Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 27 of 150
Found at i:6971355 original size:9 final size:9
Alignment explanation
Indices: 6971343--6971400 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
6971333 CTGCCCTCTC
6971343 CTTCTCTTT
1 CTTCTCTTT
6971352 CTTCTTCTTCT
1 CTTC-TCTT-T
6971363 CTTCT-TTT
1 CTTCTCTTT
6971371 C-T-TC-TT
1 CTTCTCTTT
6971377 CTTCT-TATT
1 CTTCTCT-TT
6971386 CTTCTCTTT
1 CTTCTCTTT
6971395 CTTCTC
1 CTTCTC
6971401 CTTCACTCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 3 0.07
9 21 0.51
10 6 0.15
11 5 0.12
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (9 bp):
CTTCTCTTT
Found at i:6971358 original size:3 final size:3
Alignment explanation
Indices: 6971350--6971404 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
6971340 CTCCTTCTCT
*
6971350 TTC TTC TTC TTC -TC TTC TT- TTC TTC TTC TTC TTA TTC TTC -TC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
*
6971396 TTC TCC TTC
1 TTC TTC TTC
6971405 ACTCACCGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.14
3 36 0.82
4 2 0.05
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:6971373 original size:19 final size:20
Alignment explanation
Indices: 6971343--6971404 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 20
6971333 CTGCCCTCTC
6971343 CTTCTCTTTCTTCTTCTTCT
1 CTTCTCTTTCTTCTTCTTCT
6971363 CTTCT-TTTCTTCTTCTTCTTATT
1 CTTCTCTTTCTTCTTCTTC----T
*
6971386 CTTCTCTTTCTTCTCCTTC
1 CTTCTCTTTCTTCTTCTTC
6971405 ACTCACCGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 13 0.36
20 5 0.14
23 6 0.17
24 12 0.33
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTCTCTTTCTTCTTCTTCT
Found at i:6976861 original size:27 final size:27
Alignment explanation
Indices: 6976826--6976880 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
6976816 TATTATAAAT
6976826 ATATTTATACGTAAATATAAATTTTAA
1 ATATTTATACGTAAATATAAATTTTAA
*
6976853 ATATTTATATGTAAATATAAATTTTAA
1 ATATTTATACGTAAATATAAATTTTAA
6976880 A
1 A
6976881 ATTATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (27 bp):
ATATTTATACGTAAATATAAATTTTAA
Found at i:6976882 original size:14 final size:13
Alignment explanation
Indices: 6976837--6976880 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
6976827 TATTTATACG
6976837 TAAATATAAATTT
1 TAAATATAAATTT
** *
6976850 TAAATATTTATATG
1 TAAATATAAAT-TT
6976864 TAAATATAAATTT
1 TAAATATAAATTT
6976877 TAAA
1 TAAA
6976881 ATTATTAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
TAAATATAAATTT
Found at i:6977105 original size:17 final size:16
Alignment explanation
Indices: 6977078--6977109 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6977068 ATAATTTATT
6977078 AAAATTTTAAAAAATA
1 AAAATTTTAAAAAATA
6977094 AAAATATTTAAAAAAT
1 AAAAT-TTTAAAAAAT
6977110 TATAAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTTTAAAAAATA
Found at i:6986798 original size:36 final size:36
Alignment explanation
Indices: 6986751--6986824 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
6986741 TCGCTGAAGT
6986751 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
1 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
6986787 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
1 AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
6986823 AA
1 AA
6986825 AAAGAGGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.41, C:0.11, G:0.30, T:0.19
Consensus pattern (36 bp):
AAGAACTCCATTGAAATGGGTATGGAAAGAGATGGC
Found at i:6994096 original size:23 final size:23
Alignment explanation
Indices: 6994069--6994166 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
6994059 AGTGTTATTG
6994069 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
6994092 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
6994115 -TCGGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6994137 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
6994160 ATCAGTG
1 ATCAGTG
6994167 TGGTACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:6994142 original size:45 final size:45
Alignment explanation
Indices: 6994073--6994159 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
6994063 TTATTGATCA
*
6994073 GTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATTCG
1 GTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATTCG
6994118 GTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 GTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
6994160 ATCAGTGTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (45 bp):
GTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATTCG
Found at i:6996327 original size:44 final size:44
Alignment explanation
Indices: 6996277--6996735 Score: 231
Period size: 44 Copynumber: 10.0 Consensus size: 44
6996267 CTTCAAGATA
6996277 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* *
6996321 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* * ** * *
6996365 GAACGGATT-AAAATA-AAGGATCTCATCTCTCTGA-AGTTACAGTAGAG
1 GAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G
* * * *
6996412 TAGATCACGTCAGATTGAAGCCAAAAATCTTATCTTCCTGAGATTACAGCG
1 --G---A-G-CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* * *
6996463 GAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* * ** *
6996507 GAGCGGACT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAG
1 GAGCAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TT--A-C--AGT-G
* * *
6996557 ATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCG
1 ---G-AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
* * *
6996605 AAGCAGATGGAAGCTA-ATAATCTTATCTCCCTGAGATTACAGTA
1 GAGCAGATTGAAGCTAGA-AATCTTATCTCCCTGAGATTACAGTG
* ** * * **
6996649 GAGCGGATT-AAAATAAAGAATCTTATCTCTCTGA-AGTTACAGCA
1 GAGCAGATTGAAGCTAGA-AATCTTATCTCCCTGAGA-TTACAGTG
* * * * *
6996693 GAGTAGATCGCATC-AG--GTCTTATCTCCCTGAGATTACAGTG
1 GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
6996734 GA
1 GA
6996736 ATAGACCGAA
Statistics
Matches: 312, Mismatches: 66, Indels: 77
0.69 0.15 0.17
Matches are distributed among these distances:
41 21 0.07
42 3 0.01
43 16 0.05
44 196 0.63
45 2 0.01
46 2 0.01
47 2 0.01
48 1 0.00
49 7 0.02
50 1 0.00
51 2 0.01
52 2 0.01
53 1 0.00
54 44 0.14
55 8 0.03
56 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
GAGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
Found at i:6996536 original size:142 final size:142
Alignment explanation
Indices: 6996280--6996708 Score: 696
Period size: 142 Copynumber: 3.0 Consensus size: 142
6996270 CAAGATAGAG
* *
6996280 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
6996345 ATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
*
6996410 AGTAGATCACGT
131 AGTAGATCACAT
* * *
6996422 CAGATTGAAGCCAAAAATCTTATCTTCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
6996487 ATCTCCCTGAGATTACAGTGGAGCGGACTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
*
6996552 AGTAGATCGCAT
131 AGTAGATCACAT
* * * *
6996564 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGAAGCAGATGGAAGCTAATAATCTT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
6996629 ATCTCCCTGAGATTACAGTAGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTTACAGCAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
*
6996694 AGTAGATCGCAT
131 AGTAGATCACAT
6996706 CAG
1 CAG
6996709 GTCTTATCTC
Statistics
Matches: 266, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 266 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAG
AGTAGATCACAT
Found at i:6997260 original size:21 final size:22
Alignment explanation
Indices: 6997235--6997286 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
6997225 GTTTCCCCCA
6997235 GCCACG-CACACCTCCGTACGT
1 GCCACGTCACACCTCCGTACGT
* **
6997256 GCCACGTTCGCACCTCCGTACAC
1 GCCACG-TCACACCTCCGTACGT
6997279 GCCACGTC
1 GCCACGTC
6997287 CCTCGCCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 6 0.23
22 2 0.08
23 18 0.69
ACGTcount: A:0.17, C:0.48, G:0.19, T:0.15
Consensus pattern (22 bp):
GCCACGTCACACCTCCGTACGT
Found at i:7002089 original size:23 final size:25
Alignment explanation
Indices: 7002054--7002107 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
7002044 TTTCTAAACT
* **
7002054 TATATACGCA-TT-TTTATATAGTA
1 TATATACACATTTCTTTATATAAAA
*
7002077 TATATACATATTTCTTTATATAAAA
1 TATATACACATTTCTTTATATAAAA
7002102 TATATA
1 TATATA
7002108 TGTTCATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.32
24 2 0.08
25 15 0.60
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (25 bp):
TATATACACATTTCTTTATATAAAA
Found at i:7004263 original size:17 final size:18
Alignment explanation
Indices: 7004233--7004266 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7004223 TACTTAAATT
*
7004233 TTGTCTGTTTTAGAGAAG
1 TTGTCTGTTATAGAGAAG
7004251 TTGT-TGTTATAGAGAA
1 TTGTCTGTTATAGAGAA
7004267 ACAACTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (18 bp):
TTGTCTGTTATAGAGAAG
Found at i:7011273 original size:26 final size:26
Alignment explanation
Indices: 7011244--7011293 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
7011234 GAAAAGCCAT
*
7011244 TAATCAGGAAGCTCACAAAGAGCCTC
1 TAATCAGAAAGCTCACAAAGAGCCTC
* *
7011270 TAATCAGAAATCTCATAAAGAGCC
1 TAATCAGAAAGCTCACAAAGAGCC
7011294 ATATAATGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (26 bp):
TAATCAGAAAGCTCACAAAGAGCCTC
Found at i:7022036 original size:7 final size:7
Alignment explanation
Indices: 7022024--7022147 Score: 248
Period size: 7 Copynumber: 17.7 Consensus size: 7
7022014 TAGTCGATTC
7022024 GTATTTA
1 GTATTTA
7022031 GTATTTA
1 GTATTTA
7022038 GTATTTA
1 GTATTTA
7022045 GTATTTA
1 GTATTTA
7022052 GTATTTA
1 GTATTTA
7022059 GTATTTA
1 GTATTTA
7022066 GTATTTA
1 GTATTTA
7022073 GTATTTA
1 GTATTTA
7022080 GTATTTA
1 GTATTTA
7022087 GTATTTA
1 GTATTTA
7022094 GTATTTA
1 GTATTTA
7022101 GTATTTA
1 GTATTTA
7022108 GTATTTA
1 GTATTTA
7022115 GTATTTA
1 GTATTTA
7022122 GTATTTA
1 GTATTTA
7022129 GTATTTA
1 GTATTTA
7022136 GTATTTA
1 GTATTTA
7022143 GTATT
1 GTATT
7022148 ATGTATATAA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 117 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:7024566 original size:96 final size:97
Alignment explanation
Indices: 7024180--7024624 Score: 621
Period size: 97 Copynumber: 4.5 Consensus size: 97
7024170 CCAAAACCTC
* *
7024180 AAACCCTAATTTATTTAA-TTTTTCCTT-AAAACCCTAAACCCTAAACTCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAA--TTTTT
* *
7024243 TTAAAAATTATAATTAATTTACTCAAGTAACCCC
64 TTAAAATTTATAATTAATTTACTCAAGTAACCCT
*
7024277 AAACCCTAATTTATTTAATTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
*
7024342 AAAATTTATAATTAATTTACTCAAGTAACCTT
66 AAAATTTATAATTAATTTACTCAAGTAACCCT
* * *
7024374 AAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTAAACAGTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
7024439 AAAATTTATAATTAATTTACTCAAGTAACCCT
66 AAAATTTATAATTAATTTACTCAAGTAACCCT
*
7024471 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAA-TTTTTT
1 AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
* * * *
7024535 AAAATTTATAAATAATTTAATTAAGAAACCCT
66 AAAATTTATAATTAATTTACTCAAGTAACCCT
* * *
7024567 AAACTCTAAACCCTTATTTATTTATTTTTCCTT-AAAACCCTAAA-ATCTAAAACCCTAA
1 AAACCCT-AA--TTTATTTA-AT-TTTTTCCTTAAAAACCCTAAACA-CT-AAACCCTAA
7024625 AAACCCTAAA
Statistics
Matches: 318, Mismatches: 21, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
96 40 0.13
97 204 0.64
98 8 0.03
99 35 0.11
100 13 0.04
101 18 0.06
ACGTcount: A:0.40, C:0.19, G:0.01, T:0.40
Consensus pattern (97 bp):
AAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTT
AAAATTTATAATTAATTTACTCAAGTAACCCT
Found at i:7024610 original size:8 final size:8
Alignment explanation
Indices: 7024599--7024637 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
7024589 TATTTTTCCT
7024599 TAAAACCC
1 TAAAACCC
*
7024607 TAAAA-TC
1 TAAAACCC
7024614 TAAAACCC
1 TAAAACCC
7024622 TAAAAACCC
1 T-AAAACCC
7024631 TAAAACC
1 TAAAACC
7024638 TTAACCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.22
8 13 0.48
9 8 0.30
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (8 bp):
TAAAACCC
Found at i:7024643 original size:23 final size:24
Alignment explanation
Indices: 7024600--7024647 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7024590 ATTTTTCCTT
*
7024600 AAAACCCTAAAATCTAAAACCCTA
1 AAAACCCTAAAACCTAAAACCCTA
*
7024624 AAAACCCTAAAACCT-TAACCCTA
1 AAAACCCTAAAACCTAAAACCCTA
7024647 A
1 A
7024648 TTATAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAACCCTAAAACCTAAAACCCTA
Found at i:7025631 original size:30 final size:30
Alignment explanation
Indices: 7025595--7025658 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
7025585 ATAGTGGCTA
7025595 AAATGATAAAAATATGTAACGATGATATCT
1 AAATGATAAAAATATGTAACGATGATATCT
7025625 AAATGATAAAAATATGTAACGATGATATCT
1 AAATGATAAAAATATGTAACGATGATATCT
7025655 AAAT
1 AAAT
7025659 TACAAACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (30 bp):
AAATGATAAAAATATGTAACGATGATATCT
Found at i:7026801 original size:18 final size:19
Alignment explanation
Indices: 7026754--7026806 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
7026744 ATCTATAAGT
7026754 ATAATTTTATTTTAATGTG
1 ATAATTTTATTTTAATGTG
*
7026773 ATAATAATTATTTT-AT-TG
1 ATAAT-TTTATTTTAATGTG
*
7026791 ATAATGTTTATATTAA
1 ATAAT-TTTATTTTAA
7026807 ATCTTGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 13 0.46
19 8 0.29
20 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
ATAATTTTATTTTAATGTG
Found at i:7029531 original size:22 final size:21
Alignment explanation
Indices: 7029497--7029544 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
7029487 GTTTTTTATA
* *
7029497 TATTTTTAAAAAAATTAGATT
1 TATTTTTTAAAAAATAAGATT
* *
7029518 TATTTTTTATAAAATAAGCTT
1 TATTTTTTAAAAAATAAGATT
7029539 TATTTT
1 TATTTT
7029545 ATGACTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TATTTTTTAAAAAATAAGATT
Found at i:7029633 original size:22 final size:22
Alignment explanation
Indices: 7029605--7029646 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7029595 TATGAAAGAT
*
7029605 AGTCAGG-TGTTAGTTAGTTAGC
1 AGTCAGGCGGTTAG-TAGTTAGC
7029627 AGTCAGGCGGTTAGTAGTTA
1 AGTCAGGCGGTTAGTAGTTA
7029647 TTCTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
AGTCAGGCGGTTAGTAGTTAGC
Found at i:7033130 original size:22 final size:22
Alignment explanation
Indices: 7033102--7033143 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7033092 TATGAAAGAT
*
7033102 AGTCAGG-TGTTAGTTAGTTAGC
1 AGTCAGGCGGTTAG-TAGTTAGC
7033124 AGTCAGGCGGTTAGTAGTTA
1 AGTCAGGCGGTTAGTAGTTA
7033144 TTCTGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (22 bp):
AGTCAGGCGGTTAGTAGTTAGC
Found at i:7033671 original size:19 final size:20
Alignment explanation
Indices: 7033649--7033688 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
7033639 AAATCTGATT
*
7033649 AATTAGTTAATT-AATTTAA
1 AATTAATTAATTAAATTTAA
7033668 AATTAATTAATTAAATTTAA
1 AATTAATTAATTAAATTTAA
7033688 A
1 A
7033689 GTCCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTAATTAATTAAATTTAA
Found at i:7034475 original size:16 final size:17
Alignment explanation
Indices: 7034451--7034488 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
7034441 ATTTAATCTT
* *
7034451 AAATTATTATTAT-AAA
1 AAATGATTAATATGAAA
7034467 AAATGATTAATATGAAA
1 AAATGATTAATATGAAA
7034484 AAATG
1 AAATG
7034489 TCTATCAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (17 bp):
AAATGATTAATATGAAA
Found at i:7035061 original size:17 final size:17
Alignment explanation
Indices: 7035025--7035132 Score: 121
Period size: 18 Copynumber: 6.2 Consensus size: 17
7035015 AATACGATAA
*
7035025 TTTTGAAACAC-AATAT
1 TTTTGAAACACGAAAAT
*
7035041 TTTTGAAGACACGGAAAT
1 TTTTGAA-ACACGAAAAT
* *
7035059 TTTTGAAACACAGGAATT
1 TTTTGAAACAC-GAAAAT
7035077 TTTTGAAACACGAAAAAT
1 TTTTGAAACACG-AAAAT
7035095 TTTTGAAAACACGAAAA-
1 TTTTG-AAACACGAAAAT
*
7035112 TTTTGAAACACGAGAAT
1 TTTTGAAACACGAAAAT
7035129 TTTT
1 TTTT
7035133 TAAAAGGACG
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
16 17 0.21
17 18 0.22
18 38 0.47
19 7 0.09
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTGAAACACGAAAAT
Found at i:7035078 original size:35 final size:34
Alignment explanation
Indices: 7035025--7035133 Score: 116
Period size: 35 Copynumber: 3.1 Consensus size: 34
7035015 AATACGATAA
7035025 TTTTGAAACACA-ATATTTTTGAAGACACG-GAAAT
1 TTTTGAAACACAGA-ATTTTTGAA-ACACGAGAAAT
*
7035059 TTTTGAAACACAGGAATTTTTTGAAACACGAAAAAT
1 TTTTGAAACACA-GAA-TTTTTGAAACACGAGAAAT
* *
7035095 TTTTGAAA-ACACGAAAATTTTGAAACACGAGAATT
1 TTTTGAAACACA-G-AATTTTTGAAACACGAGAAAT
7035130 TTTT
1 TTTT
7035134 AAAAGGACGT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
34 12 0.18
35 30 0.46
36 23 0.35
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (34 bp):
TTTTGAAACACAGAATTTTTGAAACACGAGAAAT
Found at i:7035640 original size:9 final size:9
Alignment explanation
Indices: 7035626--7035688 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
7035616 CTTGGGCCCC
7035626 TTCTTTTTT
1 TTCTTTTTT
7035635 TTCTTTTTCT
1 TTCTTTTT-T
*
7035645 TCCTTTTTT
1 TTCTTTTTT
*
7035654 TTCTTTCTT
1 TTCTTTTTT
**
7035663 TT-TTCCTT
1 TTCTTTTTT
7035671 TTCTTCTTTT
1 TTCTT-TTTT
7035681 TTCTTTTT
1 TTCTTTTT
7035689 CTTTTTTCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 7 0.16
9 23 0.51
10 15 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:7035667 original size:30 final size:29
Alignment explanation
Indices: 7035631--7035697 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
7035621 GCCCCTTCTT
7035631 TTTTTTCTTTTTCTTCCTTTTTT-TTCTTTC
1 TTTTTTCTTTTTCTT-CTTTTTTCTT-TTTC
*
7035661 TTTTTTCCTTTTCTTCTTTTTTCTTTTTC
1 TTTTTTCTTTTTCTTCTTTTTTCTTTTTC
7035690 TTTTTTCT
1 TTTTTTCT
7035698 GTTGGGCTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTTCTTTTTCTTCTTTTTTCTTTTTC
Found at i:7035673 original size:13 final size:14
Alignment explanation
Indices: 7035657--7035696 Score: 55
Period size: 13 Copynumber: 2.8 Consensus size: 14
7035647 CTTTTTTTTC
7035657 TTTCTTTTTTCCTTT
1 TTTCTTTTTTCC-TT
7035672 TCTTCTTTTTT-CTT
1 T-TTCTTTTTTCCTT
7035686 TTTCTTTTTTC
1 TTTCTTTTTTC
7035697 TGTTGGGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 2 0.09
16 9 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTTCCTT
Found at i:7035697 original size:13 final size:13
Alignment explanation
Indices: 7035631--7035697 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 13
7035621 GCCCCTTCTT
7035631 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
7035644 TTCCTTTTTTTTCTTTC
1 -T--TTTTTCTT-TTTC
7035661 TTTTTTCCTTTTCTTC
1 TTTTTT-C-TTT-TTC
7035677 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
7035690 TTTTTTCT
1 TTTTTTCT
7035698 GTTGGGCTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
13 11 0.24
14 9 0.20
15 2 0.04
16 19 0.42
17 4 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:7035697 original size:23 final size:21
Alignment explanation
Indices: 7035626--7035694 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 21
7035616 CTTGGGCCCC
7035626 TTCTTTTTTTTCTTTTTCTTCCT
1 TTCTTTTTTTTCTTTTTCTT--T
*
7035649 TT-TTTTTCTTTCTTTTTTCCTT
1 TTCTTTTT-TTTC-TTTTTCTTT
7035671 TTCTTCTTTTTTCTTTTTCTTT
1 TTCTT-TTTTTTCTTTTTCTTT
7035693 TT
1 TT
7035695 TCTGTTGGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 18 0.45
23 12 0.30
24 10 0.25
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TTCTTTTTTTTCTTTTTCTTT
Found at i:7036151 original size:13 final size:13
Alignment explanation
Indices: 7036135--7036203 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
7036125 CTTTTTCTTC
7036135 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
* *
7036148 TTTTCCTTTTTCG
1 TTTTCTTTTTTCT
* * *
7036161 GTTGCTTTTTTAT
1 TTTTCTTTTTTCT
7036174 TATTTCTTTTTCTCT
1 T-TTTCTTTTT-TCT
* *
7036189 TTTGCTTTTTGCT
1 TTTTCTTTTTTCT
7036202 TT
1 TT
7036204 GCTTGTTTGG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
13 23 0.55
14 16 0.38
15 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.07, T:0.74
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:7036580 original size:30 final size:29
Alignment explanation
Indices: 7036546--7036614 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
7036536 GGGTAAAAGC
7036546 ATAATTTTAGTAAAA-ATATGGGGCCAAAAT
1 ATAATTTTAG-AAAATATA-GGGGCCAAAAT
* * *
7036576 ATAATTTCTAGAAAGTTTAGGGGCCCAAAT
1 ATAATTT-TAGAAAATATAGGGGCCAAAAT
7036606 ATAATTTTA
1 ATAATTTTA
7036615 ATTTTTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 27 0.79
31 5 0.15
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (29 bp):
ATAATTTTAGAAAATATAGGGGCCAAAAT
Found at i:7037232 original size:75 final size:76
Alignment explanation
Indices: 7037044--7037724 Score: 748
Period size: 75 Copynumber: 8.9 Consensus size: 76
7037034 AAAAAAATAT
* * * *
7037044 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTTTGAAAAAATAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGGAAAAATAGA
*
7037109 AATTGAAAAATAC
65 AATT-AAAGATAC
* * * * * * * *
7037122 CTCGACGTGCGGCCCAAGGCTCAACTCACCTCTCGCATTATGAGTTGATATTTGGAAAGA-AGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
7037186 ATTAAAGATAC
66 ATTAAAGATAC
* * * *
7037197 CTCGGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTTGAGAAAGAG
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGGAAAAATAG
*
7037262 AAATTAAAAAAAATAC
64 AAATT---AAAGATAC
* * * *
7037278 CTCGGCGTGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTT-GTAAAATAAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
7037342 ATTTAAAAGAAATAC
66 A-TT-AAAG--ATAC
* * **** *
7037357 CTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGCGTTGATTTAAAAAAAAAAAGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
*
7037422 ACTGAAA-ATAC
66 A-TTAAAGATAC
* * * * * *
7037433 CTCAGC--GTGACTCGAGGCTCAACTCACCTCTCACATTATGAGTTGATCTTTTTGAAAAACAGA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGGAAAAATAGA
7037496 AATTAAAGATAC
65 AATTAAAGATAC
* * *
7037508 CTCGGTATGTGACCCGAGGCTCGACTCACCTCTCGCAATATGAGTTTATTTTT-GAAAAATAGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
7037572 ATTAAAGATAC
66 ATTAAAGATAC
* * * *
7037583 CTTGGTATGTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT-GAAAAATAAAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
7037647 ATTAAAGATAC
66 ATTAAAGATAC
* * * * * *
7037658 CTCGGTATGTGATCAGGGGCTCAACTCACCTCTTGCAATATGAGTTGATCTTT-GAAAAATAGAA
1 CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
7037722 ATT
66 ATT
7037725 GAAAAATATA
Statistics
Matches: 511, Mismatches: 78, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
74 40 0.08
75 218 0.43
76 20 0.04
77 56 0.11
78 55 0.11
79 60 0.12
80 10 0.02
81 52 0.10
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (76 bp):
CTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAAAAATAGAA
ATTAAAGATAC
Found at i:7037445 original size:234 final size:228
Alignment explanation
Indices: 7037032--7037730 Score: 815
Period size: 234 Copynumber: 3.0 Consensus size: 228
7037022 ACACATAAAT
* * *
7037032 TTAAAAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGTAATATGAGTTGATTTTT
1 TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * * * * *
7037097 TGAAAAAATAAAAATTGAA-AAATACCTCGACGTGCGGCCCAAGGCTCAACTCACCTCTCGCATT
65 TG-AAAAATAAAAATTAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*** *
7037161 ATGAGTTGATATTTGGAAAGAAGAAATTAAAGATACCTCGGCATGTGACTCGAGGCTCAACTCAC
129 ATGAGTTGAT-TTAAAAAAAAAGAAATTAAAGATACCTCGGC--GTGACTCGAGGCTCAACTCAC
* *
7037226 CTCTCGCAATATGAGTTGATTCTTTTTGAGAAAGAGAAA
191 CTCTCGCAATATGAGTTGA-TCTTTTTGAAAAACAGAAA
* *
7037265 TTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTT
1 TT-AAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* *
7037330 TGTAAAATAAAAATTTAAAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCGCAA
65 TGAAAAATAAAAA-TT-AAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* * *
7037395 TATGCGTTGATTTAAAAAAAAAAAGAAACTGAAA-ATACCTCAGCGTGACTCGAGGCTCAACTCA
128 TATGAGTTGATTT--AAAAAAAAAGAAA-TTAAAGATACCTCGGCGTGACTCGAGGCTCAACTCA
* *
7037459 CCTCTCACATTATGAGTTGATCTTTTTGAAAAACAGAAA
190 CCTCTCGCAATATGAGTTGATCTTTTTGAAAAACAGAAA
* * * *
7037498 TT--AAAGATACCTCGGTATGTGACCCGAGGCTCGACTCACCTCTCGCAATATGAGTTTATTTTT
1 TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
7037561 GAAAAATAGAAATTAAAG--ATACCTTGGTATGTGACCCGAGGCTCAACTCATCTCTCGCAATAT
66 GAAAAATAAAAATTAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * *
7037624 GAGTTGATTTTTGAAAAATAA-AAATTAAAGATACCTCGGTATGTGA-TCAGGGGCTCAACTCAC
131 GAGTTGA--TTTAAAAAAAAAGAAATTAAAGATACCTCGG--CGTGACTC-GAGGCTCAACTCAC
* *
7037687 CTCTTGCAATATGAGTTGATC--TTTGAAAAATAGAAA
191 CTCTCGCAATATGAGTTGATCTTTTTGAAAAACAGAAA
*
7037723 TTGAAAAA
1 TTAAAAAA
7037731 TATAATTCTT
Statistics
Matches: 402, Mismatches: 49, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
224 4 0.01
225 27 0.07
226 56 0.14
227 38 0.09
228 7 0.02
229 2 0.00
230 65 0.16
232 10 0.02
233 29 0.07
234 95 0.24
235 47 0.12
236 18 0.04
237 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (228 bp):
TTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAAAATAAAAATTAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTAAAAAAAAAGAAATTAAAGATACCTCGGCGTGACTCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATCTTTTTGAAAAACAGAAA
Found at i:7046319 original size:35 final size:35
Alignment explanation
Indices: 7046280--7046377 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 35
7046270 TACAAGAATT
*
7046280 TTTTTTTAAAACAC-GATAA-TTTTGAAACACAATA
1 TTTTTTGAAAACACGGA-AATTTTTGAAACACAATA
*
7046314 TTTTTTGAAGACACGGAAATTTTTGAAACACAGGA-A
1 TTTTTTGAAAACACGGAAATTTTTGAAACACA--ATA
*
7046350 TTTTTTG-AAACACGAAAAATTTTTGAAA
1 TTTTTTGAAAACACG-GAAATTTTTGAAA
7046378 ACACGAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
34 14 0.25
35 20 0.36
36 20 0.36
37 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTTTTGAAAACACGGAAATTTTTGAAACACAATA
Found at i:7046337 original size:19 final size:18
Alignment explanation
Indices: 7046281--7046408 Score: 117
Period size: 18 Copynumber: 7.3 Consensus size: 18
7046271 ACAAGAATTT
* *
7046281 TTTTTTAAAACACGATAA
1 TTTTTTGAAACACGAAAA
*
7046299 --TTTTGAAACAC-AATA
1 TTTTTTGAAACACGAAAA
*
7046314 TTTTTTGAAGACACGGAAA
1 TTTTTTGAA-ACACGAAAA
*
7046333 -TTTTTGAAACAC-AGGAA
1 TTTTTTGAAACACGA-AAA
7046350 TTTTTTGAAACACGAAAA
1 TTTTTTGAAACACGAAAA
*
7046368 ATTTTTGAAAACACGAAAA
1 TTTTTTG-AAACACGAAAA
*
7046387 --TTTTGAAACACGAGAA
1 TTTTTTGAAACACGAAAA
7046403 TTTTTT
1 TTTTTT
7046409 TTAAAAGGAC
Statistics
Matches: 90, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
15 2 0.02
16 20 0.22
17 18 0.20
18 36 0.40
19 14 0.16
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTTGAAACACGAAAA
Found at i:7046362 original size:53 final size:53
Alignment explanation
Indices: 7046283--7046408 Score: 152
Period size: 53 Copynumber: 2.4 Consensus size: 53
7046273 AAGAATTTTT
* * * * * *
7046283 TTTTAAAACACGATAA--TTTTGAAACAC-AATATTTTTTGAAGACACGGAAAT
1 TTTTGAAACACGAGAATTTTTTGAAACACGAAAAATTTTTGAAAACAC-GAAAA
7046334 TTTTGAAACAC-AGGAATTTTTTGAAACACGAAAAATTTTTGAAAACACGAAAA
1 TTTTGAAACACGA-GAATTTTTTGAAACACGAAAAATTTTTGAAAACACGAAAA
7046387 TTTTGAAACACGAGAATTTTTT
1 TTTTGAAACACGAGAATTTTTT
7046409 TTAAAAGGAC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.02
51 12 0.19
53 35 0.55
54 16 0.25
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (53 bp):
TTTTGAAACACGAGAATTTTTTGAAACACGAAAAATTTTTGAAAACACGAAAA
Found at i:7046391 original size:35 final size:36
Alignment explanation
Indices: 7046316--7046408 Score: 118
Period size: 35 Copynumber: 2.6 Consensus size: 36
7046306 ACACAATATT
* **
7046316 TTTTGAAGACACG-GAAATTTTTGAAACACAGGAATT
1 TTTTGAA-ACACGAGAAATTTTTGAAACACACGAAAA
*
7046352 TTTTGAAACACGAAAAATTTTTGAAA-ACACGAAAA
1 TTTTGAAACACGAGAAATTTTTGAAACACACGAAAA
*
7046387 TTTTGAAACACGAGAATTTTTT
1 TTTTGAAACACGAGAAATTTTT
7046409 TTAAAAGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 31 0.62
36 19 0.38
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (36 bp):
TTTTGAAACACGAGAAATTTTTGAAACACACGAAAA
Found at i:7047270 original size:13 final size:13
Alignment explanation
Indices: 7047262--7047330 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
7047252 CTTTTTCTTC
7047262 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
*
7047275 TTTTCTTTTTTCG
1 TTTTCTTTTTTCT
* *
7047288 GTTGCTATTTTT-T
1 TTTTCT-TTTTTCT
7047301 TATTTCTTTTTCTCT
1 T-TTTCTTTTT-TCT
* *
7047316 TTTGCTTTTTGCT
1 TTTTCTTTTTTCT
7047329 TT
1 TT
7047331 GCTTGTTTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
13 24 0.55
14 18 0.41
15 2 0.05
ACGTcount: A:0.03, C:0.14, G:0.07, T:0.75
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:7047274 original size:7 final size:7
Alignment explanation
Indices: 7047253--7047286 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
7047243 TTCCCCTCCC
7047253 TTTTTCT
1 TTTTTCT
7047260 TCTTTTCT
1 T-TTTTCT
7047268 TTTTTC-
1 TTTTTCT
7047274 TTTTTCT
1 TTTTTCT
7047281 TTTTTC
1 TTTTTC
7047287 GGTTGCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:7048028 original size:53 final size:53
Alignment explanation
Indices: 7047948--7048054 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
7047938 AAACACGAAA
*
7047948 TTCAGACCGGACAAAATTTAGTGATTACAATATTAATATAATTTTTGTATGTC
1 TTCAGACCGGACAAAATTCAGTGATTACAATATTAATATAATTTTTGTATGTC
*
7048001 TTCAGACCGGACAAAATTCAGTGATTACAATATTAATGTAATTTTTGTATGTC
1 TTCAGACCGGACAAAATTCAGTGATTACAATATTAATATAATTTTTGTATGTC
7048054 T
1 T
7048055 ATGAGATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (53 bp):
TTCAGACCGGACAAAATTCAGTGATTACAATATTAATATAATTTTTGTATGTC
Found at i:7050695 original size:21 final size:21
Alignment explanation
Indices: 7050671--7050711 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7050661 TTATTTTTAG
*
7050671 TTTAATATATATTTTTTATTT
1 TTTAATAAATATTTTTTATTT
* *
7050692 TTTAGTAAATCTTTTTTATT
1 TTTAATAAATATTTTTTATT
7050712 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTAATAAATATTTTTTATTT
Found at i:7051133 original size:32 final size:33
Alignment explanation
Indices: 7051074--7051135 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
7051064 ACTAATATAT
**
7051074 TATATATAATTTTACATTTTAAAAAATAATTCA
1 TATATATAATTTTACATGCTAAAAAATAATTCA
*
7051107 TATATA-AATTTTACATGCTAAGAAATAAT
1 TATATATAATTTTACATGCTAAAAAATAAT
7051136 AATATTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (33 bp):
TATATATAATTTTACATGCTAAAAAATAATTCA
Found at i:7059420 original size:19 final size:19
Alignment explanation
Indices: 7059396--7059508 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
7059386 AATTTTTGAG
7059396 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7059415 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
7059434 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
7059455 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
7059474 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
7059493 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
7059509 ATATATGATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 67 0.79
21 18 0.21
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:7059441 original size:40 final size:40
Alignment explanation
Indices: 7059397--7059502 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
7059387 ATTTTTGAGG
7059397 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGAT
*
7059437 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCTAGATATGAT
7059477 ATAT--AATCTTAGATATGATATGCAAT
1 ATATGCAATCTTAGATATGATATGCAAT
7059503 ATTAGAATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
38 22 0.34
40 43 0.66
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCTAGATATGAT
Found at i:7059672 original size:24 final size:22
Alignment explanation
Indices: 7059640--7059694 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 22
7059630 TCATTGTAAA
7059640 GAAGAAAAAAAGAAAAAAGAGGAG
1 GAAGAAAAAAAGAAAAAAG-GG-G
7059664 GAAGAAAAAAAGAAAAAAGGGG
1 GAAGAAAAAAAGAAAAAAGGGG
*
7059686 GGAGAAAAA
1 GAAGAAAAA
7059695 GAGGAGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 19 0.63
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
GAAGAAAAAAAGAAAAAAGGGG
Found at i:7060992 original size:98 final size:98
Alignment explanation
Indices: 7060878--7061072 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
7060868 TTAAAAATAA
* *
7060878 TAAAGGAAATATTCCGAATTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
7060943 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
7060976 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
7061041 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
7061073 ATTTTATTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAATTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:7066813 original size:29 final size:29
Alignment explanation
Indices: 7066750--7066815 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
7066740 TTTAAATTAC
* **
7066750 TTATTATTTAAGTACATAGATATTTATTGT
1 TTATTA-TTAAGTACAAAGATATTTATAAT
7066780 TTATTATTAAGTA-AAAGATATTTATAAT
1 TTATTATTAAGTACAAAGATATTTATAAT
7066808 TATATTAT
1 T-TATTAT
7066816 AAGGTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 13 0.41
29 13 0.41
30 6 0.19
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (29 bp):
TTATTATTAAGTACAAAGATATTTATAAT
Found at i:7066941 original size:19 final size:20
Alignment explanation
Indices: 7066906--7066944 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
7066896 ACATGTTTAA
7066906 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
7066926 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
7066945 GCTTATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:7067829 original size:41 final size:36
Alignment explanation
Indices: 7067778--7067870 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 36
7067768 GAATATATGT
*
7067778 GTGGAATTGAATTGAATATATTGACTTGAAAAATGGAAAA
1 GTGGAATTGAATTGAAT-TA-TGA-TTG-AAAATGAAAAA
*
7067818 GT-GAATTTTGAATTGAATTATGATTGAAAGTGAAAAA
1 GTGGAA--TTGAATTGAATTATGATTGAAAATGAAAAA
7067855 GTGGAATTGAATTGAA
1 GTGGAATTGAATTGAA
7067871 ATGTGAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
36 10 0.21
37 11 0.23
38 6 0.12
39 6 0.12
40 4 0.08
41 11 0.23
ACGTcount: A:0.43, C:0.01, G:0.24, T:0.32
Consensus pattern (36 bp):
GTGGAATTGAATTGAATTATGATTGAAAATGAAAAA
Found at i:7067853 original size:36 final size:41
Alignment explanation
Indices: 7067778--7067870 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 41
7067768 GAATATATGT
7067778 GTGGAATTGAATTGAATATATTGACTTGAAAAATGG-AAAA
1 GTGGAATTGAATTGAATATATTGACTTGAAAAATGGAAAAA
*
7067818 GT-GAATTTTGAATTGAAT-TA-TGA-TTG-AAAGT-GAAAAA
1 GTGGAA--TTGAATTGAATATATTGACTTGAAAAATGGAAAAA
7067855 GTGGAATTGAATTGAA
1 GTGGAATTGAATTGAA
7067871 ATGTGAATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
36 11 0.23
37 10 0.21
38 6 0.12
39 6 0.12
40 4 0.08
41 11 0.23
ACGTcount: A:0.43, C:0.01, G:0.24, T:0.32
Consensus pattern (41 bp):
GTGGAATTGAATTGAATATATTGACTTGAAAAATGGAAAAA
Found at i:7071206 original size:21 final size:20
Alignment explanation
Indices: 7071168--7071207 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7071158 AATTTTAAAA
*
7071168 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
7071188 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
7071208 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:7072665 original size:10 final size:10
Alignment explanation
Indices: 7072652--7072765 Score: 70
Period size: 10 Copynumber: 12.1 Consensus size: 10
7072642 AATTTTTTTA
7072652 ATTTTAAAAT
1 ATTTTAAAAT
7072662 ATTTTTAAAAT
1 A-TTTTAAAAT
**
7072673 ATTTT--TTT
1 ATTTTAAAAT
*
7072681 ATTTT--TA-
1 ATTTTAAAAT
7072688 ATTTTAAAAT
1 ATTTTAAAAT
7072698 ATTTTAAAAT
1 ATTTTAAAAT
*
7072708 ATTTT--TA-
1 ATTTTAAAAT
7072715 ATTTTAAAAT
1 ATTTTAAAAT
7072725 ATTTTTAAAA-
1 A-TTTTAAAAT
7072735 ATATTTAAAAT
1 AT-TTTAAAAT
*
7072746 ACTTTT-TAAT
1 A-TTTTAAAAT
7072756 -TTTTAAAAT
1 ATTTTAAAAT
7072765 A
1 A
7072766 AATTTTTGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
7 10 0.12
8 12 0.14
9 6 0.07
10 32 0.39
11 22 0.27
12 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:7072718 original size:27 final size:27
Alignment explanation
Indices: 7072664--7072740 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
7072654 TTTAAAATAT
**
7072664 TTTTAAAATATTTT--TTTATTTTTAA
1 TTTTAAAATATTTTAAAATATTTTTAA
7072689 TTTTAAAATATTTTAAAATATTTTTAA
1 TTTTAAAATATTTTAAAATATTTTTAA
7072716 TTTTAAAATATTTTTAAAAATATTT
1 TTTTAAAATA-TTTT-AAAATATTT
7072741 AAAATACTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.30
27 19 0.41
28 4 0.09
29 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTAAAATATTTTAAAATATTTTTAA
Found at i:7072737 original size:12 final size:11
Alignment explanation
Indices: 7072653--7072754 Score: 74
Period size: 11 Copynumber: 9.5 Consensus size: 11
7072643 ATTTTTTTAA
7072653 TTTTAAAATAT
1 TTTTAAAATAT
7072664 TTTTAAAATATTT
1 TTTTAAAATA--T
*** *
7072677 TTTTATTTTTAA
1 TTTTA-AAATAT
7072689 TTTTAAAATA-
1 TTTTAAAATAT
7072699 TTTTAAAATAT
1 TTTTAAAATAT
7072710 TTTT---A-A-
1 TTTTAAAATAT
7072716 TTTTAAAATAT
1 TTTTAAAATAT
7072727 TTTTAAAA-AT
1 TTTTAAAATAT
*
7072737 ATTTAAAATACT
1 TTTTAAAATA-T
7072749 TTTTAA
1 TTTTAA
7072755 TTTTTAAAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
6 4 0.06
7 1 0.01
8 1 0.01
9 1 0.01
10 20 0.28
11 25 0.35
12 11 0.15
13 6 0.08
14 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:7072771 original size:19 final size:18
Alignment explanation
Indices: 7072662--7072765 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 18
7072652 ATTTTAAAAT
*
7072662 ATTTTTAAAATATTTTTTT
1 ATTTTTAAAATA-TTTTTA
**
7072681 ATTTTT--AAT-TTTAAA
1 ATTTTTAAAATATTTTTA
7072696 ATATTTTAAAATATTTTTA
1 AT-TTTTAAAATATTTTTA
7072715 A-TTTTAAAATATTTTTAAAA
1 ATTTTTAAAATATTTTT---A
*
7072735 ATATTTAAAATACTTTTTA
1 ATTTTTAAAATA-TTTTTA
7072754 ATTTTTAAAATA
1 ATTTTTAAAATA
7072766 AATTTTTGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
15 5 0.07
16 4 0.06
17 18 0.26
18 3 0.04
19 23 0.33
20 2 0.03
21 9 0.13
22 5 0.07
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTTAAAATATTTTTA
Found at i:7072780 original size:20 final size:19
Alignment explanation
Indices: 7072695--7072780 Score: 79
Period size: 20 Copynumber: 4.4 Consensus size: 19
7072685 TTAATTTTAA
7072695 AATATTTTAAAAT-ATTTTT
1 AATA-TTTAAAATAATTTTT
7072714 AAT-TTTAAAAT-ATTTTT
1 AATATTTAAAATAATTTTT
*
7072731 AAAAATATTTAAAATACTTTTT
1 ---AATATTTAAAATAATTTTT
*
7072753 AATTTTTAAAATAAATTTTT
1 AATATTTAAAAT-AATTTTT
*
7072773 GATATTTA
1 AATATTTA
7072781 TTAAAAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
17 14 0.25
19 14 0.25
20 15 0.27
21 8 0.14
22 5 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
AATATTTAAAATAATTTTT
Found at i:7072780 original size:39 final size:36
Alignment explanation
Indices: 7072688--7072765 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 36
7072678 TTTATTTTTA
*
7072688 ATTTTAAAATATTTTAAAATATTTTTAATTTTAAAAT
1 ATTTTTAAATA-TTTAAAATATTTTTAATTTTAAAAT
7072725 ATTTTTAAAAATATTTAAAATACTTTTTAATTTTTAAAAT
1 ATTTTT--AAATATTTAAAATA-TTTTTAA-TTTTAAAAT
7072765 A
1 A
7072766 AATTTTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 5 0.14
38 9 0.25
39 12 0.33
40 10 0.28
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (36 bp):
ATTTTTAAATATTTAAAATATTTTTAATTTTAAAAT
Found at i:7073009 original size:20 final size:20
Alignment explanation
Indices: 7072984--7073023 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7072974 CAGAAAATGA
*
7072984 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
7073004 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7073024 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7073039 original size:14 final size:15
Alignment explanation
Indices: 7072963--7073039 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
7072953 GATTGGCAGT
* *
7072963 AAAATGTTTTTC-AG
1 AAAATGATTTTCTGG
7072977 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
7072991 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
7073011 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
7073026 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
7073040 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
13 4 0.08
14 21 0.42
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:7073101 original size:32 final size:32
Alignment explanation
Indices: 7073016--7073101 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 32
7073006 TCTGTAAAAT
* * **
7073016 GATTTACTGGAAAATATTTTCTGGTGTTTGATT
1 GATTT-CTTGAAAATATTTTCTGCTGTTTGACA
* *
7073049 GA-ATCTGTGTAAAATGTTTTCTGCTGTTTGACA
1 GATTTCT-TG-AAAATATTTTCTGCTGTTTGACA
7073082 GATTTCTTGAAAATATTTTC
1 GATTTCTTGAAAATATTTTC
7073102 CGGAAAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
31 2 0.05
32 12 0.29
33 25 0.60
34 3 0.07
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (32 bp):
GATTTCTTGAAAATATTTTCTGCTGTTTGACA
Found at i:7073132 original size:20 final size:20
Alignment explanation
Indices: 7073107--7073186 Score: 92
Period size: 20 Copynumber: 4.0 Consensus size: 20
7073097 TTTTCCGGAA
7073107 AAATTGTTTTTACATATATT
1 AAATTGTTTTTACATATATT
7073127 AAATTGTTTTTACATATATAT
1 AAATTGTTTTTACATATAT-T
* ** *
7073148 TAATAAATTTTT--ATATTTT
1 AAAT-TGTTTTTACATATATT
7073167 AAATTGTTTTTACATATATT
1 AAATTGTTTTTACATATATT
7073187 GCAATGATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
18 5 0.10
19 4 0.08
20 30 0.62
21 4 0.08
22 5 0.10
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (20 bp):
AAATTGTTTTTACATATATT
Found at i:7074260 original size:17 final size:15
Alignment explanation
Indices: 7074236--7074278 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
7074226 GTGTATATAT
*
7074236 AAAAACAAATGTTTG
1 AAAAACAAATGTTTC
7074251 AATGAAACAAATGTTTC
1 AA--AAACAAATGTTTC
7074268 AAAAACAAATG
1 AAAAACAAATG
7074279 CCATGCCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
17 14 0.56
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (15 bp):
AAAAACAAATGTTTC
Found at i:7075922 original size:13 final size:13
Alignment explanation
Indices: 7075904--7075929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7075894 CCAGAAACTG
7075904 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
7075917 ATTTGCAGAAAAC
1 ATTTGCAGAAAAC
7075930 TACCCATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
ATTTGCAGAAAAC
Found at i:7076106 original size:14 final size:14
Alignment explanation
Indices: 7076087--7076116 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7076077 AACAAAACTA
7076087 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
7076101 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
7076115 GC
1 GC
7076117 TGCAATCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:7076176 original size:24 final size:24
Alignment explanation
Indices: 7076139--7076184 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7076129 GGTGAAGAGA
*
7076139 GTGAAGAGAGGAGCTATGGAAAGG
1 GTGAAGAAAGGAGCTATGGAAAGG
* *
7076163 GTGAAGAAATGAGCTGTGGAAA
1 GTGAAGAAAGGAGCTATGGAAA
7076185 TGGTTTCAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.04, G:0.41, T:0.15
Consensus pattern (24 bp):
GTGAAGAAAGGAGCTATGGAAAGG
Found at i:7081127 original size:13 final size:13
Alignment explanation
Indices: 7081109--7081134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7081099 ATATAACACT
7081109 ATCAAACTCATAA
1 ATCAAACTCATAA
7081122 ATCAAACTCATAA
1 ATCAAACTCATAA
7081135 GTTAGTATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
ATCAAACTCATAA
Found at i:7081734 original size:9 final size:9
Alignment explanation
Indices: 7081720--7081750 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7081710 GTTAAACGAA
7081720 TCGAGTTAT
1 TCGAGTTAT
*
7081729 TCGAGTTAA
1 TCGAGTTAT
7081738 TCGAGTTAT
1 TCGAGTTAT
7081747 TCGA
1 TCGA
7081751 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7082099 original size:30 final size:30
Alignment explanation
Indices: 7082046--7082104 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
7082036 AACCTTTTAT
7082046 TTTTCCCCAAACTTTTTACTCCC-TCCCAC
1 TTTTCCCCAAACTTTTTACTCCCTTCCCAC
*
7082075 TTTTCCCCTAAAAC-TTTTATTCCCTTCCCA
1 TTTTCCCC--AAACTTTTTACTCCCTTCCCA
7082105 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 9 0.35
31 9 0.35
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAACTTTTTACTCCCTTCCCAC
Found at i:7084332 original size:5 final size:5
Alignment explanation
Indices: 7084322--7084357 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
7084312 CTCGAAAATT
7084322 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
7084358 CGAATGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:7089933 original size:21 final size:21
Alignment explanation
Indices: 7089907--7089959 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
7089897 TCAAATATTA
* *
7089907 AATAATCCACAAACATTAGTT
1 AATAATCCACAAACATCAATT
* *
7089928 AATAAT--GCAACCATCAATT
1 AATAATCCACAAACATCAATT
7089947 AATAATCCACAAA
1 AATAATCCACAAA
7089960 TCAAATATCA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
19 15 0.62
21 9 0.38
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.25
Consensus pattern (21 bp):
AATAATCCACAAACATCAATT
Found at i:7089974 original size:23 final size:26
Alignment explanation
Indices: 7089946--7090010 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 26
7089936 AACCATCAAT
*
7089946 TAATAATCCACAAAT-CAAATATC-A
1 TAATAATCCACAAATACAAATACCAA
*
7089970 -AATAATCCATAAATACCAAATACCAA
1 TAATAATCCACAAATA-CAAATACCAA
7089996 TTAATAATCCACAAA
1 -TAATAATCCACAAA
7090011 CTCATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 13 0.39
25 7 0.21
26 1 0.03
28 12 0.36
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.23
Consensus pattern (26 bp):
TAATAATCCACAAATACAAATACCAA
Found at i:7094443 original size:99 final size:98
Alignment explanation
Indices: 7094282--7094498 Score: 301
Period size: 99 Copynumber: 2.2 Consensus size: 98
7094272 TTTAAAGCTT
* * * * *
7094282 GCTGATTTACGATCACAGCTTTAGTTCATTGATTTATGATCATGAACAATTCATTAAGAGTTCGC
1 GCTGATTTATGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCCC
* *
7094347 CGATTTACGATCGCAACTATCATTTTTAAC-TCTC
66 CAATTTACGATCGCAACT-TCA-TTTAAACATCTC
*
7094381 GCTGATTTATGATCACAACTTCAGTTTATTGATTTACGATCATGAACAATTCATTAAGAGTTCCC
1 GCTGATTTATGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCCC
* * *
7094446 CAATTTATGATCGCAACTTCATTTAAACATTTT
66 CAATTTACGATCGCAACTTCATTTAAACATCTC
*
7094479 GCTAATTTATGATCACAACT
1 GCTGATTTATGATCACAACT
7094499 GCCATTTTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
97 6 0.06
98 24 0.23
99 75 0.71
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (98 bp):
GCTGATTTATGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCCC
CAATTTACGATCGCAACTTCATTTAAACATCTC
Found at i:7094546 original size:134 final size:134
Alignment explanation
Indices: 7094349--7095052 Score: 736
Period size: 134 Copynumber: 5.4 Consensus size: 134
7094339 GAGTTCGCCG
* ** *
7094349 ATTTACGATCGCAACTATCATTTTTAACTCTCGCTGATTTATGATCACAACTTCAGTTTATTGAT
1 ATTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCACAACTTCAGTTCATTGAT
* * * * *
7094414 TTACGATCATGAACAATTCATTAAGAGTTCCCCAATTTATGATCGCAACTTCATTTAAACATTTT
66 TTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACGATCGCAACTCCATTTAAATAGTTT
7094479 GCTA
131 GCTA
* ** * * * *
7094483 ATTTATGATCACAACTGCCATTTTTAAAGCTCGTTGATTTACGACCACAACTTTAGTTCATTGAT
1 ATTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCACAACTTCAGTTCATTGAT
* * * *
7094548 TTACGATCATGAATAATTCATTAAGAGCTCGCCGATTTACGATCGCAACTCTATTTAAATAGTTT
66 TTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACGATCGCAACTCCATTTAAATAGTTT
7094613 GCTA
131 GCTA
* * * * *
7094617 ATTTTACGATCATAACTGTCATTTTTAAAGCTCACTGATTTATAATCACAACTTCAATTCATTGA
1 A-TTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCACAACTTCAGTTCATTGA
* * * * * * *
7094682 TTTATGATTATGAACAATTCATTAAGAGTTCGTCGATTTACGATTGCAACTCCTTTTAAATAATT
65 TTTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACGATCGCAACTCCATTTAAATAGTT
7094747 TGCTA
130 TGCTA
* * * *
7094752 ATTTACGATTACAACTATCATTTTTAAAGCTTGTTGATTTATG------A-TT-AG-----TG-C
1 ATTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCACAACTTCAGTTCATTGAT
* ** * *
7094803 TTACGATCATGAATAATTCATTAAGAGTTC-ATAGATTTATGATCGCAACTCCATTTAAACAGTT
66 TTACGATCATGAACAATTCATTAAGAGTTCGCCA-ATTTACGATCGCAACTCCATTTAAATAGTT
*
7094867 TGCTG
130 TGCTA
** * * *
7094872 ATTTACGATCACATTTATCATTTTTAAAGCTCGCTGATTTACGATCACAGCTTCAGTTCATTTAT
1 ATTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCACAACTTCAGTTCATTGAT
* * * *
7094937 TTATGATCATGAACAATTCATTAAGAGTTTGTCAATTTACGATCGCAACTCCATTTAAATAGTTC
66 TTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACGATCGCAACTCCATTTAAATAGTTT
** *
7095002 ATTG
131 GCTA
* * * ** * *
7095006 ATTTATGATCACAATTGTCATTTTTAAAATTGGCTGGTTTATGATCA
1 ATTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCA
7095053 TGAACAATTC
Statistics
Matches: 466, Mismatches: 87, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
120 93 0.20
121 2 0.00
126 1 0.00
127 4 0.01
128 3 0.01
133 1 0.00
134 246 0.53
135 116 0.25
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (134 bp):
ATTTACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATCACAACTTCAGTTCATTGAT
TTACGATCATGAACAATTCATTAAGAGTTCGCCAATTTACGATCGCAACTCCATTTAAATAGTTT
GCTA
Found at i:7094910 original size:120 final size:120
Alignment explanation
Indices: 7094691--7094912 Score: 318
Period size: 120 Copynumber: 1.9 Consensus size: 120
7094681 ATTTATGATT
* * * * *
7094691 ATGAACAATTCATTAAGAGTTCGTCGATTTACGATTGCAACTCCTTTTAAATAATTTGCTAATTT
1 ATGAACAATTCATTAAGAGTTCATAGATTTACGATCGCAACTCCATTTAAACAATTTGCTAATTT
* * *
7094756 ACGATTACAACTATCATTTTTAAAGCTTGTTGATTTATGATTAGTGCTTACGATC
66 ACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATTAGTGCTTACGATC
* * * *
7094811 ATGAATAATTCATTAAGAGTTCATAGATTTATGATCGCAACTCCATTTAAACAGTTTGCTGATTT
1 ATGAACAATTCATTAAGAGTTCATAGATTTACGATCGCAACTCCATTTAAACAATTTGCTAATTT
**
7094876 ACGATCACATTTATCATTTTTAAAGCTCGCTGATTTA
66 ACGATCACAACTATCATTTTTAAAGCTCGCTGATTTA
7094913 CGATCACAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
120 88 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (120 bp):
ATGAACAATTCATTAAGAGTTCATAGATTTACGATCGCAACTCCATTTAAACAATTTGCTAATTT
ACGATCACAACTATCATTTTTAAAGCTCGCTGATTTATGATTAGTGCTTACGATC
Found at i:7095028 original size:36 final size:35
Alignment explanation
Indices: 7094971--7095128 Score: 92
Period size: 35 Copynumber: 4.5 Consensus size: 35
7094961 GAGTTTGTCA
* * *
7094971 ATTTACGATCGCAACTCCATTTAAATAGTTCATTG
1 ATTTACGATCACAATTTCATTTAAATAGTTCATTG
* ***
7095006 ATTTATGATCACAATTGTCATTTTTAAA-A-TTGGCTG
1 ATTTACGATCACAATT-TCA--TTTAAATAGTTCATTG
* * * * *
7095042 GTTTATGATCATGAACAA-TTCA-TT-AAGAGTTCGTCG
1 ATTTACGATC----ACAATTTCATTTAAATAGTTCATTG
* *
7095078 ATTTACGACCACAATTCCATTTAAATAGTTCATTG
1 ATTTACGATCACAATTTCATTTAAATAGTTCATTG
7095113 ATTTACGATCACAATT
1 ATTTACGATCACAATT
7095129 GACATTTTTA
Statistics
Matches: 92, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
32 4 0.04
33 3 0.03
34 4 0.04
35 40 0.43
36 26 0.28
37 1 0.01
38 9 0.10
39 1 0.01
40 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (35 bp):
ATTTACGATCACAATTTCATTTAAATAGTTCATTG
Found at i:7095123 original size:107 final size:107
Alignment explanation
Indices: 7094935--7095160 Score: 355
Period size: 107 Copynumber: 2.1 Consensus size: 107
7094925 CAGTTCATTT
* * *
7094935 ATTTATGATCATGAACAATTCATTAAGAGTTTGTCAATTTACGATCGCAACTCCATTTAAATAGT
1 ATTTATGATCATGAACAATTCATTAAGAGTTCGTCAATTTACGACCACAACTCCATTTAAATAGT
* *
7095000 TCATTGATTTATGATCACAATTGTCATTTTTAAA-ATTGGCTG
66 TCATTGATTTACGATCACAATTGACATTTTTAAAGATT-GCTG
* * *
7095042 GTTTATGATCATGAACAATTCATTAAGAGTTCGTCGATTTACGACCACAATTCCATTTAAATAGT
1 ATTTATGATCATGAACAATTCATTAAGAGTTCGTCAATTTACGACCACAACTCCATTTAAATAGT
*
7095107 TCATTGATTTACGATCACAATTGACATTTTTAAAGCTTGCTG
66 TCATTGATTTACGATCACAATTGACATTTTTAAAGATTGCTG
7095149 ATTTATGATCAT
1 ATTTATGATCAT
7095161 AGTTTCAGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 106 0.98
108 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (107 bp):
ATTTATGATCATGAACAATTCATTAAGAGTTCGTCAATTTACGACCACAACTCCATTTAAATAGT
TCATTGATTTACGATCACAATTGACATTTTTAAAGATTGCTG
Found at i:7095488 original size:11 final size:11
Alignment explanation
Indices: 7095474--7095498 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7095464 GATGGGGATA
7095474 AATTATTATAG
1 AATTATTATAG
7095485 AATTATTATAG
1 AATTATTATAG
7095496 AAT
1 AAT
7095499 ATATCATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
AATTATTATAG
Found at i:7097856 original size:2 final size:2
Alignment explanation
Indices: 7097849--7097873 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7097839 TTAAATTATG
7097849 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7097874 GGCAATCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7102153 original size:45 final size:44
Alignment explanation
Indices: 7102087--7102241 Score: 220
Period size: 45 Copynumber: 3.4 Consensus size: 44
7102077 AGTATACAGT
* * * *
7102087 AATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTG
1 AATC-GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
7102132 AATCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATC-GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
7102177 AATCGATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCG-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
7102222 AGTCGGTAACAGTAACAGTA
1 AATC-GTAACAGTAACAGTA
7102242 GTCGGCACAT
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.01
45 98 0.98
46 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (44 bp):
AATCGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:7102192 original size:39 final size:41
Alignment explanation
Indices: 7102102--7102263 Score: 159
Period size: 45 Copynumber: 3.8 Consensus size: 41
7102092 GTAACGGTAG
* *
7102102 CAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC-G--A-AGTAA
*
7102147 CGGTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCG---A-AGTAA
*
7102192 CAGTAACAGTATTCGACACACAAAGTGCCGAGTCG--GTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCGAAGTAA
* * * *
7102231 CAGTAACAGTAGTCGGCACA-TAAGTGCCTAATC
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC
7102264 AGTAAGCCGG
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 10 0.09
39 22 0.21
44 1 0.01
45 73 0.69
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (41 bp):
CAGTAACAGTATTCGACACACAAAGTGCCGAATCGAAGTAA
Found at i:7102425 original size:54 final size:54
Alignment explanation
Indices: 7102343--7102450 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
7102333 TAGTTAATAG
7102343 GGTATTTAATTCACTTTCCAGTATAAATTTCCATCTTAGTTCAGTATCAATTAT
1 GGTATTTAATTCACTTTCCAGTATAAATTTCCATCTTAGTTCAGTATCAATTAT
7102397 GGTATTTAATTCACTTTCCAGTATAAATTTCCATCTTAGTTCAGTATCAATTAT
1 GGTATTTAATTCACTTTCCAGTATAAATTTCCATCTTAGTTCAGTATCAATTAT
7102451 AATTTCTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (54 bp):
GGTATTTAATTCACTTTCCAGTATAAATTTCCATCTTAGTTCAGTATCAATTAT
Found at i:7119916 original size:18 final size:18
Alignment explanation
Indices: 7119883--7119917 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7119873 TCCAGCAGAT
* *
7119883 GGCATACTGACTTGTTGA
1 GGCATACTAACCTGTTGA
7119901 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
7119918 TGGAGAGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGA
Found at i:7123433 original size:56 final size:57
Alignment explanation
Indices: 7123331--7123441 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 57
7123321 AATTAAACTT
** * * * *
7123331 AAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGCCAAGTTCAAGTACTAAATTGAG
1 AAAAAAAGTTTAAATACCAAATTAAGAAAAAATACAAAATTCAAGTACTAAATTGAG
* * *
7123388 AAAAAAA-TTTAAATACCAAATTAAGAAAAAATATAAAATTTAAGTATTAAATTG
1 AAAAAAAGTTTAAATACCAAATTAAGAAAAAATACAAAATTCAAGTACTAAATTG
7123442 GATCAAATCA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
56 38 0.84
57 7 0.16
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (57 bp):
AAAAAAAGTTTAAATACCAAATTAAGAAAAAATACAAAATTCAAGTACTAAATTGAG
Found at i:7133469 original size:22 final size:22
Alignment explanation
Indices: 7133444--7133491 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7133434 TGGGATTGCA
7133444 CATGGCTAACGTACTAAGCTCT
1 CATGGCTAACGTACTAAGCTCT
** *
7133466 CATGTTTCACGTACTAAGCTCT
1 CATGGCTAACGTACTAAGCTCT
7133488 CATG
1 CATG
7133492 TTTGAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (22 bp):
CATGGCTAACGTACTAAGCTCT
Found at i:7133492 original size:22 final size:22
Alignment explanation
Indices: 7133452--7133494 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7133442 CACATGGCTA
7133452 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
7133474 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
7133495 GAACAATAAA
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:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:7138813 original size:21 final size:20
Alignment explanation
Indices: 7138779--7138838 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
7138769 CTTGAACTTT
*
7138779 AAACTCAAACCCTTGAACCCC
1 AAACCCAAA-CCTTGAACCCC
* * *
7138800 GAACCCTAAACCTTAAATCCC
1 AAACCC-AAACCTTGAACCCC
*
7138821 AAACCCAAACCCTGAACC
1 AAACCCAAACCTTGAACC
7138839 TTGAGGTTCG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 9 0.30
21 18 0.60
22 3 0.10
ACGTcount: A:0.40, C:0.42, G:0.05, T:0.13
Consensus pattern (20 bp):
AAACCCAAACCTTGAACCCC
Found at i:7141133 original size:63 final size:64
Alignment explanation
Indices: 7141061--7141191 Score: 237
Period size: 64 Copynumber: 2.1 Consensus size: 64
7141051 ACACTTTAAT
*
7141061 TTTATTTAGTTATGTTTTAAAA-TTTATATTTTTCCATTCTTTGATTGGTTGAGCATATAAATA
1 TTTATTTAGTTATGTTTTAAAATTTTATATTTTTCCATTCTTTAATTGGTTGAGCATATAAATA
*
7141124 TTTATTTAGTTATGTTTTAAAATTTTATATTTTTCCATTCTTTAATTGGTTGAGCATATAAATC
1 TTTATTTAGTTATGTTTTAAAATTTTATATTTTTCCATTCTTTAATTGGTTGAGCATATAAATA
7141188 TTTA
1 TTTA
7141192 CGAGGACACG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 22 0.34
64 43 0.66
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (64 bp):
TTTATTTAGTTATGTTTTAAAATTTTATATTTTTCCATTCTTTAATTGGTTGAGCATATAAATA
Found at i:7146742 original size:4 final size:4
Alignment explanation
Indices: 7146735--7146761 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7146725 AATAGTTTTT
7146735 TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTT
7146762 TATCAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (4 bp):
TTTG
Found at i:7147137 original size:55 final size:55
Alignment explanation
Indices: 7147076--7147179 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 55
7147066 TCGTCTTAAT
* * * * *
7147076 TGTTGGAATACTGCTTCTTTTGAATATATTTTTTATATGTTTAAATTGATTGTCA
1 TGTTGGAATACTACTTCTTTTGAACAGATTGTTTATATGCTTAAATTGATTGTCA
* *
7147131 TGTTGGAATACTATTTCTTTTGAACCGATTGTTTATATGCTTAAATTGA
1 TGTTGGAATACTACTTCTTTTGAACAGATTGTTTATATGCTTAAATTGA
7147180 CTGTTACATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (55 bp):
TGTTGGAATACTACTTCTTTTGAACAGATTGTTTATATGCTTAAATTGATTGTCA
Found at i:7150100 original size:21 final size:21
Alignment explanation
Indices: 7150074--7150115 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7150064 CTAAATCGAA
7150074 GGGGCTTAAAGGCAACCCACT
1 GGGGCTTAAAGGCAACCCACT
7150095 GGGGCTTAAAGGCAACCCACT
1 GGGGCTTAAAGGCAACCCACT
7150116 AACAAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (21 bp):
GGGGCTTAAAGGCAACCCACT
Found at i:7158329 original size:21 final size:21
Alignment explanation
Indices: 7158305--7158354 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
7158295 TAAATTCGAG
7158305 ACCTTAAACT-TTAAATCTAAA
1 ACCTTAAACTCTTAAA-CTAAA
*
7158326 ACCTTAAA-TCTTAAACTCAA
1 ACCTTAAACTCTTAAACTAAA
*
7158346 ACTTTAAAC
1 ACCTTAAAC
7158355 ATGCGGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (21 bp):
ACCTTAAACTCTTAAACTAAA
Found at i:7158628 original size:32 final size:32
Alignment explanation
Indices: 7158592--7158655 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
7158582 CGAAAAAAGT
* *
7158592 AAGTGCATCTATAGATAAATAGTATATCTACG
1 AAGTGCACCTATACATAAATAGTATATCTACG
7158624 AAGTGCACCTATACATAAATAGTATATCTACG
1 AAGTGCACCTATACATAAATAGTATATCTACG
7158656 GTAAGTAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
AAGTGCACCTATACATAAATAGTATATCTACG
Found at i:7162804 original size:2 final size:2
Alignment explanation
Indices: 7162797--7162835 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7162787 AGTGCCTGTT
7162797 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7162836 TCAGAGTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7169173 original size:22 final size:23
Alignment explanation
Indices: 7169148--7169202 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
7169138 ATTTATTATT
*
7169148 TTAATATTATTTCTTT-TCCATA
1 TTAATATTATTTCTTTATCAATA
* *
7169170 TTAAT-TTATTTTTTTATTAATA
1 TTAATATTATTTCTTTATCAATA
7169192 TTAATATTATT
1 TTAATATTATT
7169203 ATTATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.32
22 14 0.50
23 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
TTAATATTATTTCTTTATCAATA
Found at i:7169202 original size:3 final size:3
Alignment explanation
Indices: 7169183--7169216 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
7169173 ATTTATTTTT
* *
7169183 TTA TTA ATA TTA ATA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7169217 CGTTCGTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7173409 original size:64 final size:64
Alignment explanation
Indices: 7173288--7173410 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
7173278 TCCCGATCGG
* * * * ***
7173288 TATTAATCCTGCATGTGTTGTAGATATACCACAGCTCTTTGTGAGCGTCCTTTTATATGATCAA
1 TATTAATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCGTCCCGATATATGATCAA
* *
7173352 TATTGATCCTGTATGTATTGCAGACATACCACAGCTCTTTATGAGCGTCCCGATATATG
1 TATTAATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCGTCCCGATATATG
7173411 GCACTTCATG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (64 bp):
TATTAATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCGTCCCGATATATGATCAA
Found at i:7173494 original size:24 final size:25
Alignment explanation
Indices: 7173446--7173494 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
7173436 CTCGCTTGAA
* *
7173446 CTTCCTGATATATGGTTATTCGGAG
1 CTTCCTGATATATAGCTATTCGGAG
7173471 CTTCCTGATA-ATAGCTATTCGGAG
1 CTTCCTGATATATAGCTATTCGGAG
7173495 TTACCCGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (25 bp):
CTTCCTGATATATAGCTATTCGGAG
Found at i:7177820 original size:33 final size:33
Alignment explanation
Indices: 7177781--7177844 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
7177771 AAAAATTATA
* *
7177781 TTTAATACAATAAAATATTTATTATATTTATTT
1 TTTAATACAATAAAACATTTACTATATTTATTT
*
7177814 TTTAATATAATAAAACATTTACTATATTTAT
1 TTTAATACAATAAAACATTTACTATATTTAT
7177845 AGTAGTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (33 bp):
TTTAATACAATAAAACATTTACTATATTTATTT
Found at i:7178844 original size:2 final size:2
Alignment explanation
Indices: 7178837--7178867 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7178827 TTTGTAAGAT
7178837 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7178868 TAACCAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7194598 original size:41 final size:41
Alignment explanation
Indices: 7194553--7194632 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
7194543 CCTAATTGGA
* * *
7194553 AAAATAATTTCCTTATTTTAATAAACTACTAAAAGATAAGG
1 AAAATAATTACATTATTCTAATAAACTACTAAAAGATAAGG
* * *
7194594 AAAATAATTAGATTATTCTGATAGACTACTAAAAGATAA
1 AAAATAATTACATTATTCTAATAAACTACTAAAAGATAA
7194633 AATAAAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (41 bp):
AAAATAATTACATTATTCTAATAAACTACTAAAAGATAAGG
Found at i:7202647 original size:15 final size:15
Alignment explanation
Indices: 7202625--7202663 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
7202615 CACGACAAAT
7202625 TCCCTCTCCTTATCC
1 TCCCTCTCCTTATCC
* * *
7202640 TTCCTCTCTTTCTCC
1 TCCCTCTCCTTATCC
7202655 TCCCTCTCC
1 TCCCTCTCC
7202664 CTCCTCTCCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.54, G:0.00, T:0.44
Consensus pattern (15 bp):
TCCCTCTCCTTATCC
Found at i:7207378 original size:17 final size:16
Alignment explanation
Indices: 7207355--7207420 Score: 73
Period size: 17 Copynumber: 4.1 Consensus size: 16
7207345 TTTAGGCAGC
7207355 AAAAGAAGAAAAAGAG
1 AAAAGAAGAAAAAGAG
7207371 ACAAAGAAG-AAAAGA-
1 A-AAAGAAGAAAAAGAG
*
7207386 AGAAGAAGAAAAAGGAG
1 AAAAGAAGAAAAA-GAG
*
7207403 AAAAGAAAAAAATAGAG
1 AAAAGAAGAAAA-AGAG
7207420 A
1 A
7207421 TGCCAACTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 6 0.14
15 5 0.12
16 9 0.21
17 21 0.50
18 1 0.02
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (16 bp):
AAAAGAAGAAAAAGAG
Found at i:7207412 original size:14 final size:14
Alignment explanation
Indices: 7207360--7207412 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
7207350 GCAGCAAAAG
7207360 AAGAAAAA-GAGACA
1 AAGAAAAAGGAGA-A
*
7207374 AAGAAGAAAAGAAGAA
1 AAG-A-AAAAGGAGAA
7207390 GAAGAAAAAGGAGAA
1 -AAGAAAAAGGAGAA
7207405 AAGAAAAA
1 AAGAAAAA
7207413 AATAGAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 11 0.33
15 10 0.30
16 6 0.18
17 6 0.18
ACGTcount: A:0.74, C:0.02, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGGAGAA
Found at i:7207952 original size:5 final size:5
Alignment explanation
Indices: 7207942--7207980 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
7207932 ACACATTTGT
7207942 ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTT
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTTC ATTT
7207981 TCTAAATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTC
Found at i:7208554 original size:21 final size:21
Alignment explanation
Indices: 7208530--7208584 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
7208520 GGCAACCTCC
* *
7208530 TGCTGAGTTAGGGTAGTCTCT
1 TGCTGAGTTAGGGTAGCCTAT
* *
7208551 TGCTGATTTGGGGTAGCCTAT
1 TGCTGAGTTAGGGTAGCCTAT
* *
7208572 TACTAAGTTAGGG
1 TGCTGAGTTAGGG
7208585 CAACCACTTG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.13, G:0.33, T:0.36
Consensus pattern (21 bp):
TGCTGAGTTAGGGTAGCCTAT
Found at i:7211070 original size:5 final size:5
Alignment explanation
Indices: 7211060--7211098 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
7211050 GTTGATAGAG
*
7211060 AAAAT AAAAT AAACA- AAAAT ATAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAA
7211099 AACATTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7215998 original size:45 final size:45
Alignment explanation
Indices: 7215933--7216088 Score: 201
Period size: 45 Copynumber: 3.5 Consensus size: 45
7215923 AGTCAGATAA
* *
7215933 GTTGCTATGTGCTGATTCCACCGGGTACCATTGATTATAAAGGTG
1 GTTGCTATGTGCTGATTCCACCGGATATCATTGATTATAAAGGTG
* * * **
7215978 GTTGCTATGTGCTGACTCCACCAGAAATCATTGAAAATAAAGGTG
1 GTTGCTATGTGCTGATTCCACCGGATATCATTGATTATAAAGGTG
* *
7216023 GTTGCTATGTGCTGATTCCACCGAATATAATTGATTAT-AAGAGTG
1 GTTGCTATGTGCTGATTCCACCGGATATCATTGATTATAAAG-GTG
7216068 GTT-CTATGTGCTGA-TCCACCG
1 GTTGCTATGTGCTGATTCCACCG
7216089 TGTAACGGTT
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 7 0.07
44 14 0.15
45 75 0.78
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
GTTGCTATGTGCTGATTCCACCGGATATCATTGATTATAAAGGTG
Found at i:7230543 original size:105 final size:101
Alignment explanation
Indices: 7230362--7230555 Score: 237
Period size: 105 Copynumber: 1.9 Consensus size: 101
7230352 GACGGATAAG
* * * *
7230362 ACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAGCTTAGCTATGGCATTTTAATGAA
1 ACCATGGTTGAACCATGGCAATATTTAAATGTAAGACCATAGCTGAGCTATGACATTATAATGAA
* *
7230427 AAGATCATAATTGGGTTATGGCACCTTGAATGTAAA
66 AAGACCATAATTGGCTTATGGCACCTTGAATGTAAA
* *
7230463 ACCATGGTTGAACCATGGCAATATATATACATGTGTAAGACCATAGCTGGGCTATGACATTCAT-
1 ACCATGGTTGAACCATGGCAATAT-T-TA-A-ATGTAAGACCATAGCTGAGCTATGACATT-ATA
* * *
7230527 ATGATAATACCGTAATTGGCTTATGGCAC
61 ATGAAAAGACCATAATTGGCTTATGGCAC
7230556 TACAAATGTA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
101 23 0.30
102 1 0.01
103 2 0.03
104 1 0.01
105 49 0.64
106 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (101 bp):
ACCATGGTTGAACCATGGCAATATTTAAATGTAAGACCATAGCTGAGCTATGACATTATAATGAA
AAGACCATAATTGGCTTATGGCACCTTGAATGTAAA
Found at i:7230983 original size:19 final size:20
Alignment explanation
Indices: 7230959--7231010 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
7230949 TCCGGTAGTT
*
7230959 TTTGCAATGTAAAT-TTTGG
1 TTTGCAATGTAAATGGTTGG
*
7230978 TTTGC-ATGTACATGGTTGG
1 TTTGCAATGTAAATGGTTGG
7230997 TTTGGCAATG-AAAT
1 TTT-GCAATGTAAAT
7231011 AGTTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.26
19 12 0.44
20 5 0.19
21 3 0.11
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (20 bp):
TTTGCAATGTAAATGGTTGG
Found at i:7242044 original size:37 final size:37
Alignment explanation
Indices: 7242003--7242159 Score: 224
Period size: 37 Copynumber: 4.2 Consensus size: 37
7241993 CAATCACTCG
* * *
7242003 TAAGAGCTAATCCACCCGATAACACGCCAGACGCTCA
1 TAAGAGCTAGTCCACCCGATAACACGCTAGATGCTCA
* *
7242040 TAAGATCTAGTCCACCCGATAACAAGCTAGATGCTCA
1 TAAGAGCTAGTCCACCCGATAACACGCTAGATGCTCA
*
7242077 TAAGAGCTAGTCCACCCGATAACAAGCTAGATGCTCA
1 TAAGAGCTAGTCCACCCGATAACACGCTAGATGCTCA
* * * *
7242114 TAAGAGCTAGTCCACCCAATAGCACGTTAGATGCTTA
1 TAAGAGCTAGTCCACCCGATAACACGCTAGATGCTCA
7242151 TAAGAGCTA
1 TAAGAGCTA
7242160 ATCAAACCGA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (37 bp):
TAAGAGCTAGTCCACCCGATAACACGCTAGATGCTCA
Found at i:7242086 original size:17 final size:17
Alignment explanation
Indices: 7242064--7242123 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7242054 CCCGATAACA
7242064 AGCTAGATGCTCATAAG
1 AGCTAGATGCTCATAAG
* * *
7242081 AGCTAG-TCCACCCGATAACA
1 AGCTAGAT--GCTC-ATAA-G
7242101 AGCTAGATGCTCATAAG
1 AGCTAGATGCTCATAAG
7242118 AGCTAG
1 AGCTAG
7242124 TCCACCCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 1 0.03
17 12 0.38
18 6 0.19
19 6 0.19
20 6 0.19
21 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (17 bp):
AGCTAGATGCTCATAAG
Found at i:7242106 original size:20 final size:20
Alignment explanation
Indices: 7242046--7242106 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
7242036 CTCATAAGAT
7242046 CTAGTCCACCCGATAACAAG
1 CTAGTCCACCCGATAACAAG
* * *
7242066 CTAGAT--GCTC-ATAA-GAG
1 CTAG-TCCACCCGATAACAAG
7242083 CTAGTCCACCCGATAACAAG
1 CTAGTCCACCCGATAACAAG
7242103 CTAG
1 CTAG
7242107 ATGCTCATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
16 1 0.03
17 6 0.20
18 6 0.20
19 6 0.20
20 10 0.33
21 1 0.03
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (20 bp):
CTAGTCCACCCGATAACAAG
Found at i:7242929 original size:19 final size:19
Alignment explanation
Indices: 7242902--7242960 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
7242892 TCAATGAAAA
*
7242902 CTTCTAGAATTTTTAACAG
1 CTTCAAGAATTTTTAACAG
7242921 CTTCAAGAA-----AA-A-
1 CTTCAAGAATTTTTAACAG
*
7242933 CTTCTAGAATTTTTAACAG
1 CTTCAAGAATTTTTAACAG
7242952 CTTCAAGAA
1 CTTCAAGAA
7242961 CGAAGGTACG
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 2 0.07
17 2 0.07
18 1 0.03
19 16 0.53
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (19 bp):
CTTCAAGAATTTTTAACAG
Found at i:7242934 original size:31 final size:31
Alignment explanation
Indices: 7242898--7242960 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
7242888 TTAATCAATG
7242898 AAAACTTCTAGAATTTTTAACAGCTTCAAGA
1 AAAACTTCTAGAATTTTTAACAGCTTCAAGA
7242929 AAAACTTCTAGAATTTTTAACAGCTTCAAGA
1 AAAACTTCTAGAATTTTTAACAGCTTCAAGA
7242960 A
1 A
7242961 CGAAGGTACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
AAAACTTCTAGAATTTTTAACAGCTTCAAGA
Found at i:7243855 original size:13 final size:13
Alignment explanation
Indices: 7243839--7243863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7243829 AATCAGACTC
7243839 ATAAATATTTATA
1 ATAAATATTTATA
7243852 ATAAATATTTAT
1 ATAAATATTTAT
7243864 GAAGCTAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAAATATTTATA
Found at i:7244065 original size:26 final size:26
Alignment explanation
Indices: 7244035--7244091 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
7244025 TATTAGTAAC
* *
7244035 TTATATGT-GTAAATTTATTATATATA
1 TTATAT-TAGTAAAGTTAATATATATA
*
7244061 TTATATTATTAAAGTTAATATATATA
1 TTATATTAGTAAAGTTAATATATATA
7244087 TTATA
1 TTATA
7244092 ATAGGTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (26 bp):
TTATATTAGTAAAGTTAATATATATA
Done.