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 324 of 438
Found at i:101420963 original size:49 final size:49
Alignment explanation
Indices: 101420875--101421395 Score: 783
Period size: 49 Copynumber: 10.7 Consensus size: 49
101420865 GATTTTATGC
* *
101420875 GATGAATGTGAACGTG--TATATATGAGATAAGG-CTGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCGATGT
101420922 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
101420971 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
101421020 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
101421069 GATGAATGTGAAAGTGTATATATATATATGTGATAAGGCCTAATGGTCGATGT
1 GATGAATGTGAAAGTG----TATATATATGTGATAAGGCCTAATGGCCGATGT
*
101421122 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
101421171 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
101421220 GATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGT
* * *
101421271 GATGAATGTGATAGTG--TATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
* ** * * *
101421318 GATGAATGTGAAAGTG--TATATATGTGATAGGGCAGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
101421365 GAT-AGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGA-ATGTGAAAGTGTATATATATGTGATAAG
101421396 TCCCGAAGGG
Statistics
Matches: 447, Mismatches: 15, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.00
47 109 0.24
48 1 0.00
49 238 0.53
50 2 0.00
51 48 0.11
53 48 0.11
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:101421147 original size:151 final size:147
Alignment explanation
Indices: 101420875--101421384 Score: 789
Period size: 151 Copynumber: 3.5 Consensus size: 147
101420865 GATTTTATGC
* *
101420875 GATGAATGTGAACGTGTATATATGAGATAAGG-CTGAATGGCCGATGTGATGAATGTGAAAGTG-
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGT
101420938 -TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
65 ATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
*
101421002 AGGCCTAATGGCCGATGT
130 AGGCCCAATGGCCGATGT
101421020 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
101421085 TATATATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGTG
64 --TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG
101421150 ATAAGGCCCAATGGCCGATGT
127 ATAAGGCCCAATGGCCGATGT
101421171 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
101421236 TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATAGTG--TATATATGTGAT
64 TATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT
* *
101421299 AAGGCCGAATGGCCAATGT
129 AAGGCCCAATGGCCGATGT
* ** * * *
101421318 GATGAATGTGAAAGTGTATATATGTGATAGGGCAGAGTGGCCAACGTGAT-AGATGTGAAAGTGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA-ATGTGAAAGTGT
101421382 ATA
65 ATA
101421385 AATGTGATAA
Statistics
Matches: 343, Mismatches: 14, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
144 1 0.00
145 58 0.17
147 88 0.26
148 2 0.01
149 49 0.14
151 145 0.42
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (147 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCCAATGGCCGATGT
Found at i:101425680 original size:47 final size:47
Alignment explanation
Indices: 101425610--101425739 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
101425600 GTGCGAATTA
* *
101425610 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCAAAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAAAGAGAAGT
* * *** *
101425657 TACCTTGATTTGGCTATGAGCCATGGTATAGGTACTCTGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAAAGAGAAGT
101425704 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
101425740 TATCGATAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAAAGAGAAGT
Found at i:101433736 original size:50 final size:49
Alignment explanation
Indices: 101433618--101433804 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
101433608 TGAGGTCGCA
* ** * *
101433618 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
101433669 TGTTTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
101433719 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
101433768 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
101433805 TAGCTTCGGC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 42 0.36
51 29 0.25
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:101437452 original size:7 final size:7
Alignment explanation
Indices: 101437440--101437464 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
101437430 TTATTTCTTT
101437440 TCTTCCC
1 TCTTCCC
101437447 TCTTCCC
1 TCTTCCC
101437454 TCTTCCC
1 TCTTCCC
101437461 TCTT
1 TCTT
101437465 TTGTATTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (7 bp):
TCTTCCC
Found at i:101453452 original size:20 final size:20
Alignment explanation
Indices: 101453429--101453488 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
101453419 TGAAATTCTA
* *
101453429 AAAGATAAATACAAATGAAT
1 AAAGATAAATAAAAATAAAT
*
101453449 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
101453469 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
101453489 CGTAAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:101453461 original size:10 final size:10
Alignment explanation
Indices: 101453429--101453488 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
101453419 TGAAATTCTA
101453429 AAAGATAAAT
1 AAAGATAAAT
*
101453439 ACAA-ATGAAT
1 A-AAGATAAAT
*
101453449 AAAGATAATT
1 AAAGATAAAT
*
101453459 AAAAATAAAT
1 AAAGATAAAT
101453469 AAAGATAAAT
1 AAAGATAAAT
101453479 GAAA-ATAAAT
1 -AAAGATAAAT
101453489 CGTAAAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 2 0.05
10 34 0.83
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:101454126 original size:9 final size:8
Alignment explanation
Indices: 101454109--101454142 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
101454099 TAATACCTCC
101454109 TTCTTTTT
1 TTCTTTTT
101454117 TTCTTTTT
1 TTCTTTTT
101454125 TTC-TTTT
1 TTCTTTTT
101454132 TTCATTTTT
1 TTC-TTTTT
101454141 TT
1 TT
101454143 AATTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 11 0.46
9 6 0.25
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (8 bp):
TTCTTTTT
Found at i:101454130 original size:16 final size:16
Alignment explanation
Indices: 101454113--101454142 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
101454103 ACCTCCTTCT
101454113 TTTTTTC-TTTTTTTC
1 TTTTTTCATTTTTTTC
101454128 TTTTTTCATTTTTTT
1 TTTTTTCATTTTTTT
101454143 AATTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCATTTTTTTC
Found at i:101454281 original size:96 final size:97
Alignment explanation
Indices: 101454154--101454340 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 97
101454144 ATTTTATTTA
* *
101454154 TTTATTTTTACTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATTGAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCA
*
101454219 CCCTAGTTACCCAGCCCAACACATTCCTAATT
66 CCCCAGTTACCCAGCCCAACACATTCCTAATT
*
101454251 TTTATTTTT-CTTAAGAACAT-TTCGAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATATT-GAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCC
* * * *
101454314 ACCCCGGTTACTCAGTCTAACACATTC
65 ACCCCAGTTACCCAGCCCAACACATTC
101454341 TTAAAAATTA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 2 0.02
96 70 0.86
97 9 0.11
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTGAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCA
CCCCAGTTACCCAGCCCAACACATTCCTAATT
Found at i:101454875 original size:18 final size:19
Alignment explanation
Indices: 101454838--101454875 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
101454828 AATATTATAT
* *
101454838 ATGGACAGCAACGACCAAA
1 ATGGACAGCAACAACAAAA
101454857 ATGG-CAGCAACAACAAAA
1 ATGGACAGCAACAACAAAA
101454875 A
1 A
101454876 AAACAGCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.53, C:0.24, G:0.18, T:0.05
Consensus pattern (19 bp):
ATGGACAGCAACAACAAAA
Found at i:101455101 original size:5 final size:5
Alignment explanation
Indices: 101455091--101455164 Score: 55
Period size: 5 Copynumber: 14.8 Consensus size: 5
101455081 AACATCCAAA
* *
101455091 AAAAT AAAAT AAAAT AAAAT --AAT AAATATT AAAAT AAAGT AAAAT TAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-A-T AAAAT AAAAT AAAAT AAAAT
* * *
101455141 TAAAT TAAAT -TAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAA
101455165 AATTGGGTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
3 3 0.05
4 3 0.05
5 43 0.74
6 5 0.09
7 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (5 bp):
AAAAT
Found at i:101458878 original size:20 final size:19
Alignment explanation
Indices: 101458855--101458914 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 19
101458845 TGAAATTCTA
101458855 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
* *
101458875 AAAGATAATTAGAGATAAAT
1 AAAGATAAATA-AAATAAAT
101458895 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
101458915 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:101465149 original size:46 final size:46
Alignment explanation
Indices: 101464969--101465182 Score: 163
Period size: 46 Copynumber: 4.6 Consensus size: 46
101464959 TGTGTGAGCT
* * * **
101464969 AGTGTAAGATATGTCTGGGACATGCATCGGCCAC-ATTATGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTAAGCC
* * *
101465015 AGTGTAAGACCATGTCTGGGACATGGCATTGGC-ATTGAGA--CAAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGTAA--GCC
** * *
101465063 AGTGTAAGACACATCCGGGACATGCATCGGCCT-CGGGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTAAGCC
*
101465109 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCC
* *
101465153 AGTGTAAGACCATGTTTGAGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
101465183 AGCATGGATA
Statistics
Matches: 135, Mismatches: 20, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 61 0.45
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCC
Found at i:101465212 original size:50 final size:48
Alignment explanation
Indices: 101465152--101465280 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 48
101465142 CGAGATGTGT
* *
101465152 CAGTGTAAGACCATGTTTGAGACATGGCATCAGCATGGAT-ATGCGA-GAG
1 CAGTGTAAGACCATGTTTG-GACATGGCATCAGCATCGATGAT--GATCAG
* * * * *
101465201 CTAGTGTAAGACCTTGTCTGGCACATGGCATCGGCCTCGATGATGATCAT
1 C-AGTGTAAGACCATGTTTGG-ACATGGCATCAGCATCGATGATGATCAG
101465251 CAGTGTAAGACCATGTTTGGGACATGGCAT
1 CAGTGTAAGACCATGTTT-GGACATGGCAT
101465281 TGACACCTCA
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
49 28 0.42
50 36 0.55
51 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCATGTTTGGACATGGCATCAGCATCGATGATGATCAG
Found at i:101467078 original size:40 final size:40
Alignment explanation
Indices: 101467022--101467238 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
101467012 CGGATGATAA
* *
101467022 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
101467062 TCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
101467102 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
101467142 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
101467182 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
101467222 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
101467239 ATGCTTGGGT
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 146 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:101467506 original size:22 final size:21
Alignment explanation
Indices: 101467465--101467508 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
101467455 GAATGTGCAT
101467465 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
101467487 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
101467509 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:101472201 original size:41 final size:41
Alignment explanation
Indices: 101472156--101472273 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
101472146 TGAAAGATAA
101472156 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
101472197 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
101472227 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
101472268 ATGTAG
1 ATGTAG
101472274 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:101472212 original size:71 final size:71
Alignment explanation
Indices: 101472124--101472287 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101472114 GAGATGTATC
101472124 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
101472189 AGGACA
66 AGGACA
101472195 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
101472260 AGGACA
66 AGGACA
101472266 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
101472288 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:101479767 original size:41 final size:41
Alignment explanation
Indices: 101479722--101479839 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
101479712 TGAAAGATAA
101479722 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
101479763 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
101479793 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
101479834 ATGTAG
1 ATGTAG
101479840 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:101479778 original size:71 final size:71
Alignment explanation
Indices: 101479690--101479853 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
101479680 GAGATGTATC
101479690 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
101479755 AGGACA
66 AGGACA
101479761 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
101479826 AGGACA
66 AGGACA
101479832 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
101479854 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:101482119 original size:2 final size:2
Alignment explanation
Indices: 101482114--101482146 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
101482104 AAGAGAAATG
101482114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101482147 CGCACAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101484914 original size:2 final size:2
Alignment explanation
Indices: 101484907--101484941 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
101484897 AATTGAAAAC
101484907 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
101484942 AGGATATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:101488467 original size:25 final size:25
Alignment explanation
Indices: 101488437--101488487 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
101488427 ACCCTTATTC
101488437 CCCCAAATCCCAAACTTAATTTTTT
1 CCCCAAATCCCAAACTTAATTTTTT
* *
101488462 CCCCAATTCCCTAACTTAATTTTTT
1 CCCCAAATCCCAAACTTAATTTTTT
101488487 C
1 C
101488488 TTTTGTCCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (25 bp):
CCCCAAATCCCAAACTTAATTTTTT
Found at i:101493022 original size:20 final size:19
Alignment explanation
Indices: 101492981--101493027 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
101492971 TTTACTATAC
*
101492981 TTAAATTTGATATTAATTT
1 TTAAATTTGATATTAATAT
*
101493000 TTAAATTTGATCTTTAATAT
1 TTAAATTTGAT-ATTAATAT
*
101493020 TTATATTT
1 TTAAATTT
101493028 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTAAATTTGATATTAATAT
Found at i:101496420 original size:43 final size:42
Alignment explanation
Indices: 101496283--101496441 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
101496273 TATGTGATAT
* * *
101496283 CGTGTAAGACCACGTCT-AGGACGTTGACATC-AATTTGGTATTTA
1 CGTGTAAGACCATGTCTGA-GACGTTGGCATCGTATTT-G-A-TTA
*
101496327 CGTGTAAGACCATGTCTGAGACGTTGGCATCGTATTTGATTT
1 CGTGTAAGACCATGTCTGAGACGTTGGCATCGTATTTGATTA
* * * *
101496369 TGTGTAAGACCCTGTTTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGAGAC-GTTGGCATCG-TATTTGATTA
* * *
101496412 CATGTAAGACCACGTCT-AGGACATTGGCAT
1 CGTGTAAGACCATGTCTGA-GACGTTGGCAT
101496442 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
42 28 0.30
43 32 0.34
44 28 0.30
45 5 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGAGACGTTGGCATCGTATTTGATTA
Found at i:101498814 original size:16 final size:16
Alignment explanation
Indices: 101498793--101498826 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
101498783 TATAATGGAT
101498793 TAACCATAA-TCAAACA
1 TAACCA-AATTCAAACA
101498809 TAACCAAATTCAAACA
1 TAACCAAATTCAAACA
101498825 TA
1 TA
101498827 GAAGTTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.21
Consensus pattern (16 bp):
TAACCAAATTCAAACA
Found at i:101501524 original size:16 final size:18
Alignment explanation
Indices: 101501505--101501537 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
101501495 CATACGAATT
101501505 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
101501521 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
101501538 GTGATGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:101502176 original size:42 final size:43
Alignment explanation
Indices: 101502104--101502224 Score: 183
Period size: 42 Copynumber: 2.8 Consensus size: 43
101502094 CTGAACTCAT
*
101502104 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
* *
101502146 TCACTGGCATTATAGCCTGCT-GGCTTGAAGCCCGATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
*
101502188 TCACCGACATTATAGCCTGCTAGGCTCGAAGGCCCGA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-GCCCGA
101502225 ATAGTACCGT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
42 50 0.71
43 14 0.20
44 6 0.09
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATTAAC
Found at i:101503487 original size:216 final size:217
Alignment explanation
Indices: 101503111--101503547 Score: 806
Period size: 216 Copynumber: 2.0 Consensus size: 217
101503101 CATGCTAAGT
101503111 AAATGACCGAATGTGCTTGAGCTTTTTTTTCCCTCTCTTTTTCTCTTAATTTCGGCTATGAAGAA
1 AAATGACCGAATGTGCTTGAGCTTTTTTTTCCCTCTCTTTTTCTCTTAATTTCGGCTATGAAGAA
101503176 CAAAGATGAACAAGCTTTGTCCTTTTCATCATTTTGTTATTTTATTTATCTTTATTTTATAATAT
66 CAAAGATGAACAAGCTTTGTCCTTTTCATCATTTTGTTATTTTATTTATCTTTATTTTATAATAT
* *
101503241 AAAGCCATTAAATATTATAATGCTAATTTAAAATGCATATATTGTTTATCATCATCATTATGGCT
131 AAAGCCATTAAATATTATAATGCCAATTTAAAATGCATATATTGTTTATCATCATCATTATGGCC
*
101503306 TGCCACTACAAATTAAAGT-GG
196 GGCCACTACAAATTAAAGTGGG
* *
101503327 AAATGACCGAATGTGCTTGAGCTTTTTTTGTTCTTCTCTTTTTCTCTTAATTTCGGCTATGAAGA
1 AAATGACCGAATGTGCTTGAGCTTTTTTT-TCCCTCTCTTTTTCTCTTAATTTCGGCTATGAAGA
101503392 ACAAAGATGAACAAGCTTTGTCCTTTTCATCA-TTTGTTATTTTATTTATCTTTATTTTATAATA
65 ACAAAGATGAACAAGCTTTGTCCTTTTCATCATTTTGTTATTTTATTTATCTTTATTTTATAATA
101503456 TAAAGCCATTAAATATTATAATGCCAATTTAAAATGCATATATTGTTTATCATCATCATTATGGC
130 TAAAGCCATTAAATATTATAATGCCAATTTAAAATGCATATATTGTTTATCATCATCATTATGGC
101503521 CGGCCACTACAAATTAAAGTGGG
195 CGGCCACTACAAATTAAAGTGGG
101503544 AAAT
1 AAAT
101503548 TTGACATGCA
Statistics
Matches: 214, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
216 143 0.67
217 71 0.33
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (217 bp):
AAATGACCGAATGTGCTTGAGCTTTTTTTTCCCTCTCTTTTTCTCTTAATTTCGGCTATGAAGAA
CAAAGATGAACAAGCTTTGTCCTTTTCATCATTTTGTTATTTTATTTATCTTTATTTTATAATAT
AAAGCCATTAAATATTATAATGCCAATTTAAAATGCATATATTGTTTATCATCATCATTATGGCC
GGCCACTACAAATTAAAGTGGG
Found at i:101514425 original size:44 final size:44
Alignment explanation
Indices: 101514363--101514482 Score: 125
Period size: 46 Copynumber: 2.7 Consensus size: 44
101514353 TAGTGCCAAT
*
101514363 GCATCTCCCAGACATGTCTTACACTAGCACATCTCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGCACATCTCG-AGGCCGAC
* * * * * *
101514407 GCATGTCCTAGACATGTCTGACATTGGCTAACATCTCGAGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC--ACATCTCGAGGCCGAC
**
101514453 ATATGTCCCAGACATGTCTTACACTAGCAC
1 GCATGTCCCAGACATGTCTTACACTAGCAC
101514483 TCGTCTTAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
44 25 0.42
45 1 0.02
46 34 0.57
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCACATCTCGAGGCCGAC
Found at i:101515651 original size:76 final size:76
Alignment explanation
Indices: 101515525--101515685 Score: 322
Period size: 76 Copynumber: 2.1 Consensus size: 76
101515515 TGTGTAGTCA
101515525 CACACGCCCGTGTGGCTAGGGACACGCTCGGTGCCCTTAGCCCGTGTGCAACACTGACATTAAAA
1 CACACGCCCGTGTGGCTAGGGACACGCTCGGTGCCCTTAGCCCGTGTGCAACACTGACATTAAAA
101515590 CACGGCCATGG
66 CACGGCCATGG
101515601 CACACGCCCGTGTGGCTAGGGACACGCTCGGTGCCCTTAGCCCGTGTGCAACACTGACATTAAAA
1 CACACGCCCGTGTGGCTAGGGACACGCTCGGTGCCCTTAGCCCGTGTGCAACACTGACATTAAAA
101515666 CACGGCCATGG
66 CACGGCCATGG
101515677 CACACGCCC
1 CACACGCCC
101515686 ATGGGAGTAG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 85 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (76 bp):
CACACGCCCGTGTGGCTAGGGACACGCTCGGTGCCCTTAGCCCGTGTGCAACACTGACATTAAAA
CACGGCCATGG
Found at i:101526748 original size:12 final size:12
Alignment explanation
Indices: 101526731--101526755 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101526721 TTGGCCGAAT
101526731 AGAAGAAAAAAA
1 AGAAGAAAAAAA
101526743 AGAAGAAAAAAA
1 AGAAGAAAAAAA
101526755 A
1 A
101526756 AGCTCTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAAAA
Found at i:101526752 original size:51 final size:52
Alignment explanation
Indices: 101526629--101526805 Score: 302
Period size: 54 Copynumber: 3.4 Consensus size: 52
101526619 ATGATAAAAA
101526629 AAAGAAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAG-AAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
101526682 AAAGAAAAAGAAGAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAG--AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
101526736 AAA-AAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCAAATAGAAG
1 AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
101526787 AAAGAAAAAGAAGGAAAAA
1 AAAGAAAAAGAAGAAAAAA
101526806 GAGCTTTGAG
Statistics
Matches: 119, Mismatches: 2, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
51 41 0.34
52 17 0.14
53 19 0.16
54 42 0.35
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (52 bp):
AAAGAAAAAGAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:101527337 original size:2 final size:2
Alignment explanation
Indices: 101527330--101527357 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101527320 TTGTTTGATG
101527330 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
101527358 GTATTCGGCA
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:101531148 original size:47 final size:47
Alignment explanation
Indices: 101531085--101531426 Score: 531
Period size: 47 Copynumber: 7.3 Consensus size: 47
101531075 CCCTTCGGGA
* *
101531085 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
101531132 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
101531179 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
101531226 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
101531273 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
101531320 CCTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
101531367 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
101531414 CTTATCACATATA
1 CTTATCACATATA
101531427 CATATCTTGT
Statistics
Matches: 276, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.27, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:101534052 original size:45 final size:45
Alignment explanation
Indices: 101533935--101534058 Score: 167
Period size: 45 Copynumber: 2.8 Consensus size: 45
101533925 TCGATGTCCC
* * * * * *
101533935 AGACATGGTCTTACACGTAACCACATAGATCAATTCCAACGTCCT
1 AGACATGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
*
101533980 AGACGTGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
1 AGACATGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
* *
101534025 AGACCTGGTCTTACACGAAAACACATATCTCGAT
1 AGACATGGTCTTACACGAAAACACATATATCGAT
101534059 CCTATGGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (45 bp):
AGACATGGTCTTACACGAAAACACATATATCGATGCCAACCTCCT
Found at i:101535513 original size:50 final size:50
Alignment explanation
Indices: 101535454--101535553 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
101535444 ACTTGTGCGA
*
101535454 ATATTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATCTTCTCCTC
1 ATATTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATATTCTCCTC
101535504 ATATTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATATTCTCCTC
1 ATATTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATATTCTCCTC
101535554 CCTGTTGGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (50 bp):
ATATTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATATTCTCCTC
Found at i:101538020 original size:39 final size:39
Alignment explanation
Indices: 101537906--101538168 Score: 343
Period size: 39 Copynumber: 6.6 Consensus size: 39
101537896 GCTACTCATT
* * *
101537906 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* *
101537946 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
*
101537986 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
101538025 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
101538064 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
101538103 CAAATGCCTTCGGATCTTAGTCTGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
101538144 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
101538169 TATCATTCGA
Statistics
Matches: 203, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
39 115 0.57
40 78 0.38
41 10 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:101540017 original size:27 final size:27
Alignment explanation
Indices: 101539987--101540064 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
101539977 TACCCTCGGG
*
101539987 TTGTAAAATTACCAAAATACCCTTAAC
1 TTGTAAAATTACCGAAATACCCTTAAC
* * * *
101540014 TTGTGAAATTACTGAAATACCCCTAAT
1 TTGTAAAATTACCGAAATACCCTTAAC
* *
101540041 TTGTAAAATAACCGTAATACCCTT
1 TTGTAAAATTACCGAAATACCCTT
101540065 GTAGGGTAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTTAAC
Found at i:101540073 original size:27 final size:27
Alignment explanation
Indices: 101540043--101540103 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
101540033 CCCCTAATTT
*
101540043 GTAAAATAACCGTAATACCCTTGTAGG
1 GTAAAATAACCGTAATACCCCTGTAGG
* *
101540070 GTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATAACCGTAATACCCCTGTAGG
101540097 GTAAAAT
1 GTAAAAT
101540104 TACGATTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
GTAAAATAACCGTAATACCCCTGTAGG
Found at i:101540286 original size:27 final size:26
Alignment explanation
Indices: 101540246--101540320 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
101540236 AGGAAGTATT
* *
101540246 ATACTAGTGACTATGCCACATTCACTG
1 ATACTGGTGGCTATGCCACATT-ACTG
* * *
101540273 TTATTGTTGGCTATGCCACAATTACTG
1 ATACTGGTGGCTATGCCAC-ATTACTG
101540300 ATACTGGTGGCT-TGCCACATT
1 ATACTGGTGGCTATGCCACATT
101540321 TACTATTTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 3 0.08
26 6 0.15
27 27 0.69
28 3 0.08
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (26 bp):
ATACTGGTGGCTATGCCACATTACTG
Found at i:101540536 original size:28 final size:29
Alignment explanation
Indices: 101540488--101540570 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 29
101540478 ACTGTATTGA
* *
101540488 TACTGTATTGGGCTTAGGCCCACA-CTGT
1 TACTGTATAGGGCTAAGGCCCACATCTGT
* *
101540516 TACTGTATAGGGCTAAAGCCCAGATTGTTCTGT
1 TACTGTATAGGGCTAAGGCCCACA----TCTGT
101540549 TACTGTATAGGGCTAAGGCCCA
1 TACTGTATAGGGCTAAGGCCCA
101540571 GACTATACTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 20 0.44
33 25 0.56
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (29 bp):
TACTGTATAGGGCTAAGGCCCACATCTGT
Found at i:101540554 original size:33 final size:33
Alignment explanation
Indices: 101540511--101540595 Score: 116
Period size: 33 Copynumber: 2.6 Consensus size: 33
101540501 TTAGGCCCAC
* *
101540511 ACTGTTACTGTATAGGGCTAAAGCCCAGATTGT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTAT
* *
101540544 TCTGTTACTGTATAGGGCTAAGGCCCAGACTAT
1 ACTGTTACTGTATAGGGCTAAAGCCCAGACTAT
* *
101540577 ACTGATACTGGATAGGGCT
1 ACTGTTACTGTATAGGGCT
101540596 CAGGTCTAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCTAAAGCCCAGACTAT
Found at i:101543408 original size:50 final size:50
Alignment explanation
Indices: 101543336--101543432 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
101543326 GTGCGAATAT
101543336 TTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATCTTCTCCTCATA
1 TTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATCTTCTCCTCATA
101543386 TTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATCTTCTCCTC
1 TTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATCTTCTCCTC
101543433 CCTGTTGGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.46
Consensus pattern (50 bp):
TTTTGTGATCAAGTGGTGAGTATTGATTCTTTGTAAATCTTCTCCTCATA
Found at i:101545127 original size:17 final size:19
Alignment explanation
Indices: 101545101--101545137 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
101545091 AACCGATCCG
101545101 ATACGCTCT-AT-AATCTC
1 ATACGCTCTAATAAATCTC
*
101545118 ATACGGTCTAATAAATCTC
1 ATACGCTCTAATAAATCTC
101545137 A
1 A
101545138 GACTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
ATACGCTCTAATAAATCTC
Found at i:101552511 original size:37 final size:38
Alignment explanation
Indices: 101552373--101552545 Score: 179
Period size: 38 Copynumber: 4.5 Consensus size: 38
101552363 GGCTTAAAGA
*
101552373 CCCGCAGGCTATA-TGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TAGTGCTGGTATTATATCCGGGTTAAAT
* * **
101552411 CCCGCAGGCTTTGTGCTGGTAATATATCCGTATTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
* *
101552449 CCCGCAGGCTTCGTGCTAGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
* * ** *
101552487 CCTGCA-GCCTAGTGCTGGTATTATATCTAAGCTTAAAGT
1 CCCGCAGGCTTAGTGCTGGTATTATATC-CGGGTTAAA-T
* *
101552526 CCCGCAGGTTTTGTGCTGGT
1 CCCGCAGGCTTAGTGCTGGT
101552546 GACTGGATTC
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
37 19 0.17
38 75 0.68
39 6 0.05
40 10 0.09
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAAT
Found at i:101567974 original size:90 final size:90
Alignment explanation
Indices: 101567219--101567958 Score: 1171
Period size: 90 Copynumber: 8.2 Consensus size: 90
101567209 ATCGAGGAAG
* * *
101567219 CAGATTTGGCATTTCTGTATTAGACGGGGAGCAGATTGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
101567284 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
101567309 CAGATTT-GCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
101567373 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
101567398 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGACCGAAGATAGTAGATCTGACATTCGTATGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
101567463 TTACATTGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * * **
101567488 TAGATTTGGCGTCTCTGTATTAGATGTGGAGCAGATCGAAGATAGTAGATCTGGTATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
101567553 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
101567578 TAGATTTGGCGTCTCTGTATTATACGGGGAGCAGATCGAAGATAGTAGATCTGACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
101567643 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
101567668 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
101567733 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
101567758 CAGATTTGGCGTCTCTGTATTAGACGGAGAGCAGATCGAAGATAGTAGATCTGATATTCATGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
101567823 TTACATCGAAGCAGATC-ACAGATGA
66 TTACATCGAAGCAGATCGA-AGATGA
* * * ** *
101567848 TAGATTTGGCGTCTCTGTTTTAGACGGGGAGCAGATCGAAGATAGCAGATCAAACATTTGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
101567913 TTACATTGAAGCAGATCGAAGAT-A
66 TTACATCGAAGCAGATCGAAGATGA
*
101567937 GCAGATTTGGCGTCTCTATATT
1 -CAGATTTGGCGTCTCTGTATT
101567959 TGATAAGGAG
Statistics
Matches: 601, Mismatches: 45, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
89 87 0.14
90 513 0.85
91 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:101569109 original size:12 final size:12
Alignment explanation
Indices: 101569092--101569203 Score: 96
Period size: 12 Copynumber: 9.5 Consensus size: 12
101569082 TATGTAAAAA
101569092 ATTATTATATAT
1 ATTATTATATAT
101569104 ATTATTTTATTTATAT
1 ATTA--TTA--TATAT
101569120 ATTATT-TATAT
1 ATTATTATATAT
101569131 ATTATTATATAT
1 ATTATTATATAT
101569143 -TTATT-TATAT
1 ATTATTATATAT
101569153 ATT-TTAT-TAT
1 ATTATTATATAT
101569163 A-TA-TATATCAT
1 ATTATTATAT-AT
* *
101569174 TTTACTATATAT
1 ATTATTATATAT
101569186 ATTATTCAT-TAT
1 ATTATT-ATATAT
101569198 ATTATT
1 ATTATT
101569204 TTTATTCTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
9 4 0.05
10 12 0.14
11 21 0.25
12 26 0.31
13 7 0.08
14 5 0.06
16 9 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:101569118 original size:14 final size:14
Alignment explanation
Indices: 101569096--101569243 Score: 68
Period size: 14 Copynumber: 11.1 Consensus size: 14
101569086 TAAAAAATTA
*
101569096 TTATATATATTATT
1 TTATTTATATTATT
101569110 TTATTTATA-TA--
1 TTATTTATATTATT
101569121 TTATTTATA-TATT
1 TTATTTATATTATT
*
101569134 ATTATATAT-TTA-T
1 -TTATTTATATTATT
* *
101569147 TTATATATTTTATT
1 TTATTTATATTATT
* * *
101569161 ATATATATATCATT
1 TTATTTATATTATT
101569175 TTACTATATATATTA-T
1 TTA-T-T-TATATTATT
*
101569191 TCA-TTATATTA--
1 TTATTTATATTATT
101569202 TT-TTTAT-TCTATT
1 TTATTTATAT-TATT
*
101569215 ATATTTATATTATT
1 TTATTTATATTATT
* *
101569229 TTGTTTTTATTATT
1 TTATTTATATTATT
101569243 T
1 T
101569244 ATTATGTATA
Statistics
Matches: 105, Mismatches: 14, Indels: 30
0.70 0.09 0.20
Matches are distributed among these distances:
10 1 0.01
11 18 0.17
12 15 0.14
13 8 0.08
14 52 0.50
15 2 0.02
16 3 0.03
17 6 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATT
Found at i:101569120 original size:16 final size:16
Alignment explanation
Indices: 101569093--101569243 Score: 98
Period size: 16 Copynumber: 9.1 Consensus size: 16
101569083 ATGTAAAAAA
101569093 TTATTATATATATTATT
1 TTATT-TATATATTATT
101569110 TTATTTATATATTATT
1 TTATTTATATATTATT
101569126 TATATATTAT-TA-TATAT
1 T-TAT-TTATATATTAT-T
101569143 TTATTTATATATT-TT
1 TTATTTATATATTATT
* *
101569158 ATTATATATATATCATT
1 -TTATTTATATATTATT
*
101569175 TTACTATATATATTATT
1 TTA-TTTATATATTATT
*
101569192 CATTATATTAT-TTTTATT
1 --TTAT-TTATATATTATT
*
101569210 CTATTATATTTATATTATT
1 TTATT-TA--TATATTATT
*
101569229 TTGTTT-T-TATTATT
1 TTATTTATATATTATT
101569243 T
1 T
101569244 ATTATGTATA
Statistics
Matches: 110, Mismatches: 9, Indels: 33
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.07
15 7 0.06
16 40 0.36
17 27 0.25
18 13 0.12
19 15 0.14
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (16 bp):
TTATTTATATATTATT
Found at i:101569169 original size:49 final size:55
Alignment explanation
Indices: 101569092--101569229 Score: 150
Period size: 49 Copynumber: 2.6 Consensus size: 55
101569082 TATGTAAAAA
*
101569092 ATTATTATATATATTATT-TTATTTATATATTATTTA-TATAT-TATTA-T-A-TAT
1 ATTATT-TATATATT-TTATTATATATATATTATTTACTATATATATTATTCATTAT
*
101569143 -TTATTTATATATTTTATTATATATATATCATTTTACTATATATATTATTCATTAT
1 ATTATTTATATATTTTATTATATATATATTA-TTTACTATATATATTATTCATTAT
* *
101569198 ATTATTT-T-TATTCTATTATATTTATATTATTT
1 ATTATTTATATATTTTATTATATATATATTATTT
101569230 TGTTTTTATT
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
48 2 0.03
49 20 0.27
50 9 0.12
51 5 0.07
52 5 0.07
53 4 0.05
54 19 0.26
55 4 0.05
56 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (55 bp):
ATTATTTATATATTTTATTATATATATATTATTTACTATATATATTATTCATTAT
Found at i:101569214 original size:5 final size:5
Alignment explanation
Indices: 101569094--101569227 Score: 73
Period size: 5 Copynumber: 26.2 Consensus size: 5
101569084 TGTAAAAAAT
* *
101569094 TATTA TA-TA TATTA TTTTA TTTATA TATTA T-TTA TA-TA TTATTA TA-TA
1 TATTA TATTA TATTA TATTA TAT-TA TATTA TATTA TATTA -TATTA TATTA
* * * *
101569142 T-TTA TTTATA TATTT TATTA TATATA TATCA TTTTA CTATATA TATTA
1 TATTA TAT-TA TATTA TATTA TAT-TA TATTA TATTA -TAT-TA TATTA
* *
101569190 TTCATTA TATTA T-TTT TATTC TATTA TATTTA TATTA T
1 -T-ATTA TATTA TATTA TATTA TATTA TA-TTA TATTA T
101569228 TTTGTTTTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
4 19 0.19
5 50 0.49
6 27 0.26
7 6 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (5 bp):
TATTA
Found at i:101569241 original size:25 final size:25
Alignment explanation
Indices: 101569106--101569230 Score: 78
Period size: 27 Copynumber: 4.8 Consensus size: 25
101569096 TTATATATAT
* *
101569106 TATTTTATTTATA-TATTATTTA-TA
1 TATTATATTTATATTATT-TTTATTC
* *
101569130 TATTAT-TATATATTTATTTATATATTT
1 TATTATATTTATA-TTATTT-T-TATTC
* * *
101569157 TATTATATATATATCATTTTACTATATA
1 TATTATATTTATATTATTTT--TAT-TC
101569185 TATTAT-TCATTATATTATTTTTATTC
1 TATTATAT--TTATATTATTTTTATTC
101569211 TATTATATTTATATTATTTT
1 TATTATATTTATATTATTTT
101569231 GTTTTTATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
23 5 0.06
24 6 0.07
25 17 0.21
26 10 0.12
27 20 0.25
28 13 0.16
29 10 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TATTATATTTATATTATTTTTATTC
Found at i:101570272 original size:11 final size:11
Alignment explanation
Indices: 101570256--101570283 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
101570246 GAAAACTATT
101570256 CAATTTGGTAC
1 CAATTTGGTAC
101570267 CAATTTGGTAC
1 CAATTTGGTAC
101570278 CAATTT
1 CAATTT
101570284 TGGGCATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (11 bp):
CAATTTGGTAC
Found at i:101571470 original size:56 final size:56
Alignment explanation
Indices: 101571409--101571589 Score: 290
Period size: 56 Copynumber: 3.2 Consensus size: 56
101571399 GCCCAGACAG
* *
101571409 GGTCTTACTCACACACATAAATCAGAATCACATATCAATGTCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
* *
101571465 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
* * *
101571521 GGTCTTACTCGCACACATATATCAAAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
*
101571577 GGTCTTACACACA
1 GGTCTTACTCACA
101571590 TATATCGATG
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAGAATCACATATCAATGCCAATGTATTAAACGT
Found at i:101575693 original size:16 final size:16
Alignment explanation
Indices: 101575672--101575705 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
101575662 TAAACCTATG
*
101575672 AAATAATAATAATAAT
1 AAATAATAATAACAAT
101575688 AAATAATAATAACAAT
1 AAATAATAATAACAAT
101575704 AA
1 AA
101575706 CATCCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATAACAAT
Found at i:101580990 original size:27 final size:26
Alignment explanation
Indices: 101580934--101580990 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
101580924 CAACCTTAAC
* * *
101580934 CCTAGGGGTATATTAGTAATTTTGCT
1 CCTAGGGGTAAATTAGTAATTTTCCA
101580960 CCTAGGGGTAAATCT-GTAAATTTTCCA
1 CCTAGGGGTAAAT-TAGT-AATTTTCCA
101580987 CCTA
1 CCTA
101580991 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATTAGTAATTTTCCA
Found at i:101582929 original size:13 final size:13
Alignment explanation
Indices: 101582911--101582935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101582901 TAAACCTACG
101582911 AAATAATAATAAT
1 AAATAATAATAAT
101582924 AAATAATAATAA
1 AAATAATAATAA
101582936 CAATAACATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:101585234 original size:27 final size:26
Alignment explanation
Indices: 101585178--101585234 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
101585168 CAACCTTAAC
* * * *
101585178 CCTAGGGGTATATCATTAATTTTGCT
1 CCTAGGGGTAAATCATAAATTTTCCA
101585204 CCTAGGGGTAAATCTATAAATTTTCCA
1 CCTAGGGGTAAATC-ATAAATTTTCCA
101585231 CCTA
1 CCTA
101585235 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCATAAATTTTCCA
Found at i:101588680 original size:28 final size:29
Alignment explanation
Indices: 101588640--101588726 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 29
101588630 CATGATTGTA
*
101588640 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGGTTTGGGCCTAATAGGCCATATG
* * *
101588668 AATGTGGTTTGGGCCTAATGGGCCACATA
1 AATGTGGTTTGGGCCTAATAGGCCATATG
*
101588697 AATGT-GATTGGGCCTAATAGGCCATATG
1 AATGTGGTTTGGGCCTAATAGGCCATATG
101588725 AA
1 AA
101588727 AGAGATTGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 39 0.76
29 12 0.24
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
AATGTGGTTTGGGCCTAATAGGCCATATG
Found at i:101588733 original size:28 final size:28
Alignment explanation
Indices: 101588648--101588751 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
101588638 TAAATGTGAT
* * *
101588648 TTGGGCCTAAT-GGCCATATGAATGTGGT
1 TTGGGCCTAATGGGCCATATGAAAG-AGA
* *
101588676 TTGGGCCTAATGGGCCACAT-AAATGTGA
1 TTGGGCCTAATGGGCCATATGAAA-GAGA
*
101588704 TTGGGCCTAATAGGCCATATGAAAGAGA
1 TTGGGCCTAATGGGCCATATGAAAGAGA
*
101588732 TTGGGCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
101588752 ACAGGTATGT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 53 0.83
29 11 0.17
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAAAGAGA
Found at i:101588737 original size:56 final size:57
Alignment explanation
Indices: 101588638--101588748 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 57
101588628 AGCATGATTG
* * *
101588638 TAAATGTGATTTGGGCCTAATGGCCATATGAATGTGGTTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGTAGATTGGGCCTAATGGGCCACA
*
101588695 TAAATGTGA-TTGGGCCTAATAGGCCATATGAAAG-AGATTGGGCCTAGTGGGCCA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGTAGATTGGGCCTAATGGGCCA
101588749 TATACAGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
56 28 0.57
57 21 0.43
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGTAGATTGGGCCTAATGGGCCACA
Found at i:101594657 original size:55 final size:56
Alignment explanation
Indices: 101594535--101594659 Score: 126
Period size: 56 Copynumber: 2.2 Consensus size: 56
101594525 CGAGCCTGCC
* * * * * *
101594535 AAAACAACATGGGTGTGCGACACGCCCGTGTGGAAGACCCCGTGGTTGAAACTGAG
1 AAAATAACACGGGCGTGCGACACGCCCGTGTCGAACACCCCGTGGTCGAAACTGAG
* * * * * **
101594591 AAACTAGCACGGGCGTGTGACACGCCCGTGTCTAACA-CCCGTGGTCGAACCTGTT
1 AAAATAACACGGGCGTGCGACACGCCCGTGTCGAACACCCCGTGGTCGAAACTGAG
101594646 AAAATAACACGGGC
1 AAAATAACACGGGC
101594660 ATGGGAGAAG
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
55 26 0.48
56 28 0.52
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (56 bp):
AAAATAACACGGGCGTGCGACACGCCCGTGTCGAACACCCCGTGGTCGAAACTGAG
Found at i:101595156 original size:23 final size:23
Alignment explanation
Indices: 101595130--101595176 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
101595120 TAGGAAAACT
101595130 TCATACCCATGAT-TTTACCATGC
1 TCATACCCATGATATTT-CCATGC
* *
101595153 TCATTCTCATGATATTTCCATGC
1 TCATACCCATGATATTTCCATGC
101595176 T
1 T
101595177 AATGCCTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (23 bp):
TCATACCCATGATATTTCCATGC
Found at i:101598975 original size:16 final size:17
Alignment explanation
Indices: 101598949--101598982 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
101598939 CTAAAACCCC
*
101598949 TAAATACCTAAGAGGAA
1 TAAATACCTAAGACGAA
101598966 TAAA-ACCTAAGACGAA
1 TAAATACCTAAGACGAA
101598982 T
1 T
101598983 CTTGTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.53, C:0.15, G:0.15, T:0.18
Consensus pattern (17 bp):
TAAATACCTAAGACGAA
Found at i:101599804 original size:28 final size:29
Alignment explanation
Indices: 101599767--101599831 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
101599757 AAGTCTACAT
*
101599767 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* *
101599795 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
101599824 ACATTCAT
1 ACATTCAT
101599832 GTACATGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 21 0.66
29 11 0.34
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:101604733 original size:40 final size:40
Alignment explanation
Indices: 101604680--101604828 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
101604670 ATTACTTGCT
*
101604680 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
101604720 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
101604760 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
101604800 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
101604829 CATCCGAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:101604780 original size:80 final size:80
Alignment explanation
Indices: 101604648--101604824 Score: 250
Period size: 80 Copynumber: 2.2 Consensus size: 80
101604638 ACCCAAGCAT
* * * * * *
101604648 CTTCGGGATTTAG-CCGAATATAATTACTTGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATAG
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
* *
101604711 TGACTCGCACAAATGC
65 TCACTAGCACAAATGC
*
101604727 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
101604792 CACTAGCACAAATGC
66 CACTAGCACAAATGC
101604807 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
101604825 TTATCATCCG
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 12 0.14
80 74 0.85
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
CACTAGCACAAATGC
Found at i:101606445 original size:29 final size:27
Alignment explanation
Indices: 101606411--101606513 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
101606401 TACTCAATCA
*
101606411 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
101606440 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
101606469 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
101606498 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
101606514 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:101628687 original size:29 final size:27
Alignment explanation
Indices: 101628653--101628755 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
101628643 TACTCAATCA
*
101628653 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
101628682 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
101628711 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
101628740 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
101628756 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:101647333 original size:42 final size:43
Alignment explanation
Indices: 101647254--101647366 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
101647244 CATCGACTTA
* * *
101647254 TGATTTACGTGTAAGACCATGTCTGGGACATCGGCATC-GTATT
1 TGATTT-CATGTAAGACCATGTCTGGGACATCAGCATCAATATT
* * *
101647297 TGATTTCTTGTAAGACCTTGTTTGGGACAGT-AGCATCAATATT
1 TGATTTCATGTAAGACCATGTCTGGGACA-TCAGCATCAATATT
* *
101647340 TG-TTACATGTAAGACCACGTCTGGGAC
1 TGATTTCATGTAAGACCATGTCTGGGAC
101647367 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 45 0.78
43 13 0.22
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGTCTGGGACATCAGCATCAATATT
Found at i:101650477 original size:33 final size:33
Alignment explanation
Indices: 101650440--101650510 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
101650430 CTCAGCCCTC
**
101650440 ATCAG-AATCAATTGGGCATAGCCCATTCTCAAA
1 ATCAGTAA-CAATTGGGCATAGCCCATTAACAAA
* *
101650473 ATCAGTAACAGTTGGGCCTAGCCCATTAACAAA
1 ATCAGTAACAATTGGGCATAGCCCATTAACAAA
101650506 ATCAG
1 ATCAG
101650511 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.23
Consensus pattern (33 bp):
ATCAGTAACAATTGGGCATAGCCCATTAACAAA
Found at i:101650535 original size:27 final size:27
Alignment explanation
Indices: 101650485--101650537 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
101650475 CAGTAACAGT
*
101650485 TGGGCCTAGCCCATTAACAAAATCAGG
1 TGGGCCTAGCCCAATAACAAAATCAGG
*
101650512 TGGGCCTAAGCCCAAT-ACAGAATCAG
1 TGGGCCT-AGCCCAATAACAAAATCAG
101650538 TATCAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAAAATCAGG
Found at i:101655645 original size:39 final size:39
Alignment explanation
Indices: 101655602--101655714 Score: 172
Period size: 39 Copynumber: 2.9 Consensus size: 39
101655592 GTGCGAATTG
101655602 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
101655641 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* **
101655680 TGATATCCGGGTTAAGTCCCGAAGGCGTTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
101655715 GGTTACCATA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 52 0.76
40 16 0.24
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:101655733 original size:79 final size:79
Alignment explanation
Indices: 101655591--101655744 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
101655581 TGTGAATGAA
** * *
101655591 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCAGGCTAA
101655656 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * ** * *
101655669 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTTTGTGCGGGTTACCATAACCAGGCTA
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCATAACCAGGCTA
*
101655734 TGTCCCGAAGG
65 AGTCCCGAAGG
101655745 TGTTTTGAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
78 25 0.40
79 30 0.48
80 8 0.13
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACCAGGCTAA
GTCCCGAAGGCAAT
Found at i:101658007 original size:28 final size:28
Alignment explanation
Indices: 101657955--101658031 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
101657945 TCTCAAAATT
* *
101657955 TCACACACTCAGTGCCTTCAC-GGATGTA
1 TCACACACTAAGTGCCATC-CTGGATGTA
*
101657983 TCACACACTAAGTGCCATCCTGGATGTC
1 TCACACACTAAGTGCCATCCTGGATGTA
**
101658011 TCGTACACTAAGTGCCATCCT
1 TCACACACTAAGTGCCATCCT
101658032 CGATAATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (28 bp):
TCACACACTAAGTGCCATCCTGGATGTA
Found at i:101658047 original size:28 final size:28
Alignment explanation
Indices: 101657987--101658056 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
101657977 GATGTATCAC
* * *
101657987 ACACTAAGTGCCATCCTGGATGTCTCGT
1 ACACTAAGTGCCATCCTCGATATCTCAT
101658015 ACACTAAGTGCCATCCTCGATAAT-TCAT
1 ACACTAAGTGCCATCCTCGAT-ATCTCAT
* *
101658043 CCACTAAGAGCCAT
1 ACACTAAGTGCCAT
101658057 TTTTGGATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
ACACTAAGTGCCATCCTCGATATCTCAT
Found at i:101658090 original size:53 final size:53
Alignment explanation
Indices: 101658025--101658130 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
101658015 ACACTAAGTG
*
101658025 CCATCCTCGATAATTCATCCACTAAGAGCCATTTTTGGATGTTTCGCACACTA
1 CCATCCTCGATAATTCATCCACTAAGAGCCATTTCTGGATGTTTCGCACACTA
101658078 CCATCCTCGATAATTCATCCACTAAGAGCCATTTCTGGATGTTTCGCACACTA
1 CCATCCTCGATAATTCATCCACTAAGAGCCATTTCTGGATGTTTCGCACACTA
101658131 AGTGCCATCC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.31
Consensus pattern (53 bp):
CCATCCTCGATAATTCATCCACTAAGAGCCATTTCTGGATGTTTCGCACACTA
Found at i:101658130 original size:29 final size:29
Alignment explanation
Indices: 101658044--101658138 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 29
101658034 ATAATTCATC
*
101658044 CACTAAGAGCCATTTTTGGATGTTTCGCA
1 CACTAAGAGCCATTTCTGGATGTTTCGCA
* * ** *
101658073 CACT---A-CCA-TCCTCGATAATTCATC-
1 CACTAAGAGCCATTTCTGGATGTTTC-GCA
101658097 CACTAAGAGCCATTTCTGGATGTTTCGCA
1 CACTAAGAGCCATTTCTGGATGTTTCGCA
*
101658126 CACTAAGTGCCAT
1 CACTAAGAGCCAT
101658139 CCTCAGTAAC
Statistics
Matches: 47, Mismatches: 12, Indels: 14
0.64 0.16 0.19
Matches are distributed among these distances:
24 12 0.26
25 4 0.09
26 1 0.02
27 1 0.02
28 4 0.09
29 25 0.53
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CACTAAGAGCCATTTCTGGATGTTTCGCA
Found at i:101661337 original size:47 final size:47
Alignment explanation
Indices: 101661277--101661439 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
101661267 GAATGTCCAA
* *
101661277 CTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCATCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
*** * * *
101661324 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCGAG
101661370 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
*
101661417 CTCGTTGAATTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
101661440 ACTTATGGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.33
47 53 0.56
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAG
Found at i:101661386 original size:46 final size:45
Alignment explanation
Indices: 101661226--101661493 Score: 249
Period size: 46 Copynumber: 5.8 Consensus size: 45
101661216 TATTTGGGCA
101661226 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
101661272 TCC-AACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
101661318 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
101661364 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
101661411 TCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
101661457 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101661494 GGGCGTTACA
Statistics
Matches: 177, Mismatches: 30, Indels: 30
0.75 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 26 0.15
46 79 0.45
47 55 0.31
48 4 0.02
49 4 0.02
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:101661411 original size:93 final size:93
Alignment explanation
Indices: 101661222--101661485 Score: 458
Period size: 93 Copynumber: 2.8 Consensus size: 93
101661212 AGGATATTTG
*
101661222 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-AACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
101661286 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
101661314 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
101661379 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
101661407 GGCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
101661472 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
101661486 ACTTATGGGG
Statistics
Matches: 163, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
92 51 0.31
93 112 0.69
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:101666880 original size:46 final size:45
Alignment explanation
Indices: 101666827--101667090 Score: 232
Period size: 46 Copynumber: 5.7 Consensus size: 45
101666817 TGGGCATCCC
*
101666827 AACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* *** * *
101666873 AACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *
101666920 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
101666966 AACTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* * *
101667012 AGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
101667058 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101667091 GCGGGTTACA
Statistics
Matches: 172, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 8 0.05
46 109 0.63
47 38 0.22
48 4 0.02
49 4 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:101667035 original size:92 final size:93
Alignment explanation
Indices: 101666819--101667082 Score: 440
Period size: 92 Copynumber: 2.8 Consensus size: 93
101666809 AGGATATTTG
* * *
101666819 GGCATCCCAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
101666884 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
101666912 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
101666977 TTGAGT-CGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
101667004 GGCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
101667069 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
101667083 ACTTATGGGC
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
92 86 0.54
93 74 0.46
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:101674478 original size:86 final size:85
Alignment explanation
Indices: 101674350--101674511 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 85
101674340 ATAGGATTCG
* *
101674350 GTATTTGTTTTTGTGTAAGACCACGTCTAGGACACTGGCATCGACT-TATGATTTACGTGTAAGA
1 GTATTTGTTTCTGTGTAAGACCACGTCTAGGACACTGGCATCGA-TATATGA-TTACATGTAAGA
101674414 CCATGTCTGGGACATCGGCATC
64 CCATGTCTGGGACATCGGCATC
* * *
101674436 GTATTTGATTTCT-TGTAAGACC-CTGTCTAGGACAGTGTCATCGATATTTGATTACATGTAAGA
1 GTATTTG-TTTCTGTGTAAGACCAC-GTCTAGGACACTGGCATCGATATATGATTACATGTAAGA
101674499 CCATGTCTGGGAC
64 CCATGTCTGGGAC
101674512 GTTGGCATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
85 26 0.38
86 38 0.56
87 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (85 bp):
GTATTTGTTTCTGTGTAAGACCACGTCTAGGACACTGGCATCGATATATGATTACATGTAAGACC
ATGTCTGGGACATCGGCATC
Found at i:101674484 original size:43 final size:42
Alignment explanation
Indices: 101674363--101674511 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
101674353 TTTGTTTTTG
* * *
101674363 TGTAAGACCACGTCTAGGACACTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTAGGACA-TGGCATCGA-TATTTGATTT-CA
* *
101674407 TGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTCT
1 TGTAAGACCATGTCTAGGACAT-GGCATCGATATTTGATTTCA
* * *
101674449 TGTAAGACCCTGTCTAGGACAGTGTCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACA-TGGCATCGATATTTGATTTCA
*
101674492 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTAGGAC
101674512 GTTGGCATTG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.30
43 37 0.41
44 26 0.29
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATGGCATCGATATTTGATTTCA
Found at i:101692331 original size:14 final size:15
Alignment explanation
Indices: 101692312--101692341 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
101692302 GTTTATTATA
101692312 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
101692326 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
101692341 T
1 T
101692342 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:101694315 original size:43 final size:42
Alignment explanation
Indices: 101694259--101694387 Score: 154
Period size: 43 Copynumber: 3.1 Consensus size: 42
101694249 GCACGTGAAT
* *
101694259 AATATTATCGAGCTTCAGGCCTAGCAGGATATAATGTCGGTG
1 AATAATATCGAGCTTCAGGCCTAGCAGGATATAATGCCGGTG
*
101694301 AGATAATATCGAGCTTC-GAGCCTAGCAGGCTATAATGCCGGTG
1 A-ATAATATCGAGCTTCAG-GCCTAGCAGGATATAATGCCGGTG
* * * **
101694344 AATGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTG
1 AATAATATCGAGCTTCAGGCCTAGCAGGATATAATGCCGGTG
101694385 AAT
1 AAT
101694388 GAGTTCAGAC
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
41 13 0.17
42 27 0.35
43 37 0.48
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (42 bp):
AATAATATCGAGCTTCAGGCCTAGCAGGATATAATGCCGGTG
Found at i:101694467 original size:40 final size:41
Alignment explanation
Indices: 101694277--101694466 Score: 170
Period size: 41 Copynumber: 4.6 Consensus size: 41
101694267 CGAGCTTCAG
* * * **
101694277 GCCTAGCAGGATATAATGTCGGTGAGAT-AATATCGAGCTTCGA
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGCTTAAA
*
101694320 GCCTAGCAGGCTATAATGCCGGTGAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTGAATGAAT-TCGGGCTTAAA
* * * *
101694362 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
101694403 GTCTAGCAGGCTTTGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
101694443 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
101694467 TTTGATAAAA
Statistics
Matches: 121, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 31 0.26
41 40 0.33
42 27 0.22
43 23 0.19
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:101699792 original size:84 final size:84
Alignment explanation
Indices: 101699651--101699841 Score: 319
Period size: 84 Copynumber: 2.3 Consensus size: 84
101699641 CTACCCATAC
* * *
101699651 GGGCGTGTGCTCTGGCCGTGTGAAGTTTGCACCATTTTATGAAAAATTCATTTATTTTTAATGTA
1 GGGCGTGTGATATGGCCGTGTGAAGTCTGCACCATTTTATGAAAAATTCATTTATTTTTAATGTA
* *
101699716 CCACATGGTCTGGATACAT
66 CCACATGGTCCGGACACAT
*
101699735 GGGCGTGTGATATGGTCGTGTGAAGTCTGCACCATTTTATGAAAAATTCATTTATTTTTAATGTA
1 GGGCGTGTGATATGGCCGTGTGAAGTCTGCACCATTTTATGAAAAATTCATTTATTTTTAATGTA
101699800 CCACATGGTCCGGACACAT
66 CCACATGGTCCGGACACAT
*
101699819 TGGCGTGTGATATGGCCGTGTGA
1 GGGCGTGTGATATGGCCGTGTGA
101699842 CCTTATTTTG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 99 1.00
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (84 bp):
GGGCGTGTGATATGGCCGTGTGAAGTCTGCACCATTTTATGAAAAATTCATTTATTTTTAATGTA
CCACATGGTCCGGACACAT
Found at i:101710957 original size:29 final size:29
Alignment explanation
Indices: 101710922--101710986 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
101710912 CTGGCACAAC
101710922 TCTCCTTCAAATTCAAACTTGCTAAATTT
1 TCTCCTTCAAATTCAAACTTGCTAAATTT
101710951 TCTCCTTCAAATTCAAACTTGCTAAATTT
1 TCTCCTTCAAATTCAAACTTGCTAAATTT
101710980 TCTCCTT
1 TCTCCTT
101710987 AATTCCCTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.03, T:0.43
Consensus pattern (29 bp):
TCTCCTTCAAATTCAAACTTGCTAAATTT
Found at i:101716087 original size:40 final size:39
Alignment explanation
Indices: 101715960--101716089 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
101715950 ATGCTGGAAA
* *
101715960 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
101716000 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
101716040 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
101716080 TTATATCCGG
1 TTATATCCGG
101716090 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:101724155 original size:40 final size:39
Alignment explanation
Indices: 101724028--101724157 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
101724018 ATGCTGGAAA
* *
101724028 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
101724068 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
101724108 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
101724148 TTATATCCGG
1 TTATATCCGG
101724158 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:101730861 original size:152 final size:154
Alignment explanation
Indices: 101730584--101730894 Score: 470
Period size: 152 Copynumber: 2.0 Consensus size: 154
101730574 GGTCATATGC
*
101730584 ACAATAAAATATTGTATAGTTAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
* *
101730649 AAAGCTAAGTGCCAGATAAAGTTCCATTTAGGGGGAATTAACAGATTGCAATTAGAACCAATA-T
66 AAAGCCAAGTGCCAGATAAAGTTCCATTTAGGGGGAATAAACAGATTGCAATTAGAACCAATACT
* *
101730713 CTATGTCTATCAAAAATTTGCAAA
131 CTATGTCCATCAAAAAATTGCAAA
*
101730737 ACAATAAAATATTGTATTGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATA-TGTTGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
**
101730801 AAAGCCAAGTATC-GAATCAAA-TTCCATTTA-GGGGAATAAAACAGATTGCAATTAGAACCAAT
66 AAAGCCAAGTGCCAG-AT-AAAGTTCCATTTAGGGGGAAT-AAACAGATTGCAATTAGAACCAAT
*
101730863 ATCTCTATGTCCATCAAAAAATTGCAAT
128 A-CTCTATGTCCATCAAAAAATTGCAAA
101730891 ACAA
1 ACAA
101730895 CTTGTATCAT
Statistics
Matches: 144, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
151 8 0.06
152 56 0.39
153 54 0.38
154 26 0.18
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (154 bp):
ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
AAAGCCAAGTGCCAGATAAAGTTCCATTTAGGGGGAATAAACAGATTGCAATTAGAACCAATACT
CTATGTCCATCAAAAAATTGCAAA
Found at i:101731644 original size:31 final size:31
Alignment explanation
Indices: 101731608--101731671 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
101731598 GTTAATAGGA
101731608 AAATGCAAAAGAATTTATCGCCAAATCATAC
1 AAATGCAAAAGAATTTATCGCCAAATCATAC
101731639 AAATGCAAAAGAATTTATCGCCAAATCATAC
1 AAATGCAAAAGAATTTATCGCCAAATCATAC
101731670 AA
1 AA
101731672 CACCTTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (31 bp):
AAATGCAAAAGAATTTATCGCCAAATCATAC
Found at i:101733252 original size:5 final size:5
Alignment explanation
Indices: 101733225--101733270 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
101733215 AATTTTTGTC
*
101733225 TTTAT CTTTA- TTTA- TTCAT TTTAT TTTAT TTTAT TTTAT TATTAT T
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T
101733271 AATTTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 7 0.19
5 20 0.56
6 9 0.25
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:101733262 original size:24 final size:25
Alignment explanation
Indices: 101733225--101733277 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
101733215 AATTTTTGTC
101733225 TTTATCTTTATTTATTCATT-TT-AT
1 TTTATCTTTATTTATT-ATTATTAAT
101733249 TTTAT-TTTATTTTATTATTATTAAT
1 TTTATCTTTA-TTTATTATTATTAAT
101733274 TTTA
1 TTTA
101733278 AAAATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.27
24 13 0.50
25 6 0.23
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTATCTTTATTTATTATTATTAAT
Found at i:101733275 original size:15 final size:14
Alignment explanation
Indices: 101733231--101733277 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
101733221 TGTCTTTATC
*
101733231 TTTA-TTTATTCAT
1 TTTATTTTATTAAT
*
101733244 TTTATTTTATTTTAT
1 TTTATTTTA-TTAAT
101733259 TTTATTATTATTAAT
1 TTTATT-TTATTAAT
101733274 TTTA
1 TTTA
101733278 AAAATTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 4 0.14
14 4 0.14
15 18 0.62
16 3 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTTATTAAT
Found at i:101733339 original size:23 final size:23
Alignment explanation
Indices: 101733296--101733352 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 23
101733286 GAAATGTATA
101733296 TTTGAAATGTTTTATAATATACATATT
1 TTTGAAA--TTTTATAATAT--ATATT
101733323 TTT-AAATTTTA-AATATATATT
1 TTTGAAATTTTATAATATATATT
101733344 TTTGAAATT
1 TTTGAAATT
101733353 ATTTTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.28
22 5 0.17
23 5 0.17
24 5 0.17
26 3 0.10
27 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (23 bp):
TTTGAAATTTTATAATATATATT
Found at i:101733385 original size:33 final size:32
Alignment explanation
Indices: 101733321--101733618 Score: 179
Period size: 33 Copynumber: 9.0 Consensus size: 32
101733311 AATATACATA
101733321 TTTTTAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTTAAATTTTAAATAT-TATTTTT-AAATTAT
101733355 TTTTCTAAATTTTAAATATTATTTTTAAATTAT
1 TTTT-TAAATTTTAAATATTATTTTTAAATTAT
101733388 TTTTTAAAATTTTAAATA-TATTTTT-AA-TA-
1 TTTTT-AAATTTTAAATATTATTTTTAAATTAT
* * * *
101733417 ATATAAAATGTTT-AA-A-TA-TTTTAAAGATAT
1 TTTTTAAAT-TTTAAATATTATTTTTAAA-TTAT
* * * *
101733447 GGCGTTTCAAA-TTT-ATTATTAGTTTTATAA-TAT
1 ---TTTTTAAATTTTAAATATTATTTTTA-AATTAT
* * * * *
101733480 TTTAAATGTATATTTAAAATGTT-TTATAATATATATAT
1 TTT---T-TAAATTTTAAATATTATT-T-TTAAAT-TAT
101733518 TTTTTAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTTAAATTTTAAATAT-TATTTTT-AAATTAT
101733552 TTTTCTAAATTTTAAATATTATTTTTAAATTAT
1 TTTT-TAAATTTTAAATATTATTTTTAAATTAT
*
101733585 TTTTTAAAAATTTAAATATTATTTTCTAATATTA
1 TTTTT-AAATTTTAAATATTATTTT-TAA-ATTA
101733619 AATATATTTT
Statistics
Matches: 211, Mismatches: 22, Indels: 61
0.72 0.07 0.21
Matches are distributed among these distances:
26 4 0.02
27 5 0.02
28 6 0.03
29 7 0.03
30 4 0.02
31 6 0.03
32 10 0.05
33 63 0.30
34 47 0.22
35 43 0.20
36 8 0.04
37 2 0.01
38 6 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTTTAAATTTTAAATATTATTTTTAAATTAT
Found at i:101733412 original size:12 final size:12
Alignment explanation
Indices: 101733364--101733414 Score: 56
Period size: 11 Copynumber: 4.5 Consensus size: 12
101733354 TTTTTCTAAA
101733364 TTTTAAATATTAT
1 TTTTAAATA-TAT
101733377 TTTTAAAT-TAT
1 TTTTAAATATAT
*
101733388 TTTTTAA-A-A-
1 TTTTAAATATAT
101733397 TTTTAAATATAT
1 TTTTAAATATAT
101733409 TTTTAA
1 TTTTAA
101733415 TAATATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 10 0.31
12 6 0.19
13 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:101733495 original size:22 final size:22
Alignment explanation
Indices: 101733470--101733541 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
101733460 TATTATTAGT
*
101733470 TTTATAATATTTTAAATGTATA
1 TTTATAATATTTTAAATATATA
* *
101733492 TTTAAAATGTTTTATAATATATATA
1 TTTATAAT-ATTT-TAA-ATATATA
*
101733517 TTTTTTAA-ATTTTAAATATATA
1 -TTTATAATATTTTAAATATATA
101733539 TTT
1 TTT
101733542 TTGAAATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.08
22 14 0.35
23 6 0.15
24 6 0.15
25 6 0.15
26 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TTTATAATATTTTAAATATATA
Found at i:101733605 original size:22 final size:22
Alignment explanation
Indices: 101733580--101733646 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
101733570 TTATTTTTAA
101733580 ATTATTTTTTAAAAATTTAAAT
1 ATTATTTTTTAAAAATTTAAAT
* *
101733602 ATTATTTTCT-AATA-TTAAAT
1 ATTATTTTTTAAAAATTTAAAT
* *
101733622 A-TATTTTTTAATAATATAAAAT
1 ATTATTTTTTAAAAAT-TTAAAT
101733644 ATT
1 ATT
101733647 TAAATATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 7 0.20
20 9 0.26
21 3 0.09
22 15 0.43
23 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTTTTTAAAAATTTAAAT
Found at i:101733628 original size:19 final size:20
Alignment explanation
Indices: 101733576--101733647 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
101733566 AATATTATTT
* *
101733576 TTAAAT-TATTTTTTAAAAA
1 TTAAATATATTTTCTAATAA
101733595 TTTAAATATTATTTTCTAAT-A
1 -TTAAATA-TATTTTCTAATAA
*
101733616 TTAAATATATTTTTTAATAA
1 TTAAATATATTTTCTAATAA
101733636 TATAAA-ATATTT
1 T-TAAATATATTT
101733648 AAATATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
19 10 0.22
20 21 0.47
21 5 0.11
22 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAAATATATTTTCTAATAA
Found at i:101733790 original size:23 final size:22
Alignment explanation
Indices: 101733757--101733800 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
101733747 AAATATTTAA
* *
101733757 ATATTTTATATTATTAAAAATAT
1 ATATTTAATATT-TAAAAAATAT
101733780 ATATTTAATATTTAAAAAATA
1 ATATTTAATATTTAAAAAATA
101733801 ACATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTTAATATTTAAAAAATAT
Found at i:101733796 original size:20 final size:20
Alignment explanation
Indices: 101733748--101733904 Score: 58
Period size: 20 Copynumber: 8.3 Consensus size: 20
101733738 ATATCTTTAA
101733748 AATATTT-AAATAT-T-TTAT
1 AATATTTAAAATATATATT-T
* *
101733766 ATTATTAAAAATATATATTT
1 AATATTTAAAATATATATTT
101733786 AATATTTAAAA-A-ATA---
1 AATATTTAAAATATATATTT
* *
101733801 ACAT-TTTAAAAAATATATTC
1 A-ATATTTAAAATATATATTT
*
101733821 AAAATTTAAAA-A-A-A--T
1 AATATTTAAAATATATATTT
*
101733836 -A-ATTTCAAATATATATTT
1 AATATTTAAAATATATATTT
* *
101733854 AAAATTTTAAATATATATTAT
1 AATATTTAAAATATATATT-T
*
101733875 AAAATATTTCAAATATATATGTT
1 --AATATTTAAAATATATAT-TT
*
101733898 AAAATTT
1 AATATTT
101733905 TTAAAATTAA
Statistics
Matches: 107, Mismatches: 11, Indels: 39
0.68 0.07 0.25
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
15 9 0.08
16 4 0.04
17 4 0.04
18 10 0.09
19 10 0.09
20 34 0.32
21 9 0.08
23 17 0.16
24 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (20 bp):
AATATTTAAAATATATATTT
Found at i:101733832 original size:21 final size:21
Alignment explanation
Indices: 101733803--101733844 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
101733793 AAAAAATAAC
*
101733803 ATTTTAAAAAAT-ATATTCAAA
1 ATTTAAAAAAATAAT-TTCAAA
101733824 ATTTAAAAAAATAATTTCAAA
1 ATTTAAAAAAATAATTTCAAA
101733845 TATATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTTAAAAAAATAATTTCAAA
Found at i:101733858 original size:33 final size:35
Alignment explanation
Indices: 101733773--101733860 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
101733763 TATATTATTA
*
101733773 AAAATATATATTTAATATTTAAAAAATAACATTTT
1 AAAATATATATTTAAAATTTAAAAAATAACATTTT
* *
101733808 AAAAAATATATTCAAAATTTAAAAAA-ATA-A-TTT
1 AAAATATATATTTAAAATTTAAAAAATA-ACATTTT
*
101733841 CAAATATATATTTAAAATTT
1 AAAATATATATTTAAAATTT
101733861 TAAATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 20 0.43
34 2 0.04
35 24 0.52
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (35 bp):
AAAATATATATTTAAAATTTAAAAAATAACATTTT
Found at i:101733888 original size:23 final size:22
Alignment explanation
Indices: 101733831--101733911 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 22
101733821 AAAATTTAAA
101733831 AAAATAATTTCAAATATATATTT
1 AAAAT-ATTTCAAATATATATTT
101733854 AAAAT-TTT-AAATATATATTAT
1 AAAATATTTCAAATATATATT-T
101733875 AAAATATTTCAAATATATATGTT
1 AAAATATTTCAAATATATAT-TT
* *
101733898 AAAATTTTTAAAAT
1 AAAATATTTCAAAT
101733912 TAAGAATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
20 11 0.21
21 9 0.17
22 3 0.06
23 28 0.54
24 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (22 bp):
AAAATATTTCAAATATATATTT
Found at i:101733921 original size:44 final size:44
Alignment explanation
Indices: 101733831--101733922 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
101733821 AAAATTTAAA
**
101733831 AAAATAATTTCAAATATATATTTAAAATTTTAAATATATATTAT
1 AAAATAATTTCAAATATATATTTAAAATTTTAAATATATAGAAT
101733875 AAAAT-ATTTCAAATATATATGTTAAAATTTTTAAA-AT-TAAGAAT
1 AAAATAATTTCAAATATATAT-TTAAAA-TTTTAAATATAT-AGAAT
101733919 AAAA
1 AAAA
101733923 AATAAGTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 16 0.37
44 20 0.47
45 7 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (44 bp):
AAAATAATTTCAAATATATATTTAAAATTTTAAATATATAGAAT
Found at i:101734977 original size:17 final size:19
Alignment explanation
Indices: 101734949--101734987 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
101734939 AAGAGCTCGA
*
101734949 AAGAATAGAAAATGT-CAC
1 AAGAATAGAAAAAGTACAC
101734967 AAGAA-AGAAAAAGTACAC
1 AAGAATAGAAAAAGTACAC
101734985 AAG
1 AAG
101734988 TATTTGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.62, C:0.10, G:0.18, T:0.10
Consensus pattern (19 bp):
AAGAATAGAAAAAGTACAC
Found at i:101735185 original size:17 final size:17
Alignment explanation
Indices: 101735165--101735199 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101735155 TTTATAAAAT
* *
101735165 CAAATCTTTTAATATTA
1 CAAATCTTCTAAGATTA
101735182 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
101735199 C
1 C
101735200 TTCCCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:101735948 original size:13 final size:13
Alignment explanation
Indices: 101735930--101735961 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
101735920 AAATTTAGGA
101735930 TTATTCTAATATC
1 TTATTCTAATATC
101735943 TTATTCTAATATC
1 TTATTCTAATATC
101735956 TT-TTCT
1 TTATTCT
101735962 CTTTCGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATTCTAATATC
Found at i:101736419 original size:16 final size:17
Alignment explanation
Indices: 101736385--101736422 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
101736375 GGTTTAATTT
*
101736385 TTTTATTCGTTTGTCTA
1 TTTTATTCGTTTCTCTA
*
101736402 TTTTATT-GTTTCTTTA
1 TTTTATTCGTTTCTCTA
101736418 TTTTA
1 TTTTA
101736423 ATTATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.71
Consensus pattern (17 bp):
TTTTATTCGTTTCTCTA
Found at i:101743203 original size:13 final size:14
Alignment explanation
Indices: 101743187--101743222 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
101743177 CAATCTCATA
101743187 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
101743200 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
101743213 TCTC-ATTTCA
1 TCTCAATTTCA
101743223 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:101743212 original size:18 final size:19
Alignment explanation
Indices: 101743174--101743214 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
101743164 TGGTTCATGT
101743174 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
101743193 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
101743211 TTTC
1 TTTC
101743215 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:101743438 original size:21 final size:22
Alignment explanation
Indices: 101743401--101743450 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
101743391 TGCCTAAAAT
101743401 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTGCCTGAATAC
101743422 GACACACGAGGTGCCTGTAATAC
1 GACACACGAGGTGCCTG-AATAC
101743445 GACACA
1 GACACA
101743451 TAAAGTGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 17 0.63
23 10 0.37
ACGTcount: A:0.32, C:0.28, G:0.26, T:0.14
Consensus pattern (22 bp):
GACACACGAGGTGCCTGAATAC
Found at i:101743463 original size:21 final size:21
Alignment explanation
Indices: 101743376--101743463 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
101743366 CCTGATCAGT
*
101743376 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTA
* * * * *
101743397 AAATGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTA
* *
101743418 ATACGACACACGAGGTGCCTGTA
1 ATACGACACACAAAGTGCC--TA
*
101743441 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTA
101743462 AT
1 AT
101743464 CAGTAAAGCC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 36 0.68
23 17 0.32
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTA
Found at i:101744855 original size:13 final size:13
Alignment explanation
Indices: 101744837--101744864 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
101744827 CCTCTTTTTA
101744837 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
101744850 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
101744863 TT
1 TT
101744865 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Done.