size:90 final size:90
Alignment explanation
Indices: 90683431--90683690 Score: 371
Period size: 90 Copynumber: 2.9 Consensus size: 90
90683421 GTTTTAAACC
* * *
90683431 TAAAA-TGAGTAAG-ACATAACTAAAAGATGCTATGGTGTCATGATAAAAATGAGTAAGACCATA
1 TAAAAGTGAGCAAGAACATAGCTAAAATATGCTATGGTGTCATGATAAAAATGAGTAAGACCATA
*
90683494 GCTGAAAGATGCTATGGTGTTATGA
66 GCTGAAAGATGCTATGGTGTCATGA
* * * * *
90683519 TAAAAGTGAGCAAGACCATAGTTGAAATATGCTATGATGTCATGATAAAAATTAGTAAGACCATA
1 TAAAAGTGAGCAAGAACATAGCTAAAATATGCTATGGTGTCATGATAAAAATGAGTAAGACCATA
90683584 GCTGAAAGATGCTATGGTGTCATGA
66 GCTGAAAGATGCTATGGTGTCATGA
* * ** *
90683609 TAAAAGTGAGCAAGAACATAGCTAAAATATGTTGTGGCATCATGATAAAAATGAGTAAGACTATA
1 TAAAAGTGAGCAAGAACATAGCTAAAATATGCTATGGTGTCATGATAAAAATGAGTAAGACCATA
*
90683674 GCTAAAAGATGCTATGG
66 GCTGAAAGATGCTATGG
90683691 CATCATATGA
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 5 0.03
89 7 0.05
90 138 0.92
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (90 bp):
TAAAAGTGAGCAAGAACATAGCTAAAATATGCTATGGTGTCATGATAAAAATGAGTAAGACCATA
GCTGAAAGATGCTATGGTGTCATGA
Found at i:90683696 original size:45 final size:45
Alignment explanation
Indices: 90683432--90683690 Score: 331
Period size: 45 Copynumber: 5.8 Consensus size: 45
90683422 TTTTAAACCT
*
90683432 AAAATGAGTAAGA-CATAACTAAAAGATGCTATGGTGTCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGTGTCATGATA
* *
90683476 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGGTGTTATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGTGTCATGATA
* * * * * *
90683521 AAAGTGAGCAAGACCATAGTTGAAATATGCTATGATGTCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGTGTCATGATA
* *
90683566 AAAATTAGTAAGACCATAGCTGAAAGATGCTATGGTGTCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGTGTCATGATA
* * * * * * **
90683611 AAAGTGAGCAAGAACATAGCTAAAATATGTTGTGGCATCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGTGTCATGATA
*
90683656 AAAATGAGTAAGACTATAGCTAAAAGATGCTATGG
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGG
90683691 CATCATATGA
Statistics
Matches: 182, Mismatches: 32, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
44 13 0.07
45 169 0.93
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.25
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTAAAAGATGCTATGGTGTCATGATA
Found at i:90684815 original size:12 final size:12
Alignment explanation
Indices: 90684798--90684826 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
90684788 ATACACACGC
90684798 CCGTGTGCTAGG
1 CCGTGTGCTAGG
90684810 CCGTGTGCTAGG
1 CCGTGTGCTAGG
90684822 CCGTG
1 CCGTG
90684827 CCAAACCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.41, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:90686990 original size:28 final size:27
Alignment explanation
Indices: 90686927--90686996 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
90686917 ATAGTGAGTC
90686927 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
90686954 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
90686982 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90686997 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:90692577 original size:40 final size:40
Alignment explanation
Indices: 90692494--90692646 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
90692484 TCGAATGATG
* *
90692494 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
90692534 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
90692574 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
90692615 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
90692647 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:90705363 original size:43 final size:44
Alignment explanation
Indices: 90705262--90705377 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
90705252 GGTTACTGAG
*
90705262 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCATTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCATTA
** ** *
90705306 AT-CAATTATGTGTAAGACCCTGTCTGGGACAATGGCATCGA-T-
1 ATGTGATTACATGTAAGACCATGTCTGGGACAATGGCATC-ATTA
* *
90705348 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
90705378 TATGACATTG
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
42 2 0.04
43 52 0.91
44 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACAATGGCATCATTA
Found at i:90713048 original size:33 final size:33
Alignment explanation
Indices: 90713011--90713102 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 33
90713001 TTCTTTCACG
* *
90713011 TGCCATAAACCAGTTATAGTCTTTTTAGTCGAT
1 TGCCATAAACCAGCTATAGTCTTATTAGTCGAT
** * * *
90713044 TGCCATAGTCTAGCTATGGTCTTATTATTCGAT
1 TGCCATAAACCAGCTATAGTCTTATTAGTCGAT
** *
90713077 TGCCATAGCCCAGCTATGGTCTTATT
1 TGCCATAAACCAGCTATAGTCTTATT
90713103 CGACAACTTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (33 bp):
TGCCATAAACCAGCTATAGTCTTATTAGTCGAT
Found at i:90713593 original size:43 final size:43
Alignment explanation
Indices: 90713529--90713703 Score: 212
Period size: 43 Copynumber: 4.1 Consensus size: 43
90713519 TCACATAAAG
* * * *
90713529 CTCATA-CAATGCC-ATATCCCAGATATGGTATTACATGTTAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
*
90713570 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGTAAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* * * * *
90713613 CACATAACGATGCCAATGTCCTAGACATGGTCTTACACGTAAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
90713656 CACA-ATACAATGCTAATGTCCCAGACATGGTCTTACATGTAAT
1 CTCATAT-CAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
90713699 CTCAT
1 CTCAT
90713704 CTCGGTAATC
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
41 6 0.05
42 7 0.06
43 102 0.89
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
Found at i:90716112 original size:27 final size:27
Alignment explanation
Indices: 90716082--90716205 Score: 185
Period size: 27 Copynumber: 4.6 Consensus size: 27
90716072 TTAGTTTTCC
*
90716082 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
90716109 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
90716136 AAATTACCAAAATACCCCTAGCTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
90716163 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
**
90716190 AAATTACTGAAATACC
1 AAATTACCAAAATACC
90716206 ATCGACCTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:90716260 original size:27 final size:26
Alignment explanation
Indices: 90716082--90716261 Score: 144
Period size: 27 Copynumber: 6.7 Consensus size: 26
90716072 TTAGTTTTCC
**
90716082 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GACTTGTA
**
90716109 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCC-GACTTGTA
*
90716136 AAATTACCAAAATACCCCTAGCTTGTA
1 AAATTACCAAAATACCCCGA-CTTGTA
* * *
90716163 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCC-GACTTGTA
** * * *
90716190 AAATTACTGAAATACCATCGACCTATA
1 AAATTACCAAAATACC-CCGACTTGTA
***
90716217 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CGACTTGTA
* *
90716244 AAATTACTAAAGTACCCC
1 AAATTACCAAAATACCCC
90716262 TAATTTACAG
Statistics
Matches: 128, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCAAAATACCCCGACTTGTA
Found at i:90716286 original size:27 final size:26
Alignment explanation
Indices: 90716264--90716801 Score: 529
Period size: 27 Copynumber: 19.9 Consensus size: 26
90716254 AGTACCCCTA
90716264 ATTTACAGAATTATCATTTTACCCTCG
1 ATTTACAGAATTA-CATTTTACCCTCG
*
90716291 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTA-CATTTTACCCTCG
*
90716318 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTAC-ATTTTACCCTCG
* **
90716345 ATTTATAGAATTATTGTTTTACCCTCG
1 ATTTACAGAATTA-CATTTTACCCTCG
* * *
90716372 ATTTACAGAATAACTGTTTTACCCTCA
1 ATTTACAGAATTAC-ATTTTACCCTCG
* *
90716399 ATTTATAGAATTATCGTTTTACCCTCG
1 ATTTACAGAATTA-CATTTTACCCTCG
*
90716426 ATTGACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTAC-ATTTTACCCTCG
* *
90716453 ATTTATAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTAC-ATTTTACCCTCG
*
90716480 ATTTATAGAATT-CGTATTTTACCCTCG
1 ATTTACAGAATTAC--ATTTTACCCTCG
* * *
90716507 ATTTACAAAATTACTGTTTTACCCTCA
1 ATTTACAGAATTAC-ATTTTACCCTCG
* *
90716534 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTA-CATTTTACCCTCG
* *
90716561 ATTGACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTAC-ATTTTACCCTCG
* *
90716588 ATTTACAGAATTACCATTTTATCCTTG
1 ATTTACAGAATTA-CATTTTACCCTCG
*
90716615 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTAC-ATTTTACCCTCG
*
90716642 ATTTACAGAATTACCATTTTACCATCG
1 ATTTACAGAATTA-CATTTTACCCTCG
* * ** *
90716669 ATTGACAAAATTATTGTTTTACCCTTG
1 ATTTACAGAATTA-CATTTTACCCTCG
* * *
90716696 ATTTACAAAATTACTGTTTTACCCTCA
1 ATTTACAGAATTAC-ATTTTACCCTCG
* * *
90716723 ATTTACAAAATTACTATTTTACCATTG
1 ATTTACAGAATTAC-ATTTTACCCTCG
*
90716750 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTA-CATTTTACCCTCG
* *
90716777 ATTTATAAAATTACCATTTTACCCT
1 ATTTACAGAATTA-CATTTTACCCT
90716802 TAGCTTGTTA
Statistics
Matches: 437, Mismatches: 60, Indels: 28
0.83 0.11 0.05
Matches are distributed among these distances:
26 5 0.01
27 426 0.97
28 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (26 bp):
ATTTACAGAATTACATTTTACCCTCG
Found at i:90716301 original size:54 final size:54
Alignment explanation
Indices: 90716264--90716801 Score: 657
Period size: 54 Copynumber: 10.0 Consensus size: 54
90716254 AGTACCCCTA
* **
90716264 ATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * * * *
90716318 ATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* ** * * *
90716372 ATTTACAGAATAACTGTTTTACCCTCAATTTATAGAATTA-TCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACT-GTTTTACCCTCG
* * * *
90716426 ATTGACAGAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * *
90716480 ATTTATAGAATT-CGTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCA
1 ATTTACAGAATTAC-CATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * * *
90716534 ATTTATAGAATTACCGTTTTACCCTCGATTGACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * *
90716588 ATTTACAGAATTACCATTTTATCCTTGATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * * *
90716642 ATTTACAGAATTACCATTTTACCATCGATTGACAAAATTATTGTTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* ** * * * *
90716696 ATTTACAAAATTACTGTTTTACCCTCAATTTACAAAATTACTATTTTACCATTG
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
* * **
90716750 ATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCCT
1 ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCT
90716802 TAGCTTGTTA
Statistics
Matches: 425, Mismatches: 55, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.00
54 421 0.99
55 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCG
Found at i:90716314 original size:81 final size:81
Alignment explanation
Indices: 90716229--90716801 Score: 598
Period size: 81 Copynumber: 7.1 Consensus size: 81
90716219 ATTATTGAAA
* * *** * *
90716229 TACCCTCGACTTGTAAAATTACTAAAGTACCC-CTAATTTACAGAATTATCATTTTACCCTCGAT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTC-GATTTACAGAATTATCGTTTTACCCTCGAT
**
90716293 TTACAAAATTACCATTT
65 TTACAAAATTACTGTTT
* * *
90716310 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
* *
90716375 TACAGAATAACTGTTT
66 TACAAAATTACTGTTT
* * * * *
90716391 TACCCTCAATTTATAGAATTA-TCGTTTTACCCTCGATTGACAGAATTA-CTATTTTACCCTCGA
1 TACCCTCGATTTATAAAATTACT-ATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTCGA
* *
90716454 TTTATAGAATTACTGTTT
64 TTTACAAAATTACTGTTT
* * *
90716472 TACCCTCGATTTATAGAATT-CGTATTTTACCCTCGATTTACAAAATTA-CTGTTTTACCCTCAA
1 TACCCTCGATTTATAAAATTAC-TATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTCGA
* * *
90716535 TTTATAGAATTACCGTTT
64 TTTACAAAATTACTGTTT
* * * * * * * *
90716553 TACCCTCGATTGACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTATCCTTGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
*
90716618 TACAAAATTACTATTT
66 TACAAAATTACTGTTT
* * * * * * * *
90716634 TACCCTCGATTTACAGAATTACCATTTTACCATCGATTGACAAAATTATTGTTTTACCCTTGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
90716699 TACAAAATTACTGTTT
66 TACAAAATTACTGTTT
* * * * *
90716715 TACCCTCAATTTACAAAATTACTATTTTACCATTGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
* **
90716780 TATAAAATTACCATTT
66 TACAAAATTACTGTTT
90716796 TACCCT
1 TACCCT
90716802 TAGCTTGTTA
Statistics
Matches: 419, Mismatches: 66, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.00
81 414 0.99
82 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:90718511 original size:40 final size:40
Alignment explanation
Indices: 90718466--90718595 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
90718456 CGGAATATAA
90718466 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
90718506 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
90718546 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
90718586 CCGGATATAA
1 CCGGATATAA
90718596 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:90718610 original size:40 final size:39
Alignment explanation
Indices: 90718482--90718632 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
90718472 ATAACCATGT
* * *
90718482 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
90718522 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
90718562 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
90718601 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
90718633 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:90718616 original size:80 final size:79
Alignment explanation
Indices: 90718466--90718632 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
90718456 CGGAATATAA
*
90718466 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
90718531 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
90718546 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
90718608 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
90718625 CCGGATAT
1 CCGGATAT
90718633 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:90721425 original size:14 final size:14
Alignment explanation
Indices: 90721406--90721434 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90721396 CAGATACAAA
90721406 GTCCATTGTGACTC
1 GTCCATTGTGACTC
90721420 GTCCATTGTGACTC
1 GTCCATTGTGACTC
90721434 G
1 G
90721435 ATCCCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.24, T:0.34
Consensus pattern (14 bp):
GTCCATTGTGACTC
Found at i:90726549 original size:40 final size:40
Alignment explanation
Indices: 90726504--90726670 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
90726494 CGGAATATAA
*
90726504 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
90726544 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
90726584 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
90726624 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
90726663 CCGGATAT
1 CCGGATAT
90726671 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90726654 original size:80 final size:79
Alignment explanation
Indices: 90726520--90726670 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
90726510 ATAACCATGT
*
90726520 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
90726585 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
90726600 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
90726663 CCGGATAT
64 CCGGATAT
90726671 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:90727998 original size:19 final size:21
Alignment explanation
Indices: 90727952--90727991 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
90727942 AGATGAACAC
90727952 TTTTTTTTTTCTCATCTACTCA
1 TTTTTTTTTTCTCA-CTACTCA
90727974 TTTTTTTTTTC-CA-TACTC
1 TTTTTTTTTTCTCACTACTC
90727992 TTATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTTTTTCTCACTACTCA
Found at i:90732161 original size:40 final size:39
Alignment explanation
Indices: 90732116--90732243 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
90732106 CGGAATACAA
90732116 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
90732156 CCGGATAGAACGACTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
* * *
90732194 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
90732234 CCGGATATAA
1 CCGGATATAA
90732244 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
38 22 0.29
39 26 0.34
40 28 0.37
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:90732174 original size:39 final size:39
Alignment explanation
Indices: 90732116--90732240 Score: 157
Period size: 39 Copynumber: 3.2 Consensus size: 39
90732106 CGGAATACAA
*
90732116 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
*
90732156 CCGGATAGAACGACTGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATAGAACCACTGCACGAATGCCTTCGGGTCTTAGC
* *
90732194 CCGGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAG-AACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
90732234 CCGGATA
1 CCGGATA
90732241 TAATTTCCAG
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
37 1 0.01
38 22 0.29
39 26 0.35
40 26 0.35
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CCGGATAGAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:90740074 original size:40 final size:39
Alignment explanation
Indices: 90740029--90740158 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
90740019 CGGAATACAA
90740029 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
90740069 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
90740109 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
90740149 CCGGATATAA
1 CCGGATATAA
90740159 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:90746409 original size:24 final size:24
Alignment explanation
Indices: 90746377--90746460 Score: 159
Period size: 24 Copynumber: 3.5 Consensus size: 24
90746367 CTCAAATGCG
90746377 CTATGTGTGCGATTTACTATGGCA
1 CTATGTGTGCGATTTACTATGGCA
*
90746401 CTATGTGTGCGATTTACTATAGCA
1 CTATGTGTGCGATTTACTATGGCA
90746425 CTATGTGTGCGATTTACTATGGCA
1 CTATGTGTGCGATTTACTATGGCA
90746449 CTATGTGTGCGA
1 CTATGTGTGCGA
90746461 ACATAATAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
CTATGTGTGCGATTTACTATGGCA
Found at i:90746429 original size:48 final size:48
Alignment explanation
Indices: 90746377--90746482 Score: 169
Period size: 48 Copynumber: 2.2 Consensus size: 48
90746367 CTCAAATGCG
** *
90746377 CTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATAGCA
1 CTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-AGCA
90746425 CTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAAGCA
1 CTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAAGCA
90746473 CTATGTGTGC
1 CTATGTGTGC
90746483 AACGTTTGGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 49 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (48 bp):
CTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAAGCA
Found at i:90746473 original size:24 final size:24
Alignment explanation
Indices: 90746377--90746482 Score: 151
Period size: 24 Copynumber: 4.4 Consensus size: 24
90746367 CTCAAATGCG
*
90746377 CTATGTGTGCGATTTACTATGGCA
1 CTATGTGTGCGATTTACTATAGCA
90746401 CTATGTGTGCGATTTACTATAGCA
1 CTATGTGTGCGATTTACTATAGCA
*
90746425 CTATGTGTGCGATTTACTATGGCA
1 CTATGTGTGCGATTTACTATAGCA
** *
90746449 CTATGTGTGCGAACATAATA-AGCA
1 CTATGTGTGCG-ATTTACTATAGCA
90746473 CTATGTGTGC
1 CTATGTGTGC
90746483 AACGTTTGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
24 70 0.93
25 5 0.07
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (24 bp):
CTATGTGTGCGATTTACTATAGCA
Found at i:90770406 original size:29 final size:29
Alignment explanation
Indices: 90770373--90770429 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
90770363 AGGCCTAGGG
90770373 CACAGGCTATCACACGGATGTGTGTCACT
1 CACAGGCTATCACACGGATGTGTGTCACT
* * *
90770402 CACAGGCTGTCACATGGTTGTGTGTCAC
1 CACAGGCTATCACACGGATGTGTGTCAC
90770430 ACACGGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (29 bp):
CACAGGCTATCACACGGATGTGTGTCACT
Found at i:90770833 original size:61 final size:61
Alignment explanation
Indices: 90770738--90770860 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
90770728 AGTGGTTAAG
* *
90770738 TGGTTAAGTGCTTCTTAACTATCCTTTAAGTCTCTAGTTCGAACCTTTATGTGCCTATTAT
1 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCCTATTAT
* *
90770799 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTTGAACCCTTATGTGCTTATTAT
1 TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCCTATTAT
90770860 T
1 T
90770861 TTTATTTAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.45
Consensus pattern (61 bp):
TGGTTAAGTGCTCCTTAACTATCCTTTAAGTCTCTAGTTCGAACCCTTATGTGCCTATTAT
Found at i:90773232 original size:40 final size:40
Alignment explanation
Indices: 90773154--90773375 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
90773144 ACCCAAGTAT
* *
90773154 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
90773193 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
90773233 CTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
90773273 CTTCGGGACTTAGCCCGG-TATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
90773315 CTT-GGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
90773354 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
90773376 CATCCGAATA
Statistics
Matches: 162, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 93 0.57
41 15 0.09
42 21 0.13
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:90773354 original size:81 final size:80
Alignment explanation
Indices: 90773154--90773375 Score: 299
Period size: 81 Copynumber: 2.8 Consensus size: 80
90773144 ACCCAAGTAT
* * * *
90773154 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
90773218 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
90773233 CTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
90773296 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
90773315 CTT-GGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
90773376 CATCCGAATA
Statistics
Matches: 126, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 21 0.17
80 39 0.31
81 51 0.40
82 14 0.11
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:90773366 original size:121 final size:119
Alignment explanation
Indices: 90773154--90773373 Score: 336
Period size: 121 Copynumber: 1.8 Consensus size: 119
90773144 ACCCAAGTAT
* * *
90773154 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
**
90773219 ACTAGCATGAATGCCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGC
66 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGC
90773273 CTTCGGGACTTAGCCCGG-TATAGCAACTACTCGCACAAATGCCTT-GGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
90773336 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAT
62 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
90773374 ATCATCCGAA
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
119 18 0.20
120 5 0.05
121 51 0.56
122 17 0.19
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATGC
Found at i:90778943 original size:40 final size:40
Alignment explanation
Indices: 90778871--90779043 Score: 163
Period size: 40 Copynumber: 4.3 Consensus size: 40
90778861 CATGAGAAAT
* * *
90778871 TAATGATATCCGGGCTAAG-CCCTGAAGACAATTATGCTGG
1 TAATTATATCCGGGCTAAGACCC-GAAGGCAATTGTGCTGG
* * *
90778911 AAATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG
1 TAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG
***
90778951 TGGCTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAG
1 TAATTATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G
* * * **
90778991 TTATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACG
1 TAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG
*
90779031 TGATTATATCCGG
1 TAATTATATCCGG
90779044 TTATATTCCG
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 100 0.93
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TAATTATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG
Found at i:90781854 original size:80 final size:81
Alignment explanation
Indices: 90781721--90781926 Score: 298
Period size: 80 Copynumber: 2.6 Consensus size: 81
90781711 AATGATGTCT
*
90781721 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGGTTAAGTCCCGAAGGCATGTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATGTGT
90781785 GCGAGTTACTATAACC
66 GCGAGTTACTATAACC
* * *
90781801 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATCA-CCGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAT-ATCCGGGCTAAGTCCCGAAGGCATGTG
*
90781864 TGCGAGTTACTATAACT
65 TGCGAGTTACTATAACC
*
90781881 GGGCTAAGTCCCGAAGGCATTTGAGCT-AGT-AGCTATATCC-GGCTAA
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGA-CTATATCCGGGCTAA
90781927 ACTCCGAAGG
Statistics
Matches: 115, Mismatches: 6, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
79 8 0.07
80 99 0.86
81 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATGTGT
GCGAGTTACTATAACC
Found at i:90781917 original size:40 final size:40
Alignment explanation
Indices: 90781721--90781903 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
90781711 AATGATGTCT
* * *
90781721 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* *
90781761 GGGTTAAGTCCCGAAGGCATGTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
90781801 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
90781841 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
90781881 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
90781904 AGCTAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 126 0.95
41 6 0.05
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:90783427 original size:2 final size:2
Alignment explanation
Indices: 90783420--90783447 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
90783410 ACCAGAACAG
90783420 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
90783448 GTGGCGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90783786 original size:54 final size:53
Alignment explanation
Indices: 90783701--90783829 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 53
90783691 CAAAAAGGTA
* *
90783701 ATTTTACCC-ATAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
90783753 ATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTT-TACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
* *
90783807 AATTTACCCTAAAAGGGTATTTC
1 ATTTTACCCTATAAGGGTATTTC
90783830 AATAATTTAG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
52 4 0.06
53 23 0.32
54 44 0.62
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (53 bp):
ATTTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT
Found at i:90783838 original size:26 final size:27
Alignment explanation
Indices: 90783697--90783829 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
90783687 AGGGCAAAAA
* * *
90783697 GGTAATTTTACCC-ATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90783723 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90783750 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
90783777 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
90783804 AGTAATT-TACCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
90783830 AATAATTTAG
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 29 0.31
27 64 0.69
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:90786275 original size:28 final size:28
Alignment explanation
Indices: 90786229--90786297 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
90786219 TTTAAAACCC
*
90786229 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
90786256 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
90786284 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
90786298 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:90788125 original size:19 final size:18
Alignment explanation
Indices: 90788088--90788131 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
90788078 ATACATACAG
90788088 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
90788105 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
90788124 TACTAATT
1 TAATAATT
90788132 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:90790550 original size:28 final size:28
Alignment explanation
Indices: 90790504--90790572 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
90790494 TTTAAAACCC
*
90790504 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
90790531 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
90790559 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
90790573 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:90792399 original size:19 final size:18
Alignment explanation
Indices: 90792362--90792405 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
90792352 ATACATACAG
90792362 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
90792379 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
90792398 TACTAATT
1 TAATAATT
90792406 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:90793415 original size:6 final size:6
Alignment explanation
Indices: 90793385--90793481 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
90793375 TATTAGAACT
* * * * * *
90793385 AGAATC AAAATA AGAATC AGGATC AGAATC AGAATC AAAATT AG-GTGAC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
* * * *
90793434 AGAATT AGAATC AAAATC AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
90793482 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
5 3 0.05
6 55 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:90793467 original size:31 final size:31
Alignment explanation
Indices: 90793409--90793469 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
90793399 AATCAGGATC
* * *
90793409 AGAATCAGAATCAAAATTAGGTGACAGAATT
1 AGAATCAAAATCAAAATCAGGTAACAGAATT
**
90793440 AGAATCAAAATCAGTATCAGGTAACAGAAT
1 AGAATCAAAATCAAAATCAGGTAACAGAAT
90793470 CAAAATCAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAAAATCAGGTAACAGAATT
Found at i:90794055 original size:27 final size:27
Alignment explanation
Indices: 90793921--90794061 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
90793911 GGGCAAAATG
* * *
90793921 GTAATTTTACCCCACAAGGGTATCTT-G
1 GTAATTCTACCCTACAAGGGTAT-TTCA
* *
90793948 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
90793975 GTATTTCTATCCTACAAAGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
90794002 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
90794029 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
90794056 ATAATT
1 GTAATT
90794062 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
26 2 0.02
27 93 0.98
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:90794061 original size:54 final size:54
Alignment explanation
Indices: 90793921--90794054 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
90793911 GGGCAAAATG
* * *
90793921 GTAATTTTACCCCACAAGGGTATCTT-GGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCA
* * *
90793975 GTATTTCTATCCTACAAAGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
90794029 GTAATTCTACCCTACAAGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
90794055 AATAATTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
53 2 0.03
54 68 0.97
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:90796994 original size:5 final size:5
Alignment explanation
Indices: 90796984--90797008 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90796974 GATGCCAACC
90796984 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
90797009 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:90814055 original size:43 final size:43
Alignment explanation
Indices: 90813906--90814079 Score: 142
Period size: 43 Copynumber: 4.0 Consensus size: 43
90813896 CATAGGATTC
* * * *
90813906 TGATATGTGATTTCGTGTAAGACCACGTTTGGGACATTGGCAT
1 TGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
* * * * *
90813949 CGAT-TTGAGATTTACGTGTAAGATCATGTCTGGGACA-TCGACA-
1 TGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACAGT-GGCAT
* **
90813992 TCATATTTGATTTTGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 TGATATTTGATTACGTGTAAGACCAC-GTCTGGGACAGTGGCAT
* *
90814035 TGATATTTGATTACATGTAAGACCACGTCTAGGAC-GTTGGCAT
1 TGATATTTGATTACGTGTAAGACCACGTCTGGGACAG-TGGCAT
90814078 TG
1 TG
90814080 TACGAGCTTT
Statistics
Matches: 101, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 26 0.26
43 47 0.47
44 28 0.28
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:90815338 original size:23 final size:23
Alignment explanation
Indices: 90815286--90815332 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
90815276 GGTACAAATG
90815286 TTAGTGTTTGATTTACTAGTGTA
1 TTAGTGTTTGATTTACTAGTGTA
90815309 TTAGTGTTTGATTTACTAGTGTA
1 TTAGTGTTTGATTTACTAGTGTA
90815332 T
1 T
90815333 ATGTGTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.53
Consensus pattern (23 bp):
TTAGTGTTTGATTTACTAGTGTA
Found at i:90816192 original size:40 final size:40
Alignment explanation
Indices: 90816137--90816340 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
90816127 TGAATGATAC
* * * *
90816137 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
90816177 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
90816217 CCGGGTTAAGACCCGAAGGCATTTGTACGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
90816257 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
90816297 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
90816337 CCGG
1 CCGG
90816341 CTAAATTCCA
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 143 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:90816270 original size:80 final size:80
Alignment explanation
Indices: 90816133--90816344 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
90816123 CAATTGAATG
* * * *
90816133 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
90816197 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * *
90816213 ATATCCGGGTTAAGACCCGAAGGCATTTGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
90816278 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
90816293 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
90816345 ATTCCAAAGA
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:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:90818423 original size:6 final size:6
Alignment explanation
Indices: 90818393--90818511 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
90818383 AAGAAACATT
* * *
90818393 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
90818442 ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
90818493 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
90818512 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:90818447 original size:25 final size:25
Alignment explanation
Indices: 90818414--90818483 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
90818404 AATCAAAATG
90818414 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
90818439 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
90818464 AGAATTAGAATCAAAATCAG
1 AGAATCAGAATCAGAATCAG
90818484 TATCAGGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:90818451 original size:31 final size:30
Alignment explanation
Indices: 90818414--90818511 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 30
90818404 AATCAAAATG
90818414 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
90818445 AGAATCAGAAT----T-AGGTGACAGAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
* *
90818470 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
90818501 AAAATCAGAAT
1 AGAATCAGAAT
90818512 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 22 0.40
26 1 0.02
30 1 0.02
31 31 0.56
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:90820420 original size:40 final size:40
Alignment explanation
Indices: 90820354--90820504 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
90820344 AAATTGAATG
* * *
90820354 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
90820393 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
90820433 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
90820473 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
90820505 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:90820518 original size:40 final size:40
Alignment explanation
Indices: 90820391--90820520 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
90820381 ATGCTGGAAA
* * *
90820391 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
90820431 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
90820471 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
90820511 TTATATCCGG
1 TTATATCCGG
90820521 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:90825608 original size:16 final size:16
Alignment explanation
Indices: 90825589--90825619 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
90825579 CGAGTGGAAA
90825589 TGGGATCGAGTCACAG
1 TGGGATCGAGTCACAG
90825605 TGGGATCGAGTCACA
1 TGGGATCGAGTCACA
90825620 ATGGACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.19
Consensus pattern (16 bp):
TGGGATCGAGTCACAG
Found at i:90828436 original size:40 final size:40
Alignment explanation
Indices: 90828370--90828520 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
90828360 AAATTGAATG
* * *
90828370 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
90828409 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
90828449 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
90828489 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
90828521 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:90828534 original size:40 final size:40
Alignment explanation
Indices: 90828407--90828536 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
90828397 ATGCTGGAAA
* * *
90828407 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
90828447 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
90828487 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
90828527 TTATATCCGG
1 TTATATCCGG
90828537 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:90833198 original size:39 final size:40
Alignment explanation
Indices: 90833140--90833240 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
90833130 AAATTGAATG
* *
90833140 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
90833179 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
90833219 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
90833241 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:90833233 original size:40 final size:40
Alignment explanation
Indices: 90833140--90833322 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
90833130 AAATTGAATG
* * * * *
90833140 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
90833179 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
90833219 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
90833259 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
90833299 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
90833323 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:90840310 original size:17 final size:18
Alignment explanation
Indices: 90840268--90840316 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
90840258 AGTTGAAAAG
90840268 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
90840287 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
90840304 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
90840317 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:90841304 original size:40 final size:39
Alignment explanation
Indices: 90841136--90841306 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
90841126 AGAAATTGAA
* *
90841136 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
90841176 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
90841216 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
90841256 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
90841296 TGATATCCGGG
1 TGATATCCGGG
90841307 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:90846043 original size:50 final size:49
Alignment explanation
Indices: 90845914--90846097 Score: 210
Period size: 50 Copynumber: 3.7 Consensus size: 49
90845904 ATCTATTGTG
* *
90845914 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTG-CCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTAC--TACGTGTACAGATAA-TT
* * **
90845965 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAATT
* *
90846015 AGGTCACGTGTGTAGTACTAAGTCCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AGATAATT
* * *
90846065 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
90846098 TGCGTACCAG
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
49 36 0.32
50 44 0.39
51 34 0.30
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAATT
Found at i:90851174 original size:50 final size:50
Alignment explanation
Indices: 90851083--90851313 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 50
90851073 ATCTATTGTG
* ** * *
90851083 AGGTCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
90851133 -GGTCGCATAGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACAT-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
90851184 CGATCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
90851234 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
90851284 -GGTCGCATGTGTAGCACTAAGTGCAGGCTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTA
90851314 TTATGCGTAC
Statistics
Matches: 147, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 32 0.22
50 77 0.52
51 33 0.22
52 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:90851263 original size:101 final size:101
Alignment explanation
Indices: 90851086--90851267 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 101
90851076 TATTGTGAGG
* *
90851086 TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCGGATAATTGGTCGCATAGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
90851151 TAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
66 TAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
* * * ** *
90851187 TCACGTGTGTAGTACTAAGTG-AAGGCTACTACGTGTATCAGATGGTTAGGTCACGT-GTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAA-CCTACTACATGTACCAGATAATT-GGTCACATAGTGTAGT
**
90851250 ACTAAGTGTAGGCTACTA
64 ACTAAGTACAGGCTACTA
90851268 CATGTACCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
100 2 0.03
101 61 0.88
102 6 0.09
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAACCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
TAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:90851275 original size:101 final size:99
Alignment explanation
Indices: 90851086--90851313 Score: 235
Period size: 101 Copynumber: 2.3 Consensus size: 99
90851076 TATTGTGAGG
* * *
90851086 TCACGTGTGTAGTACTAAGTGCAA-CCTACTACATGTACCGGATAATTGGTCGCATAGTGTAGTA
1 TCACGTGTGTAGTACTAAGTG-AAGGCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTA
** *
90851150 CTAAGTACAGGCTACTATGCGTACCCGATAACTTCGA
65 CTAAGTACAGGCTACTACACGTACCAGATAA-TT-GA
* * ** *
90851187 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCAGATGGTTAGGTCACGT-GTGTAGTA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAATT-GGTCACATAGTGTAGTA
** * *
90851251 CTAAGTGTAGGCTACTACATGTACCAGATAATTGG
65 CTAAGTACAGGCTACTACACGTACCAGATAATTGA
* * * *
90851286 TCGCATGTGTAGCACTAAGTGCAGGCTA
1 TCACGTGTGTAGTACTAAGTGAAGGCTA
90851314 TTATGCGTAC
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
99 25 0.24
100 4 0.04
101 71 0.67
102 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAATTGGTCACATAGTGTAGTAC
TAAGTACAGGCTACTACACGTACCAGATAATTGA
Found at i:90858981 original size:23 final size:22
Alignment explanation
Indices: 90858956--90858997 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
90858946 GAGATCAACA
90858956 AAAATAT-AATCACATACATATT
1 AAAATATCAATCACAT-CATATT
*
90858978 AAAATATCAATCTCATCATA
1 AAAATATCAATCACATCATA
90858998 ATAATCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATATCAATCACATCATATT
Found at i:90861921 original size:25 final size:26
Alignment explanation
Indices: 90861876--90861927 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
90861866 TTTAATACAT
*
90861876 ATATTAATAGTATTCTATTAAT-TTA
1 ATATTAATAGTATTATATTAATATTA
*
90861901 ATATTAA-AGTGATTATCTTAATATTA
1 ATATTAATAGT-ATTATATTAATATTA
90861927 A
1 A
90861928 ATTTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (26 bp):
ATATTAATAGTATTATATTAATATTA
Found at i:90864860 original size:38 final size:39
Alignment explanation
Indices: 90864778--90864959 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
90864768 AATGTTCGAG
90864778 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
90864817 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
90864855 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
90864894 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
90864934 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
90864960 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:90872199 original size:39 final size:39
Alignment explanation
Indices: 90872152--90872334 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
90872142 AATGTTCGAG
90872152 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
90872191 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
90872230 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
90872269 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
90872309 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
90872335 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:90874555 original size:6 final size:6
Alignment explanation
Indices: 90874546--90874704 Score: 103
Period size: 6 Copynumber: 25.8 Consensus size: 6
90874536 TATTAGAACT
* * * *
90874546 AGAATC AGAATC AGAATT AGAATT AGAATT AGAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * *
90874595 AAAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
* * *
90874644 AGGTAA-C AAAATT AGAATC AGAA-C TAGAATC AGAATT AGGTAA-C AGAATC
1 A-G-AATC AGAATC AGAATC AGAATC -AGAATC AGAATC A-G-AATC AGAATC
90874694 AGAATC AGAAT
1 AGAATC AGAAT
90874705 ATGAATGCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
5 8 0.07
6 96 0.79
7 11 0.09
8 6 0.05
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:90874555 original size:12 final size:11
Alignment explanation
Indices: 90874537--90874580 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
90874527 AAGAAACATT
90874537 ATTAGAACTAGA
1 ATTAGAA-TAGA
*
90874549 ATCAGAATCAGA
1 ATTAGAAT-AGA
90874561 ATTAGAATTAGA
1 ATTAGAA-TAGA
90874573 ATTAGAAT
1 ATTAGAAT
90874581 CAGGTGACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 25 0.89
13 1 0.04
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (11 bp):
ATTAGAATAGA
Done.