Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 26 of 295
Found at i:6872188 original size:3 final size:3
Alignment explanation
Indices: 6872180--6872382 Score: 137
Period size: 3 Copynumber: 67.0 Consensus size: 3
6872170 TTTTATTAAA
* * *
6872180 TAT TAT TAT TAT CAT T-T CTAA TAT TAT TAA TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * * * * * * *
6872225 TAT TGT TAT TAT TAC TAT TAT TAA TAT TCT TGT TAT TAA CAT TGT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6872273 TAT TCCT T-T TAT TAT TAT TTT TAT TAA TA- TAG TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6872317 TAT TGT TAT TAT TAT TAT TAT TAAT GTAT TAT TAT TAC TAGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TA-T TAT TAT
*
6872365 TAT T-T CTAG TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT
6872383 ATATAATATT
Statistics
Matches: 155, Mismatches: 33, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
2 7 0.05
3 138 0.89
4 9 0.06
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6872326 original size:38 final size:39
Alignment explanation
Indices: 6872230--6872369 Score: 121
Period size: 38 Copynumber: 3.6 Consensus size: 39
6872220 TATATTATTG
* * *
6872230 TTATTATTACTA-TTATTAATATTCTTGTTATTAACATTGT-
1 TTATTATTACTAGTTATTATTA-T-TT-TTATTAATAATGTA
* *
6872270 TT-TTATTCCT-TTTATTATTATTTTTATTAAT-ATAGTA
1 TTATTATTACTAGTTATTATTATTTTTATTAATAAT-GTA
* * * *
6872307 TTATTATTATTA-TTGTTATTATTATTATTATTAATGTA
1 TTATTATTACTAGTTATTATTATTTTTATTAATAATGTA
6872345 TTATTATTACTAGTTATTATTATTT
1 TTATTATTACTAGTTATTATTATTT
6872370 CTAGTATTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
35 1 0.01
36 9 0.11
37 4 0.05
38 38 0.47
39 27 0.33
40 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (39 bp):
TTATTATTACTAGTTATTATTATTTTTATTAATAATGTA
Found at i:6872393 original size:30 final size:30
Alignment explanation
Indices: 6872305--6872382 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 30
6872295 ATTAATATAG
* * *
6872305 TATTATT-AT-TATTATTGTTATTA-TTAT
1 TATTATTAATGTATTATTATTACTAGATAT
*
6872332 TATTATTAATGTATTATTATTACTAGTTAT
1 TATTATTAATGTATTATTATTACTAGATAT
**
6872362 TATTATTTCTAGTATTATTAT
1 TATTATTAAT-GTATTATTAT
6872383 ATATAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 7 0.16
28 2 0.05
29 12 0.28
30 12 0.28
31 10 0.23
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
TATTATTAATGTATTATTATTACTAGATAT
Found at i:6872683 original size:22 final size:21
Alignment explanation
Indices: 6872650--6872700 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
6872640 TCAAATATAT
*
6872650 TTAAAA-ACATAAAAACAAGTA
1 TTAAAACAAATAAAAACAA-TA
*
6872671 TTAAAACAAATAAAAATAATA
1 TTAAAACAAATAAAAACAATA
*
6872692 CTAAAACAA
1 TTAAAACAA
6872701 TTCTTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.20
Consensus pattern (21 bp):
TTAAAACAAATAAAAACAATA
Found at i:6872696 original size:21 final size:22
Alignment explanation
Indices: 6872658--6872700 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6872648 ATTTAAAAAC
*
6872658 ATAAAAACAAGTATTAAAACAA
1 ATAAAAACAAGTACTAAAACAA
*
6872680 ATAAAAATAA-TACTAAAACAA
1 ATAAAAACAAGTACTAAAACAA
6872701 TTCTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAGTACTAAAACAA
Found at i:6872776 original size:15 final size:16
Alignment explanation
Indices: 6872746--6872778 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6872736 AAATGGTTAT
6872746 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
6872763 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
6872778 A
1 A
6872779 AATAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:6873107 original size:27 final size:27
Alignment explanation
Indices: 6873069--6873132 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
6873059 ATATTATTAC
*
6873069 TATA-TTTATTATTATTA-ATG-ATAGTG
1 TATATTTTTTTATT-TTATATGTATA-TG
6873095 TATATTTTTTTATTTTATATGTATATG
1 TATATTTTTTTATTTTATATGTATATG
*
6873122 TATATATTTTT
1 TATATTTTTTT
6873133 GTACATAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 7 0.21
27 23 0.70
28 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (27 bp):
TATATTTTTTTATTTTATATGTATATG
Found at i:6873401 original size:25 final size:27
Alignment explanation
Indices: 6873368--6873426 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
6873358 TTTTAATACC
*
6873368 CTATGTATTG-TGTATATTCTTAAT-A
1 CTATATATTGATGTATATTCTTAATAA
*
6873393 CTATATATTGTATGTATTTTCTTAATAA
1 CTATATATTG-ATGTATATTCTTAATAA
6873421 CTATAT
1 CTATAT
6873427 TATATGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.31
27 13 0.45
28 7 0.24
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (27 bp):
CTATATATTGATGTATATTCTTAATAA
Found at i:6873408 original size:27 final size:30
Alignment explanation
Indices: 6873378--6873441 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 30
6873368 CTATGTATTG
6873378 TGTATATTCTTAAT-ACTATA-TAT-TGTA
1 TGTATATTCTTAATAACTATATTATATGTA
*
6873405 TGTATTTTCTTAATAACTATATTATATGTA
1 TGTATATTCTTAATAACTATATTATATGTA
*
6873435 TATATAT
1 TGTATAT
6873442 ACTGTGTACG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.42
28 6 0.19
29 3 0.10
30 9 0.29
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.53
Consensus pattern (30 bp):
TGTATATTCTTAATAACTATATTATATGTA
Found at i:6873432 original size:26 final size:26
Alignment explanation
Indices: 6873378--6873437 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
6873368 CTATGTATTG
*
6873378 TGTATATTCTTAATACTATATATTGTA
1 TGTATATTCTTAATAC-ATATATTATA
*
6873405 TGTATTTTCTTAATA-ACTATATTATA
1 TGTATATTCTTAATACA-TATATTATA
6873431 TGTATAT
1 TGTATAT
6873438 ATATACTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TGTATATTCTTAATACATATATTATA
Found at i:6873737 original size:25 final size:25
Alignment explanation
Indices: 6873709--6873812 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
6873699 TTAATAAGTC
6873709 TATATTATGTATGTATTTTTAACAT
1 TATATTATGTATGTATTTTTAACAT
* * * *
6873734 TATACTATGTATATACTTTTTAATAC
1 TATATTATGTATGTA-TTTTTAACAT
* * *
6873760 TATTATCATGT-T-TATATTTAA-AA
1 TA-TATTATGTATGTATTTTTAACAT
* *
6873783 TATATATACGTATGTGTTTTTAACAT
1 TATAT-TATGTATGTATTTTTAACAT
6873809 TATA
1 TATA
6873813 CTATATATAT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
22 3 0.05
23 6 0.10
24 7 0.12
25 22 0.37
26 16 0.27
27 6 0.10
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (25 bp):
TATATTATGTATGTATTTTTAACAT
Found at i:6873803 original size:75 final size:75
Alignment explanation
Indices: 6873709--6873874 Score: 289
Period size: 75 Copynumber: 2.2 Consensus size: 75
6873699 TTAATAAGTC
* * *
6873709 TATAT-TATGTATGTATTTTTAACATTATACTATGTATATACTTTTTAATACTATTATCATGTTT
1 TATATATACGTATGTATTTTTAACATTATACTATATATATACTTTGTAATACTATTATCATGTTT
6873773 ATATTTAAAA
66 ATATTTAAAA
*
6873783 TATATATACGTATGTGTTTTTAACATTATACTATATATATACTTTGTAATACTATTATCATGTTT
1 TATATATACGTATGTATTTTTAACATTATACTATATATATACTTTGTAATACTATTATCATGTTT
6873848 ATATTTAAAA
66 ATATTTAAAA
6873858 TATATATACGTATGTAT
1 TATATATACGTATGTAT
6873875 AAAGGTAACA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 5 0.06
75 81 0.94
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.51
Consensus pattern (75 bp):
TATATATACGTATGTATTTTTAACATTATACTATATATATACTTTGTAATACTATTATCATGTTT
ATATTTAAAA
Found at i:6875324 original size:5 final size:5
Alignment explanation
Indices: 6875314--6875344 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6875304 ATATGTATGT
*
6875314 AGAAA AGAAA AGAAA AGAAA AAAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
6875345 AAGAACAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:6886048 original size:26 final size:27
Alignment explanation
Indices: 6886019--6886069 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
6886009 AAAGTAAACA
*
6886019 ATAAAACAA-TTTAAAATGAATAATAC
1 ATAAAACAAGTTTAAAATAAATAATAC
6886045 ATAAAACAAGTTTAAAATAAATAAT
1 ATAAAACAAGTTTAAAATAAATAAT
6886070 GTATAAAGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (27 bp):
ATAAAACAAGTTTAAAATAAATAATAC
Found at i:6886278 original size:22 final size:23
Alignment explanation
Indices: 6886253--6886298 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6886243 CAACCAAATC
6886253 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
6886275 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
6886298 A
1 A
6886299 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:6886304 original size:23 final size:23
Alignment explanation
Indices: 6886260--6886304 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6886250 ATCAATTCAA
*
6886260 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
6886283 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
6886305 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:6889265 original size:17 final size:17
Alignment explanation
Indices: 6889243--6889282 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6889233 TGAAATATAT
*
6889243 AATATACAATAACTTAA
1 AATATAAAATAACTTAA
* *
6889260 AATATAAAATAATTTGA
1 AATATAAAATAACTTAA
6889277 AATATA
1 AATATA
6889283 TATAACAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (17 bp):
AATATAAAATAACTTAA
Found at i:6890828 original size:22 final size:22
Alignment explanation
Indices: 6890800--6890842 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6890790 AAAGGAACAT
6890800 ACTATTAATTAATTTGGATTAC
1 ACTATTAATTAATTTGGATTAC
6890822 ACTATTAATTAATTTGGATTA
1 ACTATTAATTAATTTGGATTA
6890843 AAGTTCAAAC
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:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (22 bp):
ACTATTAATTAATTTGGATTAC
Found at i:6894345 original size:23 final size:26
Alignment explanation
Indices: 6894290--6894345 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 26
6894280 TAACTTTTCC
6894290 TTATAATTTAATAAATTAATATGTTAT
1 TTATAATTTAATAAA-TAATATGTTAT
**
6894317 CAATAA-TTAATAAA-AATA-GTTAT
1 TTATAATTTAATAAATAATATGTTAT
6894340 TTATAA
1 TTATAA
6894346 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 9 0.36
24 4 0.16
26 8 0.32
27 4 0.16
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (26 bp):
TTATAATTTAATAAATAATATGTTAT
Found at i:6895674 original size:8 final size:8
Alignment explanation
Indices: 6895663--6895688 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6895653 TTACATTATT
6895663 AATGTTTC
1 AATGTTTC
6895671 AATGTTTC
1 AATGTTTC
6895679 AATGTTTC
1 AATGTTTC
6895687 AA
1 AA
6895689 GTATTATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (8 bp):
AATGTTTC
Found at i:6896803 original size:13 final size:14
Alignment explanation
Indices: 6896782--6896832 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 14
6896772 CTAACCATAT
*
6896782 ATAAATAATAAATA
1 ATAATTAATAAATA
6896796 ATAA-TAAT-AATA
1 ATAATTAATAAATA
* *
6896808 GTAATTAATAGA-A
1 ATAATTAATAAATA
6896821 ATAATTAATAAA
1 ATAATTAATAAA
6896833 ACAACAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 7 0.23
13 19 0.61
14 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
ATAATTAATAAATA
Found at i:6897168 original size:17 final size:18
Alignment explanation
Indices: 6897146--6897187 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
6897136 ATGTATTTAC
6897146 ATAATAAAT-ATATAATA
1 ATAATAAATAATATAATA
6897163 ATAATAAATAATATAATA
1 ATAATAAATAATATAATA
6897181 AT-ATAAA
1 ATAATAAA
6897188 ACATAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATAAATAATATAATA
Found at i:6897594 original size:18 final size:18
Alignment explanation
Indices: 6897571--6897606 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6897561 ATAACAAGTA
*
6897571 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
6897589 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
6897607 ATGATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:6897635 original size:37 final size:37
Alignment explanation
Indices: 6897585--6897659 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
6897575 GATGGAGTTA
6897585 GTGGGGGTGATGGAGGTAGTGGATGATTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGATTTAGTAGGGT
*
6897622 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATGATTTAGTAGGGT
6897659 G
1 G
6897660 ATGAAATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATGATTTAGTAGGGT
Found at i:6900563 original size:15 final size:15
Alignment explanation
Indices: 6900530--6900564 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6900520 TTAAATCCTA
*
6900530 CTTTTTTTTATTTTC
1 CTTTTTTTTATATTC
*
6900545 CTTTTTTTTATATTG
1 CTTTTTTTTATATTC
6900560 CTTTT
1 CTTTT
6900565 GTAGTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.11, G:0.03, T:0.77
Consensus pattern (15 bp):
CTTTTTTTTATATTC
Found at i:6907442 original size:22 final size:22
Alignment explanation
Indices: 6907400--6907442 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6907390 TGACGTTGTT
*
6907400 TTGTTATCATTTTGTTATTATA
1 TTGTTATCATTTTATTATTATA
*
6907422 TTGTTA-CTATTTTATTGTTAT
1 TTGTTATC-ATTTTATTATTAT
6907443 TATTTGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (22 bp):
TTGTTATCATTTTATTATTATA
Found at i:6907447 original size:14 final size:14
Alignment explanation
Indices: 6907414--6907447 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6907404 TATCATTTTG
*
6907414 TTATTATATTGTTA
1 TTATTTTATTGTTA
*
6907428 CTATTTTATTGTTA
1 TTATTTTATTGTTA
6907442 TTATTT
1 TTATTT
6907448 GGATATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (14 bp):
TTATTTTATTGTTA
Found at i:6908424 original size:14 final size:14
Alignment explanation
Indices: 6908405--6908456 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
6908395 ATAGTAAGGG
6908405 TTAATTTCATTTTT
1 TTAATTTCATTTTT
*
6908419 TTAATTTTATTTAATTT
1 TTAATTTCA-TT--TTT
*
6908436 TTTATTTCATTTTT
1 TTAATTTCATTTTT
*
6908450 ATAATTT
1 TTAATTT
6908457 AATTAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 16 0.53
15 2 0.07
16 2 0.07
17 10 0.33
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (14 bp):
TTAATTTCATTTTT
Found at i:6908446 original size:31 final size:32
Alignment explanation
Indices: 6908408--6908486 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
6908398 GTAAGGGTTA
*
6908408 ATTTCATTTTTTTAATTTTATTTAAT-TTTTT
1 ATTTCATTTTTTTAATTTTAATTAATATTTTT
*
6908439 ATTTCATTTTTATAA-TTTAATTAATATTTTT
1 ATTTCATTTTTTTAATTTTAATTAATATTTTT
*
6908470 -TTGTAATTTTTTATAAT
1 ATT-TCATTTTTT-TAAT
6908487 AGCTGGTAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 11 0.28
31 26 0.65
32 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (32 bp):
ATTTCATTTTTTTAATTTTAATTAATATTTTT
Found at i:6908481 original size:32 final size:31
Alignment explanation
Indices: 6908408--6908486 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 31
6908398 GTAAGGGTTA
* *
6908408 ATTTCATTTTTT-TAATTTTATTTAATTTTTT
1 ATTTAATTTTTTATAA-TTTAATTAATTTTTT
*
6908439 ATTTCA-TTTTTATAATTTAATTAATATTTTT
1 ATTTAATTTTTTATAATTTAATTAAT-TTTTT
6908470 -TTGTAATTTTTTATAAT
1 ATT-TAATTTTTTATAAT
6908487 AGCTGGTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 16 0.38
31 16 0.38
32 10 0.24
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (31 bp):
ATTTAATTTTTTATAATTTAATTAATTTTTT
Found at i:6908569 original size:19 final size:19
Alignment explanation
Indices: 6908542--6908582 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6908532 TTTTATAATT
*
6908542 TAATTAAACCCTAA-AACCC
1 TAATCAAACCC-AAGAACCC
6908561 TAATCAAACCCAAGAACCC
1 TAATCAAACCCAAGAACCC
6908580 TAA
1 TAA
6908583 ACCTAGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.49, C:0.32, G:0.02, T:0.17
Consensus pattern (19 bp):
TAATCAAACCCAAGAACCC
Found at i:6914897 original size:31 final size:31
Alignment explanation
Indices: 6914856--6914924 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
6914846 TTTTAGGCAA
6914856 AATTTGAATCTATAAAAAGGTTTGAGAAATTG
1 AATTT-AATCTATAAAAAGGTTTGAGAAATTG
6914888 AATTTAATCTATAAAAAGGTTTGAGAAATTG
1 AATTTAATCTATAAAAAGGTTTGAGAAATTG
6914919 AATTTA
1 AATTTA
6914925 CTTTTTGACG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 32 0.86
32 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.36
Consensus pattern (31 bp):
AATTTAATCTATAAAAAGGTTTGAGAAATTG
Found at i:6918302 original size:11 final size:11
Alignment explanation
Indices: 6918288--6918329 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
6918278 AAGTTTGACT
*
6918288 AAAAGAAGAAG
1 AAAAGAAAAAG
*
6918299 AAAAAAAAAAG
1 AAAAGAAAAAG
6918310 -AAAGAAAAAG
1 AAAAGAAAAAG
6918320 AAAAAGAAAA
1 -AAAAGAAAA
6918330 CTTCTCTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 9 0.35
12 8 0.31
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:6918308 original size:6 final size:6
Alignment explanation
Indices: 6918288--6918329 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
6918278 AAGTTTGACT
*
6918288 AAAAGA AGAAGA AAAA-A AAAAG- -AAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
6918330 CTTCTCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 4 0.13
5 5 0.16
6 22 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:6918315 original size:21 final size:21
Alignment explanation
Indices: 6918289--6918329 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6918279 AGTTTGACTA
*
6918289 AAAGAAGAAGAAAAAAAAAAG
1 AAAGAAAAAGAAAAAAAAAAG
*
6918310 AAAGAAAAAGAAAAAGAAAA
1 AAAGAAAAAGAAAAAAAAAA
6918330 CTTCTCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAAAAAAG
Found at i:6920821 original size:23 final size:23
Alignment explanation
Indices: 6920777--6920822 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6920767 ACAATTCCTT
* *
6920777 AAAATTTTGGCCTCCTCTTGTGG
1 AAAAATTTGGCCTCCTCATGTGG
6920800 AAAAATTTGGCCT-CTGCATGTGG
1 AAAAATTTGGCCTCCT-CATGTGG
6920823 CTTTGATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (23 bp):
AAAAATTTGGCCTCCTCATGTGG
Found at i:6930900 original size:52 final size:48
Alignment explanation
Indices: 6930838--6931030 Score: 187
Period size: 47 Copynumber: 4.0 Consensus size: 48
6930828 GAAATGTGAT
* *
6930838 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
6930890 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* ** *
6930937 TACTATATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
6930983 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
6931031 ACTATGTGCA
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
46 25 0.21
47 53 0.44
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:6938291 original size:20 final size:21
Alignment explanation
Indices: 6938266--6938306 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6938256 ATTTTTTAAA
6938266 TATATAATATA-GATTATTTT
1 TATATAATATATGATTATTTT
* *
6938286 TATATATTATATTATTATTTT
1 TATATAATATATGATTATTTT
6938307 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATAATATATGATTATTTT
Found at i:6938292 original size:22 final size:21
Alignment explanation
Indices: 6938265--6938306 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6938255 AATTTTTTAA
6938265 ATATATAATATAGATTATTTTT
1 ATATATAATAT-GATTATTTTT
* *
6938287 ATATATTATATTATTATTTT
1 ATATATAATATGATTATTTT
6938307 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATATAATATGATTATTTTT
Found at i:6950870 original size:7 final size:7
Alignment explanation
Indices: 6950860--6950948 Score: 53
Period size: 7 Copynumber: 13.3 Consensus size: 7
6950850 AGATTCAGGA
6950860 TTTAAGG
1 TTTAAGG
6950867 TTTAAGG
1 TTTAAGG
6950874 TTTAA-G
1 TTTAAGG
*
6950880 TTTGA-G
1 TTTAAGG
*
6950886 TTTTAGG
1 TTTAAGG
**
6950893 CCTAAGG
1 TTTAAGG
*
6950900 -TTCAGG
1 TTTAAGG
*
6950906 TTTAGGG
1 TTTAAGG
6950913 TTTAA-G
1 TTTAAGG
* *
6950919 ATTACGAG
1 TTTAAG-G
*
6950927 TTTAGGG
1 TTTAAGG
6950934 TTTAAGG
1 TTTAAGG
6950941 TTT-AGG
1 TTTAAGG
6950947 TT
1 TT
6950949 CAGAGCTTAA
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
6 23 0.37
7 35 0.56
8 5 0.08
ACGTcount: A:0.24, C:0.04, G:0.29, T:0.43
Consensus pattern (7 bp):
TTTAAGG
Found at i:6950935 original size:28 final size:28
Alignment explanation
Indices: 6950904--6950991 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
6950894 CTAAGGTTCA
6950904 GGTTTAGGGTTTAAGATTACGAGTTTAG
1 GGTTTAGGGTTTAAGATTACGAGTTTAG
* * *
6950932 GGTTTAAGGTTT-AGGTT-CAGAGCTTAAG
1 GGTTTAGGGTTTAAGATTAC-GAG-TTTAG
* * *
6950960 GGTTT-GGGGTTATGAGTTACGAGTTTGG
1 GGTTTAGGGTTTAAGA-TTACGAGTTTAG
6950988 GGTT
1 GGTT
6950992 CATGGTTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
26 1 0.02
27 11 0.24
28 28 0.61
29 5 0.11
30 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.36, T:0.39
Consensus pattern (28 bp):
GGTTTAGGGTTTAAGATTACGAGTTTAG
Found at i:6959624 original size:38 final size:38
Alignment explanation
Indices: 6959571--6959647 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
6959561 ATGGAGATAG
6959571 TTCAGAGGTTCAGTGTGGGAAGTATATAAGAATAGGCC
1 TTCAGAGGTTCAGTGTGGGAAGTATATAAGAATAGGCC
*
6959609 TTCAGAGGTTTAGTGTGGGAAGTATATAAGAATAGGCC
1 TTCAGAGGTTCAGTGTGGGAAGTATATAAGAATAGGCC
6959647 T
1 T
6959648 ACGTGAGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (38 bp):
TTCAGAGGTTCAGTGTGGGAAGTATATAAGAATAGGCC
Found at i:6961170 original size:16 final size:15
Alignment explanation
Indices: 6961132--6961185 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 15
6961122 ATTAACATAT
* *
6961132 TATTATTTTTAAT-G
1 TATTATTATTACTAG
*
6961146 TATTGTTATTACTAG
1 TATTATTATTACTAG
*
6961161 TTATTATTATTTCTAG
1 -TATTATTATTACTAG
6961177 TATTATTAT
1 TATTATTAT
6961186 ATATAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 10 0.30
15 10 0.30
16 13 0.39
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:6961421 original size:140 final size:142
Alignment explanation
Indices: 6961221--6961555 Score: 366
Period size: 140 Copynumber: 2.4 Consensus size: 142
6961211 TATGTATGTA
* * ** * *
6961221 TATATATAGTATTA-TCTTAATTACTTTATTTTAATATTACTATTGTATTATATTTACTTTTTAT
1 TATACATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATGTTATATTTACTTTTT-T
* * *
6961285 ATT-TCATCATTATTTCTAGTA-TTATTATTAGATATAATATTAGTG-TA-TGTTTTAT-TATAT
65 ATTATAAT-ATTATTACTA-TATTTATTATT--AT-TAATAATAGTGATATTGTTTTATATATAT
6961345 ATGTATA-TATATA-TT-
125 ATGTATAGTATATATTTG
* *
6961360 TATACATGGTATTATTTTTAATTA-TTTCATTTTAATATTTTTATTATGTTATATTTGCTTTTTT
1 TATACATAGTATTATTTTTAATTACTTT-ATTTTAATATTTTTATTATGTTATATTTACTTTTTT
* *
6961424 ATTAATAATATTATTACTATATTTATTATTATTAATAATAGTGTATATTTTTTTATATGTATATG
65 ATT-ATAATATTATTACTATATTTATTATTATTAATAATAGTG-ATATTGTTTTATATATATATG
6961489 TATATGTATATATTTG
128 TATA-GTATATATTTG
* *
6961505 TGTACATAGTATTATTTTCTAATTACTTTATTTTAATACTTTTATTATGTT
1 TATACATAGTATTATTTT-TAATTACTTTATTTTAATATTTTTATTATGTT
6961556 TATGTGTATA
Statistics
Matches: 165, Mismatches: 16, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
137 10 0.06
138 2 0.01
139 23 0.14
140 62 0.38
141 14 0.08
143 6 0.04
144 2 0.01
145 16 0.10
146 27 0.16
147 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (142 bp):
TATACATAGTATTATTTTTAATTACTTTATTTTAATATTTTTATTATGTTATATTTACTTTTTTA
TTATAATATTATTACTATATTTATTATTATTAATAATAGTGATATTGTTTTATATATATATGTAT
AGTATATATTTG
Found at i:6961479 original size:27 final size:27
Alignment explanation
Indices: 6961418--6961476 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
6961408 TTATATTTGC
*
6961418 TTTTTTATTAATAATATTATTACTATA
1 TTTTTTATTAATAATAATATTACTATA
* * * *
6961445 TTTATTATTATTAATAATAGT-GTATA
1 TTTTTTATTAATAATAATATTACTATA
6961471 TTTTTT
1 TTTTTT
6961477 TATATGTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
TTTTTTATTAATAATAATATTACTATA
Found at i:6961784 original size:27 final size:30
Alignment explanation
Indices: 6961754--6961816 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
6961744 ATATGTATCG
6961754 TGTATATTCTTAAT-ACTATA-TAT-TGTA
1 TGTATATTCTTAATAACTATATTATATGTA
*
6961781 TGTATTTTCTTAATAACTATATTATATGTA
1 TGTATATTCTTAATAACTATATTATATGTA
*
6961811 TATATA
1 TGTATA
6961817 CTATGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 13 0.43
28 6 0.20
29 3 0.10
30 8 0.27
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (30 bp):
TGTATATTCTTAATAACTATATTATATGTA
Found at i:6961808 original size:26 final size:26
Alignment explanation
Indices: 6961754--6961813 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
6961744 ATATGTATCG
*
6961754 TGTATATTCTTAATACTATATATTGTA
1 TGTATATTCTTAATAC-ATATATTATA
*
6961781 TGTATTTTCTTAATA-ACTATATTATA
1 TGTATATTCTTAATACA-TATATTATA
6961807 TGTATAT
1 TGTATAT
6961814 ATACTATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TGTATATTCTTAATACATATATTATA
Found at i:6961853 original size:20 final size:23
Alignment explanation
Indices: 6961810--6961858 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
6961800 TATTATATGT
6961810 ATATATACTATGTATGTATTTTA
1 ATATATACTATGTATGTATTTTA
6961833 ATAT-TACTATGTAT-T-TTTTA
1 ATATATACTATGTATGTATTTTA
6961853 ATATAT
1 ATATAT
6961859 GTATATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 2 0.08
22 10 0.40
23 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (23 bp):
ATATATACTATGTATGTATTTTA
Found at i:6962040 original size:21 final size:19
Alignment explanation
Indices: 6962015--6962065 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
6962005 TTTTTAATAT
6962015 TATATCTTTATATATG-TCATG
1 TATATCTTT-TA-ATGCT-ATG
*
6962036 TATATATTTTAATGCTATG
1 TATATCTTTTAATGCTATG
6962055 TATATACTTTT
1 TATAT-CTTTT
6962066 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
21 8 0.31
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (19 bp):
TATATCTTTTAATGCTATG
Found at i:6966378 original size:15 final size:15
Alignment explanation
Indices: 6966358--6966391 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6966348 TTTAATACTT
6966358 AATACTTAATTTTTC
1 AATACTTAATTTTTC
*
6966373 AATACTTAATTTTTT
1 AATACTTAATTTTTC
6966388 AATA
1 AATA
6966392 ACCATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (15 bp):
AATACTTAATTTTTC
Found at i:6967699 original size:21 final size:21
Alignment explanation
Indices: 6967673--6967715 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
6967663 CCAAAGTAAG
6967673 AAAAATCATGAAAGTCGTCCT
1 AAAAATCATGAAAGTCGTCCT
6967694 AAAAATCATGAAAGTCGTCCT
1 AAAAATCATGAAAGTCGTCCT
6967715 A
1 A
6967716 CTGGTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAATCATGAAAGTCGTCCT
Found at i:6968666 original size:20 final size:20
Alignment explanation
Indices: 6968634--6968688 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
6968624 TTTTTATTTA
6968634 AAATTTAATTATAAAATTAT
1 AAATTTAATTATAAAATTAT
6968654 AAATATTAA-TATAAAATTAT
1 AAAT-TTAATTATAAAATTAT
*
6968674 -ATTTTATATTATAAA
1 AAATTTA-ATTATAAA
6968689 CAAGAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 21 0.68
21 4 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTAATTATAAAATTAT
Found at i:6990317 original size:13 final size:13
Alignment explanation
Indices: 6990313--6990337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6990303 CAATTACCCA
6990313 ACCCAACCCAATT
1 ACCCAACCCAATT
6990326 ACCCAACCCAAT
1 ACCCAACCCAAT
6990338 CTTAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:6990322 original size:18 final size:18
Alignment explanation
Indices: 6990299--6990336 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6990289 ATTATATATT
6990299 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
6990317 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
6990335 AA
1 AA
6990337 TCTTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:6990403 original size:7 final size:6
Alignment explanation
Indices: 6990362--6990402 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
6990352 GTAATTTAAT
*
6990362 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
6990403 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:6990403 original size:20 final size:20
Alignment explanation
Indices: 6990365--6990404 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6990355 ATTTAATAAA
**
6990365 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
6990385 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
6990405 ATATAATTTT
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:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:6990436 original size:9 final size:9
Alignment explanation
Indices: 6990422--6990495 Score: 66
Period size: 9 Copynumber: 8.6 Consensus size: 9
6990412 TTTATACAAA
6990422 TAATTCGGT
1 TAATTCGGT
6990431 TAATTCGGT
1 TAATTCGGT
* *
6990440 TAATTTGGG
1 TAATTCGGT
6990449 TAATTCAGG-
1 TAATTC-GGT
*
6990458 --ATT-GGG
1 TAATTCGGT
6990464 TAATTCGGT
1 TAATTCGGT
**
6990473 TAATTCAAT
1 TAATTCGGT
6990482 TAATTCGGT
1 TAATTCGGT
6990491 TAATT
1 TAATT
6990496 TTATACTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
5 2 0.04
7 3 0.06
8 3 0.06
9 42 0.81
10 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:6992031 original size:11 final size:11
Alignment explanation
Indices: 6992015--6992060 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
6992005 AAAAAATTAC
6992015 AATTTTTTTAT
1 AATTTTTTTAT
6992026 AA--TTTTTAT
1 AATTTTTTTAT
6992035 AATTTTTTT-T
1 AATTTTTTTAT
*
6992045 ACATTTTTTTGT
1 A-ATTTTTTTAT
6992057 AATT
1 AATT
6992061 ATTAAATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 9 0.29
10 2 0.06
11 18 0.58
12 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:6992038 original size:20 final size:20
Alignment explanation
Indices: 6992015--6992052 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6992005 AAAAAATTAC
6992015 AATTTTTTTATA-ATTTTTAT
1 AATTTTTTT-TACATTTTTAT
6992035 AATTTTTTTTACATTTTT
1 AATTTTTTTTACATTTTT
6992053 TTGTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (20 bp):
AATTTTTTTTACATTTTTAT
Found at i:6999258 original size:35 final size:35
Alignment explanation
Indices: 6999212--6999280 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
6999202 TTTTAACAGA
*
6999212 AAGACCAATTTACTCTTTGATTTGACATATAAATG
1 AAGACCAATTTACTCTTTCATTTGACATATAAATG
6999247 AAGACCAATTTACTCTTTCATTTGACATATAAAT
1 AAGACCAATTTACTCTTTCATTTGACATATAAAT
6999281 TTTTTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (35 bp):
AAGACCAATTTACTCTTTCATTTGACATATAAATG
Found at i:6999754 original size:21 final size:20
Alignment explanation
Indices: 6999717--6999756 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6999707 TGCTTAGTCT
*
6999717 ATTTTATTTAAATAATAATA
1 ATTTTATTTAAAAAATAATA
*
6999737 ATTTTTTTTAAAAAAATAAT
1 ATTTTATTT-AAAAAATAAT
6999757 TATTGGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTTATTTAAAAAATAATA
Found at i:7000353 original size:20 final size:21
Alignment explanation
Indices: 7000328--7000368 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7000318 TTATAAGAAC
*
7000328 TTTGAGTT-ATTTTGATTAAT
1 TTTGAGTTGATTTTAATTAAT
7000348 TTTGAGTTGATTTTAATTAAT
1 TTTGAGTTGATTTTAATTAAT
7000369 GGTTTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.59
Consensus pattern (21 bp):
TTTGAGTTGATTTTAATTAAT
Found at i:7001620 original size:16 final size:16
Alignment explanation
Indices: 7001599--7001633 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7001589 GATTAAGATT
7001599 TTAAAT-GTTGTTAGTA
1 TTAAATAGTT-TTAGTA
7001615 TTAAATAGTTTTAGTA
1 TTAAATAGTTTTAGTA
7001631 TTA
1 TTA
7001634 GGGATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TTAAATAGTTTTAGTA
Found at i:7004188 original size:17 final size:16
Alignment explanation
Indices: 7004151--7004187 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7004141 AAAACCAAGA
7004151 TTTTTACAACATACAT
1 TTTTTACAACATACAT
* *
7004167 TTTTTACAATATTCAT
1 TTTTTACAACATACAT
7004183 TTTTT
1 TTTTT
7004188 TTCATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTACAACATACAT
Found at i:7009241 original size:13 final size:13
Alignment explanation
Indices: 7009223--7009269 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
7009213 CAAAGAAGGA
7009223 AAAAGAAAGGAAG
1 AAAAGAAAGGAAG
*
7009236 AAAAGAAAAGATA-
1 AAAAGAAAGGA-AG
* *
7009249 ACAAGAAAGAAAG
1 AAAAGAAAGGAAG
7009262 AAAAGAAA
1 AAAAGAAA
7009270 ACGTGATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (13 bp):
AAAAGAAAGGAAG
Found at i:7024872 original size:42 final size:41
Alignment explanation
Indices: 7024718--7024873 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
7024708 TATGTTATCG
*
7024718 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
7024760 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
7024804 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
7024846 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
7024874 TGTCGATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:7032190 original size:42 final size:41
Alignment explanation
Indices: 7032036--7032191 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
7032026 TATGTTATCG
*
7032036 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
7032078 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
7032122 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
7032164 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
7032192 TGTCCGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:7036988 original size:26 final size:26
Alignment explanation
Indices: 7036958--7037013 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
7036948 TGAAACGCCC
7036958 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7036984 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7037010 ATCA
1 ATCA
7037014 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7037750 original size:22 final size:22
Alignment explanation
Indices: 7037725--7037767 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7037715 GTTTATGTTT
7037725 ATACATTACATACAGAAATAAA
1 ATACATTACATACAGAAATAAA
7037747 ATACATTACATACAGAAATAA
1 ATACATTACATACAGAAATAA
7037768 CTATGTTTGT
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:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (22 bp):
ATACATTACATACAGAAATAAA
Found at i:7038376 original size:22 final size:22
Alignment explanation
Indices: 7038334--7038376 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7038324 TAGAAATGAT
* * *
7038334 TTGAAAAATATAATAATTTAAC
1 TTGAAAAAAATAAAAAATTAAC
7038356 TTGAAAAAAATAAAAAATTAA
1 TTGAAAAAAATAAAAAATTAA
7038377 ATCCAAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
TTGAAAAAAATAAAAAATTAAC
Found at i:7042070 original size:29 final size:30
Alignment explanation
Indices: 7042010--7042071 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
7042000 AAGTACTTTG
* * * *
7042010 AAATTTTTGATTTATATTTATTTGGTATTT
1 AAATTTTTGATTTAGATTTAATTGGCACTT
*
7042040 AAATTTTT-TTTTAGATTTAATTGGCACTT
1 AAATTTTTGATTTAGATTTAATTGGCACTT
7042069 AAA
1 AAA
7042072 CATGAAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (30 bp):
AAATTTTTGATTTAGATTTAATTGGCACTT
Found at i:7043586 original size:9 final size:9
Alignment explanation
Indices: 7043556--7043589 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
7043546 AATTTATATA
7043556 TTTTTAAAG
1 TTTTTAAAG
*
7043565 TTTTGAAAG
1 TTTTTAAAG
7043574 TTTTTAAA-
1 TTTTTAAAG
7043582 TTTTTAAA
1 TTTTTAAA
7043590 ATTTGTCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (9 bp):
TTTTTAAAG
Found at i:7047064 original size:17 final size:17
Alignment explanation
Indices: 7047042--7047075 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7047032 CTAACACAGA
7047042 GCATAATTAAAATACAT
1 GCATAATTAAAATACAT
7047059 GCATAATTAAAATACAT
1 GCATAATTAAAATACAT
7047076 TGATCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
GCATAATTAAAATACAT
Found at i:7055758 original size:18 final size:18
Alignment explanation
Indices: 7055737--7055796 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
7055727 AATCGGTTAA
*
7055737 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
7055755 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
7055773 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
7055791 TCAGTA
1 TCAGTA
7055797 GCAAACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:7057249 original size:21 final size:21
Alignment explanation
Indices: 7057210--7057250 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7057200 TTTAATTAAA
* * *
7057210 AAATATCTTTTACTTAATAAT
1 AAATATCTATTAATAAATAAT
7057231 AAATATCTATTAATAAATAA
1 AAATATCTATTAATAAATAA
7057251 ATATATGTAT
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:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATATCTATTAATAAATAAT
Found at i:7075425 original size:24 final size:25
Alignment explanation
Indices: 7075393--7075441 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
7075383 AATAATACTA
* *
7075393 TAGTAATAATGATAATA-AAAAAAT
1 TAGTAATAATAATAAAATAAAAAAT
7075417 TAGTAATAATAATAAAATAAAAAAT
1 TAGTAATAATAATAAAATAAAAAAT
7075442 ATGATGGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (25 bp):
TAGTAATAATAATAAAATAAAAAAT
Found at i:7075516 original size:3 final size:3
Alignment explanation
Indices: 7075503--7075629 Score: 87
Period size: 3 Copynumber: 40.7 Consensus size: 3
7075493 GTTGTTTTGG
* * *
7075503 TAA TAAA TAA TAA TAGA CAA -AA TAA TAA TAA TAG TAA -AA TGAA GAA
1 TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
* * * * *
7075549 TAA CAA TAA TACA TTAA TAA TAA TAAA TCAG GAA TAA TAA TTA TAA CAA
1 TAA TAA TAA TA-A -TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA
* *
7075598 CAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
7075630 TGAAATTCGA
Statistics
Matches: 98, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
2 4 0.04
3 79 0.81
4 13 0.13
5 2 0.02
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:7077258 original size:41 final size:41
Alignment explanation
Indices: 7077179--7077258 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
7077169 TGTTGCTTTA
* * *
7077179 ATCTACTCCACTGCAACTTTAGGGAAATAAGATTTGTTTTG
1 ATCTACTCCACTGCAACTTTAGAGAAATAAAATATGTTTTG
* *
7077220 ATCTACTCTACTGCAA-TTTCAGAGAGATAAAATATGTTT
1 ATCTACTCCACTGCAACTTT-AGAGAAATAAAATATGTTT
7077259 ATTCATAGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
40 3 0.09
41 30 0.91
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (41 bp):
ATCTACTCCACTGCAACTTTAGAGAAATAAAATATGTTTTG
Found at i:7077331 original size:45 final size:44
Alignment explanation
Indices: 7077280--7078115 Score: 428
Period size: 45 Copynumber: 18.5 Consensus size: 44
7077270 TAATATGTTT
* * *
7077280 CACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTC
* * ** *
7077325 CACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATC-ACTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
* * * * *
7077368 CAATGCCATTTCAGGGAGATAAGGTTTGT-T-TT-GATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
* ** * * * *
7077409 TACTGCAACTTCAAAGAAATAAGATCTGTTTATTTATAGCTTCATTCTGTTC
1 CACTGCAACTTCAGGGAGATAAGA-----TT-TGTAT--CTTCAATCTGCTC
* * ** *
7077461 TACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCTGTCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTC
* * * * *
7077506 CACTGCAACTTAAAGGAGATAAGACTAGTGA-CTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTCAATCTGCTC
* * *
7077550 CACTGCAACTTCAGGGAGATGAGGTTTGT-T-TT-GATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
* * * * **
7077591 TACTGCAACTTCAGAGAGATAAAATCTGTTTATTTATAGCTTCAATCTATTC
1 CACTGCAACTTCAGGGAGAT--AA---G---ATTTGTATCTTCAATCTGCTC
* ** *
7077643 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCTGTCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTC
* * *
7077688 CACTGCAACTTCAGGGAGATAAGACTAGTGA-CTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTCAATCTGCTC
** * * *
7077732 CACAACAACTTCAGGGAGATAAGGTTTGT-T-TT-TATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
* * * * *
7077773 TACTGCAACTCCAGAGAGATAAGATCTGCTTATTTATAGCTTCAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGA-----TT-TGTAT--CTTCAATCTGCTC
* * **
7077825 CACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCTGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTC
* * * *
7077870 CACTGCAACTTTAGGGAGATAAGACTAGTGA-CTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGT-ATCTTCAATCTGCTC
* *
7077914 CACTGCAACTTCAGGGAGATAAGGTTTGT-T-TT-GATCTGC-C
1 CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
* * * * * *
7077954 CTACTGCAACTCCAGAGAGATAAGATCTGCTTATTTATAGGTTCAATTTGTTC
1 C-ACTGCAACTTCAGGGAGATAAGA-----TT-TGTAT--CTTCAATCTGCTC
* * * *
7078007 CACTGAAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTGCTC
* * * *
7078052 CACTACAACTTTAGGGAGATAAGATTTGTAACTTCAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
** * *
7078096 TGCTGAAACTTCAAGGAGAT
1 CACTGCAACTTCAGGGAGAT
7078116 CTGCTATGGC
Statistics
Matches: 588, Mismatches: 146, Indels: 115
0.69 0.17 0.14
Matches are distributed among these distances:
40 5 0.01
41 95 0.16
42 6 0.01
43 27 0.05
44 141 0.24
45 164 0.28
46 10 0.02
47 22 0.04
48 3 0.01
49 4 0.01
50 2 0.00
51 8 0.01
52 99 0.17
53 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTGCTC
Found at i:7077621 original size:41 final size:41
Alignment explanation
Indices: 7077544--7077621 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
7077534 TGACTTCAAC
* * ** *
7077544 CTGCTCCACTGCAACTTCAGGGAGATGAGGTTTGTTTTGAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAAATCTGTTTTGAT
*
7077585 CTGCTCTACTGCAACTTCAGAGAGATAAAATCTGTTT
1 CTGCTCCACTGCAACTTCAGAGAGATAAAATCTGTTT
7077622 ATTTATAGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (41 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAAATCTGTTTTGAT
Found at i:7078088 original size:182 final size:182
Alignment explanation
Indices: 7077184--7078075 Score: 1345
Period size: 182 Copynumber: 4.9 Consensus size: 182
7077174 CTTTAATCTA
* * * * *
7077184 CTCCACTGCAACTTTAGGGAAATAAGATTTGTTTTGATCTACTCTACTGCAATTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
* * * * * * *
7077249 AAATATGTTTATTCATAGCTTTAATATGTTTCACTGCAACTTCAGGGAAATAAGATTCGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* * * *
7077314 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATC-A
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
* * * * *
7077365 CTCCAATGCCATTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAAAGAAATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
* *
7077430 AGATCTGTTTATTTATAGCTTCATTCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* * *
7077495 TCTGTCTACTCCACTGCAACTTAAAGGAGATAAGACTAGTGACTTCAACCTG
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
*
7077547 CTCCACTGCAACTTCAGGGAGATGAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
* *
7077612 AAATCTGTTTATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
*
7077677 TCTGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
** * * *
7077729 CTCCACAACAACTTCAGGGAGATAAGGTTTGTTTTTATCTACTCTACTGCAACTCCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
* *
7077794 AGATCTGCTTATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
*
7077859 TCTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTAGTGACTTCAACCTG
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
* *
7077911 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCCCTACTGCAACTCCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
* * * * *
7077976 AGATCTGCTTATTTATAGGTTCAATTTGTTCCACTGAAACTTCAGGGAAATAAGATTTGCTATTT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* * *
7078041 TCAGTCTGCTCCACTACAACTTTAGGGAGATAAGA
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
7078076 TTTGTAACTT
Statistics
Matches: 648, Mismatches: 62, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
181 155 0.24
182 493 0.76
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (182 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
Found at i:7078182 original size:68 final size:67
Alignment explanation
Indices: 7078097--7078298 Score: 314
Period size: 68 Copynumber: 3.0 Consensus size: 67
7078087 AATCTACTCT
* *
7078097 GCTGAAACTTCAAGGAGATCTGCTATGGCTTCGAGTCGCTCCAACGCCATTTCAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAG-CGCTCCAACGCCATTTCAGGGAGAAGAGA
7078162 TCC
65 TCC
* * *
7078165 GCTGAAACTTCATGGAGATCTGTTGTGGCTTCTAGCCGCTCCAATGCCATTTCAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAG-CGCTCCAACGCCATTTCAGGGAGAAGAGA
7078230 TCC
65 TCC
* *
7078233 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTATAGCTACTCCAACGCCATTTCAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGC-GCTCCAACGCCATTTCAGGGAGAAGAGA
7078298 T
65 T
7078299 TTGTAATTCC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
67 1 0.01
68 121 0.99
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (67 bp):
GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCGCTCCAACGCCATTTCAGGGAGAAGAGAT
CC
Found at i:7078528 original size:86 final size:86
Alignment explanation
Indices: 7078295--7079349 Score: 1265
Period size: 86 Copynumber: 12.2 Consensus size: 86
7078285 CAGGGAGAAG
* * * * **
7078295 AGATTTGTAATTCCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCA
1 AGATCTGTAATT--CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTG
* * *
7078360 TTCCGCTACTGCTTAGGGAGATA
64 CTCCGCTACTGCTTAAGGAGACA
* *
7078383 AGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTAACCATCTTCGA-CTC
1 AGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCT-
*
7078447 GCTCCGCTACTGCTTAAGGAGATA
63 GCTCCGCTACTGCTTAAGGAGACA
* * * * ***
7078471 ATATCTGTAATTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTCGATCCATT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
* * *
7078536 CCGCTATTGCTTAGGGAGATA
66 CCGCTACTGCTTAAGGAGACA
* * * *
7078557 AGATCTGTAATTTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCATCTTCGACCCG
1 AGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTG
*
7078622 CTCCGCTACTGCTTAAGGAGATA
64 CTCCGCTACTGCTTAAGGAGACA
* * * * ** ***
7078645 ATATCTGTAATTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTAAACACCTTCGATCCATT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
* *
7078710 CCGCTACTGCTTAGGGAGATA
66 CCGCTACTGCTTAAGGAGACA
* * **
7078731 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCATCTTCGACCCA
1 AGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTG
*
7078796 CTCCGCTACTGCTTAAGGAGATA
64 CTCCGCTACTGCTTAAGGAGACA
* * * * *
7078819 ATATCTGTAATGCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
*
7078884 CCGCTACTGCTTAGGGAGACA
66 CCGCTACTGCTTAAGGAGACA
* ** * * *
7078905 AGATCTATAATTTGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACCATCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
*
7078970 CCACTACTGCTT-AGAGAGACA
66 CCGCTACTGCTTAAG-GAGACA
* * * *
7078991 AGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTACT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
*
7079056 CCACTACTGCTT-AGAGAGACA
66 CCGCTACTGCTTAAG-GAGACA
* * *
7079077 AGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
*
7079142 CCACTACTGCTT-AGAGAGACA
66 CCGCTACTGCTTAAG-GAGACA
* * *
7079163 AGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
*
7079228 CCACTACTGCTT-AGAGAGACA
66 CCGCTACTGCTTAAG-GAGACA
* * * *
7079249 AGATCTGTAATTCGGCCTGTTACGCTACTGCTTAGGGGGTTAAGGTTTACCGTCTTCGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
** *
7079314 CAACTACTGCTTAGGGAGACA
66 CCGCTACTGCTTAAGGAGACA
7079335 AGATCTGTAAATTCA
1 AGATCTGT-AATTCA
7079350 CCGATGTTGC
Statistics
Matches: 872, Mismatches: 84, Indels: 23
0.89 0.09 0.02
Matches are distributed among these distances:
85 1 0.00
86 627 0.72
87 8 0.01
88 234 0.27
90 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (86 bp):
AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAACCGTCTTCGATCTGCT
CCGCTACTGCTTAAGGAGACA
Found at i:7079011 original size:172 final size:174
Alignment explanation
Indices: 7078295--7079349 Score: 1399
Period size: 174 Copynumber: 6.1 Consensus size: 174
7078285 CAGGGAGAAG
*
7078295 AGATTTGTAATTCCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCA
1 AGATCTGTAATT--CAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCA
* * *
7078360 TTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGT
64 CTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGT
* *
7078425 TAAGGCTAACCATCTTCGA-CTCGCTCCGCTACTGCTTAAGGAGATA
129 TAAGGCTAACCATCTTCGATCT-GCTCCACTACTGCTTAAGGAGACA
* * * *
7078471 ATATCTGTAATTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTCGATCCATT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCACT
* * *
7078536 CCGCTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCTTGTTACCCTACTGCTTAGGGGGTTA
66 CCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
* * * *
7078601 AGGCTAACCATCTTCGACCCGCTCCGCTACTGCTTAAGGAGATA
131 AGGCTAACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGACA
* * * * * *
7078645 ATATCTGTAATTCAGCCTGTTACCCTACTACTTAAGGGGTTAAGGCTAAACACCTTCGATCCATT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCACT
*
7078710 CCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
66 CCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
* ** * *
7078775 AGGCTAACCATCTTCGACCCACTCCGCTACTGCTTAAGGAGATA
131 AGGCTAACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGACA
* * * * * **
7078819 ATATCTGTAATGCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCACT
* *
7078884 CCGCTACTGCTTAGGGAGACAAGATCTATAA-TTT-GGCCTGTTACCCTACTGCTTAGGGGGTTA
66 CCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
* *
7078947 AGGCTTACCATCTTTGATCTGCTCCACTACTGCTT-AGAGAGACA
131 AGGCTAACCATCTTCGATCTGCTCCACTACTGCTTAAG-GAGACA
* * * * *
7078991 AGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTACT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCACT
* * *
7079056 CCACTACTGCTTAGAGAGACAAGATCTGTAA--TTCGGCCTGTTACCCTACTGCTTAGGGGGTTA
66 CCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
* * *
7079119 AGGCTCACCGTCTTTGATCTGCTCCACTACTGCTT-AGAGAGACA
131 AGGCTAACCATCTTCGATCTGCTCCACTACTGCTTAAG-GAGACA
* * * * **
7079163 AGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCACT
* * * *
7079228 CCACTACTGCTTAGAGAGACAAGATCTGTAA--TTCGGCCTGTTACGCTACTGCTTAGGGGGTTA
66 CCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
* * * * *
7079291 AGGTTTACCGTCTTCGATCTGCTCAACTACTGCTTAGGGAGACA
131 AGGCTAACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGACA
7079335 AGATCTGTAAATTCA
1 AGATCTGT-AATTCA
7079350 CCGATGTTGC
Statistics
Matches: 820, Mismatches: 54, Indels: 13
0.92 0.06 0.01
Matches are distributed among these distances:
171 4 0.00
172 392 0.48
173 9 0.01
174 404 0.49
175 1 0.00
176 10 0.01
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (174 bp):
AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTAAACGCCTTTGATCCACT
CCGCTACTGCTTAGGGAGACAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
AGGCTAACCATCTTCGATCTGCTCCACTACTGCTTAAGGAGACA
Found at i:7081155 original size:7 final size:7
Alignment explanation
Indices: 7081123--7081186 Score: 51
Period size: 7 Copynumber: 8.9 Consensus size: 7
7081113 TCCACGATTT
*
7081123 TTTTTTA
1 TTTTTTC
7081130 TTTTTTAC
1 TTTTTT-C
7081138 TTTTTTC
1 TTTTTTC
7081145 -TTTTTC
1 TTTTTTC
7081151 TTTTTGT-
1 TTTTT-TC
*
7081158 TTTTGTTT
1 TTTT-TTC
*
7081166 TTTTTTG
1 TTTTTTC
7081173 TTTTCTTC
1 TTTT-TTC
7081181 TTTTTT
1 TTTTTT
7081187 TGTGTGTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
6 6 0.12
7 24 0.50
8 18 0.38
ACGTcount: A:0.03, C:0.08, G:0.05, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:7081170 original size:36 final size:35
Alignment explanation
Indices: 7081121--7081201 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 35
7081111 CTTCCACGAT
*
7081121 TTTTTTTTATTTTTTACTTTT-TTCTTTTTCTT-TTTG
1 TTTTTTTT-TTTTTT-CTTTTCTTCTTTTT-TTGTGTG
*
7081157 TTTTTGTTTTTTTTTGTTTTCTTCTTTTTTTGTGTG
1 TTTTT-TTTTTTTTTCTTTTCTTCTTTTTTTGTGTG
7081193 TTTTTTTTT
1 TTTTTTTTT
7081202 AATTTGAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 10 0.25
36 27 0.68
37 3 0.08
ACGTcount: A:0.02, C:0.06, G:0.07, T:0.84
Consensus pattern (35 bp):
TTTTTTTTTTTTTTCTTTTCTTCTTTTTTTGTGTG
Found at i:7081172 original size:16 final size:16
Alignment explanation
Indices: 7081146--7081201 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
7081136 ACTTTTTTCT
7081146 TTTTCTTTTTGTTTTTG
1 TTTT-TTTTTGTTTTTG
7081163 TTTTTTTTTGTTTTCT-
1 TTTTTTTTTGTTTT-TG
* *
7081179 TCTTTTTTTG--TGTG
1 TTTTTTTTTGTTTTTG
7081193 TTTTTTTTT
1 TTTTTTTTT
7081202 AATTTGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 9 0.26
16 19 0.56
17 5 0.15
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:7086285 original size:3 final size:3
Alignment explanation
Indices: 7086277--7086465 Score: 129
Period size: 3 Copynumber: 62.7 Consensus size: 3
7086267 TAAAATAAGG
* * * * ** **
7086277 TAA TAA TAA TAA TAA TAA TAA TAG TAG TAG TAG TTT TGG TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
*
7086323 TAA TAA TAGA CAA -AA TAA TAA TAA T-A TAA -AA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
7086366 TAA -AA TGAA GAA TAA CAA TAA TACA TTAA TAA TAA TAA -AA TCAG GAA
1 TAA TAA T-AA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA T-AA TAA
* * *
7086413 TAA TAA TTA TAA CAA CAA TAA T-A TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
7086458 TAA TAA TA
1 TAA TAA TA
7086466 TGAAATTCGA
Statistics
Matches: 153, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
2 12 0.08
3 127 0.83
4 12 0.08
5 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7086385 original size:18 final size:17
Alignment explanation
Indices: 7086334--7086386 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
7086324 AATAATAGAC
* *
7086334 AAAATAATAATAA-TAT
1 AAAATAAGAATAACAAT
* *
7086350 AAAATAATAATAATAAT
1 AAAATAAGAATAACAAT
7086367 AAAATGAAGAATAACAAT
1 AAAAT-AAGAATAACAAT
7086385 AA
1 AA
7086387 TACATTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 13 0.41
17 7 0.22
18 12 0.38
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAATAAGAATAACAAT
Found at i:7093244 original size:32 final size:32
Alignment explanation
Indices: 7093200--7093266 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
7093190 ATTTAAGTTA
*
7093200 TTTTTTTCAAAAAAAT-TCATTTC-CCCTTTGT
1 TTTTTTTAAAAAAAATCTCATTTCTCCCTTT-T
*
7093231 TTTTTTTAAAAAAAATCTCTTTTCTCCCTTTT
1 TTTTTTTAAAAAAAATCTCATTTCTCCCTTTT
7093263 TTTT
1 TTTT
7093267 CCTTTGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 15 0.47
32 11 0.34
33 6 0.19
ACGTcount: A:0.24, C:0.18, G:0.01, T:0.57
Consensus pattern (32 bp):
TTTTTTTAAAAAAAATCTCATTTCTCCCTTTT
Found at i:7097246 original size:7 final size:7
Alignment explanation
Indices: 7097234--7097259 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7097224 GTAAAAACAA
7097234 TATATAT
1 TATATAT
7097241 TATATAT
1 TATATAT
7097248 TATATAT
1 TATATAT
7097255 TATAT
1 TATAT
7097260 TATTTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:7104263 original size:8 final size:8
Alignment explanation
Indices: 7104252--7104276 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7104242 CCACCTACCC
7104252 CCCACTTG
1 CCCACTTG
7104260 CCCACTTG
1 CCCACTTG
7104268 CCCACTTG
1 CCCACTTG
7104276 C
1 C
7104277 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:7105436 original size:23 final size:23
Alignment explanation
Indices: 7105401--7105454 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
7105391 TCATTATTTT
*
7105401 CTATTATTGTTATTAATATACTA
1 CTATTATTCTTATTAATATACTA
* * *
7105424 TTATTATTCTTATTAATGTATTA
1 CTATTATTCTTATTAATATACTA
7105447 CTATTATT
1 CTATTATT
7105455 TTTTTTACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (23 bp):
CTATTATTCTTATTAATATACTA
Found at i:7105503 original size:3 final size:3
Alignment explanation
Indices: 7105246--7105485 Score: 52
Period size: 3 Copynumber: 80.7 Consensus size: 3
7105236 TTATATTTAT
* * * * *
7105246 TTA TTAA TT- TTA TTA TTT TTG CTA TTA TTA TTA TTA TCA TTA TTT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
7105291 TTA TT- CTG TTA TTG TTA TTA TT- TCTC TTT TTG TT- TTCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TTA
* * * * *
7105335 TT- TATA TTA TTG TTA GTA CTA TTA GTA CTCT- TTA GT- TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA -T-TA TTA TTA TTA TTA TTA
** * * * * *
7105380 TTA TTA TT- TCG TCA TTA TTT TCTA TTA TTG TTA TTA ATA -TA CTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * *
7105424 TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TTT TTT TTA CT- TTA TTA
1 TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7105470 TTA -CA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TT
7105486 GCTATCATCA
Statistics
Matches: 171, Mismatches: 46, Indels: 40
0.67 0.18 0.16
Matches are distributed among these distances:
2 14 0.08
3 142 0.83
4 13 0.08
5 2 0.01
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7105572 original size:3 final size:3
Alignment explanation
Indices: 7105564--7105618 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
7105554 ATATATTTAC
** *
7105564 ATT ATT ATT GCT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7105612 ATT ATT A
1 ATT ATT A
7105619 GACATAACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:7206252 original size:54 final size:55
Alignment explanation
Indices: 7206185--7206310 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 55
7206175 GCCGTAATCA
** *
7206185 AATCGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTC-
1 AATCGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCAACATAGTCG
* **
7206239 ATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCG
1 AATCGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCAACATAGTCG
7206293 AATCGCACACTTAGTGCT
1 AATCGCACACTTAGTGCT
7206311 GTACAATTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
53 24 0.39
54 37 0.61
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (55 bp):
AATCGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCAACATAGTCG
Found at i:7206278 original size:27 final size:26
Alignment explanation
Indices: 7206187--7206309 Score: 129
Period size: 27 Copynumber: 4.6 Consensus size: 26
7206177 CGTAATCAAA
* * *
7206187 TCGCACACTTAGTGCTACATAGTTAGAC
1 TCGCACACTTAGTGCAACATAG-T-CAT
** *
7206215 TCGCACACTTAGTGCCGCATGGTCAT
1 TCGCACACTTAGTGCAACATAGTCAT
* *
7206241 TCGCACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCAACATAGTCA-T
*
7206268 TCGCACACTTAGTGCAACATAGTCGAA
1 TCGCACACTTAGTGCAACATAGTC-AT
7206295 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
7206310 TGTACAATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 22 0.27
27 39 0.48
28 20 0.25
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (26 bp):
TCGCACACTTAGTGCAACATAGTCAT
Found at i:7214025 original size:27 final size:27
Alignment explanation
Indices: 7213995--7214172 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
7213985 ATATTGAGCC
* * *
7213995 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
7214022 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
7214049 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
7214077 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
7214104 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
7214131 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
7214158 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7214173 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:7214088 original size:55 final size:55
Alignment explanation
Indices: 7213995--7214172 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
7213985 ATATTGAGCC
* * *
7213995 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
7214049 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
7214104 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
7214158 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7214173 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:7214134 original size:82 final size:81
Alignment explanation
Indices: 7214016--7214171 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
7214006 TGCTATACAA
* * *
7214016 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
7214081 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
7214098 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
7214162 CACTTAGTGC
65 CACTTAGTGC
7214172 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:7216992 original size:41 final size:41
Alignment explanation
Indices: 7216917--7217247 Score: 438
Period size: 41 Copynumber: 8.1 Consensus size: 41
7216907 CAAAAAATGT
* *
7216917 AAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTA
1 AAAAC-CAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
* **
7216959 AAAA-CAGAGCAATAGCGGCGTTTTAAC-AAAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTT--CGGTAAAACGCCGCTA
*
7217000 AAAA-CAG-GTCAATAGCTGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAG-CAATAGCGGCGCTTTCGGTAAAACGCCGCTA
* *
7217040 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGTTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
*
7217081 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
* *
7217122 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
* ** *
7217163 AAAACCAGAG-AATTAACGGCGCTTTCTATAAAATGCCGCTA
1 AAAACCAGAGCAA-TAGCGGCGCTTTCGGTAAAACGCCGCTA
*
7217204 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTA
1 AAAACCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
7217245 AAA
1 AAA
7217248 GTCATATAAC
Statistics
Matches: 258, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.00
40 38 0.15
41 213 0.83
42 6 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAACCAGAGCAATAGCGGCGCTTTCGGTAAAACGCCGCTA
Found at i:7217526 original size:14 final size:15
Alignment explanation
Indices: 7217509--7217545 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
7217499 TAATATTTAA
7217509 GGTTTAAGG-TCTAT
1 GGTTTAAGGTTCTAT
*
7217523 GGTTTAGGGTTCTAT
1 GGTTTAAGGTTCTAT
7217538 GGTTTAAG
1 GGTTTAAG
7217546 TTTAATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (15 bp):
GGTTTAAGGTTCTAT
Found at i:7222345 original size:19 final size:19
Alignment explanation
Indices: 7222322--7222368 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
7222312 ATTTAATCTA
*
7222322 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
7222340 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
7222360 ATTTTTATT
1 ATTTTTATT
7222369 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:7222726 original size:43 final size:43
Alignment explanation
Indices: 7222609--7222727 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
7222599 TTTCATGACT
* * * *
7222609 TTTAGCGGCGTTTAG-GGAAAAAGTGCCGTTAAAGGTTGTAGTC
1 TTTAGCGGCGTTT-GCGAAAAAAGCGCCGCTAAAGGTCGTAGTC
* * * *
7222652 TTTAGTGGGCATTTGCTAAAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAG-CGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCGTAGTC
*
7222696 TTTAGCGGCGTTTGCGAAAAAAGCGTCGCTAA
1 TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAA
7222728 CGTTTGTGAA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
43 29 0.47
44 33 0.53
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCGAAAAAAGCGCCGCTAAAGGTCGTAGTC
Found at i:7222738 original size:24 final size:24
Alignment explanation
Indices: 7222704--7222751 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
7222694 TCTTTAGCGG
*
7222704 CGTTTGCGAAAAAAGCGTCGCTAA
1 CGTTTGCGAAAAAAGCGCCGCTAA
*
7222728 CGTTTGTGAAAAAAGCGCCGCTAA
1 CGTTTGCGAAAAAAGCGCCGCTAA
7222752 AGGTCTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (24 bp):
CGTTTGCGAAAAAAGCGCCGCTAA
Found at i:7222793 original size:67 final size:67
Alignment explanation
Indices: 7222669--7222794 Score: 198
Period size: 67 Copynumber: 1.9 Consensus size: 67
7222659 GGCATTTGCT
* * * **
7222669 AAAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGCGAAAAAAGCGTCGCTAACGTTTG
1 AAAAAAGCGCCGCTAAAGGTCGTGATCTTTAGAGGCATTTGCGAAAAAAGCACCGCTAACGTTTG
7222734 TG
66 TG
*
7222736 AAAAAAGCGCCGCTAAAGGTCTTGATCTTTAGAGGCATTTGCGAAAAAAGCACCGCTAA
1 AAAAAAGCGCCGCTAAAGGTCGTGATCTTTAGAGGCATTTGCGAAAAAAGCACCGCTAA
7222795 AGGTCATGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 53 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (67 bp):
AAAAAAGCGCCGCTAAAGGTCGTGATCTTTAGAGGCATTTGCGAAAAAAGCACCGCTAACGTTTG
TG
Found at i:7225008 original size:6 final size:6
Alignment explanation
Indices: 7224997--7225021 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7224987 TGTAATATTT
7224997 CCATTG CCATTG CCATTG CCATTG C
1 CCATTG CCATTG CCATTG CCATTG C
7225022 TGTTGTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CCATTG
Found at i:7230123 original size:63 final size:63
Alignment explanation
Indices: 7229939--7230130 Score: 321
Period size: 63 Copynumber: 3.0 Consensus size: 63
7229929 TCACACGAAG
* * **
7229939 ATATTCTTATCACATCAGGAATGAAGCGCATCTTAATAGAGTTTGAATTATCAAATGCAAGTT
1 ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
*
7230002 ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAAAGTTTGAATTACCAAATTTAAGTT
1 ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
* *
7230065 ATATTCTTATCACATCAGGAATGAGGCACATCTTAATAGAGTTTGAATTACCACATTTAAGTT
1 ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
7230128 ATA
1 ATA
7230131 AATCAGGTTG
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 121 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (63 bp):
ATATTCTTATCACATCAGGAATGAGGCGCATCTTAATAGAGTTTGAATTACCAAATTTAAGTT
Found at i:7232376 original size:23 final size:25
Alignment explanation
Indices: 7232350--7232410 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
7232340 TATTATCTTT
7232350 TATATAAAAATAAAT-T-TTAAAAA
1 TATATAAAAATAAATATATTAAAAA
* *
7232373 TATA-ATACATTAAATATATTAAAAA
1 TATATA-AAAATAAATATATTAAAAA
7232398 TAT-T-AAAATAAAT
1 TATATAAAAATAAAT
7232411 GTATCTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
22 1 0.03
23 18 0.60
24 1 0.03
25 10 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
TATATAAAAATAAATATATTAAAAA
Found at i:7233720 original size:20 final size:17
Alignment explanation
Indices: 7233686--7233737 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
7233676 ATTTTTTTCA
*
7233686 TCTATCTTT-TTTATTGT
1 TCTAT-TTTATTTATTAT
7233703 TCTAATATTTGATTTATTAT
1 TCT-AT-TTT-ATTTATTAT
7233723 TCTATTTTATTTATT
1 TCTATTTTATTTATT
7233738 TTAATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 10 0.33
18 8 0.27
19 2 0.07
20 10 0.33
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (17 bp):
TCTATTTTATTTATTAT
Found at i:7243935 original size:8 final size:8
Alignment explanation
Indices: 7243922--7243947 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7243912 TAACTGCTCC
7243922 CACTAATA
1 CACTAATA
7243930 CACTAATA
1 CACTAATA
7243938 CACTAATA
1 CACTAATA
7243946 CA
1 CA
7243948 AATTTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (8 bp):
CACTAATA
Found at i:7245303 original size:9 final size:9
Alignment explanation
Indices: 7245282--7245323 Score: 57
Period size: 10 Copynumber: 4.4 Consensus size: 9
7245272 ATTTCCTTTC
7245282 ATAAAAAATT
1 ATAAAAAA-T
7245292 ATAAAAAAT
1 ATAAAAAAT
7245301 ATAAAAAAT
1 ATAAAAAAT
*
7245310 ATGAAAAATT
1 AT-AAAAAAT
7245320 ATAA
1 ATAA
7245324 TTTTTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:7245306 original size:19 final size:19
Alignment explanation
Indices: 7245282--7245323 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7245272 ATTTCCTTTC
7245282 ATAAAAAATTATAAAAAAT
1 ATAAAAAATTATAAAAAAT
*
7245301 ATAAAAAA-TATGAAAAATT
1 ATAAAAAATTAT-AAAAAAT
7245320 ATAA
1 ATAA
7245324 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
ATAAAAAATTATAAAAAAT
Found at i:7245670 original size:18 final size:18
Alignment explanation
Indices: 7245642--7245685 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
7245632 CTTTATATAT
7245642 AATAT-AAATATAAACAA
1 AATATAAAATATAAACAA
7245659 AATATAAAATATAAACAA
1 AATATAAAATATAAACAA
7245677 AATATAAAA
1 AATATAAAA
7245686 AAAAACATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AATATAAAATATAAACAA
Found at i:7245708 original size:21 final size:20
Alignment explanation
Indices: 7245672--7245726 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
7245662 ATAAAATATA
* *
7245672 AACAAAATATAAAAAAAAAC
1 AACAAAATTTATAAAAAAAC
**
7245692 ATACAAAATTTATAAAAGTAC
1 A-ACAAAATTTATAAAAAAAC
7245713 AA-AAAATTTATAAA
1 AACAAAATTTATAAA
7245727 CTAGCTCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 12 0.40
20 2 0.07
21 16 0.53
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (20 bp):
AACAAAATTTATAAAAAAAC
Found at i:7245824 original size:14 final size:14
Alignment explanation
Indices: 7245805--7245834 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7245795 AGTTTAAATT
*
7245805 TCGAATTATTCGAA
1 TCGAATTAATCGAA
7245819 TCGAATTAATCGAA
1 TCGAATTAATCGAA
7245833 TC
1 TC
7245835 AACTCTACCT
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:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
TCGAATTAATCGAA
Found at i:7246121 original size:37 final size:39
Alignment explanation
Indices: 7246066--7246138 Score: 123
Period size: 37 Copynumber: 1.9 Consensus size: 39
7246056 CAGTTTTTTT
7246066 TTTCAAATTTATGTCTACTATTTATATTATTGAATTAAA
1 TTTCAAATTTATGTCTACTATTTATATTATTGAATTAAA
*
7246105 TTTCACATTT-TG-CTACTATTTATATTATTGAATT
1 TTTCAAATTTATGTCTACTATTTATATTATTGAATT
7246139 GTTTAACCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 22 0.67
38 2 0.06
39 9 0.27
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (39 bp):
TTTCAAATTTATGTCTACTATTTATATTATTGAATTAAA
Found at i:7247444 original size:26 final size:26
Alignment explanation
Indices: 7247407--7247464 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
7247397 TGATTATATA
7247407 AAAATT-TCAATAA-ATAAAAATGTAT
1 AAAATTATCAATAATATAAAAAT-TAT
* * *
7247432 AAAATTATTAATAATATAAATATTTT
1 AAAATTATCAATAATATAAAAATTAT
7247458 AAAATTA
1 AAAATTA
7247465 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.21
26 15 0.54
27 7 0.25
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATTATCAATAATATAAAAATTAT
Found at i:7247472 original size:14 final size:15
Alignment explanation
Indices: 7247429--7247479 Score: 61
Period size: 14 Copynumber: 3.3 Consensus size: 15
7247419 AATAAAAATG
7247429 TATAAAATTATTAATAA
1 TATAAAATT-TTAA-AA
7247446 TATAAATATTTTAAAA
1 TATAAA-ATTTTAAAA
7247462 T-TAAAATTTTAAAA
1 TATAAAATTTTAAAA
7247476 -ATAA
1 TATAA
7247480 CATGGACAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 12 0.38
15 4 0.12
16 3 0.09
17 10 0.31
18 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATAAAATTTTAAAA
Found at i:7247476 original size:15 final size:16
Alignment explanation
Indices: 7247429--7247478 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 16
7247419 AATAAAAATG
*
7247429 TATAAAATTATTAATAA
1 TATAAAATT-TTAAAAA
7247446 TATAAATATTTT-AAAA
1 TATAAA-ATTTTAAAAA
7247462 T-TAAAATTTTAAAAA
1 TATAAAATTTTAAAAA
7247477 TA
1 TA
7247479 ACATGGACAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 5 0.17
15 9 0.31
16 4 0.14
17 8 0.28
18 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAAATTTTAAAAA
Done.