Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 317 of 410
Found at i:98490588 original size:32 final size:31
Alignment explanation
Indices: 98490519--98490601 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 31
98490509 ATTGTCAATC
* *
98490519 ATTTCAATATCCAACAAGCTTAAATATAATA
1 ATTTCAATATCCAACAAACTTAAACATAATA
* * *
98490550 AATTCAATATCTAACAAATTTAAGACATAATA
1 ATTTCAATATCCAACAAACTTAA-ACATAATA
*
98490582 ATTTCAAGATCCAACAAACT
1 ATTTCAATATCCAACAAACT
98490602 AAAATTTCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 19 0.45
32 23 0.55
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (31 bp):
ATTTCAATATCCAACAAACTTAAACATAATA
Found at i:98497828 original size:42 final size:42
Alignment explanation
Indices: 98497776--98497902 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
98497766 GTATGGGTTA
* *
98497776 TACTTTGGTTTATCTGATGATGCACTTACGTGCCAGTATGA-T
1 TACTTCGGTTTATCTAATGATGCACTTACGTGCCAGTAT-ATT
* *
98497818 TACTTCGGTTTAT-TAAGTGATGCATTTACGTGTCAGTATATT
1 TACTTCGGTTTATCTAA-TGATGCACTTACGTGCCAGTATATT
* * * * *
98497860 TGCTTCGATTTATCCAATGATGCACTTATGTGCTAGTATATT
1 TACTTCGGTTTATCTAATGATGCACTTACGTGCCAGTATATT
98497902 T
1 T
98497903 GTAACAATCC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.04
42 66 0.93
43 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (42 bp):
TACTTCGGTTTATCTAATGATGCACTTACGTGCCAGTATATT
Found at i:98498598 original size:20 final size:20
Alignment explanation
Indices: 98498573--98498617 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
98498563 AGGGACTAAA
* *
98498573 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
98498593 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
98498613 ATGAA
1 ATGAA
98498618 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:98500508 original size:21 final size:22
Alignment explanation
Indices: 98500475--98500529 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
98500465 ACGGCCTCCA
* **
98500475 ACACGGGCATGTCCCA-GGGTC
1 ACACGGGCGTGTCCCATGGCCC
*
98500496 ACATGGGCGTGTCCCATGGCCC
1 ACACGGGCGTGTCCCATGGCCC
98500518 ACACGGGCGTGT
1 ACACGGGCGTGT
98500530 GAGCCCTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.16, C:0.33, G:0.35, T:0.16
Consensus pattern (22 bp):
ACACGGGCGTGTCCCATGGCCC
Found at i:98501743 original size:13 final size:13
Alignment explanation
Indices: 98501725--98501751 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98501715 GAAGTAATCG
98501725 CACACGGGCGTGT
1 CACACGGGCGTGT
98501738 CACACGGGCGTGT
1 CACACGGGCGTGT
98501751 C
1 C
98501752 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:98504413 original size:13 final size:13
Alignment explanation
Indices: 98504395--98504421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98504385 CGAATGCATG
98504395 CACACCAATTTCC
1 CACACCAATTTCC
98504408 CACACCAATTTCC
1 CACACCAATTTCC
98504421 C
1 C
98504422 CTCATGTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (13 bp):
CACACCAATTTCC
Found at i:98507096 original size:80 final size:78
Alignment explanation
Indices: 98506950--98507111 Score: 297
Period size: 79 Copynumber: 2.1 Consensus size: 78
98506940 ACCAAGCCCA
*
98506950 GATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCGGATACATCACTAGCACGAATGCTCTT
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTT
98507015 CGGAACTTAGTCCG
66 CGGAACTTAG-CCG
98507029 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCT
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCT
98507094 TCGGAACTTAGCCG
65 TCGGAACTTAGCCG
98507108 GATA
1 GATA
98507112 TAACCACAAG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
79 42 0.52
80 39 0.48
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (78 bp):
GATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTT
CGGAACTTAGCCG
Found at i:98507124 original size:40 final size:40
Alignment explanation
Indices: 98506950--98507111 Score: 301
Period size: 40 Copynumber: 4.1 Consensus size: 40
98506940 ACCAAGCCCA
*
98506950 GATACATCACTAGCACGAATGCTCTTCGGAATTTAG-CCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
98506989 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
98507029 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
98507069 GATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCG
1 GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
98507108 GATA
1 GATA
98507112 TAACCACAAG
Statistics
Matches: 121, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
39 42 0.35
40 79 0.65
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
GATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
Found at i:98507124 original size:80 final size:79
Alignment explanation
Indices: 98506961--98507136 Score: 268
Period size: 80 Copynumber: 2.2 Consensus size: 79
98506951 ATACATCACT
*
98506961 AGCACGAATGCTCTTCGGAATTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGT
1 AGCACGAATGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGT
* * *
98507026 CCGGATACATCACT
66 CCGGATAAACCACA
98507040 AGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCACGAATGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG
98507105 -CCGGATATAACCACA
65 TCCGGATA-AACCACA
98507120 AGCAC-AATTGC-CTTCGG
1 AGCACGAA-TGCTCTTCGG
98507137 GTCTTAACCC
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
79 39 0.43
80 51 0.57
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
AGCACGAATGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGT
CCGGATAAACCACA
Found at i:98507154 original size:40 final size:40
Alignment explanation
Indices: 98507000--98507228 Score: 151
Period size: 40 Copynumber: 5.7 Consensus size: 40
98506990 ATACATCACT
* ** * * * *
98507000 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* ** * * * *
98507040 AGCACGAATGCTCTTCGGAACTTAGTCCGGATA-CATCACT
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* **
98507080 AGCACGAATGCTCTTCGGAACTTAG-CCGGATATAACCACA
1 AGCACAAATGC-CTTCGGGTCTTAGCCCGGATATAACCACA
* * * * *
98507120 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAACAACTC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCAC-A
** *
98507161 A-CACAAATGCCTTCGGGTCTTAGCCCGGATATATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
* *
98507200 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
98507229 GTATCATTCA
Statistics
Matches: 165, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
39 18 0.11
40 146 0.88
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACCACA
Found at i:98507175 original size:119 final size:119
Alignment explanation
Indices: 98506929--98507225 Score: 307
Period size: 119 Copynumber: 2.5 Consensus size: 119
98506919 CCAGCATGAT
* ** * * *
98506929 TGCTCTTCGGGACCAAGCCCAGATACATCACTAGCACGAATGCTCTTCGGAATTTAGCCGGATAC
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
* * ** * *
98506994 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 ACCACAAGCACGAATGCTCTTCGGAACTTAACCCGGATACAACACTAGCACAAA
*
98507048 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATA-
** * *
98507113 AACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
65 AACCACAAGCACGAA-TGCTCTTCGGAACTTAACCCGGATACAAC-ACT-AGCACAAA
** * ** *
98507168 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
98507226 CGGGTATCAT
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
119 111 0.74
120 37 0.25
121 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (119 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
ACCACAAGCACGAATGCTCTTCGGAACTTAACCCGGATACAACACTAGCACAAA
Found at i:98509188 original size:36 final size:37
Alignment explanation
Indices: 98509133--98509221 Score: 146
Period size: 36 Copynumber: 2.4 Consensus size: 37
98509123 TTATTACGAA
98509133 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
98509170 GTCTTACCC-GACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
98509206 GT-TCACCCGGAACATA
1 GTCTTACCCGG-ACATA
98509222 TTTCCAAGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
35 5 0.10
36 30 0.61
37 14 0.29
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:98509316 original size:48 final size:48
Alignment explanation
Indices: 98509261--98509459 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
98509251 TGTTACAACA
*
98509261 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
98509309 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
98509357 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
98509405 TTCACATTAGCCATT-GGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
98509452 TTCACATT
1 TTCACATT
98509460 CATCACATCG
Statistics
Matches: 142, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 38 0.27
48 104 0.73
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:98509505 original size:96 final size:95
Alignment explanation
Indices: 98509309--98509590 Score: 238
Period size: 96 Copynumber: 2.9 Consensus size: 95
98509299 ACACATATAT
* * * *
98509309 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATATTTCACATT-AGCCCTTC
1 TTCACATTAGCCATT-GGCTTTACCACATATACATATCACACATATATTTCACATTCATCACATC
* * * * * * *
98509373 GG-CTTTA-CCACATATACACATCACACATATAT
65 GGCCATTAGGC-CTTAT-CACAT-ATATATACAC
*
98509405 TTCACATTAGCCATTGGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCG
1 TTCACATTAGCCATTGGCTTTACCACATATACATATCACACATATATTTCACATTCATCACATCG
98509470 GCCATTAGGCCTTATCACATATATATACACC
66 GCCATTAGGCCTTATCACATATATATACA-C
* * * * * * *
98509501 TTCACATTCATCACATCGGCCATTAGGC-CTTATCACATAT-ATAC---TCTTTCACATTCATCA
1 TTCACATT-AGC-CATTGG-CTTTA-CCACATAT-ACATATCACACATATATTTCACATTCATCA
*
98509561 CATTGGCCATTAGGCCTTATCACATATATA
61 CATCGGCCATTAGGCCTTATCACATATATA
98509591 CTCTTTCACA
Statistics
Matches: 157, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
95 44 0.28
96 79 0.50
97 10 0.06
98 6 0.04
99 11 0.07
100 7 0.04
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.33
Consensus pattern (95 bp):
TTCACATTAGCCATTGGCTTTACCACATATACATATCACACATATATTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACAC
Found at i:98509559 original size:47 final size:47
Alignment explanation
Indices: 98509451--98509638 Score: 322
Period size: 47 Copynumber: 4.0 Consensus size: 47
98509441 CACACATATG
*
98509451 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
98509500 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
98509547 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
98509594 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
98509639 ATCTCCTACA
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
47 99 0.73
49 36 0.27
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:98510765 original size:13 final size:13
Alignment explanation
Indices: 98510747--98510773 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98510737 CGAATGCATG
98510747 CACACCAATTTCC
1 CACACCAATTTCC
98510760 CACACCAATTTCC
1 CACACCAATTTCC
98510773 C
1 C
98510774 CTCATGTGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (13 bp):
CACACCAATTTCC
Found at i:98512842 original size:17 final size:16
Alignment explanation
Indices: 98512804--98512842 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
98512794 AATTATAAAT
*
98512804 TTTTTTATAAATTTTA
1 TTTTTTAGAAATTTTA
*
98512820 TATTTTAGAATATTTTA
1 TTTTTTAGAA-ATTTTA
98512837 TTTTTT
1 TTTTTT
98512843 TACCACGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTTTAGAAATTTTA
Found at i:98514681 original size:22 final size:23
Alignment explanation
Indices: 98514656--98514701 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
98514646 CAATAAACGA
*
98514656 AATTAATATATTATATAAT-TTC
1 AATTAATATAATATATAATATTC
98514678 AATTAATATAATATATAATATTC
1 AATTAATATAATATATAATATTC
98514701 A
1 A
98514702 GTTACAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTAATATAATATATAATATTC
Found at i:98519362 original size:21 final size:22
Alignment explanation
Indices: 98519308--98519364 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
98519298 TTAAAAATAT
*
98519308 TTTTTGTATTAATATCTAAATAA
1 TTTTT-TATTAATATCTAAACAA
* *
98519331 TTTTATGTTAA-ATCTAAACAA
1 TTTTTTATTAATATCTAAACAA
98519352 TTTTTTATTAATA
1 TTTTTTATTAATA
98519365 AAAAGCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 18 0.64
22 6 0.21
23 4 0.14
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTTTATTAATATCTAAACAA
Found at i:98521268 original size:8 final size:8
Alignment explanation
Indices: 98521257--98521285 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
98521247 ATTAATCAAT
98521257 TAATTAAA
1 TAATTAAA
98521265 TAATTAAA
1 TAATTAAA
98521273 TAATTAAA
1 TAATTAAA
98521281 TAATT
1 TAATT
98521286 CTTAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATTAAA
Found at i:98521268 original size:16 final size:16
Alignment explanation
Indices: 98521249--98521284 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
98521239 TATAATCAAT
*
98521249 TAATCAATTAATTAAA
1 TAATCAAATAATTAAA
*
98521265 TAATTAAATAATTAAA
1 TAATCAAATAATTAAA
98521281 TAAT
1 TAAT
98521285 TCTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATCAAATAATTAAA
Found at i:98522126 original size:36 final size:36
Alignment explanation
Indices: 98522079--98522151 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
98522069 GTACCTAACA
*
98522079 TACCAACTTTTAGCTCACTATCTTTAAAATACATGT
1 TACCAACTTTTAGCTCACTATCTTGAAAATACATGT
98522115 TACCAACTTTTAGCTCACTATCTTGAAAATACATGT
1 TACCAACTTTTAGCTCACTATCTTGAAAATACATGT
98522151 T
1 T
98522152 TTCAATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (36 bp):
TACCAACTTTTAGCTCACTATCTTGAAAATACATGT
Found at i:98523035 original size:15 final size:15
Alignment explanation
Indices: 98523015--98523061 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
98523005 TAAAAAGAGA
98523015 TTGTTAAAATATCTT
1 TTGTTAAAATATCTT
*
98523030 TTGTT---ATATC-A
1 TTGTTAAAATATCTT
98523041 TTGTTAAAATATCTT
1 TTGTTAAAATATCTT
98523056 TTGTTA
1 TTGTTA
98523062 TATCATCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 5 0.19
12 5 0.19
14 5 0.19
15 11 0.42
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (15 bp):
TTGTTAAAATATCTT
Found at i:98523043 original size:26 final size:26
Alignment explanation
Indices: 98523014--98523067 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
98523004 CTAAAAAGAG
98523014 ATTGTTAAAATATCTTTTGTTATATC
1 ATTGTTAAAATATCTTTTGTTATATC
98523040 ATTGTTAAAATATCTTTTGTTATATC
1 ATTGTTAAAATATCTTTTGTTATATC
98523066 AT
1 AT
98523068 CTGTCCCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.54
Consensus pattern (26 bp):
ATTGTTAAAATATCTTTTGTTATATC
Found at i:98526686 original size:17 final size:18
Alignment explanation
Indices: 98526664--98526699 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
98526654 TAGTTGAACG
*
98526664 ATTTTT-ATAATTTTTTT
1 ATTTTTAATAATTTATTT
98526681 ATTTTTAATAATTTATTT
1 ATTTTTAATAATTTATTT
98526699 A
1 A
98526700 CTTTGAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTAATAATTTATTT
Found at i:98531374 original size:22 final size:23
Alignment explanation
Indices: 98531349--98531391 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
98531339 TATCCCCACA
*
98531349 TGGAGTGTA-AGGTTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
98531371 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
98531392 GTAGGATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:98533536 original size:21 final size:22
Alignment explanation
Indices: 98533512--98533554 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
98533502 TAAGTAAAGA
*
98533512 TAAACTC-TGTATAAGTCATAT
1 TAAACTCATGCATAAGTCATAT
98533533 TAAACTCATGCATAAGTCATAT
1 TAAACTCATGCATAAGTCATAT
98533555 ACCCATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (22 bp):
TAAACTCATGCATAAGTCATAT
Found at i:98540558 original size:50 final size:51
Alignment explanation
Indices: 98540460--98540563 Score: 147
Period size: 54 Copynumber: 2.0 Consensus size: 51
98540450 TGAAGGGGAG
* *
98540460 ATGACTTGTTAAGGGGGAGTCTTTCTTTTTTTTTTTTATGATAAATTTTATGAT
1 ATGACTTGTTAAGGGGGAGTCTTTC---TTATTTTTGATGATAAATTTTATGAT
*
98540514 ATGAGTTGTTAAGGGGGAGTCTTTC-TATTTTTGATGATAAATTTTATGAT
1 ATGACTTGTTAAGGGGGAGTCTTTCTTATTTTTGATGATAAATTTTATGAT
98540564 GATTTTGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
50 23 0.49
54 24 0.51
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (51 bp):
ATGACTTGTTAAGGGGGAGTCTTTCTTATTTTTGATGATAAATTTTATGAT
Found at i:98544268 original size:22 final size:23
Alignment explanation
Indices: 98544218--98544268 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
98544208 TTTTTTTTGG
*
98544218 TAAAAAAAATTTAGAAATACAAC
1 TAAAAAAAATTTAGAAAAACAAC
*
98544241 TTAAAAAAATTCTA-AAAAAC-AC
1 TAAAAAAAATT-TAGAAAAACAAC
98544263 TAAAAA
1 TAAAAA
98544269 CTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.29
23 15 0.62
24 2 0.08
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.22
Consensus pattern (23 bp):
TAAAAAAAATTTAGAAAAACAAC
Found at i:98544847 original size:17 final size:16
Alignment explanation
Indices: 98544825--98544874 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
98544815 TTAAAAAAAA
98544825 TATCAATTAAAATTTAT
1 TATCAA-TAAAATTTAT
*
98544842 TATC-A-AATATTTAT
1 TATCAATAAAATTTAT
98544856 TAAT-AATAAAATTTAT
1 T-ATCAATAAAATTTAT
98544872 TAT
1 TAT
98544875 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 5 0.18
16 10 0.36
17 4 0.14
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TATCAATAAAATTTAT
Found at i:98544881 original size:13 final size:14
Alignment explanation
Indices: 98544833--98544879 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
98544823 AATATCAATT
*
98544833 AAAATTTATTATCA
1 AAAATTTATTATAA
*
98544847 AATATTTATTAATAA
1 AAAATTTATT-ATAA
98544862 TAAAATTTATTATAA
1 -AAAATTTATTATAA
98544877 AAA
1 AAA
98544880 TTAAACTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 12 0.43
15 7 0.25
16 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATTTATTATAA
Found at i:98569031 original size:47 final size:47
Alignment explanation
Indices: 98568979--98569275 Score: 495
Period size: 47 Copynumber: 6.3 Consensus size: 47
98568969 GTACAAGATA
98568979 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
98569026 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
98569073 TATATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
98569120 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
98569167 TATATATGTGACAAGGCCTAATGGCCGATGTGATGGATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
98569214 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
98569261 TATAAATGTGATAAG
1 TATATATGTGATAAG
98569276 TCCCGAAGGG
Statistics
Matches: 235, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 235 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:98581837 original size:17 final size:18
Alignment explanation
Indices: 98581795--98581843 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
98581785 AGTTGAAAAG
98581795 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
98581814 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
98581831 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
98581844 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:98582724 original size:39 final size:38
Alignment explanation
Indices: 98582660--98582801 Score: 115
Period size: 40 Copynumber: 3.6 Consensus size: 38
98582650 AAATTGAATG
* *
98582660 ATATCCGGGCTAAGCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGCCGAAGGCAATTATGCTAGAAATT
* * ***
98582698 ATATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAG-CCGAAGGCAATTATGCTAGAAATT
* * **
98582737 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAA-G-CCGAAGGCAATT-ATGCTAGAAATT
*
98582777 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG--CCGAAGGCA
98582802 TTTGTGCACG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
38 13 0.15
39 34 0.40
40 39 0.45
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGCCGAAGGCAATTATGCTAGAAATT
Found at i:98582782 original size:40 final size:39
Alignment explanation
Indices: 98582695--98582824 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
98582685 TATGCTGGAA
* * *
98582695 ATTATATCCGGGTTAA-GACCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGGCCCGAAGGC-ATTGTGCGAGTG
* *
98582734 GTTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGGCCCGAAGGCATT-GTGCGAGTG
* *
98582774 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGGCCCGAAGGCA-TTGTGCGA-GTG
98582814 ATTATATCCGG
1 ATTATATCCGG
98582825 TTATATTCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 18 0.23
40 57 0.74
41 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGGCCCGAAGGCATTGTGCGAGTG
Found at i:98589816 original size:17 final size:18
Alignment explanation
Indices: 98589774--98589822 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
98589764 AGTTGAAAAG
98589774 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
98589793 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
98589810 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
98589823 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:98590707 original size:40 final size:40
Alignment explanation
Indices: 98590641--98590807 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
98590631 AAATTGAATG
* * *
98590641 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
98590680 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
98590720 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
98590760 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
98590800 ATATCCGG
1 ATATCCGG
98590808 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:98594910 original size:55 final size:53
Alignment explanation
Indices: 98594723--98594977 Score: 236
Period size: 55 Copynumber: 4.8 Consensus size: 53
98594713 ACACAGGTAC
* * * * *
98594723 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* * * *
98594772 CTTACCATTGCCATGTCTCGATATGGTCTTACATGGTATCCTTACCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * *
98594825 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AA
*
98594880 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* * * *
98594933 CCTTACCAATTGTCATGCCTTGGCATGGTCTTGCATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
98594978 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 2 0.01
53 46 0.27
54 10 0.06
55 74 0.44
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:98594916 original size:108 final size:110
Alignment explanation
Indices: 98594770--98594970 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
98594760 ATCCTTTTGA
* *
98594770 AACTTACCATTGCCATGTCTCGATATGGTCTTACATGGTATCCTTACCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTA-GAAACCTCACCAA
98594833 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
98594878 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTAGAAACCTCACCAAT
* *
98594943 TGTCATGCCTTGGCATGGTCTTGCATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
98594971 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 26 0.32
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:98618291 original size:9 final size:9
Alignment explanation
Indices: 98618264--98618327 Score: 52
Period size: 7 Copynumber: 7.7 Consensus size: 9
98618254 AAATTACATA
*
98618264 AAAAATTTT
1 AAAAATATT
98618273 AAAAA-A-T
1 AAAAATATT
98618280 AAAAATATT
1 AAAAATATT
98618289 AAAAATA--
1 AAAAATATT
98618296 AAAAA-ATT
1 AAAAATATT
98618304 AATAAAATATT
1 -A-AAAATATT
98618315 --AAATATT
1 AAAAATATT
98618322 AAAAAT
1 AAAAAT
98618328 TAAAAAAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 18
0.70 0.02 0.28
Matches are distributed among these distances:
6 1 0.02
7 18 0.40
8 1 0.02
9 18 0.40
10 4 0.09
11 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAAATATT
Found at i:98618347 original size:33 final size:33
Alignment explanation
Indices: 98618261--98618336 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 33
98618251 TAAAAATTAC
* *
98618261 ATAAAAAATTTTAA-AAAATA-AAAATATTAAAA
1 ATAAAAAA-ATTAATAAAATATTAAATATTAAAA
98618293 ATAAAAAAATTAATAAAATATTAAATATTAAAA
1 ATAAAAAAATTAATAAAATATTAAATATTAAAA
98618326 ATTAAAAAAAT
1 A-TAAAAAAAT
98618337 CATAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 4 0.10
32 14 0.36
33 12 0.31
34 9 0.23
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (33 bp):
ATAAAAAAATTAATAAAATATTAAATATTAAAA
Found at i:98618374 original size:25 final size:24
Alignment explanation
Indices: 98618297--98618384 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 24
98618287 TTAAAAATAA
* * *
98618297 AAAAATTAATAAAATATTAAATATT
1 AAAAATT-ATAAAATAATAATTTTT
*
98618322 AAAAATTAAAAAAATCATAATATATTTTT
1 AAAAATT--ATAAA--ATAATA-ATTTTT
* *
98618351 TAAAATTATAAAATAATTATTTTT
1 AAAAATTATAAAATAATAATTTTT
98618375 AAAAATTATA
1 AAAAATTATA
98618385 TGTGACATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 15 0.29
25 12 0.24
26 5 0.10
27 4 0.08
28 5 0.10
29 10 0.20
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAAATTATAAAATAATAATTTTT
Found at i:98618379 original size:24 final size:25
Alignment explanation
Indices: 98618338--98618384 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
98618328 TAAAAAAATC
*
98618338 ATAATATATTTTTTAAAATTATAAA
1 ATAATATATTTTTAAAAATTATAAA
98618363 ATAAT-TATTTTTAAAAATTATA
1 ATAATATATTTTTAAAAATTATA
98618385 TGTGACATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAATATATTTTTAAAAATTATAAA
Found at i:98618734 original size:16 final size:16
Alignment explanation
Indices: 98618713--98618745 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98618703 ATATTAATTT
98618713 ATTTAA-ATGTAAAATA
1 ATTTAATAT-TAAAATA
98618729 ATTTAATATTAAAATA
1 ATTTAATATTAAAATA
98618745 A
1 A
98618746 GATAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTTAATATTAAAATA
Found at i:98627239 original size:39 final size:39
Alignment explanation
Indices: 98627186--98627270 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
98627176 GGAGATCATT
*
98627186 TTTGTTAGCGGTAAGTCAGTTCTCTGTGTTTGGGTATCA
1 TTTGTTAGCAGTAAGTCAGTTCTCTGTGTTTGGGTATCA
98627225 TTTGTTAGCAGTAAGTCAGTTCTCTGTGTTTGGGTATCA
1 TTTGTTAGCAGTAAGTCAGTTCTCTGTGTTTGGGTATCA
98627264 TTT-TTAG
1 TTTGTTAG
98627271 TCTCTTGGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.09
39 41 0.91
ACGTcount: A:0.16, C:0.12, G:0.26, T:0.46
Consensus pattern (39 bp):
TTTGTTAGCAGTAAGTCAGTTCTCTGTGTTTGGGTATCA
Found at i:98634753 original size:21 final size:21
Alignment explanation
Indices: 98634727--98634766 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
98634717 TCCCGTCAGC
98634727 ATAAGACGCATGAGGCCAACT
1 ATAAGACGCATGAGGCCAACT
98634748 ATAAGACGCATGAGGCCAA
1 ATAAGACGCATGAGGCCAA
98634767 ATATCTAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (21 bp):
ATAAGACGCATGAGGCCAACT
Found at i:98638221 original size:7 final size:7
Alignment explanation
Indices: 98638209--98638242 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
98638199 GGGTAGGATA
98638209 TCTGATT
1 TCTGATT
98638216 TCTGA-T
1 TCTGATT
98638222 TCTGATT
1 TCTGATT
98638229 TCTGA-T
1 TCTGATT
98638235 TCTGATT
1 TCTGATT
98638242 T
1 T
98638243 GCATATCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TCTGATT
Found at i:98638227 original size:13 final size:13
Alignment explanation
Indices: 98638209--98638242 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
98638199 GGGTAGGATA
98638209 TCTGATTTCTGAT
1 TCTGATTTCTGAT
98638222 TCTGATTTCTGAT
1 TCTGATTTCTGAT
98638235 TCTGATTT
1 TCTGATTT
98638243 GCATATCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TCTGATTTCTGAT
Found at i:98645952 original size:19 final size:19
Alignment explanation
Indices: 98645930--98645977 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
98645920 GACAAAGCCC
*
98645930 AATAAGTGATAATGCCTGA
1 AATAAATGATAATGCCTGA
* *
98645949 AATAAATGGTCATGCCTG-
1 AATAAATGATAATGCCTGA
98645967 -ATAAATGATAA
1 AATAAATGATAA
98645978 ATGATAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (19 bp):
AATAAATGATAATGCCTGA
Found at i:98648047 original size:21 final size:21
Alignment explanation
Indices: 98648022--98648068 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
98648012 ATGGCCTGAG
*
98648022 ACACGGGCATGTCCCATGGCC
1 ACACGGGCATGTCCCAAGGCC
*
98648043 ACACGGGCGTGTCCCAAGGCC
1 ACACGGGCATGTCCCAAGGCC
98648064 ACACG
1 ACACG
98648069 AGTGTGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.30, T:0.11
Consensus pattern (21 bp):
ACACGGGCATGTCCCAAGGCC
Found at i:98648075 original size:21 final size:21
Alignment explanation
Indices: 98648022--98648075 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
98648012 ATGGCCTGAG
* * *
98648022 ACACGGGCATGTCCCATGGCC
1 ACACGAGCGTGTCCCAAGGCC
*
98648043 ACACGGGCGTGTCCCAAGGCC
1 ACACGAGCGTGTCCCAAGGCC
*
98648064 ACACGAGTGTGT
1 ACACGAGCGTGT
98648076 GATCCCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.15
Consensus pattern (21 bp):
ACACGAGCGTGTCCCAAGGCC
Found at i:98650341 original size:24 final size:25
Alignment explanation
Indices: 98650296--98650342 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
98650286 CTTCTTGAAG
* *
98650296 TCTTTTTTGCTTTTTGGAAATGCCA
1 TCTTTTGTGCTTTTAGGAAATGCCA
*
98650321 TCTTTTGTGC-TTTAGGTAATGC
1 TCTTTTGTGCTTTTAGGAAATGC
98650343 TTGAAGTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.51
Consensus pattern (25 bp):
TCTTTTGTGCTTTTAGGAAATGCCA
Found at i:98651492 original size:83 final size:81
Alignment explanation
Indices: 98651310--98651576 Score: 226
Period size: 83 Copynumber: 3.3 Consensus size: 81
98651300 CAAAATCAAG
* * * * *
98651310 TCTATTGAACAGCAGGATTAAATCCCAAAACAAAATTATTTAATTAAATC-TTGTTTGAAAACAA
1 TCTATTAAACAGCGGGAATAAATCCCAAAACAGAATTA-TTAATTAAATCTTTGTTTGGAAAC-A
98651374 AAATC-AA---AATAAAA
64 AAATCAAATCGAATAAAA
* * * * *
98651388 TATGTTAAACAGCGGGAATAAATCCCGAAACAGAATTATCTGATTAAGTCTTTGTTTGGAAACAA
1 TCTATTAAACAGCGGGAATAAATCCCAAAACAGAATTAT-TAATTAAATCTTTGTTTGGAAACAA
98651453 AATCAAGATCGAATAAAA
65 AATCAA-ATCGAATAAAA
** * * * * *
98651471 TCTATTAAATGGCGGGAATAAACCCCAAAATAG-ATGATTCAATTTAATTCTAAT-TTT-GAAAC
1 TCTATTAAACAGCGGGAATAAATCCCAAAACAGAATTATT-AA-TTAAATCT-TTGTTTGGAAAC
*
98651533 AAAATTAAAATCGAATAAAA
63 AAAA-TCAAATCGAATAAAA
* *
98651553 TCTATTAAACCGCTGGAATAAATC
1 TCTATTAAACAGCGGGAATAAATC
98651577 TCGAAATAGA
Statistics
Matches: 152, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
77 1 0.01
78 45 0.30
79 12 0.08
80 1 0.01
81 1 0.01
82 45 0.30
83 46 0.30
84 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (81 bp):
TCTATTAAACAGCGGGAATAAATCCCAAAACAGAATTATTAATTAAATCTTTGTTTGGAAACAAA
ATCAAATCGAATAAAA
Found at i:98651658 original size:87 final size:87
Alignment explanation
Indices: 98651528--98651779 Score: 246
Period size: 87 Copynumber: 2.9 Consensus size: 87
98651518 TTCTAATTTT
* * * ** *
98651528 GAAACAAAAT-TAAAATCG-AATAAAATCTA-TTAAACCGCTGGAATAAATCTCGAAATAGATTT
1 GAAACAAAATAAAAAAT-GAAATAAAATCTATTTGAACGGAGGGAATAAATC-CGAAACAGATTT
*
98651590 TATTTAATTTTAATTTCTTGTTTG
64 TATTTAATTTTAATTTCTCGTTTG
* * * * * *
98651614 GCAACAAAATAAAAAATGGAAT-AAA-CTTTGTTGAACGGCGGGAATAAATCCTGTAACATATTT
1 GAAACAAAATAAAAAATGAAATAAAATCTAT-TTGAACGGAGGGAATAAATCC-GAAACAGATTT
*
98651677 TATTTAATTTTAA-TACTCGTTTG
64 TATTTAATTTTAATTTCTCGTTTG
* * *
98651700 GAAACAAAATCAAAGATGAAATAAAATCTATTTGAGCGGAGGGAATAAATCCCGAAACAGATTTT
1 GAAACAAAATAAAAAATGAAATAAAATCTATTTGAACGGAGGGAATAAAT-CCGAAACAGATTTT
* *
98651765 ATTCAGTTTTAATTT
65 ATTTAATTTTAATTT
98651780 TTATTTTCAA
Statistics
Matches: 134, Mismatches: 23, Indels: 16
0.77 0.13 0.09
Matches are distributed among these distances:
85 2 0.01
86 40 0.30
87 86 0.64
88 6 0.04
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (87 bp):
GAAACAAAATAAAAAATGAAATAAAATCTATTTGAACGGAGGGAATAAATCCGAAACAGATTTTA
TTTAATTTTAATTTCTCGTTTG
Found at i:98651949 original size:22 final size:22
Alignment explanation
Indices: 98651899--98651943 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
98651889 CATGTTAGCG
98651899 AACAAATATGTAAATATAAATA
1 AACAAATATGTAAATATAAATA
* *
98651921 AACAAATATTTATATA-AAATA
1 AACAAATATGTAAATATAAATA
98651942 AA
1 AA
98651944 ATAAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (22 bp):
AACAAATATGTAAATATAAATA
Found at i:98652416 original size:20 final size:20
Alignment explanation
Indices: 98652391--98652434 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
98652381 AGGAGCAATT
98652391 AAATCAATTTGATTAAAATC
1 AAATCAATTTGATTAAAATC
**
98652411 AAATCAATTTGATTGGAATC
1 AAATCAATTTGATTAAAATC
98652431 AAAT
1 AAAT
98652435 AAAATCATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATC
Found at i:98653177 original size:2 final size:2
Alignment explanation
Indices: 98653170--98653207 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
98653160 TTAATTTCTC
*
98653170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98653208 CCAGCGCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:98657255 original size:22 final size:22
Alignment explanation
Indices: 98657216--98657272 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
98657206 GGAGAGAGAG
* * *
98657216 CTTGAAATGTGGAGGAAGCTTC
1 CTTGAATTGTGAAAGAAGCTTC
* *
98657238 CTTGAATTGTGAAAGAAGGTTG
1 CTTGAATTGTGAAAGAAGCTTC
*
98657260 TTTGAATTGTGAA
1 CTTGAATTGTGAA
98657273 GGGAAGGTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (22 bp):
CTTGAATTGTGAAAGAAGCTTC
Found at i:98659058 original size:22 final size:22
Alignment explanation
Indices: 98659030--98659071 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
98659020 TGATTGCTTG
98659030 AAATGATTATTTGTATGTTGTT
1 AAATGATTATTTGTATGTTGTT
98659052 AAATGATTATTTGTATGTTG
1 AAATGATTATTTGTATGTTG
98659072 CTAACTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (22 bp):
AAATGATTATTTGTATGTTGTT
Found at i:98661470 original size:25 final size:25
Alignment explanation
Indices: 98661428--98661476 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
98661418 ATTTTTTGGC
98661428 TTTTATTCTCCCAATTAAACTCTAT
1 TTTTATTCTCCCAATTAAACTCTAT
* * *
98661453 TTTTATTTTCCTACTTAAACTCTA
1 TTTTATTCTCCCAATTAAACTCTA
98661477 ATTAGTGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.22, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTATTCTCCCAATTAAACTCTAT
Found at i:98665440 original size:24 final size:24
Alignment explanation
Indices: 98665371--98665453 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 24
98665361 ATAATATTTG
*
98665371 AAATATATACATAAAATAGTA--A
1 AAATATATACATAATATAGTAGTA
*
98665393 AAATATATA-ACTAGTA-A-T-GTTA
1 AAATATATACA-TAATATAGTAG-TA
98665415 AAATATATACATAATATAGTAGTA
1 AAATATATACATAATATAGTAGTA
*
98665439 AAATATTTACATAAT
1 AAATATATACATAAT
98665454 GTGTACATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 26 0.53
23 2 0.04
24 17 0.35
25 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AAATATATACATAATATAGTAGTA
Found at i:98665651 original size:16 final size:17
Alignment explanation
Indices: 98665628--98665678 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
98665618 AAGTATAATA
98665628 ATAAAATAATGA-TATAT
1 ATAAAATAAT-ACTATAT
98665645 A-AAAATAATACTATAT
1 ATAAAATAATACTATAT
*
98665661 ATAAAA-AGTA-TATAT
1 ATAAAATAATACTATAT
98665676 ATA
1 ATA
98665679 CACATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 9 0.29
16 17 0.55
17 5 0.16
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
ATAAAATAATACTATAT
Found at i:98665705 original size:20 final size:21
Alignment explanation
Indices: 98665672--98665719 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
98665662 TAAAAAGTAT
98665672 ATATATACACATA-TAATAAA
1 ATATATACACATATTAATAAA
98665692 ATATATACTA-ATATTAATAATA
1 ATATATAC-ACATATTAATAA-A
98665714 A-ATATA
1 ATATATA
98665720 ATAGGGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.44
21 12 0.48
22 2 0.08
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATATACACATATTAATAAA
Found at i:98666030 original size:23 final size:25
Alignment explanation
Indices: 98666004--98666073 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
98665994 AAATGATATA
*
98666004 TATACGTAATAT-ATA-TAAAAATG
1 TATACATAATATAATATTAAAAATG
* *
98666027 TATATATAATATAATATTAAAAATA
1 TATACATAATATAATATTAAAAATG
*
98666052 TTTACATAGTATATACATATTA
1 TATACATA--ATATA-ATATTA
98666074 GAGATAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 10 0.27
24 3 0.08
25 13 0.35
27 5 0.14
28 6 0.16
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (25 bp):
TATACATAATATAATATTAAAAATG
Found at i:98666030 original size:25 final size:25
Alignment explanation
Indices: 98665983--98666050 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
98665973 TAACAATAAA
* * *
98665983 AATACAATATTAAATGATATATATACGT
1 AATATAATATTAAA-AATGTATATA--T
98666011 AATAT-ATA-TAAAAATGTATATAT
1 AATATAATATTAAAAATGTATATAT
98666034 AATATAATATTAAAAAT
1 AATATAATATTAAAAAT
98666051 ATTTACATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 6 0.17
24 3 0.09
25 15 0.43
26 4 0.11
27 3 0.09
28 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (25 bp):
AATATAATATTAAAAATGTATATAT
Found at i:98666416 original size:13 final size:13
Alignment explanation
Indices: 98666327--98666491 Score: 69
Period size: 13 Copynumber: 13.7 Consensus size: 13
98666317 AAATAATTAT
98666327 TAATA-ATATTACA
1 TAATATATA-TACA
98666340 TAA-ATATATACA
1 TAATATATATACA
*
98666352 TATATATATATA-T
1 TA-ATATATATACA
* * *
98666365 TAAAGATAAATGCA
1 T-AATATATATACA
98666379 TAATA-ATATTA-A
1 TAATATATA-TACA
* *
98666391 -AA-GTATGTACA
1 TAATATATATACA
98666402 TAATATATATACA
1 TAATATATATACA
98666415 TAATATAT-T--A
1 TAATATATATACA
*
98666425 -AAGATATATACA
1 TAATATATATACA
98666437 TAATATA-ATA-A
1 TAATATATATACA
*
98666448 -AATATAT-GA-A
1 TAATATATATACA
*
98666458 TAATAGGATATA-A
1 TAATA-TATATACA
*
98666471 -AAAATATATACA
1 TAATATATATACA
98666483 TAATATATA
1 TAATATATA
98666492 AAAAATATAA
Statistics
Matches: 112, Mismatches: 20, Indels: 40
0.65 0.12 0.23
Matches are distributed among these distances:
9 6 0.05
10 12 0.11
11 15 0.13
12 23 0.21
13 47 0.42
14 9 0.08
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (13 bp):
TAATATATATACA
Found at i:98666422 original size:11 final size:10
Alignment explanation
Indices: 98666401--98666503 Score: 61
Period size: 11 Copynumber: 9.6 Consensus size: 10
98666391 AAGTATGTAC
98666401 ATAAT-ATAT
1 ATAATAATAT
98666410 ATACATAATAT
1 ATA-ATAATAT
98666421 ATTAA-AGATAT
1 A-TAATA-ATAT
98666432 ATACATAATAT
1 ATA-ATAATAT
98666443 AATAA-AATAT
1 -ATAATAATAT
98666453 ATGAATAATAGGAT
1 AT-AATAAT---AT
*
98666467 ATAAAAAATAT
1 AT-AATAATAT
98666478 ATACATAATAT
1 ATA-ATAATAT
*
98666489 ATAA-AAAAT
1 ATAATAATAT
98666498 ATAATA
1 ATAATA
98666504 TTTTAAAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
9 13 0.17
10 15 0.20
11 33 0.43
12 6 0.08
14 9 0.12
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (10 bp):
ATAATAATAT
Found at i:98666425 original size:35 final size:35
Alignment explanation
Indices: 98666377--98666495 Score: 104
Period size: 35 Copynumber: 3.4 Consensus size: 35
98666367 AAGATAAATG
98666377 CATAATAATATTAAAAGTATGTACATAATATATATA
1 CATAAT-ATATTAAAAGTATGTACATAATATATATA
*
98666413 CATAATATATT-AAAGATATATACATAATATA-ATA
1 CATAATATATTAAAAG-TATGTACATAATATATATA
* * * * *
98666447 -A-AATATATGAATAA-TAGGATATAAAAAATATATA
1 CATAATATATTAA-AAGTATG-TACATAATATATATA
*
98666481 CATAATATATAAAAA
1 CATAATATATTAAAA
98666496 ATATAATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
32 9 0.13
33 10 0.15
34 12 0.18
35 22 0.32
36 15 0.22
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (35 bp):
CATAATATATTAAAAGTATGTACATAATATATATA
Found at i:98666431 original size:22 final size:22
Alignment explanation
Indices: 98666406--98666529 Score: 118
Period size: 22 Copynumber: 5.7 Consensus size: 22
98666396 TGTACATAAT
* *
98666406 ATATATACATAATATATTAAAG
1 ATATATACATAATATATAAAAA
*
98666428 ATATATACATAATATA-ATAAA
1 ATATATACATAATATATAAAAA
98666449 ATATATGA-ATAATAGGATATAAAAA
1 ATATAT-ACATAAT---ATATAAAAA
98666474 ATATATACATAATATAT-AAAA
1 ATATATACATAATATATAAAAA
*
98666495 A-ATATA-AT-AT-TTTAAAAA
1 ATATATACATAATATATAAAAA
98666513 ATAATATACATAATATA
1 AT-ATATACATAATATA
98666530 AGAGTATTTA
Statistics
Matches: 84, Mismatches: 6, Indels: 23
0.74 0.05 0.20
Matches are distributed among these distances:
17 2 0.02
18 7 0.08
19 2 0.02
20 10 0.12
21 20 0.24
22 23 0.27
23 1 0.01
24 4 0.05
25 15 0.18
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
ATATATACATAATATATAAAAA
Found at i:98666439 original size:58 final size:59
Alignment explanation
Indices: 98666318--98666452 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 59
98666308 AATGTTAAAA
* *
98666318 AATAATTATTAATAATATTACATAAATATATACATATATATATATATTAAAGATAAATGCAT
1 AATAA-TATTAA-AATATTACATAAATATATA-ATACATATATATATTAAAGATAAATACAT
*
98666380 AATAATATTAAAAGTATGTACAT-AATATAT-ATACATA-ATATATTAAAGATATATACAT
1 AATAATATTAAAA-TAT-TACATAAATATATAATACATATATATATTAAAGATAAATACAT
*
98666438 AAT-ATAATAAAATAT
1 AATAATATTAAAATAT
98666453 ATGAATAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
56 3 0.04
57 8 0.12
58 22 0.33
59 6 0.09
60 2 0.03
61 16 0.24
62 10 0.15
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (59 bp):
AATAATATTAAAATATTACATAAATATATAATACATATATATATTAAAGATAAATACAT
Found at i:98666485 original size:46 final size:40
Alignment explanation
Indices: 98666408--98666530 Score: 122
Period size: 46 Copynumber: 2.9 Consensus size: 40
98666398 TACATAATAT
*
98666408 ATATACATAATATATTAAAGATATATACATAATATAATAAAATA
1 ATATA-ATAATATA--AAAAATATATACATAATATAATAAAA-A
98666452 TATGAATAATAGGATATAAAAAATATATACATAATAT-ATAAAAA
1 -AT--ATAATA--ATATAAAAAATATATACATAATATAATAAAAA
* *
98666496 ATATAATATTTTAAAAAATAATATACATAATATAA
1 ATATAATAATATAAAAAAT-ATATACATAATATAA
98666531 GAGTATTTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 16
0.78 0.03 0.18
Matches are distributed among these distances:
39 9 0.13
40 13 0.19
41 7 0.10
43 2 0.03
44 1 0.01
45 8 0.12
46 21 0.30
47 3 0.04
48 5 0.07
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (40 bp):
ATATAATAATATAAAAAATATATACATAATATAATAAAAA
Found at i:98666713 original size:24 final size:24
Alignment explanation
Indices: 98666662--98666715 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
98666652 GTATAATAAT
98666662 GATAA-AAAAATAATAATAGTGAAA
1 GATAATAAAAATAATAATAG-GAAA
*
98666686 -ATAATAAATATAATAATA-GAAA
1 GATAATAAAAATAATAATAGGAAA
98666708 CGATAATA
1 -GATAATA
98666716 CTATATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 18 0.69
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (24 bp):
GATAATAAAAATAATAATAGGAAA
Found at i:98666738 original size:22 final size:24
Alignment explanation
Indices: 98666713--98666757 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
98666703 AGAAACGATA
*
98666713 ATAC-TATATAA-AAAGTATATAT
1 ATACATATATAATAAAATATATAT
98666735 ATACATATATAATAAAATATATA
1 ATACATATATAATAAAATATATA
98666758 CTAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
ATACATATATAATAAAATATATAT
Found at i:98666757 original size:26 final size:25
Alignment explanation
Indices: 98666720--98666805 Score: 65
Period size: 28 Copynumber: 3.4 Consensus size: 25
98666710 ATAATACTAT
98666720 ATAAAA-AGTATATATATACATATATA
1 ATAAAATA-TATATATATACATA-ATA
98666746 ATAAAATATATACTAATATTA-ATAATGA
1 ATAAAATATATA-T-ATA-TACATAAT-A
*
98666774 ATATAATAT-TATA-ATAC-TAATA
1 ATAAAATATATATATATACATAATA
98666796 ATAACAATAT
1 ATAA-AATAT
98666806 GAAATTAAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
22 4 0.08
23 11 0.22
24 1 0.02
25 1 0.02
26 11 0.22
27 6 0.12
28 15 0.29
29 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAAAATATATATATATACATAATA
Found at i:98666764 original size:20 final size:21
Alignment explanation
Indices: 98666731--98666770 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
98666721 TAAAAAGTAT
98666731 ATATATACATATA-TAATAAA
1 ATATATACATATATTAATAAA
98666751 ATATATAC-TAATATTAATAA
1 ATATATACAT-ATATTAATAA
98666771 TGAATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 11 0.61
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATATATTAATAAA
Found at i:98666804 original size:23 final size:23
Alignment explanation
Indices: 98666710--98666805 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 23
98666700 AATAGAAACG
*
98666710 ATAATACTATATAA-AAAGTA-T
1 ATAATACTATATAATAAAATATT
98666731 ATATATACATATATAATAAAATATAT
1 ATA-ATAC-TATATAATAAAATAT-T
* *
98666757 ACTAATATTAATAATGAATATAATATT
1 A-TAATACT-AT-AT-AATAAAATATT
98666784 ATAATACTA-ATAATAACAATAT
1 ATAATACTATATAATAA-AATAT
98666806 GAAATTAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
21 3 0.05
22 8 0.13
23 14 0.23
24 5 0.08
25 2 0.03
26 13 0.22
27 6 0.10
28 9 0.15
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATACTATATAATAAAATATT
Found at i:98666911 original size:9 final size:9
Alignment explanation
Indices: 98666878--98666948 Score: 63
Period size: 9 Copynumber: 7.7 Consensus size: 9
98666868 AAACATACAC
98666878 TAATATATAT
1 TAATA-ATAT
* * *
98666888 AAAAAATAA
1 TAATAATAT
98666897 TAATAATAT
1 TAATAATAT
*
98666906 TGATAATAT
1 TAATAATAT
98666915 TAATAATAT
1 TAATAATAT
*
98666924 TAGA-AATAA
1 TA-ATAATAT
98666933 TAATAATATT
1 TAATAATA-T
98666943 TAATAA
1 TAATAA
98666949 AGAAACAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
8 1 0.02
9 37 0.77
10 10 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
TAATAATAT
Found at i:98666913 original size:18 final size:18
Alignment explanation
Indices: 98666891--98666942 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
98666881 TATATATAAA
98666891 AAATAATAATAATATT-G
1 AAATAATAATAATATTAG
*
98666908 ATAATATTAATAATATTAG
1 A-AATAATAATAATATTAG
98666927 AAATAATAATAATATT
1 AAATAATAATAATATT
98666943 TAATAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 1 0.03
18 28 0.90
19 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
AAATAATAATAATATTAG
Found at i:98669016 original size:30 final size:29
Alignment explanation
Indices: 98668982--98669083 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 29
98668972 ATAGTGAATC
*
98668982 CGCACACTTAGTGCTATATATTTTTCAGCT
1 CGCACACTTAGTGCTATATA-TTTTCAACT
*
98669012 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
98669040 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
98669070 CGCACACTTAGTGC
1 CGCACACTTAGTGC
98669084 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 1 0.02
30 37 0.61
31 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:98672937 original size:10 final size:10
Alignment explanation
Indices: 98672912--98672989 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 10
98672902 AATAAATTAT
98672912 AATT-TTAAA
1 AATTATTAAA
*
98672921 AA-AATTAAA
1 AATTATTAAA
*
98672930 AATCATT-AA
1 AATTATTAAA
*
98672939 CATTATTAAA
1 AATTATTAAA
98672949 AATTA-TAAA
1 AATTATTAAA
*
98672958 AA-TATCAAAA
1 AATTAT-TAAA
*
98672968 ATATTTTTAAA
1 A-ATTATTAAA
98672979 AATT-TTAAA
1 AATTATTAAA
98672988 AA
1 AA
98672990 ATAATTAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
8 2 0.04
9 29 0.54
10 16 0.30
11 5 0.09
12 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (10 bp):
AATTATTAAA
Found at i:98672937 original size:27 final size:30
Alignment explanation
Indices: 98672893--98672950 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
98672883 TTAATTTTTT
98672893 AAATTAAAAAATAAATTATA-ATT-TTAAAA
1 AAATTAAAAAATAAATTA-ACATTATTAAAA
*
98672922 AAATT-AAAAAT-CATTAACATTATTAAAA
1 AAATTAAAAAATAAATTAACATTATTAAAA
98672950 A
1 A
98672951 TTATAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 1 0.04
27 7 0.27
28 13 0.50
29 5 0.19
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (30 bp):
AAATTAAAAAATAAATTAACATTATTAAAA
Found at i:98672938 original size:19 final size:19
Alignment explanation
Indices: 98672916--98672969 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
98672906 AATTATAATT
*
98672916 TTAAAAAAATTAAAAATCA
1 TTAAAAATATTAAAAATCA
* * *
98672935 TTAACATTATTAAAAATTA
1 TTAAAAATATTAAAAATCA
*
98672954 -TAAAAATATCAAAAAT
1 TTAAAAATATTAAAAAT
98672970 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAAAATATTAAAAATCA
Found at i:98674533 original size:22 final size:23
Alignment explanation
Indices: 98674482--98674533 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
98674472 TGAATAATTA
* *
98674482 TAATTTTTTTCATAATTTAATCT
1 TAATTTATTTCATAATCTAATCT
98674505 TAA-TTATTTCATAATACTAA-C-
1 TAATTTATTTCATAAT-CTAATCT
98674526 TAATTTAT
1 TAATTTAT
98674534 ATATTCCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 16 0.64
23 6 0.24
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (23 bp):
TAATTTATTTCATAATCTAATCT
Found at i:98674761 original size:13 final size:13
Alignment explanation
Indices: 98674743--98674785 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
98674733 ACTGTCAAAC
98674743 TTTTCAAAATACT
1 TTTTCAAAATACT
*
98674756 TTTTCACAATA-T
1 TTTTCAAAATACT
98674768 TTTTCAAAAATACT
1 TTTTC-AAAATACT
98674782 TTTT
1 TTTT
98674786 AACCTCAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 15 0.58
14 5 0.19
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (13 bp):
TTTTCAAAATACT
Found at i:98678240 original size:22 final size:22
Alignment explanation
Indices: 98678197--98678249 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
98678187 GTATTCTAGC
*
98678197 TAAGGATGA-TAAAGACTCAAT
1 TAAGGATAATTAAAGACTCAAT
* *
98678218 TAAGGATAATTAATGACTTAAT
1 TAAGGATAATTAAAGACTCAAT
98678240 T-A-GATAATTA
1 TAAGGATAATTA
98678250 TTTTAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.29
21 9 0.32
22 11 0.39
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (22 bp):
TAAGGATAATTAAAGACTCAAT
Found at i:98678648 original size:12 final size:12
Alignment explanation
Indices: 98678613--98678650 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
98678603 GAATTTATAA
*
98678613 ATTTATAAATTT
1 ATTTATAATTTT
98678625 -TTTATAAATTTT
1 ATTTAT-AATTTT
98678637 ATTTATAATTTT
1 ATTTATAATTTT
98678649 AT
1 AT
98678651 GATTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 5 0.22
12 13 0.57
13 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATTTATAATTTT
Found at i:98682152 original size:15 final size:15
Alignment explanation
Indices: 98682132--98682166 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
98682122 TAAAAATCGG
98682132 GTTAGAAGAGACTGA
1 GTTAGAAGAGACTGA
98682147 GTTAGAAGAGACTGA
1 GTTAGAAGAGACTGA
98682162 GTTAG
1 GTTAG
98682167 TGAAACCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.34, T:0.23
Consensus pattern (15 bp):
GTTAGAAGAGACTGA
Found at i:98684093 original size:28 final size:25
Alignment explanation
Indices: 98684035--98684095 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
98684025 TTAAGCCCCC
*
98684035 CCAAAAAAAACCTAACCCAAAAAAA
1 CCAAGAAAAACCTAACCCAAAAAAA
**
98684060 AAAAGAAAAACCTAACCCCCCAAAAAAA
1 CCAAGAAAAACCTAA---CCCAAAAAAA
98684088 CCAAGAAA
1 CCAAGAAA
98684096 CCCTAGCCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 12 0.43
28 16 0.57
ACGTcount: A:0.66, C:0.28, G:0.03, T:0.03
Consensus pattern (25 bp):
CCAAGAAAAACCTAACCCAAAAAAA
Found at i:98684647 original size:2 final size:2
Alignment explanation
Indices: 98684642--98684676 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
98684632 TAAATACTAT
*
98684642 TA TA TA CA 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 TA TA TA TA T
98684677 TTTAAATACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:98684915 original size:37 final size:37
Alignment explanation
Indices: 98684873--98684974 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
98684863 CTAATATTTT
98684873 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
98684910 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
98684953 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
98684975 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:98686665 original size:12 final size:12
Alignment explanation
Indices: 98686648--98686683 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
98686638 ATTCATTTGA
98686648 CATTCATGCATT
1 CATTCATGCATT
98686660 CATTCATGCATT
1 CATTCATGCATT
*
98686672 CATTCATACATT
1 CATTCATGCATT
98686684 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:98695090 original size:69 final size:70
Alignment explanation
Indices: 98694925--98695098 Score: 217
Period size: 69 Copynumber: 2.5 Consensus size: 70
98694915 TTTTCAAGGG
* * * *
98694925 AAATCAACTCATATTGCGAGAGATGACTTGA-CCTCAAGACACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
98694989 TTTTCA
66 TTTT-A
* ** * *
98694995 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
98695060 TTTT-
66 TTTTA
** *
98695064 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
98695099 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 31 0.34
70 28 0.31
71 31 0.34
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTTA
Found at i:98695219 original size:71 final size:70
Alignment explanation
Indices: 98695122--98695263 Score: 221
Period size: 71 Copynumber: 2.0 Consensus size: 70
98695112 TTTCAAAATC
* * *
98695122 AACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTCAATTTTTGTGTTT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTCTGT-TTT
*
98695187 TAATTT
65 CAATTT
* *
98695193 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTCTGTTTTC
98695258 AATTT
66 AATTT
98695263 A
1 A
98695264 CGTTGTTCAA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
70 9 0.14
71 56 0.86
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (70 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAAGGTATTTTCAATTTCTGTTTTC
AATTT
Found at i:98695446 original size:139 final size:140
Alignment explanation
Indices: 98695195--98695681 Score: 870
Period size: 140 Copynumber: 3.5 Consensus size: 140
98695185 TTTAATTTAA
98695195 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
98695260 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
98695325 TCAAAATCAG
131 TCAAAATCAG
* * *
98695335 CTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACGCT-AAGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
98695399 TTTACGTTGTTCAAGAATCAACTCATATTGCGAAAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
98695464 TCAAAATCAG
131 TCAAAATCAG
98695474 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
98695539 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
98695604 TCAAAATCAG
131 TCAAAATCAG
98695614 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-TT
98695678 TCAA
62 TCAA
98695682 AAATAAAAAA
Statistics
Matches: 331, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
139 136 0.41
140 166 0.50
142 23 0.07
143 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:98695537 original size:13 final size:13
Alignment explanation
Indices: 98695519--98695552 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
98695509 CGCTGAGGTA
*
98695519 TTTTCAATTTCTG
1 TTTTCAATTTATG
98695532 TTTTCAATTTATG
1 TTTTCAATTTATG
98695545 TTGTTCAA
1 TT-TTCAA
98695553 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:98695812 original size:72 final size:73
Alignment explanation
Indices: 98695690--98695831 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 73
98695680 AAAAATAAAA
*
98695690 AAAATTTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
1 AAAATTTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
98695755 CTGTTTTC
66 CTGTTTTC
98695763 AAAA-TTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
1 AAAATTTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
98695827 CTGTT
66 CTGTT
98695832 CAAAATGAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 64 0.94
73 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (73 bp):
AAAATTTCAACTCATATTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
CTGTTTTC
Found at i:98695927 original size:121 final size:121
Alignment explanation
Indices: 98695713--98695952 Score: 410
Period size: 121 Copynumber: 2.0 Consensus size: 121
98695703 ATATTGCGAG
*
98695713 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* *
98695778 TTGCGAGAAACGAGTTGAGCCTCAAGACACGTTGAGGTAATTT-CAATTTCTGTTCA
66 TTGCGAGAAACGAGTTGAGCCTCAAGACACGCTGAGAT-ATTTCCAATTTCTGTTCA
98695834 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
** *
98695899 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGATATTTCCAATTTCTGTT
66 TTGCGAGAAACGAGTTGAGCCTCAAGACACGCTGAGATATTTCCAATTTCTGTT
98695953 TTTCAAAAAA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 4 0.04
121 108 0.96
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAACGAGTTGAGCCTCAAGACACGCTGAGATATTTCCAATTTCTGTTCA
Found at i:98696091 original size:75 final size:75
Alignment explanation
Indices: 98695834--98696187 Score: 414
Period size: 75 Copynumber: 4.7 Consensus size: 75
98695824 TTTCTGTTCA
* *
98695834 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
98695896 ATATTGCGAG
66 ATATTGCGAG
* * * *
98695906 AAATTAGTTGAGCCTCAAGACATGCTGAGATATTTCCAATTTCTGTTTTTCAAAAAAAAAAATCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAAATCA
*
98695971 ACTCATATTGTGAG
62 ACTCATATTGCGAG
*
98695985 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
98696050 ATATTGCGAG
66 ATATTGCGAG
** * * * * *
98696060 AGGTGAGTTGAGCCTCAGGACACGTTAAGGTAATTTCAATTT-TG-TTGTCAAAAAAATCAACT-
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
*
98696122 AGTATTGTGAG
66 A-TATTGCGAG
** * * *
98696133 AAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
98696188 TTTCTGCCTT
Statistics
Matches: 242, Mismatches: 28, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
72 41 0.17
73 47 0.19
74 2 0.01
75 77 0.32
76 1 0.00
77 6 0.02
79 68 0.28
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:98696113 original size:151 final size:151
Alignment explanation
Indices: 98695834--98696187 Score: 436
Period size: 154 Copynumber: 2.4 Consensus size: 151
98695824 TTTCTGTTCA
* *
98695834 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* * * *
98695896 ATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGATATTTCCAATTTCTGTTTTTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTAAGATATTTCCAATTTCTGTTTGTC---A
98695961 AAAAAAATCAACTCA-TATTGTGAG
128 AAAAAAATCAACT-AGTATTGTGAG
*
98695985 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
** * * *
98696050 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTAAGGTAATTT-CAATTT-TG-TTGTC-AA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTAAGAT-ATTTCCAATTTCTGTTTGTCAAA
98696111 AAAAATCAACTAGTATTGTGAG
130 AAAAATCAACTAGTATTGTGAG
** * * *
98696133 AAGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
98696188 TTTCTGCCTT
Statistics
Matches: 178, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
147 1 0.01
148 38 0.21
150 31 0.17
151 43 0.24
152 9 0.05
153 2 0.01
154 50 0.28
155 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (151 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTAAGATATTTCCAATTTCTGTTTGTCAAAA
AAAATCAACTAGTATTGTGAG
Found at i:98696310 original size:77 final size:78
Alignment explanation
Indices: 98696202--98696564 Score: 331
Period size: 79 Copynumber: 4.5 Consensus size: 78
98696192 TGCCTTTCAA
*
98696202 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
*
98696267 TTTCTA-TCTTTG
66 TTTCTATTCTTTC
* * * *
98696279 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGCTA--TTTT
*
98696343 CAATTTATATT-TTTC
63 CAATTTCTATTCTTTC
* * * * * *
98696358 AAAAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTCCGG-TCACATG-TCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCT-GAGCTATTTTC
* *
98696421 AAAATCTGTTTTTCAAATTCTGTTT
64 --AA------TTTC-TATTCT-TTC
** * **
98696446 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
*
98696511 TTTCTATTTTTTTTTC
66 TTTCTA---TTCTTTC
98696527 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
98696565 TTTTTAATTT
Statistics
Matches: 231, Mismatches: 31, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
76 3 0.01
77 54 0.23
78 1 0.00
79 62 0.27
80 8 0.03
81 7 0.03
82 32 0.14
85 3 0.01
86 5 0.02
87 3 0.01
88 52 0.23
89 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (78 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAA
TTTCTATTCTTTC
Found at i:98696435 original size:14 final size:13
Alignment explanation
Indices: 98696416--98696451 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
98696406 TGTCGAGGTA
98696416 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
98696429 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
98696443 TTTTCAAAA
1 TTTTCAAAA
98696452 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:98696521 original size:88 final size:88
Alignment explanation
Indices: 98696360--98696521 Score: 211
Period size: 88 Copynumber: 1.8 Consensus size: 88
98696350 TATTTTTCAA
* *
98696360 AAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTCCGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCAAGAAGTGAGTTGAGCCTCCGGTCACATGTCGAGCTATTTTCAAAA
*
98696425 TCTGTTTTTCAAATTCTGTTTTC
66 TCTATTTTTCAAATTCTGTTTTC
* * * *
98696448 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACGTG-CTGAGCTATTTTCAA
1 AAAAATCAACTCACATTGCAAGAAGTGAGTTGAGCCTCCGG-TCACATGTC-GAGCTATTTTCAA
**
98696511 TTTCTATTTTT
64 AATCTATTTTT
98696522 TTTTCAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 3 0.05
88 60 0.95
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCAAGAAGTGAGTTGAGCCTCCGGTCACATGTCGAGCTATTTTCAAAA
TCTATTTTTCAAATTCTGTTTTC
Found at i:98696545 original size:249 final size:244
Alignment explanation
Indices: 98695962--98696775 Score: 872
Period size: 254 Copynumber: 3.3 Consensus size: 244
98695952 TTTTCAAAAA
* * ** * *
98695962 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGTGCTGAGCTATTTTCAA
* * * *
98696024 TTTC--TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGT
65 TTTCTATTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAT
* * * * *
98696085 TAAGGTA-ATTTCAATTT-TGTTGTCAAAAAAATCAACT-AGTATTGTGAGAAGCGAGTTGAGCC
130 TAAGGTATTTTTCAATTTATTTTTTCAAAAAAATCAACTCA-TATTGCGAGAAGTGAGTTGAGCC
* * * ** * *
98696147 TCAGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
194 TCCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG--TTTC
* *
98696200 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 ---AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTC
* *
98696265 AATTTCTA--TCTTTGAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
63 AATTTCTATTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
* * * * *
98696328 ACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCAAGATGTGAGTTGA
128 ATTAAGGTA-TTTTTCAATTTAT-TTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
98696393 GCCTCCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTC
191 GCCTCCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-TTTC
98696448 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
*
98696512 TTCTATTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTC
66 TTCTA--TTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC
* * * * *
98696576 TGCGAGAGTTAAGTTGAGTCTTTT-AATTTCAGTTTTTC--AAAAATCAACTCATATTGCGAGAG
124 -AC-ACA-TTAAGGT-A-T-TTTTCAATTT-ATTTTTTCAAAAAAATCAACTCATATTGCGAGAA
* * * * * **
98696638 GTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC
182 GTGAGTTGAGCCTCCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTC
*
98696701 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCAC-TCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGT-GCTGAGCTATTTTCAA
98696765 TTTCTATTTTT
65 TTTCTATTTTT
98696776 AATGTCTGTT
Statistics
Matches: 490, Mismatches: 54, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
241 34 0.07
242 1 0.00
243 66 0.13
244 68 0.14
245 10 0.02
247 9 0.02
248 16 0.03
249 105 0.21
250 2 0.00
251 3 0.01
252 7 0.01
253 6 0.01
254 141 0.29
255 4 0.01
256 13 0.03
257 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (244 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTATTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACATT
AAGGTATTTTTCAATTTATTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
CGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTC
Found at i:98696582 original size:30 final size:30
Alignment explanation
Indices: 98696546--98696605 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
98696536 CAACTCATAT
*
98696546 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTAAGTTGAGTC-TTTTAATTTC
*
98696576 TGCGAGAGTTAAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTAAGTTGAGTCTTTTAATTTC
98696606 AGTTTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTAAGTTGAGTCTTTTAATTTC
Found at i:98697435 original size:21 final size:19
Alignment explanation
Indices: 98697411--98697465 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 19
98697401 GCCCATTAAG
98697411 CCCCCCAAAAAAAACCTAA
1 CCCCCCAAAAAAAACCTAA
98697430 CCCCCCCCAAAAAAAAAACCTAA
1 --CCCCCC--AAAAAAAACCTAA
98697453 CCCCCCAAAAAAA
1 CCCCCCAAAAAAA
98697466 CCAAGAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.22
21 12 0.38
23 13 0.41
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.04
Consensus pattern (19 bp):
CCCCCCAAAAAAAACCTAA
Found at i:98697437 original size:23 final size:23
Alignment explanation
Indices: 98697417--98697465 Score: 84
Period size: 21 Copynumber: 2.2 Consensus size: 23
98697407 TAAGCCCCCC
98697417 AAAAAAAACCTAACCCCCCCCAA
1 AAAAAAAACCTAACCCCCCCCAA
98697440 AAAAAAAACCTAA--CCCCCCAA
1 AAAAAAAACCTAACCCCCCCCAA
98697461 AAAAA
1 AAAAA
98697466 CCAAGAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 13 0.50
23 13 0.50
ACGTcount: A:0.59, C:0.37, G:0.00, T:0.04
Consensus pattern (23 bp):
AAAAAAAACCTAACCCCCCCCAA
Found at i:98701559 original size:21 final size:20
Alignment explanation
Indices: 98701533--98701572 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
98701523 TAGGATCAAT
*
98701533 TTGTAAAAGTTATGAAATAGG
1 TTGT-AAAGGTATGAAATAGG
*
98701554 TTGTAATGGTATGAAATAG
1 TTGTAAAGGTATGAAATAG
98701573 TGAAAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (20 bp):
TTGTAAAGGTATGAAATAGG
Found at i:98702647 original size:33 final size:33
Alignment explanation
Indices: 98702601--98702667 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
98702591 TATGATAAGA
98702601 TGATGTACTCTAAGATTCGGTAGAA-ACCATGTG
1 TGATGTACTCTAAGATTCGGT-GAAGACCATGTG
* *
98702634 TGATGTA-TACTAAGATTTGGTGAAGATCATGTG
1 TGATGTACT-CTAAGATTCGGTGAAGACCATGTG
98702667 T
1 T
98702668 TAGGCTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (33 bp):
TGATGTACTCTAAGATTCGGTGAAGACCATGTG
Found at i:98704793 original size:49 final size:49
Alignment explanation
Indices: 98704726--98704858 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 49
98704716 CTTGTGGTGT
* * *
98704726 GTCAATGTAAG-ACTTGTCTAGGACATGGCATCGACAACGATAAATGAGA
1 GTCAGTGTAAGAAC-TGTCTAGGACACGGCATCGACAACGATAAATGAAA
* * *
98704775 G-CTAGTGTAAGAACTGTCTAGGACACGGCATCGGCATCGATATATGAAA
1 GTC-AGTGTAAGAACTGTCTAGGACACGGCATCGACAACGATAAATGAAA
* *
98704824 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 GTCAGTGTAAGAACTGTCTAGGACACGGCATCGAC
98704859 TTTAAAGTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.01
49 68 0.94
50 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGAACTGTCTAGGACACGGCATCGACAACGATAAATGAAA
Found at i:98709712 original size:33 final size:33
Alignment explanation
Indices: 98709666--98709729 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
98709656 TATGATAAGA
98709666 TGATGTACTCTAAGATTCGGTAGAA-ATCATGTG
1 TGATGTACTCTAAGATTCGGT-GAAGATCATGTG
*
98709699 TGATGTA-TACTAAGATTTGGTGAAGATCATG
1 TGATGTACT-CTAAGATTCGGTGAAGATCATG
98709730 CGTCAGGCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (33 bp):
TGATGTACTCTAAGATTCGGTGAAGATCATGTG
Found at i:98723390 original size:20 final size:22
Alignment explanation
Indices: 98723351--98723391 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
98723341 GATTAATGTA
98723351 CACTTTAGTATATTATTTTTCT
1 CACTTTAGTATATTATTTTTCT
* *
98723373 CACTTTGGTAT-TTTTTTTT
1 CACTTTAGTATATTATTTTT
98723392 GACACACTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.12, G:0.07, T:0.63
Consensus pattern (22 bp):
CACTTTAGTATATTATTTTTCT
Found at i:98724863 original size:18 final size:18
Alignment explanation
Indices: 98724840--98724876 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
98724830 TTCGGCTAGG
98724840 GTGGGTTGAGGTTGAATT
1 GTGGGTTGAGGTTGAATT
98724858 GTGGGTTGAGGTTGAATT
1 GTGGGTTGAGGTTGAATT
98724876 G
1 G
98724877 CATGAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (18 bp):
GTGGGTTGAGGTTGAATT
Found at i:98725238 original size:70 final size:70
Alignment explanation
Indices: 98725156--98725366 Score: 305
Period size: 70 Copynumber: 3.0 Consensus size: 70
98725146 GATGTATTTT
*
98725156 TATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCATGATCGCACTTACATGCCCCTGT
1 TATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCATAATCGCACTTACATGCCCCTGT
98725221 TGTAC
66 TGTAC
* * * * *
98725226 TATTTTAAAATCAAGTAGTTAATTACTATATAATTATATCCCTAATTGCACTTACATGCCCCTAT
1 TATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCATAATCGCACTTACATGCCCCTGT
98725291 TGTAC
66 TGTAC
* * * * * * *
98725296 TATTTTATAATCAAGTAGTTAATTATTATATAATTATACCCTTTATCACATTTACGTGCCCCTGC
1 TATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCATAATCGCACTTACATGCCCCTGT
98725361 TGTAC
66 TGTAC
98725366 T
1 T
98725367 TCGGTACTCC
Statistics
Matches: 124, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 124 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.42
Consensus pattern (70 bp):
TATTTTATAATCAAGTAGTTAATTATTATATAATTATATCCATAATCGCACTTACATGCCCCTGT
TGTAC
Found at i:98725503 original size:9 final size:10
Alignment explanation
Indices: 98725475--98725504 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
98725465 TTCTATGTAC
98725475 TTACTAAGCT
1 TTACTAAGCT
98725485 TTACTAAGCT
1 TTACTAAGCT
98725495 TTA-TAAGCT
1 TTACTAAGCT
98725504 T
1 T
98725505 ATACGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (10 bp):
TTACTAAGCT
Found at i:98731562 original size:23 final size:23
Alignment explanation
Indices: 98731532--98731640 Score: 139
Period size: 23 Copynumber: 4.7 Consensus size: 23
98731522 ACACGGATCG
*
98731532 AACCAAACACACCAAAATAATCC
1 AACCAAACACACCAGAATAATCC
*
98731555 AACCAAACACACCAGAATGAT-C
1 AACCAAACACACCAGAATAATCC
*
98731577 AACCCAAACATACCAGAATAATCC
1 AA-CCAAACACACCAGAATAATCC
* *
98731601 ACCCAAACACACCAGAATAACCC
1 AACCAAACACACCAGAATAATCC
* *
98731624 ATCCAAACACACTAGAA
1 AACCAAACACACCAGAA
98731641 CGACACTAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
22 3 0.04
23 70 0.93
24 2 0.03
ACGTcount: A:0.51, C:0.35, G:0.05, T:0.09
Consensus pattern (23 bp):
AACCAAACACACCAGAATAATCC
Found at i:98731838 original size:24 final size:24
Alignment explanation
Indices: 98731790--98731844 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
98731780 TATTCAATTT
98731790 TCATA-TTTCAATTCAATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
98731814 TCATATTTTCAATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
98731838 TCA-ATTT
1 TCATATTT
98731845 AATCACAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.38
25 9 0.31
26 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:98732547 original size:24 final size:24
Alignment explanation
Indices: 98732520--98732568 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
98732510 CTTCTAAAAC
98732520 ATCAAAATTAAAAGAAAATGACTT
1 ATCAAAATTAAAAGAAAATGACTT
*
98732544 ATCAAAATTAAAAGAAAATGGCTT
1 ATCAAAATTAAAAGAAAATGACTT
98732568 A
1 A
98732569 ATTGACTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.24
Consensus pattern (24 bp):
ATCAAAATTAAAAGAAAATGACTT
Found at i:98732946 original size:16 final size:16
Alignment explanation
Indices: 98732927--98732959 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
98732917 TTTTTATCTA
*
98732927 ATTAATATAATATTTT
1 ATTAATATAATAATTT
98732943 ATTAATATAATAATTT
1 ATTAATATAATAATTT
98732959 A
1 A
98732960 ATATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTAATATAATAATTT
Found at i:98740384 original size:21 final size:21
Alignment explanation
Indices: 98740359--98740401 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
98740349 TAAGTTCTCC
98740359 CCAATACAATGGAGTTCGGCA
1 CCAATACAATGGAGTTCGGCA
98740380 CCAATACAATGGAGTTCGGCA
1 CCAATACAATGGAGTTCGGCA
98740401 C
1 C
98740402 TTTCTGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (21 bp):
CCAATACAATGGAGTTCGGCA
Found at i:98754265 original size:21 final size:19
Alignment explanation
Indices: 98754222--98754267 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
98754212 CCTTTCAAAT
98754222 TTTCTTACTTTCATTTGTA
1 TTTCTTACTTTCATTTGTA
98754241 TTTCATTACTTTTCATTT-TA
1 TTTC-TTAC-TTTCATTTGTA
98754261 GTTTCTT
1 -TTTCTT
98754268 TTCTTTAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 12 0.50
ACGTcount: A:0.15, C:0.15, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTCTTACTTTCATTTGTA
Done.