Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 51 of 332
Found at i:15117113 original size:40 final size:40
Alignment explanation
Indices: 15117043--15117149 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
15117033 GAAACTGTTT
* * ** *
15117043 GGGCCTTAGCCCACTCAGTTGTAGAATCAGATATATAATA
1 GGGCCTTAGCCCAATCAGATACAGAATCAGAAATATAATA
* *
15117083 GGGCCTTAGCCCAATCAGATACAGAGTCAGAAATATATTA
1 GGGCCTTAGCCCAATCAGATACAGAATCAGAAATATAATA
* * *
15117123 GGGCCTCAGCCTAATCAGACACAGAAT
1 GGGCCTTAGCCCAATCAGATACAGAAT
15117150 GCAAATTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (40 bp):
GGGCCTTAGCCCAATCAGATACAGAATCAGAAATATAATA
Found at i:15124857 original size:42 final size:40
Alignment explanation
Indices: 15124769--15124877 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 40
15124759 TCTGATCTAC
* *
15124769 ATTCTGTATTTGATTGGGCTGAGGCCCTAATATATTTTTG
1 ATTCTGTATTTGATTGGGCTAAGGCCCTAATATATATTTG
*
15124809 ACTCTGTATTTGATTGGGCTAAGGCCCTATTATATATATTTG
1 ATTCTGTATTTGATTGGGCTAAGGCCCTA--ATATATATTTG
* * *
15124851 ATTCTGTAATCGAGTGGGCTAAGGCCC
1 ATTCTGTATTTGATTGGGCTAAGGCCC
15124878 AAACTGTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 27 0.45
42 33 0.55
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (40 bp):
ATTCTGTATTTGATTGGGCTAAGGCCCTAATATATATTTG
Found at i:15136551 original size:39 final size:41
Alignment explanation
Indices: 15136466--15136544 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 41
15136456 CTGTATGCAT
**
15136466 ACTGTATCTGAAATGGGCTAAGGCCCTAATTTATATCTGAG
1 ACTGTATCTGAAATGGGCTAAGGCCCTAAACTATATCTGAG
15136507 ACTGTATCTG-AATGGGCTAAGG-CCTAAACTATATCTGA
1 ACTGTATCTGAAATGGGCTAAGGCCCTAAACTATATCTGA
15136545 ATCTGTAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 14 0.39
40 12 0.33
41 10 0.28
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (41 bp):
ACTGTATCTGAAATGGGCTAAGGCCCTAAACTATATCTGAG
Found at i:15136712 original size:28 final size:28
Alignment explanation
Indices: 15136672--15136728 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
15136662 AAACATAGAC
15136672 AGACCGGTGCGGCAGAGGGCTCAACGCT
1 AGACCGGTGCGGCAGAGGGCTCAACGCT
15136700 AGACCGGTGCGGCAGAGGGCTCAACGCT
1 AGACCGGTGCGGCAGAGGGCTCAACGCT
15136728 A
1 A
15136729 ACTACATGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.39, T:0.11
Consensus pattern (28 bp):
AGACCGGTGCGGCAGAGGGCTCAACGCT
Found at i:15140172 original size:34 final size:34
Alignment explanation
Indices: 15140129--15140196 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
15140119 AGGCTCTATA
15140129 AATTTTGTAACTTTTCCTGCATTGTTCTTGAACT
1 AATTTTGTAACTTTTCCTGCATTGTTCTTGAACT
15140163 AATTTTGTAACTTTTCCTGCATTGTTCTTGAACT
1 AATTTTGTAACTTTTCCTGCATTGTTCTTGAACT
15140197 TTGTTTTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (34 bp):
AATTTTGTAACTTTTCCTGCATTGTTCTTGAACT
Found at i:15140359 original size:19 final size:20
Alignment explanation
Indices: 15140332--15140380 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
15140322 TTAAAATTAA
* *
15140332 TTTATATTTA-ATTGTATTT
1 TTTAAATTTATATAGTATTT
*
15140351 TTTAGATTTTATATAGTATTT
1 TTTA-AATTTATATAGTATTT
15140372 TTTAAATTT
1 TTTAAATTT
15140381 TTAGGTGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTAAATTTATATAGTATTT
Found at i:15140684 original size:44 final size:43
Alignment explanation
Indices: 15140593--15140684 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
15140583 TCAAATTCAA
* * *
15140593 TTTAATTATTTTATTTTTTATTTTAGGTAAATAAGATTAATTT
1 TTTAATTATTTTATTTTTCATTTTAGATAAATAAAATTAATTT
* *
15140636 TTTAATTGTTTTATTTTTCATTTT-GAATCAAATAAAATTATTTT
1 TTTAATTATTTTATTTTTCATTTTAG-AT-AAATAAAATTAATTT
15140680 TTTAA
1 TTTAA
15140685 AGTTTTGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 23 0.55
44 18 0.43
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (43 bp):
TTTAATTATTTTATTTTTCATTTTAGATAAATAAAATTAATTT
Found at i:15141161 original size:5 final size:5
Alignment explanation
Indices: 15141151--15141177 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15141141 TGTAAACACC
15141151 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
15141178 AGGCTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:15141574 original size:13 final size:13
Alignment explanation
Indices: 15141556--15141593 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
15141546 ACCCAACCCA
*
15141556 ACCCAACCCATTT
1 ACCCAACCCAATT
*
15141569 ACCCAACCTAATT
1 ACCCAACCCAATT
15141582 ACCCAACCCAAT
1 ACCCAACCCAAT
15141594 ACAAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:15141789 original size:28 final size:26
Alignment explanation
Indices: 15141748--15141805 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
15141738 CTCCTAATTG
15141748 AAAATTTCAAATCTCTCC-AAACCTTC
1 AAAATTTCAAATCTC-CCAAAACCTTC
15141774 AAAATCTTCAAAATCTCCCAAAACCTTC
1 AAAAT-TTC-AAATCTCCCAAAACCTTC
15141802 AAAA
1 AAAA
15141806 GTATCATAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 19 0.66
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAATTTCAAATCTCCCAAAACCTTC
Found at i:15145487 original size:17 final size:17
Alignment explanation
Indices: 15145467--15145564 Score: 70
Period size: 17 Copynumber: 5.4 Consensus size: 17
15145457 ATTTCAAGAC
15145467 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* **
15145484 TTATGTAGTGATTCATAGA
1 TTATGTAATG-TTTTTA-A
*
15145503 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* * **
15145521 TTATGTAGTGATTCAAA
1 TTATGTAATGTTTTTAA
15145538 GTCTTATGTAATGTTTTTAA
1 ---TTATGTAATGTTTTTAA
15145558 TTATGTA
1 TTATGTA
15145565 GTGATTCAAT
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
17 28 0.47
18 5 0.08
19 5 0.08
20 21 0.36
ACGTcount: A:0.31, C:0.04, G:0.14, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:15145504 original size:37 final size:36
Alignment explanation
Indices: 15145459--15145573 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 36
15145449 ATGTGTTAAT
15145459 TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
1 TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
*
15145495 TTCATAGACTTATGTAATATTTTTAATTATGTAGTGA
1 TTCA-AGACTTATGTAATGTTTTTAATTATGTAGTGA
*
15145532 TTCAAAGTCTTATGTAATGTTTTTAATTATGTAGTGA
1 TTC-AAGACTTATGTAATGTTTTTAATTATGTAGTGA
15145569 TTCAA
1 TTCAA
15145574 TTCGGGTAAT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
36 6 0.08
37 67 0.91
38 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (36 bp):
TTCAAGACTTATGTAATGTTTTTAATTATGTAGTGA
Found at i:15145599 original size:9 final size:9
Alignment explanation
Indices: 15145572--15145619 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
15145562 GTAGTGATTC
*
15145572 AATTCGGGT
1 AATTCGGTT
15145581 AA-TCGGTT
1 AATTCGGTT
*
15145589 AATTTGGTT
1 AATTCGGTT
*
15145598 AATTCGGGT
1 AATTCGGTT
15145607 AATTCGGTT
1 AATTCGGTT
15145616 AATT
1 AATT
15145620 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:15151711 original size:26 final size:26
Alignment explanation
Indices: 15151678--15151736 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
15151668 TAATTTATTT
15151678 ATAAATAAATAA-ATT-AATTAAATTAA
1 ATAAATAAATAATATTCAATT--ATTAA
15151704 ATAAAT-AATAATATTCAATTATTAA
1 ATAAATAAATAATATTCAATTATTAA
15151729 ACTAAATA
1 A-TAAATA
15151737 TTAATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 11 0.38
26 14 0.48
27 4 0.14
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAAATAAATAATATTCAATTATTAA
Found at i:15151723 original size:22 final size:22
Alignment explanation
Indices: 15151679--15151724 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
15151669 AATTTATTTA
*
15151679 TAAATAAATAAATTAATTAAAT
1 TAAATAAATAAAATAATTAAAT
*
15151701 TAAATAAATAATAAT-ATTCAAT
1 TAAATAAATAA-AATAATTAAAT
15151723 TA
1 TA
15151725 TTAAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATAAATAAAATAATTAAAT
Found at i:15153916 original size:21 final size:20
Alignment explanation
Indices: 15153892--15153930 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
15153882 GTTAAAAATA
15153892 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
15153913 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
15153931 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:15160737 original size:34 final size:35
Alignment explanation
Indices: 15160696--15160765 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
15160686 TAAAATAAAT
*
15160696 ATAATA-TTTTTTATATAAAAGTTTAAAATTATGG
1 ATAATATTTTTTTATATAAAAATTTAAAATTATGG
15160730 ATAATATTTTTTTATATAAAAATTTAAAATTATGG
1 ATAATATTTTTTTATATAAAAATTTAAAATTATGG
15160765 A
1 A
15160766 CAGACTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 6 0.18
35 28 0.82
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (35 bp):
ATAATATTTTTTTATATAAAAATTTAAAATTATGG
Found at i:15163674 original size:27 final size:28
Alignment explanation
Indices: 15163642--15163697 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
15163632 AAAATGATAA
* *
15163642 TTCAAGTACTAAAATGAGAAAAA-AAGT
1 TTCAAGTACCAAAATGAAAAAAAGAAGT
*
15163669 TTCAAGTACCAAAATTAAAAAAAGAAGT
1 TTCAAGTACCAAAATGAAAAAAAGAAGT
15163697 T
1 T
15163698 ATAGTTCAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.23
Consensus pattern (28 bp):
TTCAAGTACCAAAATGAAAAAAAGAAGT
Found at i:15166193 original size:14 final size:14
Alignment explanation
Indices: 15166174--15166200 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15166164 TAATATTTTT
15166174 AATTTTTAATTATA
1 AATTTTTAATTATA
15166188 AATTTTTAATTAT
1 AATTTTTAATTAT
15166201 TGTTGATCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTAATTATA
Found at i:15168876 original size:14 final size:15
Alignment explanation
Indices: 15168857--15168893 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15168847 TTAAAGAAAA
15168857 ATAATATATTA-ATT
1 ATAATATATTACATT
15168871 ATAATAATATTACATT
1 ATAAT-ATATTACATT
15168887 A-AATATA
1 ATAATATA
15168894 AATATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 9 0.43
16 4 0.19
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATATATTACATT
Found at i:15174297 original size:135 final size:135
Alignment explanation
Indices: 15174099--15174803 Score: 903
Period size: 135 Copynumber: 5.2 Consensus size: 135
15174089 ATATGCTCTG
* ** * * * * * *
15174099 CTCCTGCTTAGTGAAGAT-AAGATTGGTGGCTGAAATCTGCTCCATTGTCGATCCATGGAGATAA
1 CTCCTGCTTAGTGAAGATAAAG-TTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAA
* * * * * * * * * ** * * *
15174163 GATTCACCGAAATTTGGTCTGCTCCGCTCCTGCTCAGCGAAGATAAGACCTAGTATATTTAGCTT
65 GATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCT
15174228 GCTCCA
130 GCTCCA
* * * * **
15174234 CTTCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGTTTAATCGCCGGTACGTGGAGATAAG
1 CTCCTGCTTAGTGAAGATAAAGTTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAG
* * * * ** * *
15174299 ATTCTCCAAAATTCAATCTGCTTCACTCCTGCTCAATTAAGATAAGATTTGGTATATTTAGCCTG
66 ATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCTG
15174364 CTCCA
131 CTCCA
* * * * *
15174369 CTCCTACTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGTCGGTATGTGGAGATAAG
1 CTCCTGCTTAGTGAAGATAAAGTTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAG
*
15174434 ATTCTCCAAAACTCGATCTGCTTCACTCTTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCTG
66 ATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCTG
15174499 CTCCA
131 CTCCA
* * *
15174504 CTCCTGCTTAGTAAAGAT-AAGATTGGTGATTGGAATCTACTCCATCGCCGGTACGTGGAGATAA
1 CTCCTGCTTAGTGAAGATAAAG-TTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAA
15174568 GATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCT
65 GATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCT
15174633 GCTCCA
130 GCTCCA
* * *
15174639 CTCCTGCTTAATGAAGAT-AAGATTGGTGATTGGAATCTGCTCCATCGCCGTTACGTGGAGATAA
1 CTCCTGCTTAGTGAAGATAAAG-TTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAA
15174703 GATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCT
65 GATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCT
15174768 GCTCCA
130 GCTCCA
* *
15174774 CTCCTGCTTAGTGAAGATAAGGCTGATGAT
1 CTCCTGCTTAGTGAAGATAAAGTTGATGAT
15174804 ATCTGTCTTT
Statistics
Matches: 503, Mismatches: 64, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
134 2 0.00
135 496 0.99
136 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (135 bp):
CTCCTGCTTAGTGAAGATAAAGTTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAG
ATTCTCCAAAACTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAACCTG
CTCCA
Found at i:15174641 original size:45 final size:45
Alignment explanation
Indices: 15174586--15174794 Score: 165
Period size: 45 Copynumber: 4.6 Consensus size: 45
15174576 AAAACTCGAT
* *
15174586 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
1 CTGCTCCACTCCTGCTTAGTGAAGATAAGATCGGGTATGTTTAAC
* * ** *
15174631 CTGCTCCACTCCTGCTTAATGAAGATAAGAT-TGGTGAT-TGGAAT
1 CTGCTCCACTCCTGCTTAGTGAAGATAAGATCGGGT-ATGTTTAAC
* * **** *** ** *
15174675 CTGCTCCA-TCGCCG-TTACGTGGAGATAAGATTCTCCAAAACTCGAT
1 CTGCTCCACTC-CTGCTTA-GTGAAGATAAGA-TCGGGTATGTTTAAC
* *
15174721 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCGGGTATGTTTAAC
1 CTGCTCCACTCCTGCTTAGTGAAGATAAGATCGGGTATGTTTAAC
15174766 CTGCTCCACTCCTGCTTAGTGAAGATAAG
1 CTGCTCCACTCCTGCTTAGTGAAGATAAG
15174795 GCTGATGATA
Statistics
Matches: 122, Mismatches: 34, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
43 5 0.04
44 26 0.21
45 64 0.52
46 23 0.19
47 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTTAGTGAAGATAAGATCGGGTATGTTTAAC
Found at i:15190545 original size:20 final size:21
Alignment explanation
Indices: 15190504--15190545 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
15190494 TTTTTTATGT
*
15190504 TAATCATTTTATGTATTTTAA
1 TAATCATTTTATATATTTTAA
15190525 TAAT-ATTTTATAT-TTTATAA
1 TAATCATTTTATATATTT-TAA
15190545 T
1 T
15190546 TTAAAGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATCATTTTATATATTTTAA
Found at i:15218455 original size:37 final size:37
Alignment explanation
Indices: 15218405--15218499 Score: 181
Period size: 37 Copynumber: 2.6 Consensus size: 37
15218395 TTATAAAGGC
15218405 TAGCTGATTTAAGATCGTAACCTATTCATATTTGAGT
1 TAGCTGATTTAAGATCGTAACCTATTCATATTTGAGT
*
15218442 TAGCTGATTTAAGATCGCAACCTATTCATATTTGAGT
1 TAGCTGATTTAAGATCGTAACCTATTCATATTTGAGT
15218479 TAGCTGATTTAAGATCGTAAC
1 TAGCTGATTTAAGATCGTAAC
15218500 TCCTAAACAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (37 bp):
TAGCTGATTTAAGATCGTAACCTATTCATATTTGAGT
Found at i:15218557 original size:142 final size:142
Alignment explanation
Indices: 15218297--15218604 Score: 445
Period size: 142 Copynumber: 2.2 Consensus size: 142
15218287 CTTTTAAAAA
* * * * * * *
15218297 AGTTAACTGATCTAAGATTGCAACCTATTTATCTTTGAGTTAGTTGATTTAAGATCACAACTTCT
1 AGTTAGCTGATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAACTCCT
* * * *
15218362 AAACAACTCGATGACCTACGTTTACAATTGATTTTATAAAGGCTAGCTGATTTAAGATCGTAACC
66 AAACAACTCGATGACCTACGTTTACAACTGATTATATAAAGGCTAGCTAATTTAAGATCGCAACC
15218427 TATTCATATTTG
131 TATTCATATTTG
**
15218439 AGTTAGCTGATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCGTAACTCCT
1 AGTTAGCTGATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAACTCCT
* * * * *
15218504 AAACAGCTCGATGACCTACGTTTATAGCTGATTATATAAAGGTTAGCTAATTTAAGATTGCAACC
66 AAACAACTCGATGACCTACGTTTACAACTGATTATATAAAGGCTAGCTAATTTAAGATCGCAACC
15218569 TATTCATATTTG
131 TATTCATATTTG
*
15218581 AGTTAGCTGAATTAAGATCGCAAC
1 AGTTAGCTGATTTAAGATCGCAAC
15218605 TCTAAACAGC
Statistics
Matches: 147, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
142 147 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (142 bp):
AGTTAGCTGATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCACAACTCCT
AAACAACTCGATGACCTACGTTTACAACTGATTATATAAAGGCTAGCTAATTTAAGATCGCAACC
TATTCATATTTG
Found at i:15218675 original size:104 final size:105
Alignment explanation
Indices: 15218448--15218675 Score: 318
Period size: 104 Copynumber: 2.2 Consensus size: 105
15218438 GAGTTAGCTG
* *
15218448 ATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCGTAACTCCTAAACAGCTC
1 ATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGAATTAAGATCGCAACTCCTAAACAGCTC
* * *
15218513 GATGACCTACGTTTATAGCTGATTATATAAAGGTTAGCTA
66 AATAACCTACGTTTATAGCTGATTATATAAAGGTTAACTA
*
15218553 ATTTAAGATTGCAACCTATTCATATTTGAGTTAGCTGAATTAAGATCGCAACT-CTAAACAGCTC
1 ATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGAATTAAGATCGCAACTCCTAAACAGCTC
* * * *
15218617 AATAACTTAC-TTTCACT-GTTGATTTTATAAATGTTAACTA
66 AATAACCTACGTTT-A-TAGCTGATTATATAAAGGTTAACTA
*
15218657 ATTTAAGATCACAACCTAT
1 ATTTAAGATCGCAACCTAT
15218676 CTAGTGCTGG
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
103 3 0.03
104 55 0.50
105 51 0.47
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (105 bp):
ATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGAATTAAGATCGCAACTCCTAAACAGCTC
AATAACCTACGTTTATAGCTGATTATATAAAGGTTAACTA
Found at i:15218700 original size:104 final size:105
Alignment explanation
Indices: 15218448--15218702 Score: 268
Period size: 104 Copynumber: 2.4 Consensus size: 105
15218438 GAGTTAGCTG
* * ** *
15218448 ATTTAAGATCGCAACCTATTCATATTTGAGTTAGCTGATTTAAGATCGTAACTCCTAAACAGCTC
1 ATTTAAGATCACAACCTATTCATATCTGAGTTAAATGATTTAAGATCGCAACTCCTAAACAGCTC
* * *
15218513 GATGACCTACGTTTATAGCTGATTATATAAAGGTTAGCTA
66 AATAACCTACGTTTATAGCTGATTATATAAAGGTTAACTA
** * ** *
15218553 ATTTAAGATTGCAACCTATTCATATTTGAGTTAGCTGAATTAAGATCGCAACT-CTAAACAGCTC
1 ATTTAAGATCACAACCTATTCATATCTGAGTTAAATGATTTAAGATCGCAACTCCTAAACAGCTC
* * * *
15218617 AATAACTTAC-TTTCACT-GTTGATTTTATAAATGTTAACTA
66 AATAACCTACGTTT-A-TAGCTGATTATATAAAGGTTAACTA
*
15218657 ATTTAAGATCACAACCTA-TC-TAGTGCTGGGTTAAATGATTTAAGAT
1 ATTTAAGATCACAACCTATTCATA-T-CTGAGTTAAATGATTTAAGAT
15218703 TATAATTCTT
Statistics
Matches: 129, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
102 2 0.02
103 6 0.05
104 70 0.54
105 51 0.40
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (105 bp):
ATTTAAGATCACAACCTATTCATATCTGAGTTAAATGATTTAAGATCGCAACTCCTAAACAGCTC
AATAACCTACGTTTATAGCTGATTATATAAAGGTTAACTA
Found at i:15220528 original size:111 final size:111
Alignment explanation
Indices: 15220333--15220547 Score: 394
Period size: 111 Copynumber: 1.9 Consensus size: 111
15220323 TAGCATAAGG
* *
15220333 GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTTAATTGATA
1 GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
15220398 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCTTGCAAT
66 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCTTGCAAT
*
15220444 GGGTTCGCATCACACTTAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
1 GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
*
15220509 AAAAGTATACAAAAGTTTCCCAGGCTCATCTTTTGTCCC
66 AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCC
15220548 CTACAATGTA
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (111 bp):
GGGTTCGCATCACACTCAATATTTGATAGAGGTTGCAAAGATCATGAACGAGTCTTCAATTGACA
AAAAGTATACAAAAATTTCCCAGGCTCATCTTTTGTCCCTTGCAAT
Found at i:15221457 original size:18 final size:20
Alignment explanation
Indices: 15221415--15221457 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15221405 ATTTACCAAC
*
15221415 GAAAGTAGAAATAAAATTTA
1 GAAAGTAGAAAGAAAATTTA
*
15221435 GAAAGT-GAAAGAAATTTTA
1 GAAAGTAGAAAGAAAATTTA
15221454 -AAAG
1 GAAAG
15221458 ATTACCTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 11 0.52
20 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (20 bp):
GAAAGTAGAAAGAAAATTTA
Found at i:15225585 original size:36 final size:36
Alignment explanation
Indices: 15225538--15225610 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
15225528 TCCTAACCAC
15225538 CCACCACTTAGAATTGTAATACATCTGGAATTCTAA
1 CCACCACTTAGAATTGTAATACATCTGGAATTCTAA
15225574 CCACCACTTAGAATTGTAATACATCTGGAATTCTAA
1 CCACCACTTAGAATTGTAATACATCTGGAATTCTAA
15225610 C
1 C
15225611 ACAGGACCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (36 bp):
CCACCACTTAGAATTGTAATACATCTGGAATTCTAA
Found at i:15227029 original size:15 final size:14
Alignment explanation
Indices: 15227009--15227047 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
15226999 GAATAGGTAC
15227009 ATAATAGGATAATA
1 ATAATAGGATAATA
*
15227023 TATAATAAGATAATA
1 -ATAATAGGATAATA
15227038 ATAATGAGGA
1 ATAAT-AGGA
15227048 CAAAAGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.28
Consensus pattern (14 bp):
ATAATAGGATAATA
Found at i:15227199 original size:3 final size:3
Alignment explanation
Indices: 15227186--15227367 Score: 93
Period size: 3 Copynumber: 60.7 Consensus size: 3
15227176 GTTTTAAAAA
* * * *
15227186 AAT AAT GAT AAT AAA AAT AAT AGT AAT AAT AAT ACT AAT AATT CAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT
* ** * * * **
15227233 AAT AAT AAC GGT AGT GAT AA- AAT AAT AAT AAT AGT GGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
15227280 AAT AAT AAC AAT ACT AAT AAA AAT AAT AGT AAC AAC AAT AAC AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
15227325 AAT AAA AAT ACT AA- AAA AAT AAT AA- ATAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
15227368 ATATAAAACT
Statistics
Matches: 133, Mismatches: 38, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
2 6 0.05
3 121 0.91
4 4 0.03
5 2 0.02
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:15228774 original size:44 final size:44
Alignment explanation
Indices: 15228723--15228845 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
15228713 TAATTTCAAG
* * **
15228723 CTGCTCCACTGCAACTTCAGGGAGATAAGGATTGTGGCTTTAGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGATTGTGACTTTAAC
* *
15228767 CTGCTCCACTGCAACTTCAAGGAGATAA-GACTAGAGACTTTAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGA-TTGTGACTTTAAC
* * *
15228811 CTGCTCCACTGCAACATCAAGTAGATAAGGTTTGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGGATTGT
15228846 TTTGATCTAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 63 0.95
45 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGGATTGTGACTTTAAC
Found at i:15229129 original size:132 final size:132
Alignment explanation
Indices: 15228984--15229242 Score: 383
Period size: 132 Copynumber: 2.0 Consensus size: 132
15228974 GACTTGTATA
* * *
15228984 TTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTGCTACC
1 TTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACC
* * * *
15229049 TCGGGAAGATAAGATTCATCGTCTTTGATCTACCCCACTACTGCTTAGGGAGATAAGATCTGCAA
66 ACGGGAAGATAAGATTCACCATCTTTGATCTACCCCACTACTACTTAGGGAGATAAGATCTGCAA
15229114 TC
131 TC
* * ** * *
15229116 TTCAGCCTTCTCCACTGCTGCTTAAGGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACC
1 TTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACC
* *
15229181 ACGGGAAGATAAGATTCACCATCTTTGATCTACTCCACTACTATTTAGGGAGATAAGATCTG
66 ACGGGAAGATAAGATTCACCATCTTTGATCTACCCCACTACTACTTAGGGAGATAAGATCTG
15229243 TGAATTCACC
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 112 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
TTCAACCTGCTCCACTGCAACTCAAAGAGATAAGGCTAGTGGCCTAAATCTGCTTCCCTACTACC
ACGGGAAGATAAGATTCACCATCTTTGATCTACCCCACTACTACTTAGGGAGATAAGATCTGCAA
TC
Found at i:15241211 original size:20 final size:21
Alignment explanation
Indices: 15241186--15241225 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15241176 AGGACAAAAG
15241186 TAAAATAA-AAATGAAATAAA
1 TAAAATAATAAATGAAATAAA
*
15241206 TAAAATAATAATTGAAATAA
1 TAAAATAATAAATGAAATAA
15241226 CAAAGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATAATAAATGAAATAAA
Found at i:15241331 original size:3 final size:3
Alignment explanation
Indices: 15241318--15241493 Score: 92
Period size: 3 Copynumber: 59.7 Consensus size: 3
15241308 GTTTTAAAAA
* * * * * *
15241318 AAT AAT GAT AAT AAA AAT AAT AGT AAT AAT AGT ACT AAT AAT ACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * **
15241365 AAT AAT AAT GAC AGT AGT GAT AA- AAT AAT AAT AAT AGT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
15241412 AAT AAT AAT AAC AAT ACT AAT AA- AAA AAT AGT AAC AGA- AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
15241456 AAT ACT AAA AAT AAT AAT AA- ATAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
15241494 ATATAAAACT
Statistics
Matches: 127, Mismatches: 39, Indels: 14
0.71 0.22 0.08
Matches are distributed among these distances:
2 7 0.06
3 118 0.93
4 2 0.02
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:15242884 original size:24 final size:25
Alignment explanation
Indices: 15242857--15242905 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
15242847 GCTTTTTTAT
*
15242857 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
15242881 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
15242906 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:15242898 original size:25 final size:23
Alignment explanation
Indices: 15242869--15242933 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
15242859 AATAAAAAAC
*
15242869 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
15242894 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
15242915 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
15242934 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:15242932 original size:19 final size:20
Alignment explanation
Indices: 15242895--15242933 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
15242885 TCAAATACAT
15242895 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
15242915 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
15242934 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:15244156 original size:32 final size:32
Alignment explanation
Indices: 15244120--15244180 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
15244110 TTATATAGTA
15244120 GAAGGACCAAATCCATAATTTGACCTTTCGTT
1 GAAGGACCAAATCCATAATTTGACCTTTCGTT
*
15244152 GAAGGATCAAATCCATAATTTGACCTTTC
1 GAAGGACCAAATCCATAATTTGACCTTTC
15244181 ATTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (32 bp):
GAAGGACCAAATCCATAATTTGACCTTTCGTT
Found at i:15245028 original size:19 final size:19
Alignment explanation
Indices: 15244989--15245025 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15244979 ATTGGGCAAA
15244989 ATAAAAAAATAATAGACTT
1 ATAAAAAAATAATAGACTT
*
15245008 ATAAATAAATAATA-ACTT
1 ATAAAAAAATAATAGACTT
15245026 TATTTAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAAAATAATAGACTT
Found at i:15249224 original size:24 final size:24
Alignment explanation
Indices: 15249192--15249251 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
15249182 TTCTCTACTT
* *
15249192 AATCGGATTTATTCTCCTAGTTAA
1 AATCTGATTTATTCTCCTAGTCAA
* *
15249216 AATCTGA-TTATTTTTTCTAGTCAA
1 AATCTGATTTA-TTCTCCTAGTCAA
*
15249240 ATTCTGATTTAT
1 AATCTGATTTAT
15249252 CCAAGATGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.48
Consensus pattern (24 bp):
AATCTGATTTATTCTCCTAGTCAA
Found at i:15255331 original size:25 final size:26
Alignment explanation
Indices: 15255303--15255361 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
15255293 CTATATTACG
*
15255303 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
15255328 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
15255353 TATATATAT
1 TATATATAT
15255362 ATATTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 2 0.07
25 25 0.89
26 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:15255407 original size:22 final size:22
Alignment explanation
Indices: 15255377--15255418 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15255367 TTTCTACATG
*
15255377 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
15255399 TTATATTATGTATGTATTTT
1 TTATATTATGTATATATTTT
15255419 TTACACCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:15255451 original size:20 final size:20
Alignment explanation
Indices: 15255426--15255484 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
15255416 TTTTTACACC
15255426 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
15255446 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
15255469 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
15255485 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:15255623 original size:16 final size:15
Alignment explanation
Indices: 15255599--15255632 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15255589 TAATTATTAT
15255599 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
15255615 TATTTTAATATTTTA
1 TATTCTAATATTTTA
15255630 TAT
1 TAT
15255633 ACTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:15264181 original size:18 final size:20
Alignment explanation
Indices: 15264141--15264185 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
15264131 AATTCGAATG
15264141 AAATAATAACAATGATATCA
1 AAATAATAACAATGATATCA
15264161 AAATAA-AA-AATGAATAT-A
1 AAATAATAACAATG-ATATCA
15264179 AAA-AATA
1 AAATAATA
15264186 TTAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 6 0.26
20 6 0.26
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATAATAACAATGATATCA
Found at i:15264182 original size:19 final size:20
Alignment explanation
Indices: 15264141--15264182 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
15264131 AATTCGAATG
*
15264141 AAATAATAACAATGATATCA
1 AAATAATAACAATGATATAA
15264161 AAATAA-AA-AATGAATATAA
1 AAATAATAACAATG-ATATAA
15264180 AAA
1 AAA
15264183 ATATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATAATAACAATGATATAA
Found at i:15271152 original size:5 final size:5
Alignment explanation
Indices: 15271129--15271177 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
15271119 AATACTTAAT
* *
15271129 AATAA TAAT-A AAT-A AATAA AATAA ATTAA AATAA AAT-A AAGAA AATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
15271177 A
1 A
15271178 GAAAATTGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
4 10 0.27
5 24 0.65
6 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:15273386 original size:93 final size:93
Alignment explanation
Indices: 15273131--15273443 Score: 321
Period size: 93 Copynumber: 3.3 Consensus size: 93
15273121 GTCATTCGTG
* * *
15273131 TGTGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCCAGTGTAAGAC
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACACGA-GATGAGAGCCAGTGTAAGAC
* *
15273195 CATGTCTGGGACATGGCATCGGCATGGAGA
64 CATGTCTGGGACATGGCATCGGCCTCGAGA
* * * * * * * * * *
15273225 TGGGGGCTAGTGTAAGACATGTCTGAGACATGGCATCGGCATGGAGACGGGGGCTAGTGTAAGA-
1 TGTGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGACA-CGAGATGAGAGCCAGTGTAAGAC
15273289 CATGTCTGGGACAT-GCATCGGCCTCGAGA
64 CATGTCTGGGACATGGCATCGGCCTCGAGA
* *
15273318 TGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGATAGCCA-TCGTAAGAC
1 TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGAGATGAGAGCCAGT-GTAAGAC
* * *
15273382 CATGTCTGGGACATGGCAT-TGACTTGAGA
64 CATGTCTGGGACATGGCATCGGCCTCGAGA
* * *
15273411 TATGAGCCAGTGTAAGACCGTGTTTGGGACATG
1 TGTGAGCCAGTGTAAGA-CATGTCTGGGACATG
15273444 GTATCGGCAC
Statistics
Matches: 180, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
91 1 0.01
92 21 0.12
93 76 0.42
94 62 0.34
95 19 0.11
96 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (93 bp):
TGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACACGAGATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCCTCGAGA
Found at i:15273444 original size:47 final size:48
Alignment explanation
Indices: 15273139--15273449 Score: 231
Period size: 47 Copynumber: 6.6 Consensus size: 48
15273129 TGTGTGAGCT
* * *
15273139 AGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTACGA-GATGATAGCC
* * *** *
15273185 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGGAGATGGGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTA-CGAGATGATAGCC
* * * * *** *
15273233 AGTGTAAGA-CATGTCTGAGACATGGCATCGGC-ATGGAGACGGGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTA-CGAGATGATAGCC
*
15273280 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCT-CGAGATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTACGAGATGAT-AGCC
15273326 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACGAGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGATAGCC
* *
15273372 A-TCGTAAGACCATGTCTGGGACATGGCATTGACT-TGAGAT-ATGAGCC
1 AGT-GTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGAT-AGCC
* * *
15273419 AGTGTAAGACCGTGTTTGGGACATGGTATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
15273450 GCACTTTACC
Statistics
Matches: 228, Mismatches: 22, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
45 4 0.02
46 69 0.30
47 124 0.54
48 30 0.13
49 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGATAGCC
Found at i:15277746 original size:46 final size:46
Alignment explanation
Indices: 15277693--15277812 Score: 147
Period size: 48 Copynumber: 2.6 Consensus size: 46
15277683 TATGTACTAG
**
15277693 TGTAAGACATGTCTGGGACATGTATCAGCC-ACAT-T-CTGAGAGCCAA
1 TGTAAGACATGTCTGGGACATACATCAGCCTACATATAC--A-AGCCAA
*
15277739 TGTAAGACATGTCTGGGACATACATCAGCCTTGAGATATACAAGCCAA
1 TGTAAGACATGTCTGGGACATACATCAGCC-T-ACATATACAAGCCAA
15277787 TGTAAGACATGTCTGGGACATACATC
1 TGTAAGACATGTCTGGGACATACATC
15277813 GGCATTGAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
46 28 0.42
48 32 0.48
49 4 0.06
50 1 0.02
51 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATACATCAGCCTACATATACAAGCCAA
Found at i:15277804 original size:48 final size:48
Alignment explanation
Indices: 15277733--15278047 Score: 216
Period size: 49 Copynumber: 6.6 Consensus size: 48
15277723 ACATTCTGAG
*
15277733 AGCCAATGTAAGACATGTCTGGGACATACATCAGCCTTGAGATATACA
1 AGCCAATGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATACA
* ** *
15277781 AGCCAATGTAAGACATGTCTGGGACATACATCGGCATTGAGA-CGA-G
1 AGCCAATGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATACA
* * * *
15277827 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACA
1 AGCCAATGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATACA
* * * * * * *
15277875 AGCTAGTGTAAGACCA-GTATGGGACATGGCATCGGCAC-CGATAGATGA-A
1 AGCCAATGTAAGA-CATGTCTGGGACAT-ACATCGGC-CTTGAGATAT-ACA
* * * * *
15277924 AGCTAGTGTAAGACCTGTCTGGGACACGACATCGGCCTCT-ATATATGA-A
1 AGCCAATGTAAGACATGTCTGGGACA-TACATCGGCCT-TGAGATAT-ACA
* * * * * * * *
15277973 AGTCAGTGTAAGACCTGTCTGGGACATGGCATC-GACTT-TGATATGCT
1 AGCCAATGTAAGACATGTCTGGGACAT-ACATCGGCCTTGAGATATACA
*
15278020 AGCCAGTGTAAGACCATGTCTGGGACAT
1 AGCCAATGTAAGA-CATGTCTGGGACAT
15278048 GGCGTCGGCA
Statistics
Matches: 221, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
46 37 0.17
47 19 0.09
48 81 0.37
49 82 0.37
50 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGCCAATGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATACA
Found at i:15277869 original size:94 final size:95
Alignment explanation
Indices: 15277729--15278048 Score: 340
Period size: 94 Copynumber: 3.3 Consensus size: 95
15277719 AGCCACATTC
* * * * *
15277729 TGAGAGCCAATGTAAGACATGTCTGGGACATACATCAGCCTTGAGATATACAAGCCAATGTAAGA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAGA
*
15277794 CATGTCTGGGACAT-ACATCGGCATTGAGA
66 CATGTCTGGGACATGGCATCGGCATTGAGA
* * *
15277823 CGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAGA
* **
15277888 CCA-GTATGGGACATGGCATCGGCACCGATAGA
66 -CATGTCTGGGACATGGCATCGGCATTG--AGA
* * * * * * *
15277920 TGAAAGCTAGTGTAAGACCTGTCTGGGACACGACATCGGCCTCTATATATGA-AAGTCAGTGTAA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGAGATAT-ACAAGCCAGTGTAA
* * * *
15277984 GACCTGTCTGGGACATGGCATCGACTTTGATA
64 GACATGTCTGGGACATGGCATCGGCATTGAGA
**
15278016 TGCTAGCCAGTGTAAGACCATGTCTGGGACATG
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATG
15278049 GCGTCGGCAT
Statistics
Matches: 186, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
94 67 0.36
95 11 0.06
96 16 0.09
97 45 0.24
98 46 0.25
99 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (95 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGTGTAAGA
CATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:15277928 original size:49 final size:49
Alignment explanation
Indices: 15277827--15278056 Score: 231
Period size: 49 Copynumber: 4.7 Consensus size: 49
15277817 TTGAGACGAG
*
15277827 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACA
1 AGCTAGTGTAAGACCA-GTCTGGGACATGGCATCGGCCTCGATATATGA-A
* *
15277875 AGCTAGTGTAAGACCAGTATGGGACATGGCATCGGCAC-CGATAGATGAA
1 AGCTAGTGTAAGACCAGTCTGGGACATGGCATCGGC-CTCGATATATGAA
* * * *
15277924 AGCTAGTGTAAGACCTGTCTGGGACACGACATCGGCCTCTATATATGAA
1 AGCTAGTGTAAGACCAGTCTGGGACATGGCATCGGCCTCGATATATGAA
* * * * **
15277973 AG-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTG--ATATGCT
1 AGCT-AGTGTAAGACCAGTCTGGGACATGGCATCGGCCTCGATATATGAA
* *
15278020 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 AGCTAGTGTAAGACCA-GTCTGGGACATGGCATCGGC
15278057 ATCTTATCCC
Statistics
Matches: 153, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
47 18 0.12
48 43 0.28
49 90 0.59
50 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
AGCTAGTGTAAGACCAGTCTGGGACATGGCATCGGCCTCGATATATGAA
Found at i:15282904 original size:46 final size:46
Alignment explanation
Indices: 15282852--15283138 Score: 466
Period size: 46 Copynumber: 6.2 Consensus size: 46
15282842 AGTGTGCTCT
*
15282852 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
15282898 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
15282944 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
15282990 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
15283036 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
15283082 GTGACATGAAATGAATAAGACCATGGTCGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
15283128 ATGACATGAAA
1 CTGATATGAAA
15283139 ATAATGACAG
Statistics
Matches: 231, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 231 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:15283431 original size:16 final size:17
Alignment explanation
Indices: 15283410--15283442 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15283400 ATGATGGAGC
15283410 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
15283426 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
15283443 TACTTATGAA
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:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:15286144 original size:31 final size:32
Alignment explanation
Indices: 15286078--15286156 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
15286068 TTCTTCAACT
* *
15286078 TAAATTTCAATTGATTTGAATTCAAAACAATC
1 TAAATTTAAAATGATTTGAATTCAAAACAATC
* * *
15286110 TAAATTTGAAATGATTT-AATTCTAAA-TATCC
1 TAAATTTAAAATGATTTGAATTCAAAACAAT-C
15286141 TAAATTTAAAATGATT
1 TAAATTTAAAATGATT
15286157 AGAGCTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.05
31 24 0.59
32 15 0.37
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (32 bp):
TAAATTTAAAATGATTTGAATTCAAAACAATC
Found at i:15288063 original size:25 final size:26
Alignment explanation
Indices: 15288020--15288069 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
15288010 TTGTATTTAA
*
15288020 ATTAAATAATATATGAAAATTATTAT
1 ATTAAATAATATATGAAAATCATTAT
*
15288046 ATTAAATCATA-ATGAAAATCATTA
1 ATTAAATAATATATGAAAATCATTA
15288070 CGTTATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (26 bp):
ATTAAATAATATATGAAAATCATTAT
Found at i:15289356 original size:18 final size:18
Alignment explanation
Indices: 15289335--15289371 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15289325 ATTAATTTGA
15289335 TCAGCCTACTTAAGAGGC
1 TCAGCCTACTTAAGAGGC
*
15289353 TCAGCTTACTTAAGAGGC
1 TCAGCCTACTTAAGAGGC
15289371 T
1 T
15289372 AACTTATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (18 bp):
TCAGCCTACTTAAGAGGC
Found at i:15297384 original size:29 final size:27
Alignment explanation
Indices: 15297286--15297385 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 27
15297276 GATAAAAACA
* *
15297286 TAATAATAATTATGATTTTTTAATTTATA
1 TAATAATAATTAT--TTTATTAATTTATT
* **
15297315 TAATAATAATTATATTAAGAATTTTATT
1 TAATAATAATTATTTTATTAA-TTTATT
* *
15297343 AAATTATATATTATTTTATTAAGTTATATT
1 TAATAATA-ATTATTTTATTAA-TT-TATT
15297373 TAATAATAATTAT
1 TAATAATAATTAT
15297386 GTTAAAATAT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
27 4 0.07
28 11 0.20
29 30 0.55
30 10 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TAATAATAATTATTTTATTAATTTATT
Found at i:15297384 original size:58 final size:56
Alignment explanation
Indices: 15297300--15297453 Score: 186
Period size: 58 Copynumber: 2.7 Consensus size: 56
15297290 AATAATTATG
* *
15297300 ATTTT-TTAATT-TATATAATAATAATTATATTAAGAATTTTATTAAATTATATATT
1 ATTTTATTAATTATATTTAATAATAATTATATTAA-AATTTGATTAAATTATATATT
* * * *
15297355 ATTTTATTAAGTTATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATT
1 ATTTTATTAA-TTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATT
* *
15297412 ATTTTTATTAAATTATTTTTAATAATAATTTTATTAAAATTT
1 A-TTTTATT-AATTATATTTAATAATAATTATATTAAAATTT
15297454 AATAACAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
55 5 0.06
56 4 0.05
57 20 0.24
58 53 0.63
59 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (56 bp):
ATTTTATTAATTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATT
Found at i:15297428 original size:14 final size:14
Alignment explanation
Indices: 15297409--15297449 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
15297399 TAAATTATTT
15297409 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
15297423 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
*
15297436 A-TAATTTTATTAA
1 ATTATTTTTATTAA
15297449 A
1 A
15297450 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:15297640 original size:16 final size:16
Alignment explanation
Indices: 15297619--15297670 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
15297609 TGACTTACTG
*
15297619 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
15297635 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
15297651 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
15297667 ATTA
1 ATTA
15297671 TAGTGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:15300594 original size:11 final size:11
Alignment explanation
Indices: 15300578--15300617 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15300568 AATAATATAT
15300578 ATTATTTTTAC
1 ATTATTTTTAC
*
15300589 ATTATTTATAC
1 ATTATTTTTAC
*
15300600 ATTATTATTTAT
1 ATTATT-TTTAC
15300612 ATTATT
1 ATTATT
15300618 ATACATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATTTTTAC
Found at i:15300598 original size:22 final size:22
Alignment explanation
Indices: 15300573--15300649 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
15300563 ATAAAAATAA
*
15300573 TATATATTATTTTTACATTATT
1 TATATATTATTTTTAAATTATT
* *
15300595 TATACATTATTATTTATATTATT
1 TATATATTATT-TTTAAATTATT
* * * *
15300618 ATACATTTTATTTATAAATTTTAT
1 -TATATATTATTTTTAAATTAT-T
15300642 TATATATT
1 TATATATT
15300650 TTACTATAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
22 10 0.24
23 23 0.55
24 9 0.21
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TATATATTATTTTTAAATTATT
Found at i:15300617 original size:12 final size:12
Alignment explanation
Indices: 15300575--15300711 Score: 51
Period size: 11 Copynumber: 11.8 Consensus size: 12
15300565 AAAAATAATA
15300575 TATATTATT-TT
1 TATATTATTATT
* *
15300586 TACATTATT-TA
1 TATATTATTATT
*
15300597 TACATTATTATT
1 TATATTATTATT
15300609 TATATTATTA--
1 TATATTATTATT
*
15300619 TACATT-TTATT
1 TATATTATTATT
15300630 TATAAATT-TTATT
1 TAT--ATTATTATT
15300643 ATATATT-TTACTAT
1 -TATATTATTA-T-T
* **
15300657 AAATATTATTCCT
1 -TATATTATTATT
* *
15300670 TACATTTTTATT
1 TATATTATTATT
* *
15300682 T-TATTATAAAT
1 TATATTATTATT
15300693 TATATT-TTATT
1 TATATTATTATT
15300704 T-TATTATT
1 TATATTATT
15300712 CATTAATTAC
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
9 3 0.03
10 9 0.09
11 33 0.35
12 28 0.29
13 10 0.11
14 10 0.11
15 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATTATT
Found at i:15300632 original size:25 final size:24
Alignment explanation
Indices: 15300579--15300666 Score: 65
Period size: 25 Copynumber: 3.7 Consensus size: 24
15300569 ATAATATATA
*
15300579 TTATT-TTTACATTATTTATACA--
1 TTATTATTTATATTA-TTATACATT
15300601 TTATTATTTATATTATTATACATT
1 TTATTATTTATATTATTATACATT
** * *
15300625 TTATTTATAAATTTTATTATATATT
1 TTA-TTATTTATATTATTATACATT
* **
15300650 TTACTATAAATATTATT
1 TTATTATTTATATTATT
15300667 CCTTACATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 12 0.22
23 8 0.15
24 15 0.27
25 20 0.36
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTATTTATATTATTATACATT
Found at i:15300638 original size:13 final size:12
Alignment explanation
Indices: 15300613--15300666 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
15300603 ATTATTTATA
*
15300613 TTATTATACATT
1 TTATTATAAATT
15300625 TTATTTATAAATT
1 TTA-TTATAAATT
*
15300638 TTATTATATATT
1 TTATTATAAATT
* *
15300650 TTACTATAAATA
1 TTATTATAAATT
15300662 TTATT
1 TTATT
15300667 CCTTACATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATAAATT
Found at i:15300666 original size:37 final size:35
Alignment explanation
Indices: 15300589--15300666 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
15300579 TTATTTTTAC
* * *
15300589 ATTATTTATACATTATTATTTATATTATTATACAT
1 ATTATTTATAAATTATTATTTATATTACTATAAAT
*
15300624 TTTATTTATAAATT-TTATTATATATTTTACTATAAAT
1 ATTATTTATAAATTATTATT-TATA--TTACTATAAAT
15300661 ATTATT
1 ATTATT
15300667 CCTTACATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 5 0.14
35 16 0.46
37 14 0.40
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (35 bp):
ATTATTTATAAATTATTATTTATATTACTATAAAT
Found at i:15300716 original size:22 final size:23
Alignment explanation
Indices: 15300660--15300716 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
15300650 TTACTATAAA
*
15300660 TATTATTCCTTACATTTTTATTT
1 TATTATTCATTACATTTTTATTT
** *
15300683 TATTATAAATTATA-TTTTATTT
1 TATTATTCATTACATTTTTATTT
15300705 TATTATTCATTA
1 TATTATTCATTA
15300717 ATTACGTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTCATTACATTTTTATTT
Found at i:15312796 original size:44 final size:44
Alignment explanation
Indices: 15312746--15313183 Score: 646
Period size: 44 Copynumber: 10.0 Consensus size: 44
15312736 CACCGATAGT
*
15312746 AGATTTGGCGTCTCTGTATT-ATTAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGA-CAGAGAGCAGATCGAAGATAAC
* *
15312790 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
15312834 AGATTTGGCATCTCTATATT-ATCAGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGA-CAGAGAGCAGATCGAAGATAAC
* *
15312878 AGATTTGGCGTCTCTGTATTGACAGAGAGCAAATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
15312922 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
*
15312966 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * *
15313010 AGATTTGGCATCTCTGTATCGACAGAAAACAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
15313054 ATATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
15313098 CGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
15313142 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
15313184 GTAGATCTGA
Statistics
Matches: 353, Mismatches: 38, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 350 0.99
45 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
Found at i:15314953 original size:11 final size:11
Alignment explanation
Indices: 15314937--15314976 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15314927 ATATATATAT
15314937 ATTATTTTTAC
1 ATTATTTTTAC
*
15314948 ATTATTTATAC
1 ATTATTTTTAC
*
15314959 ATTATTATTTAT
1 ATTATT-TTTAC
15314971 ATTATT
1 ATTATT
15314977 ATACATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATTTTTAC
Found at i:15314992 original size:35 final size:32
Alignment explanation
Indices: 15314949--15315032 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
15314939 TATTTTTACA
*
15314949 TTATTTATACATTATTATTTATATTATTATACATT
1 TTATTTATAAATT-TTA-TTATA-TATTATACATT
* *
15314984 TTATTTATAAATTTTATTATATGTTATATATT
1 TTATTTATAAATTTTATTATATATTATACATT
* *
15315016 TTA-CTATAAATATTATT
1 TTATTTATAAATTTTATT
15315033 CCTTTCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
31 12 0.27
32 12 0.27
33 5 0.11
34 3 0.07
35 12 0.27
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.60
Consensus pattern (32 bp):
TTATTTATAAATTTTATTATATATTATACATT
Found at i:15315000 original size:22 final size:21
Alignment explanation
Indices: 15314952--15314992 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15314942 TTTTACATTA
15314952 TTTATACATTATTATTTATAT
1 TTTATACATTATTATTTATAT
15314973 TATTATACATT-TTATTTATA
1 T-TTATACATTATTATTTATA
15314993 AATTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATACATTATTATTTATAT
Found at i:15321865 original size:26 final size:26
Alignment explanation
Indices: 15321829--15321912 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
15321819 CATGAAATTC
15321829 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
15321855 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
15321881 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
15321907 TTATCA
1 TTATCA
15321913 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:15323035 original size:33 final size:33
Alignment explanation
Indices: 15322988--15323055 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
15322978 TTAGGTGTTA
15322988 GGCCTATCGAGCCTTTAGGATTTTTTGTATTTG
1 GGCCTATCGAGCCTTTAGGATTTTTTGTATTTG
*
15323021 GGCCTATCGGGCCTTTAGGATTTTTTGTATTTG
1 GGCCTATCGAGCCTTTAGGATTTTTTGTATTTG
15323054 GG
1 GG
15323056 TCATTTGGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.15, G:0.28, T:0.44
Consensus pattern (33 bp):
GGCCTATCGAGCCTTTAGGATTTTTTGTATTTG
Found at i:15323407 original size:44 final size:44
Alignment explanation
Indices: 15323349--15323510 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 44
15323339 AGTATAGGAT
* * * *
15323349 TTGTTGCTTCAATCTATTCCACTACAACTTTACGGTGATTAGAC
1 TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
* * * *
15323393 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATGAGAC
1 TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
* * * *
15323437 TCGTATCTTCAATCTACTCCACAACAACTTTAAGGAGATGAGA-
1 TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
** * *
15323480 TTAGTAATTTCAATCTGCTCCACTGCAACTT
1 TT-GTAGCTTCAATCTACTCCACTACAACTT
15323511 AAGGGATATA
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
43 1 0.01
44 95 0.99
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
Found at i:15323458 original size:88 final size:88
Alignment explanation
Indices: 15323355--15323516 Score: 229
Period size: 88 Copynumber: 1.8 Consensus size: 88
15323345 GGATTTGTTG
* * * * * *
15323355 CTTCAATCTATTCCACTACAACTTTACGGTGATTAGACTT-GTAGCTTT-AATCTGCTCCACTGC
1 CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGA-TTAGTA-ATTTCAATCTGCTCCACTGC
*
15323418 AACTTTAGGGAGATGAGACTCGTAT
64 AACTTAAGGGAGATGAGACTCGTAT
15323443 CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGATTAGTAATTTCAATCTGCTCCACTGCAA
1 CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGATTAGTAATTTCAATCTGCTCCACTGCAA
15323508 CTTAAGGGA
66 CTTAAGGGA
15323517 TATAAGATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 5 0.08
88 60 0.92
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (88 bp):
CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGATTAGTAATTTCAATCTGCTCCACTGCAA
CTTAAGGGAGATGAGACTCGTAT
Found at i:15323525 original size:44 final size:45
Alignment explanation
Indices: 15323403--15323530 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
15323393 TTGTAGCTTT
* * *
15323403 AATCTGCTCCACTGCAACTTTAGGGAGATGAGACTCGT-ATCTTC
1 AATCTGCTCCACTGCAACTTAAGGGAGATGAGATTAGTAATCTTC
* **
15323447 AATCTACTCCACAACAACTTTAA-GGAGATGAGATTAGTAAT-TTC
1 AATCTGCTCCACTGCAAC-TTAAGGGAGATGAGATTAGTAATCTTC
* * *
15323491 AATCTGCTCCACTGCAACTTAAGGGATATAAGATTTGTAA
1 AATCTGCTCCACTGCAACTTAAGGGAGATGAGATTAGTAA
15323531 CTTGTAACAC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.06
44 60 0.87
45 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTAAGGGAGATGAGATTAGTAATCTTC
Found at i:15325158 original size:34 final size:35
Alignment explanation
Indices: 15325085--15325158 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 35
15325075 GGGACCTCTC
* *
15325085 ACACACACCCAGAACACATAACCACTAAAGCAGAT
1 ACACACACCCAGAACAAAAAACCACTAAAGCAGAT
15325120 -CACACA-CCAGAACAAAAAACCACTAAAGCAGAT
1 ACACACACCCAGAACAAAAAACCACTAAAGCAGAT
15325153 ACACAC
1 ACACAC
15325159 TTATGTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 25 0.69
34 11 0.31
ACGTcount: A:0.51, C:0.34, G:0.08, T:0.07
Consensus pattern (35 bp):
ACACACACCCAGAACAAAAAACCACTAAAGCAGAT
Found at i:15330762 original size:5 final size:5
Alignment explanation
Indices: 15330754--15330780 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15330744 TAACTAATTT
15330754 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
15330781 ATAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:15331386 original size:43 final size:44
Alignment explanation
Indices: 15331311--15331682 Score: 169
Period size: 43 Copynumber: 8.5 Consensus size: 44
15331301 CAAAAGTTCA
* *
15331311 CGGCATTTTTTAGAAAAAAACGCCGCTAAAGACCACGATCTTTAG
1 CGGCATTTTTTA-AAAAAAACGCCGCTAAAGACCAAGACCTTTAG
* * *
15331356 CGGCATTTTTT-ATAAAAGCGCCGCTGAAGACCAAGACCTTTAG
1 CGGCATTTTTTAAAAAAAACGCCGCTAAAGACCAAGACCTTTAG
* * * * * * *
15331399 CAGCA-CTCTT-AAAAAAACGCCGCCAAAGACTAGGACCTATAG
1 CGGCATTTTTTAAAAAAAACGCCGCTAAAGACCAAGACCTTTAG
* * * * ** *
15331441 CGGCGTTTTTT-CAAAAAGCACCGCTAAAAGTA-C-AGGTCTATAG
1 CGGCATTTTTTAAAAAAAACGCCGCT-AAAG-ACCAAGACCTTTAG
* * * * *
15331484 CGGCGCTTTTTT--AAAAAACGCCGCTATAGACCTATACTTTTAG
1 CGGC-ATTTTTTAAAAAAAACGCCGCTAAAGACCAAGACCTTTAG
* * * * *
15331527 CGGCGCTTTTGT-AAAAAAGCGCCGCTATAGACCAAGAACTTTAG
1 CGGC-ATTTTTTAAAAAAAACGCCGCTAAAGACCAAGACCTTTAG
* * * * *
15331571 CGGCGCTTTTGT--AAAAAACGCCGCTATAGACC-TGTACTTTTAG
1 CGGC-ATTTTTTAAAAAAAACGCCGCTAAAGACCAAG-ACCTTTAG
* * * * * *
15331614 CGGCGCTTTTGT-AGAAAAACGCCGCTATAGACC-TGTACTTTTAG
1 CGGC-ATTTTTTAAAAAAAACGCCGCTAAAGACCAAG-ACCTTTAG
* **
15331658 CGGCGCTTTTGCAAAAAAAACGCCG
1 CGGC-ATTTTTTAAAAAAAACGCCG
15331683 TTATAGTCCT
Statistics
Matches: 268, Mismatches: 49, Indels: 20
0.80 0.15 0.06
Matches are distributed among these distances:
41 1 0.00
42 36 0.13
43 119 0.44
44 89 0.33
45 23 0.09
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (44 bp):
CGGCATTTTTTAAAAAAAACGCCGCTAAAGACCAAGACCTTTAG
Found at i:15331559 original size:44 final size:43
Alignment explanation
Indices: 15331481--15331729 Score: 356
Period size: 44 Copynumber: 5.7 Consensus size: 43
15331471 TACAGGTCTA
* *
15331481 TAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCTATACTTT
1 TAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTGTACTTT
* *
15331524 TAGCGGCGCTTTTGTAAAAAAGCGCCGCTATAGACCAAGAAC-TT
1 TAGCGGCGCTTTTGTAAAAAA-CGCCGCTATAGACC-TGTACTTT
15331568 TAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTGTACTTT
1 TAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTGTACTTT
15331611 TAGCGGCGCTTTTGTAGAAAAACGCCGCTATAGACCTGTACTTT
1 TAGCGGCGCTTTTGTA-AAAAACGCCGCTATAGACCTGTACTTT
* * *
15331655 TAGCGGCGCTTTTGCAAAAAAAACGCCGTTATAGTCCTGTACTTT
1 TAGCGGCGCTTTTG--TAAAAAACGCCGCTATAGACCTGTACTTT
* *
15331700 TAGCGGCGCTTTTGCAAAAAAATGCCGCTA
1 TAGCGGCGCTTTTG-TAAAAAACGCCGCTA
15331730 ATTTGCCCAG
Statistics
Matches: 188, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
42 3 0.02
43 52 0.28
44 91 0.48
45 41 0.22
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
TAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTGTACTTT
Found at i:15331572 original size:87 final size:86
Alignment explanation
Indices: 15331481--15331729 Score: 347
Period size: 87 Copynumber: 2.8 Consensus size: 86
15331471 TACAGGTCTA
* *
15331481 TAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCTATACTTTTAGCGGCGCTTTTGTAAAAAAG
1 TAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAA-
15331546 CGCCGCTATAGACCAAGAAC-TT
65 CGCCGCTATAGACC-AGAACTTT
*
15331568 TAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTGTAGAAAAA
1 TAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTGTA-AAAAA
* *
15331633 CGCCGCTATAGACCTGTACTTT
65 CGCCGCTATAGACCAGAACTTT
* * * *
15331655 TAGCGGCGCTTTTGCAAAAAAAACGCCGTTATAGTCCTGTACTTTTAGCGGCGCTTTTGCAAAAA
1 TAGCGGCGCTTTT--ATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTG-TAAAA
*
15331720 AATGCCGCTA
63 AACGCCGCTA
15331730 ATTTGCCCAG
Statistics
Matches: 147, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
86 3 0.02
87 86 0.59
88 5 0.03
89 52 0.35
90 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (86 bp):
TAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTGTAAAAAAC
GCCGCTATAGACCAGAACTTT
Found at i:15332051 original size:21 final size:21
Alignment explanation
Indices: 15332027--15332071 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
15332017 TCTTGTTCTG
15332027 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
15332048 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
15332069 CTC
1 CTC
15332072 TTCTCTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.00, C:0.58, G:0.18, T:0.24
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:15332662 original size:18 final size:18
Alignment explanation
Indices: 15332630--15332667 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
15332620 TACAATATAG
15332630 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
15332649 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
15332666 TA
1 TA
15332668 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:15338247 original size:21 final size:21
Alignment explanation
Indices: 15338223--15338262 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15338213 AAATTAATTC
*
15338223 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
15338244 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
15338263 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:15343400 original size:15 final size:15
Alignment explanation
Indices: 15343380--15343410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15343370 CAAATAATAA
*
15343380 TATATATATTTATCT
1 TATATACATTTATCT
15343395 TATATACATTTATCT
1 TATATACATTTATCT
15343410 T
1 T
15343411 CTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:15344434 original size:41 final size:41
Alignment explanation
Indices: 15344208--15344483 Score: 337
Period size: 41 Copynumber: 6.8 Consensus size: 41
15344198 GGTTTATGAC
*
15344208 TTTTAGCGGCGTTTTATCC-AAAGCGCCGCTAATGATTTGGT
1 TTTTAGCGGCGTTTTA-CCTAAAGCGCCGCTAATGATCTGGT
* *
15344249 TTTTAGCGGCGTTTTACCCAAAGCGCCCCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
15344290 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
15344331 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATATGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
** *
15344372 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * * ** *
15344412 TTTTAACGGCGTTTTTTA-CTAAAACGCCGTTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
15344453 TTTTAGTGGCGTTTT-CCTTAAGACGCCGCTA
1 TTTTAGCGGCGTTTTACCTAAAG-CGCCGCTA
15344484 TTGCTCTGTA
Statistics
Matches: 207, Mismatches: 23, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
39 8 0.04
40 19 0.09
41 175 0.85
42 5 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
Found at i:15345193 original size:10 final size:10
Alignment explanation
Indices: 15345178--15345202 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15345168 TATACTTAGA
15345178 AGAGCATAGG
1 AGAGCATAGG
15345188 AGAGCATAGG
1 AGAGCATAGG
15345198 AGAGC
1 AGAGC
15345203 GAAAGGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.12, G:0.40, T:0.08
Consensus pattern (10 bp):
AGAGCATAGG
Found at i:15349955 original size:32 final size:32
Alignment explanation
Indices: 15349919--15349982 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
15349909 GACATTACTA
15349919 TGCTTATTCTCATGCTCTTACCATGCCAATGT
1 TGCTTATTCTCATGCTCTTACCATGCCAATGT
15349951 TGCTTATTCTCATGCTCTTACCATGCCAATGT
1 TGCTTATTCTCATGCTCTTACCATGCCAATGT
15349983 CTATCATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (32 bp):
TGCTTATTCTCATGCTCTTACCATGCCAATGT
Found at i:15360051 original size:6 final size:6
Alignment explanation
Indices: 15360033--15360064 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
15360023 TTAAGCCCAT
*
15360033 TACAGA TATAGA TACAGA TACAGA TACAGA TA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TA
15360065 TAAATTCGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (6 bp):
TACAGA
Found at i:15363927 original size:16 final size:16
Alignment explanation
Indices: 15363906--15363945 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
15363896 TTTAATACAT
15363906 ATGATGAAATGTAATG
1 ATGATGAAATGTAATG
15363922 ATGATGAAATGTAATG
1 ATGATGAAATGTAATG
15363938 ATGATGAA
1 ATGATGAA
15363946 TGAAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (16 bp):
ATGATGAAATGTAATG
Found at i:15367911 original size:15 final size:16
Alignment explanation
Indices: 15367885--15367920 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
15367875 ATAATAAATG
15367885 CACAATAAAAAGCAAA
1 CACAATAAAAAGCAAA
15367901 CACAA-AAAAAGCAAA
1 CACAATAAAAAGCAAA
15367916 C-CAAT
1 CACAAT
15367921 TTTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.67, C:0.22, G:0.06, T:0.06
Consensus pattern (16 bp):
CACAATAAAAAGCAAA
Found at i:15369824 original size:40 final size:41
Alignment explanation
Indices: 15369776--15369854 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
15369766 AACGGTTTGG
* *
15369776 GCCTTAGCCCATCTCAATA-CAGTATCAAAT-ATGTAGTAGA
1 GCCTTAGCCCATCACAATATCAGTAGC-AATCATGTAGTAGA
*
15369816 GCCTTAGCCCATCACAGTATCAGTAGCAATCATGTAGTA
1 GCCTTAGCCCATCACAATATCAGTAGCAATCATGTAGTA
15369855 TTCAGTAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 20 0.59
41 14 0.41
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (41 bp):
GCCTTAGCCCATCACAATATCAGTAGCAATCATGTAGTAGA
Found at i:15372770 original size:25 final size:27
Alignment explanation
Indices: 15372733--15372786 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
15372723 TCAAACATGC
15372733 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
15372759 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
15372785 AT
1 AT
15372787 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:15372794 original size:26 final size:27
Alignment explanation
Indices: 15372750--15372825 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
15372740 TCAATTTAAC
* * *
15372750 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
15372776 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
15372804 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
15372826 ATCTATTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:15374491 original size:25 final size:26
Alignment explanation
Indices: 15374475--15374541 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 26
15374465 TATATATTTA
15374475 TATTATA-TTTTATTATATA-ACATT
1 TATTATATTTTTATTATATATACATT
15374499 TATTATATTTTTATTATATATTAC--T
1 TATTATATTTTTATTATATA-TACATT
*
15374524 TATTGT-TTTTTATTATAT
1 TATTATATTTTTATTATAT
15374542 GTTATGTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 19 0.49
25 18 0.46
27 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
TATTATATTTTTATTATATATACATT
Found at i:15374507 original size:24 final size:24
Alignment explanation
Indices: 15374475--15374541 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
15374465 TATATATTTA
*
15374475 TATTATATTTTATTATATAACATT
1 TATTATATTTTATTATATAACACT
**
15374499 TATTATATTTTTATTATATATTACT
1 TATTATA-TTTTATTATATAACACT
* *
15374524 TATTGTTTTTTATTATAT
1 TATTATATTTTATTATAT
15374542 GTTATGTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 18 0.49
25 19 0.51
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
TATTATATTTTATTATATAACACT
Found at i:15374581 original size:12 final size:12
Alignment explanation
Indices: 15374566--15374590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15374556 ATATTATCTG
15374566 TTATATTATTCA
1 TTATATTATTCA
15374578 TTATATTATTCA
1 TTATATTATTCA
15374590 T
1 T
15374591 AATTTTAAAA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:15387120 original size:205 final size:205
Alignment explanation
Indices: 15386757--15387134 Score: 675
Period size: 205 Copynumber: 1.8 Consensus size: 205
15386747 TAGGCTGCAG
15386757 CATAACAGATATAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAACAGATATAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
15386822 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAACCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
15386887 AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGATGG
131 AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGATGG
15386952 AGAGCAGATA
196 AGAGCAGATA
* * *
15386962 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAACAGATATAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * *
15387027 CTTACAAGGAACAAACCGAAGACATAGTTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCT
66 CTTACAAGGAACAAACCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
*
15387092 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
131 AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAG
15387135 AAACAGATTT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
205 164 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CATAACAGATATAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
CTTACAAGGAACAAACCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCATTTCGATGG
AGAGCAGATA
Found at i:15387145 original size:43 final size:44
Alignment explanation
Indices: 15387097--15387179 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 44
15387087 AATCTAAGAT
*
15387097 GATTTGGCATCTCTGTATT-GTCAGAGAACAAATCGAAGAAACA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAACA
* * *
15387140 GATTTGGCGTCTCTGTATTCGGCGGAGAGCAAATCGAAGA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGA
15387180 TATCAACACG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
43 18 0.51
44 17 0.49
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAACA
Found at i:15388800 original size:11 final size:11
Alignment explanation
Indices: 15388756--15388806 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
15388746 TTTTCCTATA
*
15388756 TATATTTATAT
1 TATATTTTTAT
15388767 TATA-TTTTAT
1 TATATTTTTAT
*
15388777 TATATAAAATTTAT
1 TATAT---TTTTAT
15388791 TATATTTTTAT
1 TATATTTTTAT
15388802 TATAT
1 TATAT
15388807 ATTAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
14 10 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATATTTTTAT
Found at i:15388820 original size:16 final size:18
Alignment explanation
Indices: 15388788--15388827 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
15388778 ATATAAAATT
15388788 TATTATATTTTTATTATA
1 TATTATATTTTTATTATA
15388806 TATTA-ATTTTT-TTATA
1 TATTATATTTTTATTATA
*
15388822 TGTTAT
1 TATTAT
15388828 GTATATCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATATTTTTATTATA
Found at i:15388878 original size:12 final size:12
Alignment explanation
Indices: 15388863--15388887 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15388853 TATTTATGTT
15388863 TTATATTATTCA
1 TTATATTATTCA
15388875 TTATATTATTCA
1 TTATATTATTCA
15388887 T
1 T
15388888 AATTTTAAAA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:15390684 original size:17 final size:16
Alignment explanation
Indices: 15390648--15390700 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
15390638 AATTCGGCAG
* *
15390648 AGAACAAAGAAGAA-A
1 AGAAAAAAGAAAAAGA
15390663 AGAAAGAAAGAAAAAGA
1 AGAAA-AAAGAAAAAGA
15390680 AGAAAAAACGAAAAAGA
1 AGAAAAAA-GAAAAAGA
15390697 AGAA
1 AGAA
15390701 GTGGAGGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 4 0.12
16 11 0.33
17 18 0.55
ACGTcount: A:0.75, C:0.04, G:0.21, T:0.00
Consensus pattern (16 bp):
AGAAAAAAGAAAAAGA
Found at i:15392454 original size:20 final size:20
Alignment explanation
Indices: 15392429--15392467 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15392419 TAAATTTCAA
*
15392429 ATATAAAATATTCATTAATT
1 ATATAAAATACTCATTAATT
*
15392449 ATATAAATTACTCATTAAT
1 ATATAAAATACTCATTAAT
15392468 AAACTCAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAAAATACTCATTAATT
Found at i:15393553 original size:30 final size:29
Alignment explanation
Indices: 15393514--15393588 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
15393504 AATAATTAGT
* *
15393514 AAATGTAAAAATATACTTTAGCCCCTTAAA
1 AAATATAAAAATATA-TTTAACCCCTTAAA
* * *
15393544 AAATATAAAAATTTGATTTAATCCTTTAAA
1 AAATATAAAAATAT-ATTTAACCCCTTAAA
*
15393574 AATTATAAAAATATA
1 AAATATAAAAATATA
15393589 AATTATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 1 0.03
30 35 0.95
31 1 0.03
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (29 bp):
AAATATAAAAATATATTTAACCCCTTAAA
Found at i:15393593 original size:15 final size:17
Alignment explanation
Indices: 15393573--15393610 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
15393563 AATCCTTTAA
15393573 AAATTATAAAAAT-AT-
1 AAATTATAAAAATGATG
*
15393588 AAATTATTAAAATGATG
1 AAATTATAAAAATGATG
15393605 AAATTA
1 AAATTA
15393611 CTTTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 6 0.30
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AAATTATAAAAATGATG
Found at i:15394293 original size:15 final size:15
Alignment explanation
Indices: 15394266--15394301 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
15394256 TGATGGTATG
15394266 GATGGCTTTGGGAAT
1 GATGGCTTTGGGAAT
15394281 GATGG-TTTAGGGAAT
1 GATGGCTTT-GGGAAT
15394296 GATGGC
1 GATGGC
15394302 AATGGTGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.22, C:0.06, G:0.42, T:0.31
Consensus pattern (15 bp):
GATGGCTTTGGGAAT
Found at i:15394655 original size:17 final size:15
Alignment explanation
Indices: 15394632--15394671 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
15394622 GATAATAAAA
15394632 TATAATTTTATTATTT
1 TATAATTTTATT-TTT
15394648 TAATAA-TTTATTTTT
1 T-ATAATTTTATTTTT
15394663 TATAATTTT
1 TATAATTTT
15394672 TAAATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 7 0.32
17 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATAATTTTATTTTT
Found at i:15394709 original size:29 final size:30
Alignment explanation
Indices: 15394659--15394724 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
15394649 AATAATTTAT
15394659 TTTTTATAATTTTTAAATAATTAAAATAAA
1 TTTTTATAATTTTTAAATAATTAAAATAAA
* *
15394689 TTTTTATATTTTTTAAA-AATTAAAATATA
1 TTTTTATAATTTTTAAATAATTAAAATAAA
*
15394718 GTTTTAT
1 TTTTTAT
15394725 TATTACTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTTATAATTTTTAAATAATTAAAATAAA
Found at i:15396722 original size:19 final size:19
Alignment explanation
Indices: 15396698--15396748 Score: 93
Period size: 19 Copynumber: 2.6 Consensus size: 19
15396688 TCAGAAGCAG
15396698 GATCTCCTTCAAGACTGAA
1 GATCTCCTTCAAGACTGAA
15396717 GATCTCCTTCAAGACTGAA
1 GATCTCCTTCAAGACTGAA
15396736 GATCTCCATTCAA
1 GATCTCC-TTCAA
15396749 TTTCTTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (19 bp):
GATCTCCTTCAAGACTGAA
Found at i:15401037 original size:20 final size:20
Alignment explanation
Indices: 15401012--15401068 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 20
15401002 CACCCAATTT
15401012 TTATTTTATTTTATTTATTA
1 TTATTTTATTTTATTTATTA
*
15401032 TTA-TTTATTTTA-CTA--A
1 TTATTTTATTTTATTTATTA
15401048 TT-TTTTATTTTATTTATTA
1 TTATTTTATTTTATTTATTA
15401067 TT
1 TT
15401069 CTTATACTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 12 0.39
17 2 0.06
18 2 0.06
19 12 0.39
20 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTTATTTTATTTATTA
Found at i:15401643 original size:13 final size:13
Alignment explanation
Indices: 15401625--15401651 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15401615 TTTGTGATTA
15401625 TCATTGATGTGTT
1 TCATTGATGTGTT
15401638 TCATTGATGTGTT
1 TCATTGATGTGTT
15401651 T
1 T
15401652 TAGATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.22, T:0.56
Consensus pattern (13 bp):
TCATTGATGTGTT
Found at i:15404790 original size:21 final size:21
Alignment explanation
Indices: 15404711--15404791 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
15404701 TGTAAAGAGG
* *
15404711 GGCACACGATCGTGTGGCAAA
1 GGCACACGCTCGTGTGACAAA
** *
15404732 GATACACGCTCGTGTGA-AGAGG
1 GGCACACGCTCGTGTGACA-A-A
* *
15404754 GGCACACAGC-CATGTGACTAA
1 GGCACAC-GCTCGTGTGACAAA
15404775 GGCACACGCTCGTGTGA
1 GGCACACGCTCGTGTGA
15404792 ACCAAGGACA
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
20 3 0.07
21 27 0.61
22 12 0.27
23 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.32, T:0.16
Consensus pattern (21 bp):
GGCACACGCTCGTGTGACAAA
Found at i:15405467 original size:14 final size:15
Alignment explanation
Indices: 15405448--15405476 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15405438 CCACCGATTC
15405448 CAAAAAGG-AAGAAA
1 CAAAAAGGAAAGAAA
15405462 CAAAAAGGAAAGAAA
1 CAAAAAGGAAAGAAA
15405477 ACCAAAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.72, C:0.07, G:0.21, T:0.00
Consensus pattern (15 bp):
CAAAAAGGAAAGAAA
Found at i:15405881 original size:25 final size:23
Alignment explanation
Indices: 15405853--15405907 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
15405843 AATAAAAAAC
*
15405853 AAAAAAACCTCCACCGTGAATCTA
1 AAAAAAAACTCCACCGTGAAT-TA
**
15405877 AAAAAAGAACTCCATTGTGAATTA
1 AAAAAA-AACTCCACCGTGAATTA
15405901 AAAAAAA
1 AAAAAAA
15405908 TCAACATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 14 0.52
25 12 0.44
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAAAAAACTCCACCGTGAATTA
Found at i:15407083 original size:6 final size:6
Alignment explanation
Indices: 15407072--15407127 Score: 112
Period size: 6 Copynumber: 9.3 Consensus size: 6
15407062 TATGAAATTT
15407072 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
15407120 ATTATA AT
1 ATTATA AT
15407128 AAATAAAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATA
Done.