Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 295 of 345
Found at i:100090011 original size:41 final size:41
Alignment explanation
Indices: 100089949--100090035 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
100089939 AGGATACCAA
*
100089949 GTAAGACCAAGTCAAGCCATGGCATTGGTAAGTTTTACAAG
1 GTAAGACCAAGCCAAGCCATGGCATTGGTAAGTTTTACAAG
* *
100089990 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAG
1 GTAAGACCAAGCCAAGCCATGGCATTGGTAAGTTTTACAAG
100090031 GTAAG
1 GTAAG
100090036 GAAATCATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (41 bp):
GTAAGACCAAGCCAAGCCATGGCATTGGTAAGTTTTACAAG
Found at i:100090120 original size:55 final size:54
Alignment explanation
Indices: 100089990--100090122 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 54
100089980 GTTTTACAAG
* * ** * * *
100089990 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGTAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCAT
* ** * * **
100090044 GTAAGATCATATCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAAACCAT
100090099 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
100090123 ATGGTGAGTT
Statistics
Matches: 60, Mismatches: 18, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
54 24 0.40
55 36 0.60
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCAT
Found at i:100090201 original size:53 final size:53
Alignment explanation
Indices: 100090083--100090202 Score: 134
Period size: 53 Copynumber: 2.3 Consensus size: 53
100090073 AAACTACTAT
* * * * * * * *
100090083 AAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCAT
1 AAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCAATAGTAAGTTAAA
* *
100090136 AAGGCAAGGGTACCACGTAAGACCATGTCAAGACATGGCAATAGTAAGTTTAAA
1 AAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCAATAGTAAG-TTAAA
100090190 AAGG-AAAGGTACC
1 AAGGCAAAGGTACC
100090203 TGTGTATCCT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 48 0.87
54 7 0.13
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (53 bp):
AAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCAATAGTAAGTTAAA
Found at i:100090833 original size:35 final size:35
Alignment explanation
Indices: 100090787--100090859 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
100090777 TTTCTATAAG
100090787 ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
1 ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
*
100090822 ACTGGTTTAGAGTGACTTTGTGATCCCTTGTTCCA
1 ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
100090857 ACT
1 ACT
100090860 TTGGAAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (35 bp):
ACTGGTTTAGAGTGACTTCGTGATCCCTTGTTCCA
Found at i:100097970 original size:34 final size:33
Alignment explanation
Indices: 100097896--100097970 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
100097886 AATTGACAAG
* *
100097896 GTAAAAAAATTAAAAATAAAAATATTTAATTAA
1 GTAAAAAAATTAAAAATAAAAATAATTAAGTAA
* * *
100097929 CTAAAAAAATTTCAAAATAAAACTAATTAAGGTAA
1 GTAAAAAAA-TTAAAAATAAAAATAATTAA-GTAA
100097964 GTAAAAA
1 GTAAAAA
100097971 TAATAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 8 0.24
34 17 0.50
35 9 0.26
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (33 bp):
GTAAAAAAATTAAAAATAAAAATAATTAAGTAA
Found at i:100099825 original size:49 final size:49
Alignment explanation
Indices: 100099753--100099852 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
100099743 GTAGTTGGTT
* *
100099753 AAGGTTTATCGTGTATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
1 AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
100099802 AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
1 AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
100099851 AA
1 AA
100099853 TGTTAAGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (49 bp):
AAGGTTTATCATGCATTTTGGTAAAGAATGTTGGTTAAATGAATGATGG
Found at i:100101473 original size:8 final size:8
Alignment explanation
Indices: 100101449--100101506 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
100101439 ATTATTTTGA
100101449 AAATATAT
1 AAATATAT
100101457 AAA-ATAT
1 AAATATAT
100101464 AAATATAT
1 AAATATAT
*
100101472 AAATCCTAT
1 AAAT-ATAT
*
100101481 AACATATGTAA
1 AA-ATA--TAT
100101492 AAATATAT
1 AAATATAT
100101500 AAATATA
1 AAATATA
100101507 AAAAAGCGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.17
8 20 0.49
9 5 0.12
10 5 0.12
11 4 0.10
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (8 bp):
AAATATAT
Found at i:100104024 original size:34 final size:34
Alignment explanation
Indices: 100103981--100104048 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
100103971 TCTATGTCCT
100103981 TACACATCAAGCACTAGAGAATTCTCAATAAGAC
1 TACACATCAAGCACTAGAGAATTCTCAATAAGAC
**
100104015 TACACATCAAGCACTAGAGCCTTCTCAATAAGAC
1 TACACATCAAGCACTAGAGAATTCTCAATAAGAC
100104049 AACAATGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (34 bp):
TACACATCAAGCACTAGAGAATTCTCAATAAGAC
Found at i:100106162 original size:19 final size:20
Alignment explanation
Indices: 100106140--100106180 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
100106130 TTTTTTTCTC
*
100106140 TTCTTCTTT-TTCCTCTATT
1 TTCTTCTTTCTTCATCTATT
100106159 TTCTTCTTTCTTCATCTATT
1 TTCTTCTTTCTTCATCTATT
100106179 TT
1 TT
100106181 AACGTAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTTCTTTCTTCATCTATT
Found at i:100108981 original size:3 final size:3
Alignment explanation
Indices: 100108968--100109017 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
100108958 CCATTTCGGA
*
100108968 AAG AAG AAAG AAG AAG AAG AAG AA- AAG GAG AAG AAG AA- AAG AAAG
1 AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG
100109013 AAG AA
1 AAG AA
100109018 AAGGAGGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.76
4 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:100108999 original size:17 final size:16
Alignment explanation
Indices: 100108968--100109017 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 16
100108958 CCATTTCGGA
100108968 AAGAAGAAAGAAGAAG
1 AAGAAGAAAGAAGAAG
*
100108984 AAGAAGAAAAGGAGAAG
1 AAGAAG-AAAGAAGAAG
100109001 AAGAAAAGAAAGAAGAA
1 AAG--AAGAAAGAAGAA
100109018 AAGGAGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.21
17 12 0.41
18 8 0.28
19 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAGAAGAAG
Found at i:100109549 original size:17 final size:16
Alignment explanation
Indices: 100109527--100109607 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
100109517 ACCTTTTACA
*
100109527 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
100109544 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
*** * *
100109560 ATCTTAATGAAAAAAT
1 AAAATACTAAAAAAAT
*
100109576 AAAATACGAAAAGAAAT
1 AAAATACTAAAA-AAAT
100109593 AAAATA-TGAAAAAAA
1 AAAATACT-AAAAAAA
100109608 CTTTTTTGAG
Statistics
Matches: 49, Mismatches: 13, Indels: 5
0.73 0.19 0.07
Matches are distributed among these distances:
16 27 0.55
17 22 0.45
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:100109602 original size:32 final size:32
Alignment explanation
Indices: 100109537--100109606 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
100109527 AAAATAGTAT
* ***
100109537 AAAAAATAAAATACTAAAAAAATATCTTAATG
1 AAAAAATAAAATACGAAAAAAATAAAATAATG
100109569 AAAAAATAAAATACGAAAAGAAATAAAAT-ATG
1 AAAAAATAAAATACGAAAA-AAATAAAATAATG
100109601 AAAAAA
1 AAAAAA
100109607 ACTTTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (32 bp):
AAAAAATAAAATACGAAAAAAATAAAATAATG
Found at i:100110048 original size:150 final size:150
Alignment explanation
Indices: 100109641--100110119 Score: 656
Period size: 145 Copynumber: 3.2 Consensus size: 150
100109631 GCGAGTTTTT
*
100109641 TACTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA--
* * * *
100109706 TAAAAAATACAAACAAA-TAGCCAAAATCAGGGTAATTTACTAAATT-A-ATAAAAAAATATTAA
64 TAAAAAATACAAACAAAGT-GTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTAA
*
100109768 AATAATACATTTGAAACATTATA
128 AATAATACATTTGAAACATTATG
* *
100109791 TATTAAAATAATAT----AA-AAAATACGAAAATAGGATATTTTAAAAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* * * *
100109851 AAAAATACCAACAAAGTGTCAAAATCAGAGTTATTTATCAAATTAATATAAAAAAACACTAAAAT
66 AAAAATACAAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTAAAAT
*
100109916 AATACATTTGAAATATTATG
131 AATACATTTGAAACATTATG
* ** *
100109936 TACTAAAATAATATAAAAAA-AAAATACGAAAATAGTATGTTTTAAAAAATAAAATTTGGAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-
* * *
100110000 AAAAAATACGAACAAAGTTTCAAAATCAGGGTTATTTATTAAATTAATAT--AAAAATACTTAAA
65 AAAAAATACAAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTAAAA
100110063 TAATACATTTGAAACATTATG
130 TAATACATTTGAAACATTATG
100110084 TACTAAAATAATATAAAAAAATAAAATACGAAAATA
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATA
100110120 AAAAAATACC
Statistics
Matches: 293, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
143 38 0.13
144 2 0.01
145 87 0.30
146 2 0.01
148 45 0.15
149 46 0.16
150 73 0.25
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.28
Consensus pattern (150 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AAAAATACAAACAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAATACTAAAAT
AATACATTTGAAACATTATG
Found at i:100110144 original size:120 final size:122
Alignment explanation
Indices: 100109979--100110279 Score: 399
Period size: 120 Copynumber: 2.4 Consensus size: 122
100109969 AGTATGTTTT
** * * ***
100109979 AAAAAATAAAATTTGGAAATAAAAAAATACGAACAAAGTTTCAAAATCAGGGTTATTTATTAAAT
1 AAAAAATAAAATACGAAAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAAT
* *
100110044 TAATAT-AAAAATACTTAAATAATACATTTGAAACATTATGTACTAAAATAATAT-A
66 TAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
*
100110099 AAAAAATAAAATACGAAAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTGTTTATTAAAT
1 AAAAAATAAAATACGAAAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAAT
100110164 TAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAA
66 TAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AA
*
100110222 AATAATATATTTTAAAAAAATACAAAAATAAAAAAATACCAACAAAGGGCCAAAATCA
1 AA-AA-A-A---T---AAAATACGAAAATAAAAAAATACCAACAAAGGGCCAAAATCA
100110280 CCAAAAAAAA
Statistics
Matches: 158, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
120 63 0.40
121 46 0.29
123 3 0.02
124 2 0.01
125 1 0.01
126 1 0.01
129 1 0.01
132 41 0.26
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (122 bp):
AAAAAATAAAATACGAAAATAAAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAAT
TAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
Found at i:100112942 original size:26 final size:26
Alignment explanation
Indices: 100112906--100113045 Score: 124
Period size: 26 Copynumber: 5.1 Consensus size: 26
100112896 GGAATAAACT
100112906 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
*
100112932 TTAAATACATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
*
100112962 TTAAATACATTACAATATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
* *
100112988 TTAAATACATTA-ATCTAATTAGAACATTAA
1 TTAAATACATTACAAC--ATTA-ATC--TAA
100113018 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
100113044 TT
1 TT
100113046 GGATCAAACT
Statistics
Matches: 92, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
25 3 0.03
26 32 0.35
27 9 0.10
28 6 0.07
29 9 0.10
30 30 0.33
31 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:100112943 original size:18 final size:18
Alignment explanation
Indices: 100112920--100113018 Score: 96
Period size: 18 Copynumber: 5.4 Consensus size: 18
100112910 ATACATTACA
100112920 ACATTAATCTAATTAAAT
1 ACATTAATCTAATTAAAT
**
100112938 ACATTAATCTAATTGGA-
1 ACATTAATCTAATTAAAT
* *
100112955 ACATTAAT-TAAATACATT
1 ACATTAATCTAATTA-AAT
100112973 ACAATATTAATCTAATTAAAT
1 AC---ATTAATCTAATTAAAT
*
100112994 ACATTAATCTAATTAGA-
1 ACATTAATCTAATTAAAT
100113011 ACATTAAT
1 ACATTAAT
100113019 TAAATACATT
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.06
17 16 0.24
18 31 0.47
21 10 0.15
22 5 0.08
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (18 bp):
ACATTAATCTAATTAAAT
Found at i:100112954 original size:56 final size:55
Alignment explanation
Indices: 100112906--100113045 Score: 244
Period size: 56 Copynumber: 2.5 Consensus size: 55
100112896 GGAATAAACT
100112906 TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATTGGAACATTAA
1 TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATTGG-ACATTAA
* *
100112962 TTAAATACATTACAATATTAATCTAATTAAATACATTAATCTAATTAGAACATTAA
1 TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATT-GGACATTAA
100113018 TTAAATACATTACAACATTAATCTAATT
1 TTAAATACATTACAACATTAATCTAATT
100113046 GGATCAAACT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
56 79 0.99
57 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (55 bp):
TTAAATACATTACAACATTAATCTAATTAAATACATTAATCTAATTGGACATTAA
Found at i:100112965 original size:30 final size:29
Alignment explanation
Indices: 100112929--100113029 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 29
100112919 AACATTAATC
100112929 TAATTAAATACATTAATCTAATTGGAACAT
1 TAATTAAATACATTAATCTAATT-GAACAT
*
100112959 TAATTAAATACATT-A-C-AATAT-TA-AT
1 TAATTAAATACATTAATCTAAT-TGAACAT
100112984 CTAATTAAATACATTAATCTAATTAGAACAT
1 -TAATTAAATACATTAATCTAATT-GAACAT
100113015 TAATTAAATACATTA
1 TAATTAAATACATTA
100113030 CAACATTAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
25 2 0.03
26 15 0.25
27 4 0.07
28 4 0.07
29 4 0.07
30 30 0.49
31 2 0.03
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (29 bp):
TAATTAAATACATTAATCTAATTGAACAT
Found at i:100113017 original size:35 final size:38
Alignment explanation
Indices: 100112920--100113018 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 38
100112910 ATACATTACA
100112920 ACATTAATCTAATTAAATACATTAATCTAATTGGAACATT
1 ACATTAATCTAATTAAA-ACATTAATCTAATT-GAACATT
* * *
100112960 A-ATTAA-ATACATTACAATATTAATCTAATT-AA-A-T
1 ACATTAATCTA-ATTAAAACATTAATCTAATTGAACATT
*
100112994 ACATTAATCTAATTAGAACATTAAT
1 ACATTAATCTAATTAAAACATTAAT
100113019 TAAATACATT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
34 2 0.04
35 18 0.36
36 4 0.08
38 15 0.30
39 10 0.20
40 1 0.02
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (38 bp):
ACATTAATCTAATTAAAACATTAATCTAATTGAACATT
Found at i:100118034 original size:38 final size:38
Alignment explanation
Indices: 100117944--100118115 Score: 247
Period size: 38 Copynumber: 4.5 Consensus size: 38
100117934 GCTTAAAGAT
* *
100117944 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT-
1 CCGCAGGCTTAGTGCTGGTATTATATTCGGGTTAAATC
* *
100117981 CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAGTC
1 CCGCAGGCTTAGTGCTGGTATTATATTCGGGTTAAATC
100118019 CCGCAGGCTTAGTGCTGGTATTATATTCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATTCGGGTTAAATC
* *
100118057 CCGCAGGCTTAGTGCTGGTATTATATTCAAGCTTAAAGTC
1 CCGCAGGCTTAGTGCTGGTATTATATTC-GGGTTAAA-TC
* *
100118097 CCGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTAGTGCTGGT
100118116 GACTGGATTC
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
37 35 0.28
38 64 0.52
39 6 0.05
40 19 0.15
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (38 bp):
CCGCAGGCTTAGTGCTGGTATTATATTCGGGTTAAATC
Found at i:100118034 original size:75 final size:78
Alignment explanation
Indices: 100117934--100118115 Score: 264
Period size: 75 Copynumber: 2.4 Consensus size: 78
100117924 TGTGTATCGG
* *
100117934 GCTTAAAGAT-CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT-CCGCAGGCTTCGTGCT
1 GCTTAAAG-TCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
*
100117997 GGTATTATATTC-G
65 GGTATTATATTCAA
* *
100118010 GGTT-AAGTCCCGCAGGCTTAGTGCTGGTATTATATTCGGGTTAAATCCCGCAGGCTTAGTGCTG
1 GCTTAAAGTCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTG
100118074 GTATTATATTCAA
66 GTATTATATTCAA
* *
100118087 GCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 GCTTAAAGTCCCGCAGGCTTAGTGCTGGT
100118116 GACTGGATTC
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
74 1 0.01
75 38 0.40
76 30 0.32
77 3 0.03
78 22 0.23
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (78 bp):
GCTTAAAGTCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTG
GTATTATATTCAA
Found at i:100126062 original size:38 final size:38
Alignment explanation
Indices: 100126018--100126152 Score: 180
Period size: 38 Copynumber: 3.5 Consensus size: 38
100126008 GCTTAAAGAT
*
100126018 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
* *
100126056 TCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAGTC
1 CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
* * *
100126094 CCGTAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTC
1 CCGCAGGCTTCGTGCTGGTATTATATTCG-GGTTAAA-TC
* *
100126134 CCGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
100126153 GACTGGATTC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 61 0.73
39 5 0.06
40 18 0.21
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAATC
Found at i:100128198 original size:42 final size:40
Alignment explanation
Indices: 100128113--100128249 Score: 149
Period size: 42 Copynumber: 3.4 Consensus size: 40
100128103 AATATAAGTC
100128113 AACAATAATAATAACTAACAA-TAATTAA-AGTTTTTTACT
1 AACAATAATAATAACTAACAATTAA-TAATAGTTTTTTACT
* *
100128152 ---AATAATGATAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAAT--TAATAATAGTTTTTTACT
100128191 AACAATAATAATAACTAACAATAATAATAATAAGGGTTTTTTACT
1 AACAATAATAATAACTAACAAT--TAATAAT-A--GTTTTTTACT
100128236 AACAATAATAATAA
1 AACAATAATAATAA
100128250 TGTTTTTTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
36 16 0.20
38 3 0.04
39 14 0.17
42 24 0.29
43 1 0.01
45 24 0.29
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (40 bp):
AACAATAATAATAACTAACAATTAATAATAGTTTTTTACT
Found at i:100128209 original size:16 final size:16
Alignment explanation
Indices: 100128188--100128220 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
100128178 ATAGTTTTTT
100128188 ACTAACAATAATAATA
1 ACTAACAATAATAATA
100128204 ACTAACAATAATAATA
1 ACTAACAATAATAATA
100128220 A
1 A
100128221 TAAGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:100128222 original size:45 final size:43
Alignment explanation
Indices: 100128113--100128249 Score: 139
Period size: 45 Copynumber: 3.3 Consensus size: 43
100128103 AATATAAGTC
100128113 AACAATAATAATAACTAAC--AATAAT--TAAAGTTTTTTACT
1 AACAATAATAATAACTAACAAAATAATAATAAAGTTTTTTACT
* * **
100128152 ---AATAATGATAACCAAC--AATCCTAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAAAATAATAATAA-AGTTTTTTACT
*
100128191 AACAATAATAATAACTAACAATAATAATAATAAGGGTTTTTTACT
1 AACAATAATAATAACTAACAA-AATAATAATAA-AGTTTTTTACT
100128236 AACAATAATAATAA
1 AACAATAATAATAA
100128250 TGTTTTTTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
36 18 0.23
38 3 0.04
39 11 0.14
42 14 0.18
45 33 0.42
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (43 bp):
AACAATAATAATAACTAACAAAATAATAATAAAGTTTTTTACT
Found at i:100128260 original size:25 final size:26
Alignment explanation
Indices: 100128212--100128272 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
100128202 TAACTAACAA
100128212 TAATAATAATAAGGGTTTTTTACTAAC
1 TAATAATAATAAGGGTTTTTTACT-AC
*
100128239 -AATAATAATAA-TGTTTTTTACTAC
1 TAATAATAATAAGGGTTTTTTACTAC
100128263 TAATAATAAT
1 TAATAATAAT
100128273 TACTAACAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 2 0.06
25 19 0.59
26 11 0.34
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.43
Consensus pattern (26 bp):
TAATAATAATAAGGGTTTTTTACTAC
Found at i:100130170 original size:16 final size:17
Alignment explanation
Indices: 100130145--100130187 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
100130135 TGTGTACTTT
*
100130145 TATTTTAAATATATATA
1 TATTTAAAATATATATA
* *
100130162 -ATTTAAAATTTTTATA
1 TATTTAAAATATATATA
100130178 TATTTAAAAT
1 TATTTAAAAT
100130188 TGAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTAAAATATATATA
Found at i:100130188 original size:24 final size:24
Alignment explanation
Indices: 100130147--100130193 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
100130137 TGTACTTTTA
* *
100130147 TTTTAAATATATATAATTTAAAAT
1 TTTTAAATATATAAAATTGAAAAT
* *
100130171 TTTTATATATTTAAAATTGAAAA
1 TTTTAAATATATAAAATTGAAAA
100130194 AAAACTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTTAAATATATAAAATTGAAAAT
Found at i:100130355 original size:32 final size:31
Alignment explanation
Indices: 100130313--100130380 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
100130303 GTTGAACTGG
*
100130313 TTTTTATAATTTATTTGATTTAATTTTATAA
1 TTTTTATAATTTATTTGATTTAATTTAATAA
* *
100130344 TTTTATATAATTTATTTGCTTTTATTTAATAA
1 TTTT-TATAATTTATTTGATTTAATTTAATAA
100130376 TTTTT
1 TTTTT
100130381 GTATATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 5 0.15
32 28 0.85
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTTATAATTTATTTGATTTAATTTAATAA
Found at i:100130360 original size:22 final size:22
Alignment explanation
Indices: 100130314--100130357 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
100130304 TTGAACTGGT
* *
100130314 TTTTATAATTTATTTGATTTAA
1 TTTTATAATTTATATAATTTAA
100130336 TTTTATAATTTTATATAATTTA
1 TTTTATAA-TTTATATAATTTA
100130358 TTTGCTTTTA
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:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTATAATTTATATAATTTAA
Found at i:100130781 original size:16 final size:16
Alignment explanation
Indices: 100130760--100130827 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
100130750 TTTGGTTCGC
100130760 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
100130776 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
100130791 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
100130808 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
100130824 TGTA
1 TGTA
100130828 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:100130801 original size:32 final size:32
Alignment explanation
Indices: 100130760--100130827 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
100130750 TTTGGTTCGC
100130760 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
100130792 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
100130824 TGTA
1 TGTA
100130828 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:100131151 original size:157 final size:157
Alignment explanation
Indices: 100130957--100131266 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
100130947 CCCTTAGCAT
*
100130957 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
100131022 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
100131087 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
100131114 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
100131179 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
100131244 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
100131267 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:100131263 original size:82 final size:81
Alignment explanation
Indices: 100131020--100131269 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
100131010 TATTATTATC
* * *
100131020 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
100131085 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
100131102 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
100131156 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
100131177 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
100131242 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
100131259 AATAATTAATA
1 AATAATAAATA
100131270 TTCTTATATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:100132163 original size:13 final size:13
Alignment explanation
Indices: 100132145--100132174 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
100132135 CAATCAGCTA
100132145 AATTCAGAAAAAC
1 AATTCAGAAAAAC
100132158 AATTCAGAAAAAC
1 AATTCAGAAAAAC
100132171 AATT
1 AATT
100132175 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:100136529 original size:20 final size:18
Alignment explanation
Indices: 100136504--100136543 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
100136494 TTTTTTTCAT
100136504 TTTCCCATTTTTCCTTTTTC
1 TTTCCCA-TTTT-CTTTTTC
100136524 TTTCCCATTTTCTTTTTC
1 TTTCCCATTTTCTTTTTC
100136542 TT
1 TT
100136544 CTCAACCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTCCCATTTTCTTTTTC
Found at i:100138699 original size:26 final size:26
Alignment explanation
Indices: 100138670--100138725 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
100138660 TGATACAAAT
100138670 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100138696 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100138722 TGAT
1 TGAT
100138726 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100143018 original size:24 final size:24
Alignment explanation
Indices: 100142982--100143037 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
100142972 TTGTTAGGTT
*
100142982 TCACCCTAATCTGGCAAAATCTTG
1 TCACCCTAATCTGGAAAAATCTTG
* *
100143006 TCACCTTAGTCTGGAAAAATCTTG
1 TCACCCTAATCTGGAAAAATCTTG
100143030 TCACCCTA
1 TCACCCTA
100143038 TCTCTAGGCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (24 bp):
TCACCCTAATCTGGAAAAATCTTG
Found at i:100149220 original size:5 final size:5
Alignment explanation
Indices: 100149207--100149270 Score: 78
Period size: 5 Copynumber: 12.8 Consensus size: 5
100149197 AATGTCTTTC
* *
100149207 AAAAG AAAAT AAAAA AAAAG AAAAG AAAA- AAAA- AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
100149255 AAAAAG AAAAAG AAAA
1 -AAAAG -AAAAG AAAA
100149271 AGAAGAATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
4 8 0.15
5 35 0.65
6 11 0.20
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:100149230 original size:6 final size:6
Alignment explanation
Indices: 100149217--100149285 Score: 74
Period size: 6 Copynumber: 12.0 Consensus size: 6
100149207 AAAAGAAAAT
*
100149217 AAAA-A AAAAG- AAAAGA AAAA-A AAAAAA GAAAAG- AAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA
* *
100149262 AAAAGA AAAAGA AGAATA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA
100149286 TAAGAGGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
5 19 0.35
6 31 0.57
7 4 0.07
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:100149238 original size:23 final size:22
Alignment explanation
Indices: 100149212--100149283 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 22
100149202 CTTTCAAAAG
*
100149212 AAAATAAAAAAAAAGAAAAGAA
1 AAAAAAAAAAAAAAGAAAAGAA
100149234 AAAAAAAAAAGAAAAGAAAAGAA
1 AAAAAAAAAA-AAAAGAAAAGAA
* *
100149257 AAAGAAAAAGAAAAAGAAGAATAA
1 AAA-AAAAAAAAAAAGAA-AAGAA
100149281 AAA
1 AAA
100149284 GATAAGAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
22 9 0.20
23 22 0.50
24 13 0.30
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (22 bp):
AAAAAAAAAAAAAAGAAAAGAA
Found at i:100160100 original size:48 final size:50
Alignment explanation
Indices: 100159981--100160242 Score: 182
Period size: 48 Copynumber: 5.5 Consensus size: 50
100159971 GAGGCTGACC
* ** * *
100159981 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCGTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGAACTCACATATACGTGCCGATG
* *
100160031 CCATGTCCCAGACATGTTCTTACACTGGAAC-CTC-TATACGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGAACTCACATATACGTGCCGATG
* * *
100160079 CCATATCCCAGACATGGTCTTACACT-G-A--CACATCTA-GTAGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGGAACTCACATATACGT-GCCGATG
* * * * *
100160125 -CATGTCCTAGACAT-GTCTTACACT--AGCT-ATCATCT-CAATGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGGAACTCA-CATATAC-GTGCCGATG
* * * *
100160171 CCATGTCCCAGACATGATCTTACATTGG--CTCTCATA-ATGTGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGAACTCACATATACGT-GCCGATG
*
100160219 -CATGTCCCAGACAT-GTTTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
100160243 AGCACACAAT
Statistics
Matches: 170, Mismatches: 27, Indels: 34
0.74 0.12 0.15
Matches are distributed among these distances:
44 10 0.06
45 17 0.10
46 29 0.17
47 30 0.18
48 55 0.32
49 2 0.01
50 27 0.16
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTGGAACTCACATATACGTGCCGATG
Found at i:100160180 original size:92 final size:94
Alignment explanation
Indices: 100160075--100160245 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 94
100160065 TATACGTGCC
* * *
100160075 GATGCCATATCCCAGACATGGTCTTACACTGACACATC-T-A-GTAGCTGATGCATGTCCTAGAC
1 GATGCCATATCCCAGACATGATCTTACACTGACAC-TCATAATGTAGCCGATGCATGTCCCAGAC
100160137 ATGTCTTACACTAGCTATCATCTCAATGCT
65 ATGTCTTACACTAGCTATCATCTCAATGCT
* * * * *
100160167 GATGCCATGTCCCAGACATGATCTTACATTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATATCCCAGACATGATCTTACACTGACACTCATAATGTAGCCGATGCATGTCCCAGACA
*
100160232 TGTTTTACACTAGC
66 TGTCTTACACTAGC
100160246 ACACAATTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 31 0.46
93 1 0.01
94 33 0.49
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (94 bp):
GATGCCATATCCCAGACATGATCTTACACTGACACTCATAATGTAGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTATCATCTCAATGCT
Found at i:100175374 original size:27 final size:27
Alignment explanation
Indices: 100175344--100175521 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
100175334 ATATTGAGTC
* * * *
100175344 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
100175371 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
100175398 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
100175426 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
100175453 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
100175480 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
100175507 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100175522 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:100175483 original size:82 final size:81
Alignment explanation
Indices: 100175365--100175520 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
100175355 TGCTATATAA
* *
100175365 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
100175430 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
100175447 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
100175511 CACTTAGTGC
65 CACTTAGTGC
100175521 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:100183556 original size:27 final size:27
Alignment explanation
Indices: 100183526--100183703 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
100183516 ATATTGAGTC
* * * *
100183526 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
100183553 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
100183580 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
100183608 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
100183635 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
100183662 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
100183689 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
100183704 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:100183665 original size:82 final size:81
Alignment explanation
Indices: 100183547--100183702 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
100183537 TGCTATATAA
* *
100183547 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
100183612 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
100183629 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
100183693 CACTTAGTGC
65 CACTTAGTGC
100183703 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:100196390 original size:16 final size:16
Alignment explanation
Indices: 100196369--100196399 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100196359 TGAGTGTGAT
100196369 TGAGAGGAAAGAAAAG
1 TGAGAGGAAAGAAAAG
100196385 TGAGAGGAAAGAAAA
1 TGAGAGGAAAGAAAA
100196400 TAGTAGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.06
Consensus pattern (16 bp):
TGAGAGGAAAGAAAAG
Found at i:100201600 original size:48 final size:48
Alignment explanation
Indices: 100201536--100201958 Score: 367
Period size: 48 Copynumber: 8.9 Consensus size: 48
100201526 ATGTGAGTAT
* * * * *
100201536 TGAGATCCCGTATAAGACCATATCTGAGATATGACATTGGCATCGAGA
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* * *
100201584 TGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCGGTATC-AGTA
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGA-TA
*
100201632 TGAGATCCTATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* * * * * * * **
100201680 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCAATAGCATCTTTA
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* * * * *
100201728 TGAGA-CTTCGTGTAAGACCATATCTGGGATATGACATCGACATCAATA
1 TGAGATCCT-GTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* * * *
100201776 TGAGATCCTATGTAAGACCATATTTAGGATATGGCATTGGCATTGATA
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* * * * * * * *
100201824 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGTTA
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* * * *
100201872 TGAGA-CTTCGTGTAAGACCATAGCTGGG--CT-G--TTGGCATCGATG
1 TGAGATCCT-GTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
** * * *
100201915 TGAGATCCCATGTAAGACCACATCTTGGACATGGCATTGGCATC
1 TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATC
100201959 TTTTCATGTG
Statistics
Matches: 290, Mismatches: 74, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
43 28 0.10
44 1 0.00
45 2 0.01
46 2 0.01
47 3 0.01
48 251 0.87
49 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
TGAGATCCTGTGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
Found at i:100201806 original size:144 final size:144
Alignment explanation
Indices: 100201536--100201958 Score: 527
Period size: 144 Copynumber: 3.0 Consensus size: 144
100201526 ATGTGAGTAT
* * * * * * **
100201536 TGAGATCCCGTATAAGACCATATCTGAGATATGACATTGGCATCGAGATGAGATCTT-GTGTAAG
1 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCAATGGCATCGTTATGAGA-CTTCGTGTAAG
* ** * *
100201600 ACCATATCTGGGATATGGCATCGGTATCAGTATGAGATCCTATGTAAGACCATATCTGGGATATG
65 ACCATATCTGGGATATGACATCGACATCAATATGAGATCCTATGTAAGACCATATCTAGGATATG
100201665 GCATTGGCATCGATA
130 GCATTGGCATCGATA
* *
100201680 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCAATAGCATCTTTATGAGACTTCGTGTAAGA
1 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCAATGGCATCGTTATGAGACTTCGTGTAAGA
*
100201745 CCATATCTGGGATATGACATCGACATCAATATGAGATCCTATGTAAGACCATATTTAGGATATGG
66 CCATATCTGGGATATGACATCGACATCAATATGAGATCCTATGTAAGACCATATCTAGGATATGG
*
100201810 CATTGGCATTGATA
131 CATTGGCATCGATA
*
100201824 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGC-ATCGGCACCGTTATGAGACTTCGTGTAAG
1 TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCAAT-GGCATCGTTATGAGACTTCGTGTAAG
* * * * * * * * * *
100201888 ACCATAGCTGGG--CTG---TTGGCATCGATGTGAGATCCCATGTAAGACCACATCTTGGACATG
65 ACCATATCTGGGATATGACATCGACATCAATATGAGATCCTATGTAAGACCATATCTAGGATATG
100201948 GCATTGGCATC
130 GCATTGGCATC
100201959 TTTTCATGTG
Statistics
Matches: 245, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
139 46 0.19
142 2 0.01
143 5 0.02
144 192 0.78
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (144 bp):
TGAGGTCCCGTATAAGACCATGTCTGGGACATGGCAATGGCATCGTTATGAGACTTCGTGTAAGA
CCATATCTGGGATATGACATCGACATCAATATGAGATCCTATGTAAGACCATATCTAGGATATGG
CATTGGCATCGATA
Found at i:100203789 original size:41 final size:40
Alignment explanation
Indices: 100203744--100203904 Score: 150
Period size: 41 Copynumber: 4.0 Consensus size: 40
100203734 TTCTTAGTAT
100203744 TGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACCAC
1 TGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGA-CAC
* * *
100203785 TGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-TTATGACAC
1 TGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTA-GACAC
* * * * *
100203825 TGGCTCTAAAGCCCTTCGAAACTAAGTTTGGTTATTAG-CAC
1 TGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--ATTAGACAC
*
100203866 TGGCTCAAAAGCCCTTCAAGACCAAGCTCGGATTGAGAC
1 TGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATT-AGAC
100203905 CCCGATTAGC
Statistics
Matches: 97, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
39 3 0.03
40 34 0.35
41 56 0.58
42 1 0.01
43 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
TGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACAC
Found at i:100212218 original size:41 final size:41
Alignment explanation
Indices: 100212173--100212340 Score: 135
Period size: 41 Copynumber: 4.1 Consensus size: 41
100212163 CCTTCTGAAT
* * *
100212173 CAAGCCCGATTCTTAGTACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* * * *
100212214 CAAGCTCGGATTA-GACCACTGGCTCGAAGGCCCTTCG-GAAC
1 CAAGC-CCGATTATGAGCACTGGCTCAAAAGCCCTTCGAG-AC
* * * * *
100212255 TAAGTCCGGTTATGA-CACTGGCTCTAAAGCCCTTCGAAAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* *** * *
100212295 TAAGTTTGGTTATTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
100212336 CAAGC
1 CAAGC
100212341 TCGGATTTAA
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
40 39 0.39
41 57 0.56
42 5 0.05
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
Found at i:100212287 original size:40 final size:41
Alignment explanation
Indices: 100212190--100212331 Score: 148
Period size: 41 Copynumber: 3.5 Consensus size: 41
100212180 GATTCTTAGT
*
100212190 ACTGGCTCAAAAGCCCTTC-GAGACCAAG-CTCGGATTA-GACC
1 ACTGGCTCAAAAGCCCTTCGGA-ACTAAGTC-CGG-TTATGACC
* *
100212231 ACTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-C
1 ACTGGCTCAAAAGCCCTTCGGAACTAAGTCCGGTTATGACC
* * ** * *
100212271 ACTGGCTCTAAAGCCCTTCGAAACTAAGTTTGGTTATTAGC
1 ACTGGCTCAAAAGCCCTTCGGAACTAAGTCCGGTTATGACC
100212312 ACTGGCTCAAAAGCCCTTCG
1 ACTGGCTCAAAAGCCCTTCG
100212332 AGACCAAGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
40 37 0.43
41 47 0.54
42 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (41 bp):
ACTGGCTCAAAAGCCCTTCGGAACTAAGTCCGGTTATGACC
Found at i:100214705 original size:22 final size:22
Alignment explanation
Indices: 100214677--100214719 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
100214667 ATTAATGAGT
100214677 CTATTTTCAAGAGAAACATACG
1 CTATTTTCAAGAGAAACATACG
100214699 CTATTTTCAAGAGAAACATAC
1 CTATTTTCAAGAGAAACATAC
100214720 AGGAACATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (22 bp):
CTATTTTCAAGAGAAACATACG
Found at i:100220676 original size:7 final size:7
Alignment explanation
Indices: 100220664--100220692 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
100220654 TAATAACAAT
100220664 TAATATA
1 TAATATA
100220671 TAATATA
1 TAATATA
100220678 TAATATA
1 TAATATA
100220685 TAATATA
1 TAATATA
100220692 T
1 T
100220693 TATTTGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TAATATA
Found at i:100232665 original size:21 final size:20
Alignment explanation
Indices: 100232631--100232671 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
100232621 ATTTATGAGC
*
100232631 TTTATGATGTTTAATAATAG
1 TTTATGAGGTTTAATAATAG
*
100232651 TTTATGAAGGTTTAATGATAG
1 TTTATG-AGGTTTAATAATAG
100232672 ATATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTATGAGGTTTAATAATAG
Found at i:100233340 original size:43 final size:43
Alignment explanation
Indices: 100233220--100233383 Score: 163
Period size: 43 Copynumber: 3.8 Consensus size: 43
100233210 TATCGAGTTG
** * *
100233220 TGATTACATGTAAGACCATGCCTGGGACATTGGCATTGTATTGA
1 TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTATT-A
* * *
100233264 -GATTACATGTAAGACCATGTCAGGGACATTGGCATCGTATTA
1 TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTATTA
* * * * *
100233306 TGATTTCATGTAAGACCCTATCTGGGATAATGGCATCG-ACATG
1 TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTA-TTA
* *
100233349 TGATAACATGTAAGACCATATCTGGGA-TATGGCAT
1 TGATTACATGTAAGACCATATCTGGGACAATGGCAT
100233384 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 9 0.09
43 94 0.91
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TGATTACATGTAAGACCATATCTGGGACAATGGCATCGTATTA
Found at i:100239521 original size:43 final size:44
Alignment explanation
Indices: 100239420--100239522 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 44
100239410 TCCTAGACGT
* *
100239420 GGTCTTACATGT-AATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAG
* *
100239463 GGTCTTACACG-AAATCAAGTAT-GATGCCAATGTCCCAGA-TG
1 GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAG
100239504 CGGTCTTACACGTAAATCA
1 -GGTCTTACACGTAAATCA
100239523 TGAGTCGATG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.02
42 27 0.51
43 25 0.47
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (44 bp):
GGTCTTACACGTAAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:100239543 original size:44 final size:42
Alignment explanation
Indices: 100239396--100239557 Score: 114
Period size: 43 Copynumber: 3.8 Consensus size: 42
100239386 CGGAAAGCTC
* * * * * *
100239396 GTACAATGCCAACATCCTAGACGTGGTCTTACATGTAATCAA
1 GTACGATGCCAACATCCCAAACGCGGTCTTACACGAAATCAA
* * *
100239438 ATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 GTA-CGATGCCAAC-ATCCCAAAC-GCGGTCTTACACGAAATCAA
* ** * *
100239481 GTATGATGCCAATGTCCCAGATGCGGTCTTACACGTAAATCATGA
1 GTACGATGCCAACATCCCAAACGCGGTCTTACACG-AAATCA--A
*
100239526 GT-CGATGCCAACATCCCAAACGTGGTCTTACA
1 GTACGATGCCAACATCCCAAACGCGGTCTTACA
100239558 TGATAACACA
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 38 0.40
44 25 0.26
45 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
GTACGATGCCAACATCCCAAACGCGGTCTTACACGAAATCAA
Found at i:100239998 original size:17 final size:16
Alignment explanation
Indices: 100239969--100240001 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
100239959 TCCCTATTTC
100239969 ACAAAATCACAAAATT
1 ACAAAATCACAAAATT
100239985 ACAAAATACACAAAATT
1 ACAAAAT-CACAAAATT
100240002 TTCATATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (16 bp):
ACAAAATCACAAAATT
Found at i:100239999 original size:9 final size:8
Alignment explanation
Indices: 100239967--100240000 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
100239957 AGTCCCTATT
100239967 TCACAAAA
1 TCACAAAA
100239975 TCACAAAA
1 TCACAAAA
*
100239983 TTACAAAA
1 TCACAAAA
100239991 TACACAAAA
1 T-CACAAAA
100240000 T
1 T
100240001 TTTCATATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (8 bp):
TCACAAAA
Found at i:100241097 original size:144 final size:147
Alignment explanation
Indices: 100240837--100241131 Score: 332
Period size: 144 Copynumber: 2.0 Consensus size: 147
100240827 TTTTAGGAGG
* * * * * *
100240837 AAAAATTTGTTCGTGTTGGAGTTTTAAGGGAGATATTGTGATAGTTTTAAGGTAGATTTTTATTG
1 AAAAAATTGTTCGTATTGGAGTTTTAAGAGAGAGATTATGATAATTTTAAGGT--ATTTTTATTG
* * * *
100240902 TTTGTAATAATAATTTGTATGTTGTATGTTTTAATTTATTATTAATCTTTAGATTTAAAATTTAA
64 TTTGTAATAATAATATGTATATTATATGTTTTAATTTATTATTAATATTTAGATTTAAAATTTAA
*
100240967 GATTATATTTTTGTTTGTA
129 GAATATATTTTTGTTTGTA
* *
100240986 AAAAAATTGTTTGTATTGGAGTTTT-AGAGATAGATTATGATAATTTTAAGGT-TTTTT-TTAGT
1 AAAAAATTGTTCGTATTGGAGTTTTAAGAGAGAGATTATGATAATTTTAAGGTATTTTTATT-GT
* * * ** *
100241048 TTGT-ATAATAATAAT-TATATTATATG-TTTATATTTCTTTTTAATATTTAGATTTGATGTTTT
65 TTGTAATAATAAT-ATGTATATTATATGTTTTA-ATTTATTATTAATATTTAGATTTAAAATTTA
100241110 AGAATATATTTTTGTTTGTA
128 AGAATATATTTTTGTTTGTA
100241130 AA
1 AA
100241132 TTTTTTTTTT
Statistics
Matches: 124, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
143 4 0.03
144 64 0.52
145 12 0.10
148 22 0.18
149 22 0.18
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.53
Consensus pattern (147 bp):
AAAAAATTGTTCGTATTGGAGTTTTAAGAGAGAGATTATGATAATTTTAAGGTATTTTTATTGTT
TGTAATAATAATATGTATATTATATGTTTTAATTTATTATTAATATTTAGATTTAAAATTTAAGA
ATATATTTTTGTTTGTA
Found at i:100241940 original size:31 final size:31
Alignment explanation
Indices: 100241904--100241965 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
100241894 TTAAATGACA
100241904 TTTTAGGATCACATATTAATGCATCATGAAG
1 TTTTAGGATCACATATTAATGCATCATGAAG
100241935 TTTTAGGATCACATATTAATGCATCATGAAG
1 TTTTAGGATCACATATTAATGCATCATGAAG
100241966 CATAGATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTTAGGATCACATATTAATGCATCATGAAG
Found at i:100242717 original size:22 final size:21
Alignment explanation
Indices: 100242682--100242757 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
100242672 AAAGGATATC
* *
100242682 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
100242703 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
100242726 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
100242745 TGC-AATCATATCT
1 TACAAATCATATCT
100242758 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:100242742 original size:19 final size:19
Alignment explanation
Indices: 100242718--100242808 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
100242708 AATCATATCT
100242718 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
100242737 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
100242755 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
100242772 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
100242791 TCTAAGATTGTATATCAT
1 TCTAAGATTGCATATCAT
100242809 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 34 0.52
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100242774 original size:35 final size:36
Alignment explanation
Indices: 100242718--100242803 Score: 138
Period size: 35 Copynumber: 2.4 Consensus size: 36
100242708 AATCATATCT
*
100242718 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCATATCACA
100242755 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
100242791 TCTAAGATTGTAT
1 TCTAAGATTGTAT
100242804 ATCATTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
35 19 0.40
36 18 0.38
37 10 0.21
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCACA
Found at i:100242787 original size:14 final size:15
Alignment explanation
Indices: 100242732--100242787 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
100242722 AGATTGCATA
100242732 TCATATCTAAGATTG
1 TCATATCTAAGATTG
100242747 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
100242765 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
100242782 -CATATC
1 TCATATC
100242788 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:100242961 original size:21 final size:20
Alignment explanation
Indices: 100242923--100242962 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
100242913 GAACTTGGAC
**
100242923 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
100242943 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
100242963 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:100243210 original size:45 final size:45
Alignment explanation
Indices: 100243155--100243354 Score: 251
Period size: 45 Copynumber: 4.5 Consensus size: 45
100243145 GGAAGGCGAT
* *
100243155 ATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
100243200 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
* * * * *
100243245 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
* * * *
100243289 ATCTGTTATC-TCTGATTTGCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCATCTAATACAGAGACGCCAA
* * *
100243334 ACCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
100243355 TCGATGTAAA
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
44 41 0.30
45 94 0.69
46 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCATCTAATACAGAGACGCCAA
Found at i:100243279 original size:89 final size:89
Alignment explanation
Indices: 100243169--100243334 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
100243159 GCTATCTTTG
100243169 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCT-TCGATCTGCTCCCCATCTAATA
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCT-GATCTGCTCCCCATCTAATA
*
100243233 CAGAGACGCCAAATTTGCTTCTTCA
65 CAAAGACGCCAAATTTGCTTCTTCA
* * * *
100243258 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCTGATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCTGATCTGCTCCCCATCTAATAC
*
100243323 AAAGATGCCAAA
66 AAAGACGCCAAA
100243335 CCTGTCATCT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 69 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCATCTAATACAGAGACGCCAAATCTGTTATCTCTGATCTGCTCCCCATCTAATAC
AAAGACGCCAAATTTGCTTCTTCA
Found at i:100243479 original size:88 final size:88
Alignment explanation
Indices: 100243306--100243533 Score: 246
Period size: 88 Copynumber: 2.5 Consensus size: 88
100243296 ATCTCTGATT
*
100243306 TGCTCCCCGTCTAATACAAAGATGCCAAACCTGTCATCTTGGATCTGCTTC-GATGTAAACACAT
1 TGCT-CCCGTCTAATACAAAGATGCCAAA----TCATCTTGGATCTGCTTCAGACGTAAACACAT
* * * *
100243370 GAAGGTCAGATCTGCTATGTCTTCGATC
61 GAAAGCCAAATCTACTATGTCTTCGATC
* *
100243398 TGCTACCCGTCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAG-CGTAAACACGTGAAA
1 TGCT-CCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAGACGTAAACACATGAAA
* *
100243462 GCCAAATCTACTGTGTCTTCGATT
65 GCCAAATCTACTATGTCTTCGATC
* * * * *
100243486 TTCTCCTTGT-GAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAG
1 TGCTCC-CGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAG
100243534 TAAAATCATC
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
87 36 0.31
88 53 0.45
89 1 0.01
92 28 0.24
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (88 bp):
TGCTCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAGACGTAAACACATGAAAG
CCAAATCTACTATGTCTTCGATC
Found at i:100243753 original size:87 final size:87
Alignment explanation
Indices: 100243605--100244076 Score: 694
Period size: 87 Copynumber: 5.4 Consensus size: 87
100243595 ATCTGTTATT
* * * * * * *
100243605 TTCGATCTGCTCTCTGACAATACAAAGATGCCAAATCATCTTATATTTTCTTCAACATAAACACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
100243670 TGAAAGCCAAATCAGCTATGTC
66 TGAAAGCCAAATCAGCTATGTC
* *
100243692 TTCGATCTGCTCCCTGCCAATATAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACA
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
*
100243757 TGAAAACCAAATCAGCTATGTCC
66 TGAAAGCCAAATCAGCTATGT-C
* * *
100243780 TT-GATCTGCTCTCTGCCAATACAAAGACGCCAAATCATCTTAGATTTTCTTCAACGTAAACACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
100243844 TGAAAGCCAAATCAGCTATGTC
66 TGAAAGCCAAATCAGCTATGTC
* * * * *
100243866 TTCGATCTGCTGCTTGCCAATATAGAGACGTCAAATCATCTTAGATTTGCTTCAACGTAAAAACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
*
100243931 TGAAAGCCAAATTAGCTATGTC
66 TGAAAGCCAAATCAGCTATGTC
* * * *
100243953 TTTGATTTGCTCCCTGCCAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
*
100244018 TGAAAGCCAAATCAGCTAAGTC
66 TGAAAGCCAAATCAGCTATGTC
* *
100244040 CTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATC
1 TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
100244077 TACTGTCTTC
Statistics
Matches: 345, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
86 3 0.01
87 339 0.98
88 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
TGAAAGCCAAATCAGCTATGTC
Found at i:100243942 original size:41 final size:41
Alignment explanation
Indices: 100243897--100244031 Score: 98
Period size: 41 Copynumber: 3.2 Consensus size: 41
100243887 ATAGAGACGT
100243897 CAAATCATCTTAGATTTGCTTCAACGTAAAAACGTGAAAGC
1 CAAATCATCTTAGATTTGCTTCAACGTAAAAACGTGAAAGC
* * ** * *
100243938 CAAATTAGCTATGTCTTTGATTTGC-TC-CCTGCCAATA--TAGAGATGC
1 CAAA-T--C-A--TCTTAGATTTGCTTCAAC-GTAAAAACGT-GA-AAGC
*
100243984 CAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGC
1 CAAATCATCTTAGATTTGCTTCAACGTAAAAACGTGAAAGC
100244025 CAAATCA
1 CAAATCA
100244032 GCTAAGTCCT
Statistics
Matches: 69, Mismatches: 12, Indels: 26
0.64 0.11 0.24
Matches are distributed among these distances:
40 11 0.16
41 20 0.29
42 5 0.07
43 2 0.03
44 2 0.03
45 5 0.07
46 13 0.19
47 11 0.16
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (41 bp):
CAAATCATCTTAGATTTGCTTCAACGTAAAAACGTGAAAGC
Found at i:100244092 original size:44 final size:44
Alignment explanation
Indices: 100244041--100244208 Score: 273
Period size: 44 Copynumber: 3.8 Consensus size: 44
100244031 AGCTAAGTCC
* * *
100244041 TCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTACTGTCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
*
100244085 TCGATCTGCTCTCTGCCACTACAGAGATGCCAAATCTATTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
*
100244129 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
* *
100244173 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATC
1 TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
100244209 ATCTTGGATT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (44 bp):
TCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCT
Found at i:100245201 original size:11 final size:11
Alignment explanation
Indices: 100245180--100245221 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 11
100245170 CCTCTCCATT
100245180 TTTTCTTTTTTC
1 TTTT-TTTTTTC
100245192 TTTTTTTTTTC
1 TTTTTTTTTTC
100245203 TCTTTTTCTTTTC
1 T-TTTTT-TTTTC
100245216 TTTTTT
1 TTTTTT
100245222 CCTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.29
12 14 0.50
13 6 0.21
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:100245201 original size:13 final size:13
Alignment explanation
Indices: 100245178--100245231 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
100245168 GGCCTCTCCA
100245178 TTTTTTCTTTT-T
1 TTTTTTCTTTTCT
*
100245190 TCTTTTTTTTTTCT
1 T-TTTTTCTTTTCT
*
100245204 CTTTTTCTTTTCT
1 TTTTTTCTTTTCT
*
100245217 TTTTTCCTTTT-T
1 TTTTTTCTTTTCT
100245229 TTT
1 TTT
100245232 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 5 0.14
13 29 0.83
14 1 0.03
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:100245208 original size:19 final size:20
Alignment explanation
Indices: 100245178--100245228 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
100245168 GGCCTCTCCA
100245178 TTTTTTCT-TTTTTCTTTT-
1 TTTTTTCTCTTTTTCTTTTC
100245196 TTTTTTCTCTTTTTCTTTTC
1 TTTTTTCTCTTTTTCTTTTC
100245216 TTTTTTC-CTTTTT
1 TTTTTTCTCTTTTT
100245229 TTTGAAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.26
19 16 0.52
20 7 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTCTCTTTTTCTTTTC
Found at i:100251296 original size:31 final size:31
Alignment explanation
Indices: 100251258--100251319 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
100251248 TTAAATGACA
100251258 TTTTAGGATCACATAGTAATGCATCATGAAG
1 TTTTAGGATCACATAGTAATGCATCATGAAG
*
100251289 TTTTAGGATCACATATTAATGCATCATGAAG
1 TTTTAGGATCACATAGTAATGCATCATGAAG
100251320 CATAGATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (31 bp):
TTTTAGGATCACATAGTAATGCATCATGAAG
Found at i:100252073 original size:22 final size:21
Alignment explanation
Indices: 100252038--100252113 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
100252028 AAAGGATATC
* *
100252038 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
100252059 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
100252082 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
100252101 TGC-AATCATATCT
1 TACAAATCATATCT
100252114 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:100252130 original size:35 final size:37
Alignment explanation
Indices: 100252074--100252164 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
100252064 AATCATATCT
*
100252074 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
100252111 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
100252147 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
100252165 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:100252143 original size:14 final size:15
Alignment explanation
Indices: 100252088--100252143 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
100252078 AGATTGCATA
100252088 TCATATCTAAGATTG
1 TCATATCTAAGATTG
100252103 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
100252121 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
100252138 -CATATC
1 TCATATC
100252144 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:100252172 original size:17 final size:19
Alignment explanation
Indices: 100252074--100252164 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
100252064 AATCATATCT
100252074 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
100252093 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
100252111 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
100252128 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
100252147 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
100252165 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:100252320 original size:21 final size:20
Alignment explanation
Indices: 100252283--100252321 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
100252273 TTGGACTTTG
**
100252283 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
100252303 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
100252322 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:100255494 original size:44 final size:42
Alignment explanation
Indices: 100255444--100255599 Score: 133
Period size: 42 Copynumber: 3.7 Consensus size: 42
100255434 TGTGTTTCAG
100255444 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACT
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTTACT
** * *
100255488 TGTAAGACCACGTCTGGGATGTTGGCATTGTATTTAATTT-CGT
1 TGTAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTAC-T
* * *
100255531 T-TAAGACC-CTTTCTGGGACAATGGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATCG--ATTTGATTTACT
* *
100255573 TGTAAGACTA-GTTTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
100255600 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 39 0.43
43 20 0.22
44 29 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATTTGATTTACT
Found at i:100266164 original size:204 final size:204
Alignment explanation
Indices: 100265807--100266175 Score: 639
Period size: 204 Copynumber: 1.8 Consensus size: 204
100265797 TTAGGATTAT
100265807 AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
1 AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
** * * * *
100265872 AGTGTTTTCTTGTCCTTAAGCAAAATCCTCAACCCATATTCTAGTTAACTTCCCTTAATTTATTT
66 AGCATTTTCTTATCCTCAAGAAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
* *
100265937 TTCTTACCGATAATGTTTTAGGATAATTTATAGATTGAATAATCACCCTATCACTAACATTGAAT
131 TTCTCACCGATAATGTCTTAGGATAATTTATAGATTGAATAATCACCCTATCACTAACATTGAAT
100266002 AATCACCTA
196 AATCACCTA
* *
100266011 AAAATGCATTAAGAGTGAGATTAAAACATGTTACTTTTATCACTTATCAAGTATCCCCACACTTA
1 AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
*
100266076 AGCATTTTCTTATCCTCAAGAAAAATTCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
66 AGCATTTTCTTATCCTCAAGAAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
100266141 TTCTCACCGATAATGTCTTAGGATAATTTATAGAT
131 TTCTCACCGATAATGTCTTAGGATAATTTATAGAT
100266176 AATCATGCAT
Statistics
Matches: 154, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
204 154 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (204 bp):
AAAATGCATTAAGAATGAGATTAAAACATGTTACTTTTATCACTTATCAAATATCCCCACACTTA
AGCATTTTCTTATCCTCAAGAAAAATCCTCAACCCATATTCAAGTTAACTTCCCTTAATTTATTT
TTCTCACCGATAATGTCTTAGGATAATTTATAGATTGAATAATCACCCTATCACTAACATTGAAT
AATCACCTA
Found at i:100267570 original size:20 final size:22
Alignment explanation
Indices: 100267537--100267577 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
100267527 TTAAAGAGAT
100267537 AAAAAATTAGAAAAAACAACAG
1 AAAAAATTAGAAAAAACAACAG
*
100267559 AAAAAA-TA-AAAAAATAACA
1 AAAAAATTAGAAAAAACAACA
100267578 ATGCATAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (22 bp):
AAAAAATTAGAAAAAACAACAG
Found at i:100271649 original size:18 final size:18
Alignment explanation
Indices: 100271622--100271673 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
100271612 AAGCAGTCAT
*
100271622 ACTAATAAAAATAAAACA
1 ACTAACAAAAATAAAACA
*
100271640 ACTAACAAAACACAAAAACA
1 ACTAACAAAA-A-TAAAACA
100271660 A--AACAAAAATAAAA
1 ACTAACAAAAATAAAA
100271674 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.14
17 1 0.03
18 16 0.55
19 1 0.03
20 7 0.24
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.10
Consensus pattern (18 bp):
ACTAACAAAAATAAAACA
Found at i:100271667 original size:11 final size:11
Alignment explanation
Indices: 100271628--100271684 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
100271618 TCATACTAAT
100271628 AAAAATAAAAC
1 AAAAATAAAAC
100271639 AACTAACA-AAACAC
1 AA--AA-ATAAA-AC
*
100271653 AAAAACAAAAC
1 AAAAATAAAAC
*
100271664 AAAAATAAAAT
1 AAAAATAAAAC
100271675 AAAAATAAAA
1 AAAAATAAAA
100271685 GTACAATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 24 0.62
12 5 0.13
13 5 0.13
14 5 0.13
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (11 bp):
AAAAATAAAAC
Found at i:100273354 original size:3 final size:3
Alignment explanation
Indices: 100273346--100273387 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
100273336 AAACTAAAAG
* *
100273346 TAA TAA TAA TAA CAA TAA TAA T-A TGAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
100273388 ACAAAAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.91
4 1 0.03
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:100273366 original size:15 final size:15
Alignment explanation
Indices: 100273346--100273387 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
100273336 AAACTAAAAG
100273346 TAATAATAATAACAA
1 TAATAATAATAACAA
100273361 TAATAAT-ATGAACAA
1 TAATAATAAT-AACAA
100273376 TAATAATAATAA
1 TAATAATAATAA
100273388 ACAAAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (15 bp):
TAATAATAATAACAA
Found at i:100278330 original size:17 final size:17
Alignment explanation
Indices: 100278308--100278341 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
100278298 GACTTTCTCC
100278308 TTTCTTCTTATCTTTGT
1 TTTCTTCTTATCTTTGT
100278325 TTTCTTCTTATCTTTGT
1 TTTCTTCTTATCTTTGT
100278342 CATATATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTCTTCTTATCTTTGT
Found at i:100279056 original size:3 final size:3
Alignment explanation
Indices: 100279031--100279120 Score: 54
Period size: 3 Copynumber: 32.7 Consensus size: 3
100279021 CTAATAGTAG
* * * *
100279031 AAT AAT AAG AA- ACT AAT ATT AAT AAT AA- ACAA AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* *
100279075 AA- AAT CAT TAT AAT AAT -AT AAT AA- AA- AAT AAT AA- AA- AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100279116 AAT AA
1 AAT AA
100279121 AAAGTAAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
2 16 0.23
3 53 0.76
4 1 0.01
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:100279073 original size:35 final size:35
Alignment explanation
Indices: 100279031--100279115 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
100279021 CTAATAGTAG
*
100279031 AATAATAAGAAACTAA-TATTAATAATA-AACAAAA
1 AATAATAAGAAAATAATTA-TAATAATATAACAAAA
* * *
100279065 TAATAATAATAAAATCATTATAATAATATAATAAAA
1 -AATAATAAGAAAATAATTATAATAATATAACAAAA
100279101 AATAATAA-AAAATAA
1 AATAATAAGAAAATAA
100279116 AATAAAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 6 0.14
35 29 0.67
36 8 0.19
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.27
Consensus pattern (35 bp):
AATAATAAGAAAATAATTATAATAATATAACAAAA
Found at i:100279122 original size:10 final size:10
Alignment explanation
Indices: 100279051--100279115 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
100279041 AACTAATATT
*
100279051 AATAATAAAC
1 AATAATAAAA
*
100279061 AA-AAT-AAT
1 AATAATAAAA
100279069 AATAATAAAA
1 AATAATAAAA
* *
100279079 TCATTATAATAA
1 -AATAATAA-AA
*
100279091 TATAATAAAA
1 AATAATAAAA
100279101 AATAATAAAA
1 AATAATAAAA
100279111 AATAA
1 AATAA
100279116 AATAAAAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
8 4 0.09
9 6 0.14
10 20 0.45
11 12 0.27
12 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
AATAATAAAA
Found at i:100295411 original size:24 final size:24
Alignment explanation
Indices: 100295369--100295520 Score: 94
Period size: 25 Copynumber: 6.2 Consensus size: 24
100295359 AAACTCATGT
*
100295369 GAGCCATGTAATGGGAAGCTCCAT-A
1 GAGCCAT-TAACGGGAAGCT-CATAA
100295394 GAGCCATTAACGGGAAGCTCATAA
1 GAGCCATTAACGGGAAGCTCATAA
* * * *
100295418 TAGCCAATAACGGGAAGGTTCA-AGC
1 GAGCCATTAACGGGAA-GCTCATA-A
* ***
100295443 GAGCCAATATTAGGAAGCTCCA-AA
1 GAGCCATTAACGGGAAGCT-CATAA
* * *
100295467 GAGCAATTAATCGGGAAGCCCAGAA
1 GAGCCATTAA-CGGGAAGCTCATAA
* *
100295492 GAGCCATATAACTGGACGCTCATAA
1 GAGCCAT-TAACGGGAAGCTCATAA
100295517 GAGC
1 GAGC
100295521 TGCGATGTGT
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
23 3 0.03
24 38 0.39
25 54 0.55
26 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATAA
Found at i:100300534 original size:62 final size:62
Alignment explanation
Indices: 100300373--100300600 Score: 192
Period size: 62 Copynumber: 3.7 Consensus size: 62
100300363 GGTTCACATG
* * * * * * *
100300373 GCCAGGGATACGGACGTGTGCCCAGGTCGTGTAACTCACT-GT-TTGAGGTGTAAAAACCACACG
1 GCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTAATCAT-A-GTAT-AAAACCACACA
* * * * * *
100300436 GCCAGGGACACGGGTGTGTGCCTAGGCCATGAAACTCACTAATCATCA-TATAAAATCATACA
1 GCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTAATCAT-AGTATAAAACCACACA
* * * ** *
100300498 GCCAGGGACACGGGCGTGTGCCCAAGTCGTGTAACTCATTGTTTATAGTATAAAACCACACA
1 GCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTAATCATAGTATAAAACCACACA
* * * *
100300560 GCTAAGGACACGGGCGTGTGACCAGGCCGTGTGACTCACTA
1 GCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTA
100300601 TTTGTGCTTA
Statistics
Matches: 128, Mismatches: 34, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
61 1 0.01
62 89 0.70
63 35 0.27
64 1 0.01
65 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (62 bp):
GCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTAATCATAGTATAAAACCACACA
Found at i:100302867 original size:27 final size:26
Alignment explanation
Indices: 100302767--100302877 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
100302757 AGGAAACGTC
* * *
100302767 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
100302794 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
100302821 CTGGTGGCTCTGCCACCATTATCTGTAT
1 CTGGTGGCTCTGCCA-CATTATCTGT-T
* *
100302849 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
100302875 CTG
1 CTG
100302878 ACAGCCATGC
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:100302871 original size:54 final size:54
Alignment explanation
Indices: 100302767--100302877 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
100302757 AGGAAACGTC
*
100302767 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
100302821 CTGGTGGCTCTGCCACCATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
100302875 CTG
1 CTG
100302878 ACAGCCATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:100308986 original size:62 final size:61
Alignment explanation
Indices: 100308819--100309099 Score: 215
Period size: 62 Copynumber: 4.5 Consensus size: 61
100308809 CGTAGGTTTT
* * * ** * *
100308819 ACACAGCCAGGGACACGGGCATGTGCCTAGGCTGTGTAACTCACTGTTTGAGGTGTA-AAAAGC
1 ACACGGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTT-A--TCTATAAAATC
* * * * * ** *
100308882 ATACGGCCAGGGATAGGGGTATGTCCCCAGGCTGTGTAACTCACTATTTATCTTATAAAATC
1 ACACGGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTATC-TATAAAATC
** * * * *
100308944 ACACGGCCAGGGACATGGGTGTGTGCCCAAGCCATGTAACTCACTGTTCATAGTATAAAACC
1 ACACGGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTAT-CTATAAAATC
* * * * * *
100309006 ACACGGCCAGGGACACGAGCATGTGCCCAGGCGATGTGATTCACTGTTTGTGCT-TAAAATCC
1 ACACGGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTAT-CTATAAAAT-C
* *
100309068 ACACGGCCAAGGCACATGGGCGTGTGCCCAGG
1 ACACGGCC-AGGGACATGGGCATGTGCCCAGG
100309100 TCGTATGGCA
Statistics
Matches: 174, Mismatches: 39, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
60 1 0.01
61 7 0.04
62 106 0.61
63 60 0.34
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (61 bp):
ACACGGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTATCTATAAAATC
Found at i:100311553 original size:13 final size:12
Alignment explanation
Indices: 100311527--100311561 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
100311517 TAAATTATTC
100311527 TATTTTATTTTA
1 TATTTTATTTTA
100311539 TATTTTATATTTA
1 TATTTTAT-TTTA
*
100311552 TATTTAATTT
1 TATTTTATTT
100311562 AATTTGTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTTTATTTTA
Found at i:100311958 original size:27 final size:28
Alignment explanation
Indices: 100311901--100311958 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
100311891 TTGATTTAAA
* * *
100311901 TTTTTATTTACTTTTACAATTTACTTTT
1 TTTTTATTTACTTATACAATTTAATTAT
100311929 TTTTTATTT-CTTAT-CAATTTTAATTAT
1 TTTTTATTTACTTATACAA-TTTAATTAT
100311956 TTT
1 TTT
100311959 ATAATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.12
27 14 0.54
28 9 0.35
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTTTATTTACTTATACAATTTAATTAT
Found at i:100315899 original size:17 final size:17
Alignment explanation
Indices: 100315870--100315912 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
100315860 AAAACTATCA
100315870 TTTACATTTTTTTTGGT
1 TTTACATTTTTTTTGGT
*
100315887 TTTAC-TTTATTTTTTGT
1 TTTACATTT-TTTTTGGT
*
100315904 TTTAAATTT
1 TTTACATTT
100315913 AAAAGTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (17 bp):
TTTACATTTTTTTTGGT
Found at i:100316075 original size:41 final size:41
Alignment explanation
Indices: 100316006--100316347 Score: 393
Period size: 41 Copynumber: 8.4 Consensus size: 41
100315996 CGTTTTACCA
* * *
100316006 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
* * * *
100316046 AAAACACCTCTAAAAGA-CGGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACCGGAGCATTAGCGGCGCTTTTTGT
** *
100316087 AAAACGCCGCTAAAAATTGGAGCATCAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
** **
100316128 AAAACGCCGCTAAAAGTCGGAGCATTAGCGGCATTTTTTGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
*
100316169 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCACCTTTTT-T
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGC-GCTTTTTGT
* * *
100316210 GAAACACCGCTAAAAACCGGAGCATTAGCGGTGCTTTTTGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
* * **
100316251 GAAATGCCGCTAAAAACCATAGCATTAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
** ** *
100316292 AAAACGCCGCTAAAAATTGGAGCATTAGCAACACTTTTTGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
*
100316333 AAAATGCCGCTAAAA
1 AAAACGCCGCTAAAA
100316348 GTCATATAAC
Statistics
Matches: 261, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
40 20 0.08
41 236 0.90
42 5 0.02
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTTGT
Found at i:100316456 original size:36 final size:36
Alignment explanation
Indices: 100316387--100316456 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
100316377 AAAAAAATCA
* * * *
100316387 TAAACACTAATCTATAACCCCTAAAATAGTAAACCC
1 TAAACACTAAACTACAACCCCTAAAACACTAAACCC
*
100316423 TAAACACTAAACTACAACCCCTAAAACCCTAAAC
1 TAAACACTAAACTACAACCCCTAAAACACTAAAC
100316457 TGGTTTATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (36 bp):
TAAACACTAAACTACAACCCCTAAAACACTAAACCC
Found at i:100316914 original size:15 final size:15
Alignment explanation
Indices: 100316894--100316952 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
100316884 AGGGTTAAAA
100316894 GTTAT-GGGTTTACGG
1 GTTATGGGGTTTA-GG
100316909 GTTATGGGGTTTAGG
1 GTTATGGGGTTTAGG
* * *
100316924 GTT-TAGGATATAGG
1 GTTATGGGGTTTAGG
100316938 TGTTA-GGGGTTTAGG
1 -GTTATGGGGTTTAGG
100316953 ATTTAGGGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 8 0.23
15 20 0.57
16 7 0.20
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.39
Consensus pattern (15 bp):
GTTATGGGGTTTAGG
Found at i:100317090 original size:17 final size:17
Alignment explanation
Indices: 100317064--100317107 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
100317054 AATCTATATA
* *
100317064 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
100317081 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
100317097 TTAAAAAATTT
1 TTAAAAAATTT
100317108 TCAAGGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:100317791 original size:29 final size:29
Alignment explanation
Indices: 100317728--100317793 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
100317718 TAATCAACTT
* * *
100317728 TTTTTTCCAAACAATTTTCATTTTTAAAC
1 TTTTTTCCAAACAATTTTCAATATCAAAC
100317757 TCTTTTTCC-AACAATTTTCAAATATCAAAC
1 T-TTTTTCCAAACAATTTTC-AATATCAAAC
100317787 TTTTTTC
1 TTTTTTC
100317794 ACTTGTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTTTCCAAACAATTTTCAATATCAAAC
Found at i:100329686 original size:27 final size:27
Alignment explanation
Indices: 100329656--100329724 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
100329646 TATGAACCTC
* *
100329656 CCACATTAGATAGTCATGACGGACTTT
1 CCACATAAGATAGTCATGACAGACTTT
*
100329683 CCACATAAGATAGTCCTGACAGACTTT
1 CCACATAAGATAGTCATGACAGACTTT
* *
100329710 CAACATCAGATAGTC
1 CCACATAAGATAGTC
100329725 TTGATGGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (27 bp):
CCACATAAGATAGTCATGACAGACTTT
Found at i:100330648 original size:22 final size:21
Alignment explanation
Indices: 100330623--100330680 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
100330613 GCAACATGCA
100330623 CCTTATGTTGAGCCATAGCAGC
1 CCTTATGTTGAGCCATAGCA-C
* * *
100330645 CCTTGTGTTGAGTCATAGCAT
1 CCTTATGTTGAGCCATAGCAC
*
100330666 CC-TATGTTAAGCCAT
1 CCTTATGTTGAGCCAT
100330681 TAGCCCAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 10 0.33
21 2 0.07
22 18 0.60
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (21 bp):
CCTTATGTTGAGCCATAGCAC
Found at i:100340944 original size:18 final size:18
Alignment explanation
Indices: 100340917--100340951 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100340907 TGGAGAGTCA
*
100340917 CACGCTCGCCTATGTGGT
1 CACGCACGCCTATGTGGT
100340935 CACGCACGCCTATGTGG
1 CACGCACGCCTATGTGG
100340952 CTTGGGACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.23
Consensus pattern (18 bp):
CACGCACGCCTATGTGGT
Found at i:100342812 original size:43 final size:43
Alignment explanation
Indices: 100342746--100342828 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
100342736 AACATGTATA
*
100342746 CATCAATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCG
1 CATCAATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTCG
*
100342789 CATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 CATCAATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
100342829 CACATATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
CATCAATAATGAACTCAGACCTCTCAACGAGCTCGGATGCTCG
Found at i:100342858 original size:42 final size:43
Alignment explanation
Indices: 100342751--100342877 Score: 130
Period size: 43 Copynumber: 3.0 Consensus size: 43
100342741 GTATACATCA
* * *
100342751 ATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCGCATCC
1 ATAACGAACTCGGACCTCTCAACGAGCTCGGATGCTCACATAC
* * *
100342794 ATAATGAACTCAGACCTCTCAACGAGCTCGGATGC-CACATAT
1 ATAACGAACTCGGACCTCTCAACGAGCTCGGATGCTCACATAC
* * * * * * *
100342836 ATCACGAACTTGGACCACTCAACAAGTTTGGATTCTCACATA
1 ATAACGAACTCGGACCTCTCAACGAGCTCGGATGCTCACATA
100342878 TATTGTTAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
42 30 0.43
43 40 0.57
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
ATAACGAACTCGGACCTCTCAACGAGCTCGGATGCTCACATAC
Found at i:100343206 original size:5 final size:5
Alignment explanation
Indices: 100343196--100343234 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
100343186 TTGTGTGTTC
100343196 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAGT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTT
100343235 CACAAATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:100350752 original size:15 final size:15
Alignment explanation
Indices: 100350718--100350777 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
100350708 TATAGATAGC
* * *
100350718 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
100350733 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
100350748 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
100350763 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
100350778 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:100354743 original size:43 final size:42
Alignment explanation
Indices: 100354628--100354743 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
100354618 TACATCCATA
* * * * *
100354628 ATGAACTCGGACCTCTCAATGAGTTCAGATGCCACATATATC
1 ATGAACTTGGACCACTCAACGAGTTCGGATTCCACATATATC
* * *
100354670 ACGAACTTGGACCACTCAACAAGTTTGGATTCTCACATATATC
1 ATGAACTTGGACCACTCAACGAGTTCGGATTC-CACATATATC
* *
100354713 ATGAACTTGGACCGCTCAACGAGCTCGGATT
1 ATGAACTTGGACCACTCAACGAGTTCGGATT
100354744 TCTAAATTCC
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGAACTTGGACCACTCAACGAGTTCGGATTCCACATATATC
Found at i:100358742 original size:6 final size:6
Alignment explanation
Indices: 100358732--100358798 Score: 75
Period size: 6 Copynumber: 11.3 Consensus size: 6
100358722 AAATTCTAGG
* * *
100358732 AAAATA CAAATA AAAATA AAAATA AAAATA AAAACTA ATAAGA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
*
100358780 AAAA-G AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AA
100358799 TGGACTCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 8 0.16
6 38 0.75
7 5 0.10
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:100371512 original size:22 final size:23
Alignment explanation
Indices: 100371464--100371512 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
100371454 TACCACACAG
* * *
100371464 TAGGCACTGAAGTGCTTTAACAG
1 TAGGCACCGAAGTGCTTGAACAA
100371487 TAGGCACCGAAGTGC-TGAACAA
1 TAGGCACCGAAGTGCTTGAACAA
100371509 TAGG
1 TAGG
100371513 GAACATAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (23 bp):
TAGGCACCGAAGTGCTTGAACAA
Found at i:100373059 original size:16 final size:16
Alignment explanation
Indices: 100373022--100373075 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
100373012 TTTGGTTCAT
100373022 TGTAATGGAATAG-GG
1 TGTAATGGAATAGAGG
* *
100373037 CTATAATTGAATAGAGG
1 -TGTAATGGAATAGAGG
*
100373054 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGG
100373070 TGTAAT
1 TGTAAT
100373076 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:100373258 original size:25 final size:26
Alignment explanation
Indices: 100373230--100373279 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
100373220 ATGATTATTG
*
100373230 TTATTGTT-ATTAAATTTTAATAAAT
1 TTATTGTTAAATAAATTTTAATAAAT
*
100373255 TTATTGTTAAATATATTTTAATAAA
1 TTATTGTTAAATAAATTTTAATAAA
100373280 AATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAT
Done.