Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 61 of 77
Found at i:12289316 original size:54 final size:54
Alignment explanation
Indices: 12289257--12289381 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
12289247 AAAAAAATAT
* *
12289257 TAATAGATAAATAATAAATAA-AAAT-ATA-TCAATAATATATATATATATATATAC
1 TAATAGATAAATAATAAA-AATAAATAATAGTCAATAATA-A-AAATATATATACAC
* * * *
12289311 TAATAGATAAATAATAAAAATAGATAATAGTTAATAATAAAAATTTATATACAT
1 TAATAGATAAATAATAAAAATAAATAATAGTCAATAATAAAAATATATATACAC
12289365 TAATAGATAAATAATAA
1 TAATAGATAAATAATAA
12289382 TATATATTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
53 2 0.03
54 48 0.77
55 4 0.06
56 8 0.13
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (54 bp):
TAATAGATAAATAATAAAAATAAATAATAGTCAATAATAAAAATATATATACAC
Found at i:12289339 original size:78 final size:79
Alignment explanation
Indices: 12289249--12289428 Score: 208
Period size: 78 Copynumber: 2.3 Consensus size: 79
12289239 CCCAGCCAAA
* *
12289249 AAAAATATTAATAGATAAATAATAAATAAAAATATAT-CAATAATATATATAT-AT-ATATATAC
1 AAAAATATTAATAGATAAATAATAAA-AAAAATATATACAATAATAGATAAATAATAATATATAC
12289311 TAATAGATAAATAAT
65 TAATAGATAAATAAT
* * ** * *
12289326 AAAAATAGATAATAG-TTAATAAT-AAAAATTTATATACATTAATAGATAAATAATAATATATAT
1 AAAAATA-TTAATAGATAAATAATAAAAAAAATATATACAATAATAGATAAATAATAATATATAC
*
12289389 TAATAGATAAATGAT
65 TAATAGATAAATAAT
*
12289404 AAAATATATTAATAGATAAAAAATA
1 AAAA-ATATTAATAGATAAATAATA
12289429 TATTATTAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
75 8 0.10
76 14 0.17
77 16 0.19
78 37 0.44
79 9 0.11
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (79 bp):
AAAAATATTAATAGATAAATAATAAAAAAAATATATACAATAATAGATAAATAATAATATATACT
AATAGATAAATAAT
Found at i:12289349 original size:17 final size:17
Alignment explanation
Indices: 12289252--12289449 Score: 85
Period size: 17 Copynumber: 11.6 Consensus size: 17
12289242 AGCCAAAAAA
*
12289252 AATATTAATAGATAAAT
1 AATAATAATAGATAAAT
* *
12289269 AATAAATAA-AAATATAT
1 AAT-AATAATAGATAAAT
* *
12289286 CAATAATATATATATATAT
1 -AATAATA-ATAGATAAAT
*
12289305 ATATACTAATAGATAAAT
1 A-ATAATAATAGATAAAT
*
12289323 AATAAAAATAGAT-AAT
1 AATAATAATAGATAAAT
*
12289339 AGTTAATAATA-A-AAATTT
1 A-ATAATAATAGATAAA--T
12289357 ATATACATTAATAGATAAAT
1 A-ATA-A-TAATAGATAAAT
* *
12289377 AATAAT-ATATATTAAT
1 AATAATAATAGATAAAT
12289393 AGAT-A-AAT-GATAAA-
1 A-ATAATAATAGATAAAT
* *
12289407 ATATATTAATAGATAAAA
1 A-ATAATAATAGATAAAT
* *
12289425 AAT-ATATTA-TTAAAT
1 AATAATAATAGATAAAT
12289440 AATAATAATA
1 AATAATAATA
12289450 ACAATAAATA
Statistics
Matches: 137, Mismatches: 24, Indels: 41
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.02
15 11 0.08
16 31 0.23
17 41 0.30
18 24 0.18
19 16 0.12
20 7 0.05
21 1 0.01
22 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AATAATAATAGATAAAT
Found at i:12289374 original size:24 final size:24
Alignment explanation
Indices: 12289287--12289499 Score: 125
Period size: 24 Copynumber: 9.2 Consensus size: 24
12289277 AAAATATATC
* *
12289287 AATAATATATA-T-ATATATATAT
1 AATAATATATATTAATAGATAAAT
* *
12289309 ACTAATAGATA--AATA-ATAAA-
1 AATAATATATATTAATAGATAAAT
12289329 AATAGATA-ATAGTTAATA-ATAAA-
1 AATA-ATATATA-TTAATAGATAAAT
* *
12289352 AATTTATATACATTAATAGATAAAT
1 AA-TAATATATATTAATAGATAAAT
12289377 AATAATATATATTAATAGATAAAT
1 AATAATATATATTAATAGATAAAT
* * *
12289401 GATAAAATATATTAATAGATAAAA
1 AATAATATATATTAATAGATAAAT
12289425 AAT-ATAT-TATTAAATA-AT-AAT
1 AATAATATATATT-AATAGATAAAT
* * * *
12289446 AATAACAATAAATAAATAAATAAAT
1 AATAA-TATATATTAATAGATAAAT
12289471 AATTAAT-TA-ATTAATAAGATACAA-
1 AA-TAATATATATTAAT-AGATA-AAT
12289495 AATAA
1 AATAA
12289500 CAATACAAAA
Statistics
Matches: 153, Mismatches: 20, Indels: 35
0.74 0.10 0.17
Matches are distributed among these distances:
20 6 0.04
21 12 0.08
22 19 0.12
23 41 0.27
24 63 0.41
25 9 0.06
26 3 0.02
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
AATAATATATATTAATAGATAAAT
Found at i:12289408 original size:54 final size:54
Alignment explanation
Indices: 12289257--12289407 Score: 139
Period size: 54 Copynumber: 2.8 Consensus size: 54
12289247 AAAAAAATAT
* * * * *
12289257 TAATAGATAAATAATAAATAA-AAAT-ATA-TCAATAATATATATATATATATATAC
1 TAATAGATAAATAATAAA-AATAGATAATAGTAAATAATA-A-AAATTTATATACAC
* *
12289311 TAATAGATAAATAATAAAAATAGATAATAGTTAATAATAAAAATTTATATACAT
1 TAATAGATAAATAATAAAAATAGATAATAGTAAATAATAAAAATTTATATACAC
* * *
12289365 TAATAGATAAATAATAATATATA-TTAATAGATAAATGATAAAA
1 TAATAGATAAATAATAA-AAATAGATAATAG-TAAATAATAAAA
12289408 TATATTAATA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
53 2 0.02
54 54 0.66
55 18 0.22
56 8 0.10
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (54 bp):
TAATAGATAAATAATAAAAATAGATAATAGTAAATAATAAAAATTTATATACAC
Found at i:12289441 original size:19 final size:19
Alignment explanation
Indices: 12289404--12289467 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
12289394 GATAAATGAT
*
12289404 AAAATATATTAATAGATAA
1 AAAATATATTAATAAATAA
*
12289423 AAAATATATTATTAAATAA
1 AAAATATATTAATAAATAA
*
12289442 TAATAATA-A-CAATAAATAA
1 -AA-AATATATTAATAAATAA
12289461 ATAAATA
1 A-AAATA
12289468 AATAATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.13
19 26 0.68
20 3 0.08
21 4 0.11
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATATATTAATAAATAA
Found at i:12304695 original size:12 final size:13
Alignment explanation
Indices: 12304678--12304732 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 13
12304668 TTTTTTAATA
12304678 TAAATATA-AAAT
1 TAAATATATAAAT
12304690 TAAATATATAAA-
1 TAAATATATAAAT
*
12304702 AAATATATATATAAT
1 TAA-ATATATA-AAT
12304717 TAAATATA-AAAT
1 TAAATATATAAAT
12304729 TAAA
1 TAAA
12304733 AAATAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 17 0.46
13 11 0.30
14 7 0.19
15 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAATATATAAAT
Found at i:12309909 original size:22 final size:22
Alignment explanation
Indices: 12309881--12309922 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
12309871 CTAAAACCTT
12309881 GCTTAAATCTATGTTGGGCCTC
1 GCTTAAATCTATGTTGGGCCTC
12309903 GCTTAAATCTATGTTGGGCC
1 GCTTAAATCTATGTTGGGCC
12309923 GACTGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (22 bp):
GCTTAAATCTATGTTGGGCCTC
Found at i:12312162 original size:81 final size:80
Alignment explanation
Indices: 12312019--12312169 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 80
12312009 AGAATCAATG
* * *
12312019 AAAATTTTTATTTACATTTCGACATAATTAGCTCCACTTTATGGTAAATAGAAAATAAGATAA-A
1 AAAATTTTCATCTACATTTCGACATAATTAGCTCCACTTTATGATAAATAGAAAAT-AGATAATA
12312083 TCAAAAGCTACTTTTA
65 TCAAAAGCTACTTTTA
* * * *
12312099 AAAATTTTCATCTACATTTGGATAGTAATTAGCTCCATTTTGTGATAAATAATGAAAAT-GATAA
1 AAAATTTTCATCTACATTTCGACA-TAATTAGCTCCACTTTATGATAAAT-A-GAAAATAGATAA
12312163 TATCAAA
63 TATCAAA
12312170 GCAACAAACA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 20 0.33
81 27 0.45
82 7 0.12
83 6 0.10
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (80 bp):
AAAATTTTCATCTACATTTCGACATAATTAGCTCCACTTTATGATAAATAGAAAATAGATAATAT
CAAAAGCTACTTTTA
Found at i:12319658 original size:2 final size:2
Alignment explanation
Indices: 12319651--12319696 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
12319641 TAAACTATGT
* * *
12319651 TA TA TA TA TA TA TA TA TA TA TG TT TA -A TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12319692 TA TA T
1 TA TA T
12319697 TAATTTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12322520 original size:30 final size:30
Alignment explanation
Indices: 12322462--12322521 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
12322452 GAATGTTCAA
*
12322462 TAAATGAAAATAAATATCTAATGGTTTAAT
1 TAAATGAAAATAAATATCTAATGATTTAAT
*
12322492 TAAATGAAAATAAATATTTAA-GAATTTAAT
1 TAAATGAAAATAAATATCTAATG-ATTTAAT
12322522 GAATTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (30 bp):
TAAATGAAAATAAATATCTAATGATTTAAT
Found at i:12323371 original size:15 final size:14
Alignment explanation
Indices: 12323344--12323370 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12323334 TTTTATGTAA
12323344 TAATTTATTTTTTC
1 TAATTTATTTTTTC
12323358 TAATTTATTTTTT
1 TAATTTATTTTTT
12323371 TATTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TAATTTATTTTTTC
Found at i:12324776 original size:2 final size:2
Alignment explanation
Indices: 12324769--12324805 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
12324759 ATTTAACATG
* *
12324769 TA TA TA TA TA TA TA TA TA TA TG TA TG 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 T
12324806 TATTTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12325104 original size:3 final size:3
Alignment explanation
Indices: 12325092--12325138 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
12325082 CACCATTTTT
*
12325092 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12325139 TATTTAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:12326749 original size:2 final size:2
Alignment explanation
Indices: 12326742--12326787 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
12326732 TTTTAAATTA
* * *
12326742 AT AT AT AT AT AT AT AT AT AC AT AT -T AA AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12326783 AT AT A
1 AT AT A
12326788 ACATAGTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:12327787 original size:28 final size:29
Alignment explanation
Indices: 12327745--12327804 Score: 113
Period size: 28 Copynumber: 2.1 Consensus size: 29
12327735 TCAGACTTCT
12327745 TTTTTTTCACTTTACATTTCCTCAATTAA
1 TTTTTTTCACTTTACATTTCCTCAATTAA
12327774 TTTTTTTCAC-TTACATTTCCTCAATTAA
1 TTTTTTTCACTTTACATTTCCTCAATTAA
12327802 TTT
1 TTT
12327805 CATTGTCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTTTTCACTTTACATTTCCTCAATTAA
Found at i:12327860 original size:2 final size:2
Alignment explanation
Indices: 12327855--12327881 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12327845 ACACACACAC
12327855 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12327882 ACATTTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12328322 original size:2 final size:2
Alignment explanation
Indices: 12328315--12328348 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
12328305 AGGTGATAAC
12328315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12328349 CTTAACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12328700 original size:2 final size:2
Alignment explanation
Indices: 12328693--12328729 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12328683 TGGCATTGGA
12328693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12328730 AACATATCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12333826 original size:20 final size:21
Alignment explanation
Indices: 12333788--12333828 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12333778 CTCCATTAGG
*
12333788 ATTAATTAGAGACAATCAAGA
1 ATTAATTAGAGAAAATCAAGA
12333809 ATTAATTAGA-AAAATCAAGA
1 ATTAATTAGAGAAAATCAAGA
12333829 GAGAAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.24
Consensus pattern (21 bp):
ATTAATTAGAGAAAATCAAGA
Found at i:12334073 original size:4 final size:4
Alignment explanation
Indices: 12334054--12334110 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
12334044 ATCTTTGTAT
* * *
12334054 TTTA TTATA ATTA TTTA TTTA TTTTA TTT- TTTG TTTA TTTG TTTA TTTTA
1 TTTA TT-TA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
12334104 TTTA TTT
1 TTTA TTT
12334111 GACTATTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
3 3 0.07
4 30 0.68
5 11 0.25
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:12334098 original size:24 final size:25
Alignment explanation
Indices: 12334064--12334120 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
12334054 TTTATTATAA
12334064 TTATTTATTTATTTTATTT-TTTGT
1 TTATTTATTTATTTTATTTATTTGT
* *
12334088 TTATTTGTTTATTTTATTTATTTGA
1 TTATTTATTTATTTTATTTATTTGT
*
12334113 CTATTTAT
1 TTATTTAT
12334121 GTCTAGTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (25 bp):
TTATTTATTTATTTTATTTATTTGT
Found at i:12338719 original size:8 final size:8
Alignment explanation
Indices: 12338706--12338816 Score: 84
Period size: 8 Copynumber: 13.8 Consensus size: 8
12338696 TAAATGAAGA
12338706 AAAAAATG
1 AAAAAATG
*
12338714 AAAAAATT
1 AAAAAATG
* * *
12338722 AGAGAATT
1 AAAAAATG
* *
12338730 AGAAAATTA
1 A-AAAAATG
*
12338739 AAAAAATT
1 AAAAAATG
12338747 AAAAAATG
1 AAAAAATG
12338755 AAAAAAGTG
1 AAAAAA-TG
*
12338764 TAAAAATG
1 AAAAAATG
12338772 --AAAATG
1 AAAAAATG
12338778 -AAAAATG
1 AAAAAATG
*
12338785 AAAAAGTG
1 AAAAAATG
12338793 AAAAAAATG
1 -AAAAAATG
12338802 AAAAAAATG
1 -AAAAAATG
12338811 AAAAAA
1 AAAAAA
12338817 AAATAAAAGA
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
6 6 0.07
7 6 0.07
8 46 0.54
9 27 0.32
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (8 bp):
AAAAAATG
Found at i:12338746 original size:17 final size:17
Alignment explanation
Indices: 12338726--12338817 Score: 69
Period size: 17 Copynumber: 5.1 Consensus size: 17
12338716 AAAATTAGAG
* *
12338726 AATTAGAAAATTAAAAA
1 AATTAAAAAATGAAAAA
12338743 AATTAAAAAATGAAAAA
1 AATTAAAAAATGAAAAA
*
12338760 AGTGT-AAAAATGAAAATGAAA
1 AAT-TAAAAAATG--AA--AAA
* *
12338781 AATGAAAAAGTGAAAAA
1 AATTAAAAAATGAAAAA
*
12338798 AATGAAAAAAATGAAAAA
1 AAT-TAAAAAATGAAAAA
12338816 AA
1 AA
12338818 AATAAAAGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
17 30 0.50
18 15 0.25
19 4 0.07
21 11 0.18
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
AATTAAAAAATGAAAAA
Found at i:12338784 original size:30 final size:30
Alignment explanation
Indices: 12338748--12338805 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
12338738 AAAAAAATTA
*
12338748 AAAAATGAAAAAAGTG-TAAAAATGAAAATG
1 AAAAATG-AAAAAGTGAAAAAAATGAAAATG
12338778 AAAAATGAAAAAGTGAAAAAAATGAAAA
1 AAAAATGAAAAAGTGAAAAAAATGAAAA
12338806 AAATGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.14
Consensus pattern (30 bp):
AAAAATGAAAAAGTGAAAAAAATGAAAATG
Found at i:12338795 original size:38 final size:39
Alignment explanation
Indices: 12338740--12338835 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 39
12338730 AGAAAATTAA
* * *
12338740 AAAAATTAAAAAATGAAAAAAGTG-TAAAAATGAAAATG
1 AAAAATGAAAAAATGAAAAAAATGAAAAAAATGAAAATG
*
12338778 AAAAATGAAAAAGTGAAAAAAATGAAAAAAATGAAAA--
1 AAAAATGAAAAAATGAAAAAAATGAAAAAAATGAAAATG
* *
12338815 AAAAATAAAAGAAAAGAAAAA
1 AAAAATGAAA-AAATGAAAAA
12338836 CTCAAATTGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
37 9 0.18
38 29 0.59
39 11 0.22
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (39 bp):
AAAAATGAAAAAATGAAAAAAATGAAAAAAATGAAAATG
Found at i:12338824 original size:8 final size:9
Alignment explanation
Indices: 12338732--12338817 Score: 71
Period size: 9 Copynumber: 10.4 Consensus size: 9
12338722 AGAGAATTAG
*
12338732 AAAATTAAA
1 AAAATGAAA
*
12338741 AAAAT-TAA
1 AAAATGAAA
12338749 AAAATGAAA
1 AAAATGAAA
* *
12338758 AAAGTG-TA
1 AAAATGAAA
12338766 AAAATG---
1 AAAATGAAA
12338772 AAAATG--A
1 AAAATGAAA
12338779 AAAATG-AA
1 AAAATGAAA
*
12338787 AAAGTGAAA
1 AAAATGAAA
12338796 AAAATGAAA
1 AAAATGAAA
12338805 AAAATGAAA
1 AAAATGAAA
12338814 AAAA
1 AAAA
12338818 AATAAAAGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
6 6 0.09
7 6 0.09
8 19 0.29
9 35 0.53
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (9 bp):
AAAATGAAA
Found at i:12339845 original size:23 final size:23
Alignment explanation
Indices: 12339817--12339870 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
12339807 TGACTTTGAT
*
12339817 GAAAAATTGAGAATTTTCATGAC
1 GAAAAATTGAGAATTTTCATAAC
12339840 GAAAAATTGAGAATTTTCATAAC
1 GAAAAATTGAGAATTTTCATAAC
*
12339863 AAAAAATT
1 GAAAAATT
12339871 TTGAACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (23 bp):
GAAAAATTGAGAATTTTCATAAC
Found at i:12340033 original size:24 final size:24
Alignment explanation
Indices: 12340001--12340130 Score: 158
Period size: 24 Copynumber: 5.5 Consensus size: 24
12339991 AGTTAAAAAT
*
12340001 AATGAGAATATTTAAGAAGTTTTA
1 AATGAGAATCTTTAAGAAGTTTTA
*
12340025 AATGAGAATATTTAAGAAGTTTTA
1 AATGAGAATCTTTAAGAAGTTTTA
* *
12340049 AATGAGAATCTTTAAGGAGTTTTG
1 AATGAGAATCTTTAAGAAGTTTTA
* **
12340073 AATGATAATCTTT--G-TCTTTTA
1 AATGAGAATCTTTAAGAAGTTTTA
* *
12340094 AATTAGAATCTTTAAGATGTTTTA
1 AATGAGAATCTTTAAGAAGTTTTA
12340118 AATGAGAATCTTT
1 AATGAGAATCTTT
12340131 GAGATTTAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.16
22 1 0.01
23 1 0.01
24 75 0.82
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (24 bp):
AATGAGAATCTTTAAGAAGTTTTA
Found at i:12340139 original size:45 final size:44
Alignment explanation
Indices: 12340001--12340161 Score: 164
Period size: 45 Copynumber: 3.6 Consensus size: 44
12339991 AGTTAAAAAT
* *
12340001 AATGAGAATATTTAAGAAGTTTTAAATGAGAATATTTAAGAAGTTTTA
1 AATGAGAATCTTTAAG-AGTTTTAAATGAGAATCTTT--G-AGTTTTA
* * **
12340049 AATGAGAATCTTTAAGGAGTTTTGAATGATAATCTTTGTCTTTTA
1 AATGAGAATCTTTAA-GAGTTTTAAATGAGAATCTTTGAGTTTTA
* *
12340094 AATTAGAATCTTTAAGATGTTTTAAATGAGAATCTTTGAGATTTA
1 AATGAGAATCTTTAAGA-GTTTTAAATGAGAATCTTTGAGTTTTA
* *
12340139 AGTGAGAATATTT--GAGTTTTAAA
1 AATGAGAATCTTTAAGAGTTTTAAA
12340162 AAAGAACCTT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
42 8 0.08
43 2 0.02
44 2 0.02
45 51 0.53
46 1 0.01
48 31 0.32
49 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (44 bp):
AATGAGAATCTTTAAGAGTTTTAAATGAGAATCTTTGAGTTTTA
Found at i:12340144 original size:21 final size:21
Alignment explanation
Indices: 12340001--12340161 Score: 70
Period size: 24 Copynumber: 7.1 Consensus size: 21
12339991 AGTTAAAAAT
*
12340001 AATGAGAATATTTAAGAAGTTTTA
1 AATGAGAATATTT--G-AGATTTA
*
12340025 AATGAGAATATTTAAGAAGTTTTA
1 AATGAGAATATTT--G-AGATTTA
* * *
12340049 AATGAGAATCTTTAAGGAGTTTTG
1 AATGAGAATATTT---GAGATTTA
* * ***
12340073 AATGATAATCTTTGTCTTTTA
1 AATGAGAATATTTGAGATTTA
* * *
12340094 AATTAGAATCTTTAAGATGTTTTA
1 AATGAGAATATTT--GA-GATTTA
*
12340118 AATGAGAATCTTTGAGATTTA
1 AATGAGAATATTTGAGATTTA
* *
12340139 AGTGAGAATATTTGAGTTTTA
1 AATGAGAATATTTGAGATTTA
12340160 AA
1 AA
12340162 AAAGAACCTT
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
21 40 0.34
22 2 0.02
23 1 0.01
24 71 0.61
25 2 0.02
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (21 bp):
AATGAGAATATTTGAGATTTA
Found at i:12340277 original size:24 final size:24
Alignment explanation
Indices: 12340181--12340286 Score: 78
Period size: 23 Copynumber: 4.6 Consensus size: 24
12340171 TTGAATTTAG
* *
12340181 ATGTAAAACTCTAAAATTTATTGA
1 ATGTGAAACTTTAAAATTTATTGA
* ** *
12340205 ATGTGAATCCCT-AAATTTTTTGA
1 ATGTGAAACTTTAAAATTTATTGA
* * *
12340228 ATGAGAACCTTT-GAATTTA--G-
1 ATGTGAAACTTTAAAATTTATTGA
*
12340248 ATGTGAAACTTTAAAATTTATCGA
1 ATGTGAAACTTTAAAATTTATTGA
*
12340272 ATGTGAACCTTTAAA
1 ATGTGAAACTTTAAA
12340287 CTTGAATAAG
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
20 10 0.16
21 7 0.11
23 24 0.38
24 23 0.36
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (24 bp):
ATGTGAAACTTTAAAATTTATTGA
Found at i:12340975 original size:18 final size:19
Alignment explanation
Indices: 12340840--12340975 Score: 95
Period size: 18 Copynumber: 7.4 Consensus size: 19
12340830 TGAATTTTTA
*
12340840 AAATTTTTTGCGAATCTT-
1 AAATCTTTTGCGAATCTTG
* * * *
12340858 AGAGCTTTTGTGAAACTTG
1 AAATCTTTTGCGAATCTTG
* *
12340877 TAATC-TTTGTGAATCTTG
1 AAATCTTTTGCGAATCTTG
** *
12340895 AAATC-TTTGTAAATCTTA
1 AAATCTTTTGCGAATCTTG
*
12340913 AAATCTTTTACGAATCTTG
1 AAATCTTTTGCGAATCTTG
* *
12340932 AAAAT-TTTTGCAAACTTTTG
1 -AAATCTTTTGCGAA-TCTTG
12340952 -AATCTTTTGCGAATCTT-
1 AAATCTTTTGCGAATCTTG
12340969 AAATCTT
1 AAATCTT
12340976 ACAAATCTTT
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
18 57 0.63
19 26 0.29
20 8 0.09
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (19 bp):
AAATCTTTTGCGAATCTTG
Found at i:12341912 original size:4 final size:4
Alignment explanation
Indices: 12341903--12341952 Score: 64
Period size: 4 Copynumber: 12.2 Consensus size: 4
12341893 CATAGTTGTC
* * *
12341903 TATT TATT TATT TATA TATT TATA TATT TATT TGTT TATTT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TATT
12341952 T
1 T
12341953 GATATTTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
4 35 0.90
5 4 0.10
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:12342086 original size:27 final size:26
Alignment explanation
Indices: 12342040--12342091 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
12342030 TGAGAATTTT
12342040 AGAAATTTTAAATGGTAAATTTCTTA
1 AGAAATTTTAAATGGTAAATTTCTTA
*
12342066 AGAAATATTTAGATGAG-AAATTTCTT
1 AGAAAT-TTTAAATG-GTAAATTTCTT
12342092 TAAATTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 16 0.70
28 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (26 bp):
AGAAATTTTAAATGGTAAATTTCTTA
Found at i:12351289 original size:14 final size:15
Alignment explanation
Indices: 12351270--12351298 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12351260 CCAACCATTG
12351270 CTTTTTTTTT-TTTC
1 CTTTTTTTTTCTTTC
12351284 CTTTTTTTTTCTTTC
1 CTTTTTTTTTCTTTC
12351299 AGTCAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTTCTTTC
Found at i:12351903 original size:4 final size:4
Alignment explanation
Indices: 12351894--12351923 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
12351884 CTTGGGATGA
12351894 TCTT TCTT TCTT TCTT TCTT TCTTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TC-TT TCTT T
12351924 TGGGTGAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TCTT
Found at i:12353387 original size:15 final size:16
Alignment explanation
Indices: 12353358--12353391 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12353348 TTGGCTTTAG
*
12353358 ATATCCATATGCATAT
1 ATATCCATATACATAT
12353374 ATAT-CATATACATAT
1 ATATCCATATACATAT
12353389 ATA
1 ATA
12353392 ATACTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (16 bp):
ATATCCATATACATAT
Found at i:12360310 original size:4 final size:4
Alignment explanation
Indices: 12360301--12360352 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
12360291 ATCATAGTTG
* * *
12360301 TTTA TTTA TTTA TTTA TATA TTTA TATA TTTA TTTG TTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
12360350 TTT
1 TTT
12360353 GATATTTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
4 37 0.90
5 4 0.10
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:12360333 original size:28 final size:28
Alignment explanation
Indices: 12360301--12360361 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
12360291 ATCATAGTTG
*
12360301 TTTATTTATTTA-TTTATATATTTATATA
1 TTTATTTATTTATTTTATATATTT-GATA
* *
12360329 TTTATTTGTTTATTTTATTTATTTGATA
1 TTTATTTATTTATTTTATATATTTGATA
12360357 TTTAT
1 TTTAT
12360362 GTCTAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTATTTATTTATTTTATATATTTGATA
Found at i:12362858 original size:21 final size:21
Alignment explanation
Indices: 12362812--12362860 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
12362802 AATATAATAA
* *
12362812 CTAAATAATCTTACAGAAAAAT
1 CTAAAT-ATCTAAAAGAAAAAT
*
12362834 -TAAATATCTAAAAGAAAACT
1 CTAAATATCTAAAAGAAAAAT
12362854 CTAAATA
1 CTAAATA
12362861 GATGTCTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (21 bp):
CTAAATATCTAAAAGAAAAAT
Found at i:12367486 original size:17 final size:17
Alignment explanation
Indices: 12367451--12367564 Score: 117
Period size: 17 Copynumber: 6.7 Consensus size: 17
12367441 CTGTTGTAAC
**
12367451 TTGCAAACCATGTTTTG
1 TTGCAAACCATGTGCTG
* *
12367468 TTACAAATCATGTGCTG
1 TTGCAAACCATGTGCTG
* *
12367485 TTTTCGAAACCATGTTCTG
1 -TTGC-AAACCATGTGCTG
12367504 TTGCAAACCATGTGCTG
1 TTGCAAACCATGTGCTG
*
12367521 TT-CGAAACCATGTTCTG
1 TTGC-AAACCATGTGCTG
12367538 TTGCAAACCATGTGC--
1 TTGCAAACCATGTGCTG
12367553 TTGCAAACCATG
1 TTGCAAACCATG
12367565 GAAGGGGTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
15 12 0.15
16 1 0.01
17 51 0.62
18 7 0.09
19 11 0.13
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (17 bp):
TTGCAAACCATGTGCTG
Found at i:12367530 original size:34 final size:35
Alignment explanation
Indices: 12367455--12367553 Score: 155
Period size: 34 Copynumber: 2.8 Consensus size: 35
12367445 TGTAACTTGC
* * *
12367455 AAACCATGTTTTGTTACAAATCATGTGCTGTTTTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTTCG
12367491 AAACCATGTTCTGTTGCAAACCATGTGCTG-TTCG
1 AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
12367525 AAACCATGTTCTGTTGCAAACCATGTGCT
1 AAACCATGTTCTGTTGCAAACCATGTGCT
12367554 TGCAAACCAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
34 33 0.55
36 27 0.45
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (35 bp):
AAACCATGTTCTGTTGCAAACCATGTGCTGTTTCG
Found at i:12367533 original size:53 final size:49
Alignment explanation
Indices: 12367450--12367564 Score: 124
Period size: 53 Copynumber: 2.3 Consensus size: 49
12367440 TCTGTTGTAA
** * * *
12367450 CTTGCAAACCATGTTTTGTTACAAATCATGTGCTGTTTTCGAAACCATGTT
1 CTTGCAAACCATGTGCTGTTACAAACCATGTGCTG-TTGC-AAACCATGTG
*
12367501 CTGTTGCAAACCATGTGCTGTT-CGAAACCATGTTCTGTTGCAAACCATGTG
1 C--TTGCAAACCATGTGCTGTTAC-AAACCATGTGCTGTTGCAAACCATGTG
12367552 CTTGCAAACCATG
1 CTTGCAAACCATG
12367565 GAAGGGGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
49 12 0.22
51 11 0.20
52 4 0.07
53 28 0.51
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (49 bp):
CTTGCAAACCATGTGCTGTTACAAACCATGTGCTGTTGCAAACCATGTG
Found at i:12369922 original size:2 final size:2
Alignment explanation
Indices: 12369917--12369950 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
12369907 GTGTGTGGTG
12369917 TA TA TA TA TA TA T- 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 T
12369951 CTTAACATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12370791 original size:14 final size:15
Alignment explanation
Indices: 12370772--12370800 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12370762 CCAACCATTG
12370772 CTTTTTTTTT-TTTC
1 CTTTTTTTTTCTTTC
12370786 CTTTTTTTTTCTTTC
1 CTTTTTTTTTCTTTC
12370801 AGTCAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTTCTTTC
Found at i:12371405 original size:4 final size:4
Alignment explanation
Indices: 12371396--12371425 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
12371386 CTTGGGATGA
12371396 TCTT TCTT TCTT TCTT TCTT TCTTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TC-TT TCTT T
12371426 TGGGTGAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TCTT
Found at i:12375197 original size:33 final size:33
Alignment explanation
Indices: 12375137--12375199 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
12375127 TTGAGACATT
* *
12375137 GTTAATTTAGTAGTGTTTGTATCAAAAAATGCC
1 GTTAATTTAGTAGCGTTTGTATAAAAAAATGCC
* *
12375170 GTTACTTTGGTAGCGTTTGTATAAAAAAAT
1 GTTAATTTAGTAGCGTTTGTATAAAAAAAT
12375200 ACCTGCTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (33 bp):
GTTAATTTAGTAGCGTTTGTATAAAAAAATGCC
Found at i:12378765 original size:21 final size:20
Alignment explanation
Indices: 12378741--12378851 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 20
12378731 CAATTGATCC
*
12378741 AATTTTAGTAATCTTTTATAA
1 AATTTTAGTAAT-TTTTATAT
* *
12378762 AATTTTAGTAATATCTTAATGT
1 AATTTTAGTAAT-T-TTTATAT
*
12378784 AATTTTGGTAATTTTTAATAT
1 AATTTTAGTAATTTTT-ATAT
* * *
12378805 AATTTTGGTAAGTTATAATAT
1 AATTTTAGTAA-TTTTTATAT
* *
12378826 ACTTTTAGTAATTGTTTATAA
1 AATTTTAGTAATT-TTTATAT
12378847 AATTT
1 AATTT
12378852 CTGATATCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
20 4 0.06
21 49 0.69
22 18 0.25
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (20 bp):
AATTTTAGTAATTTTTATAT
Found at i:12378851 original size:42 final size:42
Alignment explanation
Indices: 12378741--12378851 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
12378731 CAATTGATCC
* *
12378741 AATTTTAGTAATCTTTTATAAAATTTTAGTAATATCTTAATGT
1 AATTTTAGTAAT-TTTTATAAAATTTTAGTAATATCATAATAT
* * *
12378784 AATTTTGGTAATTTTTAATATAATTTTGGTAAGT-T-ATAATAT
1 AATTTTAGTAATTTTT-ATAAAATTTTAGTAA-TATCATAATAT
*
12378826 ACTTTTAGTAATTGTTTATAAAATTT
1 AATTTTAGTAATT-TTTATAAAATTT
12378852 CTGATATCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 28 0.49
43 28 0.49
44 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (42 bp):
AATTTTAGTAATTTTTATAAAATTTTAGTAATATCATAATAT
Found at i:12379537 original size:10 final size:10
Alignment explanation
Indices: 12379522--12379551 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12379512 AAATAAACTT
12379522 CATATATATA
1 CATATATATA
12379532 CATATATATA
1 CATATATATA
*
12379542 TATATATATA
1 CATATATATA
12379552 ATTGTCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
CATATATATA
Found at i:12380014 original size:20 final size:20
Alignment explanation
Indices: 12379989--12380028 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12379979 TAAATTAATA
12379989 AAATTTATATATTTAAAAAT
1 AAATTTATATATTTAAAAAT
*
12380009 AAATTTATTTATTTAAAAAT
1 AAATTTATATATTTAAAAAT
12380029 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTATATATTTAAAAAT
Found at i:12380127 original size:2 final size:2
Alignment explanation
Indices: 12380120--12380147 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12380110 GGAATATCTC
12380120 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12380148 TAGCTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12384264 original size:15 final size:15
Alignment explanation
Indices: 12384244--12384275 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
12384234 TAATACTATT
12384244 ATCTCCAAGGTTAAG
1 ATCTCCAAGGTTAAG
12384259 ATCTCCAAGGTTAAG
1 ATCTCCAAGGTTAAG
12384274 AT
1 AT
12384276 GCTGCAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (15 bp):
ATCTCCAAGGTTAAG
Found at i:12387046 original size:27 final size:27
Alignment explanation
Indices: 12387016--12387094 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
12387006 GAGGTGTTGC
12387016 AAGAGATGAAAGGTGGGGAGGATGAAA
1 AAGAGATGAAAGGTGGGGAGGATGAAA
* * * * *
12387043 AAGAAGA-GAAAGGAGAGG-TGTTG--G
1 AAG-AGATGAAAGGTGGGGAGGATGAAA
*
12387067 AAGAGATGAAAGCTGGGGAGGATGAAA
1 AAGAGATGAAAGGTGGGGAGGATGAAA
12387094 A
1 A
12387095 GGCAGAGAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
23 3 0.08
24 11 0.31
25 3 0.08
26 3 0.08
27 13 0.36
28 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.43, T:0.11
Consensus pattern (27 bp):
AAGAGATGAAAGGTGGGGAGGATGAAA
Found at i:12387065 original size:51 final size:51
Alignment explanation
Indices: 12387005--12387109 Score: 174
Period size: 51 Copynumber: 2.1 Consensus size: 51
12386995 GTTCTAAAAA
*
12387005 AGAGGTGTTGCAAGAGATGAAAGGTGGGGAGGATGAAAAAGAAGAGAAAGG
1 AGAGGTGTTGCAAGAGATGAAAGCTGGGGAGGATGAAAAAGAAGAGAAAGG
* * *
12387056 AGAGGTGTTGGAAGAGATGAAAGCTGGGGAGGATGAAAAGGCAGAGAAAGG
1 AGAGGTGTTGCAAGAGATGAAAGCTGGGGAGGATGAAAAAGAAGAGAAAGG
12387107 AGA
1 AGA
12387110 TGATTTGGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.42, C:0.03, G:0.44, T:0.11
Consensus pattern (51 bp):
AGAGGTGTTGCAAGAGATGAAAGCTGGGGAGGATGAAAAAGAAGAGAAAGG
Found at i:12396809 original size:31 final size:31
Alignment explanation
Indices: 12396774--12396836 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
12396764 AACAGTGCAA
12396774 TTTACCCCTCAAATAAGCCATGGAAAAAATT
1 TTTACCCCTCAAATAAGCCATGGAAAAAATT
12396805 TTTACCCCTCAAATAAGCCATGGAAAAAATT
1 TTTACCCCTCAAATAAGCCATGGAAAAAATT
12396836 T
1 T
12396837 CTATCTCTCC
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:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (31 bp):
TTTACCCCTCAAATAAGCCATGGAAAAAATT
Found at i:12398681 original size:21 final size:20
Alignment explanation
Indices: 12398657--12398767 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 20
12398647 CAATTGATCC
*
12398657 AATTTTAGTAATCTTTTATAA
1 AATTTTAGTAAT-TTTTATAT
* *
12398678 AATTTTAGTAATATCTTAATGT
1 AATTTTAGTAAT-T-TTTATAT
*
12398700 AATTTTGGTAATTTTTAATAT
1 AATTTTAGTAATTTTT-ATAT
* * *
12398721 AATTTTGGTAAGTTATAATAT
1 AATTTTAGTAA-TTTTTATAT
* *
12398742 ACTTTTAGTAATTGTTTATAA
1 AATTTTAGTAATT-TTTATAT
12398763 AATTT
1 AATTT
12398768 CTGATATCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
20 4 0.06
21 49 0.69
22 18 0.25
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (20 bp):
AATTTTAGTAATTTTTATAT
Found at i:12398767 original size:42 final size:42
Alignment explanation
Indices: 12398657--12398767 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
12398647 CAATTGATCC
* *
12398657 AATTTTAGTAATCTTTTATAAAATTTTAGTAATATCTTAATGT
1 AATTTTAGTAAT-TTTTATAAAATTTTAGTAATATCATAATAT
* * *
12398700 AATTTTGGTAATTTTTAATATAATTTTGGTAAGT-T-ATAATAT
1 AATTTTAGTAATTTTT-ATAAAATTTTAGTAA-TATCATAATAT
*
12398742 ACTTTTAGTAATTGTTTATAAAATTT
1 AATTTTAGTAATT-TTTATAAAATTT
12398768 CTGATATCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
42 28 0.49
43 28 0.49
44 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (42 bp):
AATTTTAGTAATTTTTATAAAATTTTAGTAATATCATAATAT
Found at i:12399919 original size:20 final size:20
Alignment explanation
Indices: 12399894--12399933 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
12399884 TAAATTAATA
12399894 AAATTTATATATTTAAAAAT
1 AAATTTATATATTTAAAAAT
*
12399914 AAATTTATTTATTTAAAAAT
1 AAATTTATATATTTAAAAAT
12399934 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTATATATTTAAAAAT
Found at i:12401015 original size:2 final size:2
Alignment explanation
Indices: 12401008--12401039 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12400998 GTCTTACCAA
12401008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12401040 GCACAACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12405253 original size:19 final size:21
Alignment explanation
Indices: 12405229--12405270 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
12405219 TGTTAATTTA
12405229 ATATAA-AAATAAATTTT-TT
1 ATATAATAAATAAATTTTATT
12405248 ATATAATAAATAAATTTTATT
1 ATATAATAAATAAATTTTATT
12405269 AT
1 AT
12405271 TATGTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATAATAAATAAATTTTATT
Found at i:12405260 original size:26 final size:26
Alignment explanation
Indices: 12405190--12405261 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 26
12405180 TTTTTCTTTT
*
12405190 TTTTTTATTTAA-AAATTAAAAAGTAA
1 TTTTTTATATAATAAA-TAAAAAGTAA
*
12405216 TTTTGTTA-AT-TTAATATAAAAA-TAAA
1 TTTT-TTATATAATAA-ATAAAAAGT-AA
12405242 TTTTTTATATAATAAATAAA
1 TTTTTTATATAATAAATAAA
12405262 TTTTATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
25 4 0.11
26 26 0.70
27 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (26 bp):
TTTTTTATATAATAAATAAAAAGTAA
Found at i:12405298 original size:18 final size:17
Alignment explanation
Indices: 12405275--12405360 Score: 61
Period size: 16 Copynumber: 5.1 Consensus size: 17
12405265 TATTATTATG
12405275 TTAATTATTTAATTAATT
1 TTAATTATTT-ATTAATT
12405293 TTAATTATTTATTAA-T
1 TTAATTATTTATTAATT
** *
12405309 GAAACTA-TTATTTAATT
1 TTAATTATTTA-TTAATT
* ** *
12405326 TAAAAAAATTTAAT-ATT
1 T-TAATTATTTATTAATT
12405343 TTAATTATTTATTAATT
1 TTAATTATTTATTAATT
12405360 T
1 T
12405361 GATAAATATT
Statistics
Matches: 52, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
15 3 0.06
16 17 0.33
17 14 0.27
18 15 0.29
19 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TTAATTATTTATTAATT
Found at i:12405739 original size:24 final size:23
Alignment explanation
Indices: 12405712--12405758 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12405702 GTATATATAT
* *
12405712 ATATTTGAAAATATAAAAATAAAA
1 ATATTAGAAAAT-TAAAAAGAAAA
*
12405736 ATATTAGATAATTAAAAAGAAAA
1 ATATTAGAAAATTAAAAAGAAAA
12405759 CAATATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
ATATTAGAAAATTAAAAAGAAAA
Found at i:12408013 original size:60 final size:58
Alignment explanation
Indices: 12407783--12408177 Score: 521
Period size: 59 Copynumber: 6.7 Consensus size: 58
12407773 TTGTGCAGGA
*
12407783 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAACTTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAA--TTTATTTTCAAGG
* * ** * *
12407842 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTGTTTTAAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTCAAGG
* *
12407900 AAAATTGACACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTTGGAAATTTATTTTCAAGG
12407959 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAA-TTT-ATTTTCAAGG
** *
12408019 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTT-GAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAA-TATTTTTTTGGAAA-TTTATTTTCAAGG
* *
12408078 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAA-TTT-ATTTTCAAGG
12408138 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTT
12408178 TGATTTTTAT
Statistics
Matches: 300, Mismatches: 24, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
57 5 0.02
58 55 0.18
59 132 0.44
60 101 0.34
61 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTCAAGG
Found at i:12408177 original size:119 final size:119
Alignment explanation
Indices: 12407781--12408189 Score: 630
Period size: 119 Copynumber: 3.5 Consensus size: 119
12407771 TCTTGTGCAG
* * *
12407781 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAACTTTTATTTTCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAA-TTTTATTTTTAAGGAAA
* * *
12407845 ATTGATACTTTCAACTTTTTTCCAAAAATATTGTTTT-AAAAATTT-ATTTTTAA
65 ATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAAATTTGATTTTCAA
*
12407898 GAAAAATTGACACTTTCAACTTTTCCTCAAAAATATTTTTTTTGGAAA-TTTATTTTTAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTT-GAAATTTTATTTTTAAGGAAA
* *
12407962 ATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAA
65 ATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAAATTTGATTTTCAA
* ***
12408017 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAAGGAAAA
*
12408082 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTTGATTTTCAA
66 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAAATTTGATTTTCAA
*
12408136 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG-ATTTTTATTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTT
12408190 AAAGAAAATA
Statistics
Matches: 266, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
117 83 0.31
118 25 0.09
119 158 0.59
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (119 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAAATTTGATTTTCAA
Found at i:12408217 original size:18 final size:18
Alignment explanation
Indices: 12408194--12408339 Score: 72
Period size: 18 Copynumber: 7.9 Consensus size: 18
12408184 TTATTTAAAG
12408194 AAAATAGAAT-AATAAAAC
1 AAAATA-AATAAATAAAAC
*
12408212 AAAATAAATAAATAAAAT
1 AAAATAAATAAATAAAAC
12408230 AAAATAAAGTAAA-ACAAA-
1 AAAATAAA-TAAATA-AAAC
*
12408248 AATAA-AAATAAAATAAAGATA
1 AA-AATAAAT-AAATAAA-A-C
*
12408269 AAAAGAATATTAAAT-AAAC
1 AAAATAA-A-TAAATAAAAC
** *
12408288 CTAATCTAATAAATAAAA-
1 AAAAT-AAATAAATAAAAC
12408306 ATAAATAAATAAATAAAAC
1 A-AAATAAATAAATAAAAC
* *
12408325 -AGATAAACAAATAAA
1 AAAATAAATAAATAAA
12408340 TAAATAAATT
Statistics
Matches: 101, Mismatches: 11, Indels: 33
0.70 0.08 0.23
Matches are distributed among these distances:
17 17 0.17
18 48 0.48
19 20 0.20
20 4 0.04
21 6 0.06
22 5 0.05
23 1 0.01
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAATAAATAAATAAAAC
Found at i:12408229 original size:5 final size:5
Alignment explanation
Indices: 12408204--12408271 Score: 68
Period size: 5 Copynumber: 13.4 Consensus size: 5
12408194 AAAATAGAAT
* * *
12408204 AATAA AACAA AAT-A AAT-A AATAA AATAA AATAA AGTAA AACAAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA-TAA AAT-AA
12408254 AATAA AATAA AGATAA AA
1 AATAA AATAA A-ATAA AA
12408272 AGAATATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 8 0.15
5 31 0.58
6 14 0.26
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:12408302 original size:4 final size:4
Alignment explanation
Indices: 12408295--12408348 Score: 60
Period size: 4 Copynumber: 13.8 Consensus size: 4
12408285 AACCTAATCT
*
12408295 AATA AAT- AA-A AATA AATA AATA AATA AA-A CAGATA AACA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA -A-ATA AATA AATA AATA
12408342 AATA AAT
1 AATA AAT
12408349 TCAAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
3 5 0.12
4 35 0.81
5 2 0.05
6 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:12408330 original size:17 final size:17
Alignment explanation
Indices: 12408195--12408348 Score: 64
Period size: 16 Copynumber: 9.5 Consensus size: 17
12408185 TATTTAAAGA
12408195 AAATAGAAT-AATAAAAC
1 AAATA-AATAAATAAAAC
12408212 AAAATAAATAAAT-AAA-
1 -AAATAAATAAATAAAAC
*
12408228 ATA-AAATAAAGTAAAAC
1 AAATAAATAAA-TAAAAC
*
12408245 -AA-AAATAAA-AATA-
1 AAATAAATAAATAAAAC
*
12408258 AAAT-AA-AGATAAAA-
1 AAATAAATAAATAAAAC
* *
12408272 AGAAT-ATTAAATAAACC
1 A-AATAAATAAATAAAAC
* * *
12408289 TAATCTAATAAATAAAAAT
1 AAAT-AAATAAAT-AAAAC
12408308 AAATAAATAAATAAAAC
1 AAATAAATAAATAAAAC
* * *
12408325 AGATAAACAAAT-AAAT
1 AAATAAATAAATAAAAC
12408341 AAATAAAT
1 AAATAAAT
12408349 TCAAAAAAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.02
14 18 0.17
15 7 0.07
16 29 0.28
17 20 0.19
18 21 0.20
19 6 0.06
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAATAAATAAAAC
Found at i:12408336 original size:21 final size:19
Alignment explanation
Indices: 12408295--12408348 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
12408285 AACCTAATCT
*
12408295 AATAAAT-AAAAATAAATA
1 AATAAATAAAAAATAAACA
12408313 AATAAATAAAACAGATAAACA
1 AATAAATAAAA-A-ATAAACA
12408334 AATAAATAAATAAAT
1 AATAAATAAA-AAAT
12408349 TCAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 7 0.23
19 3 0.10
20 3 0.10
21 17 0.55
22 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AATAAATAAAAAATAAACA
Found at i:12409242 original size:23 final size:23
Alignment explanation
Indices: 12409218--12409311 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 23
12409208 TAAAAAAAAG
*
12409218 AAAAAAAATTAAT-AGATAATTA
1 AAAAAAAATTAATAAGATAAATA
*
12409240 GAAAAATAA-TAATAAGATAAATA
1 -AAAAAAAATTAATAAGATAAATA
12409263 AAAAATAATATT-ATAAGATAAATA
1 AAAAA-AA-ATTAATAAGATAAATA
12409287 AAAAAATAA-TAATGACAGATAAATA
1 AAAAAA-AATTAAT-A-AGATAAATA
12409312 GATATATAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
22 10 0.17
23 20 0.33
24 20 0.33
25 10 0.17
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.24
Consensus pattern (23 bp):
AAAAAAAATTAATAAGATAAATA
Found at i:12409283 original size:24 final size:22
Alignment explanation
Indices: 12409218--12409429 Score: 116
Period size: 22 Copynumber: 9.4 Consensus size: 22
12409208 TAAAAAAAAG
*
12409218 AAAAAA-AATTAAT-AGATAATT
1 AAAAAATAA-TAATAAGATAAAT
12409239 AGAAAAATAATAATAAGATAAAT
1 A-AAAAATAATAATAAGATAAAT
12409262 AAAAAATAATATTATAAGATAAAT
1 AAAAAATAATA--ATAAGATAAAT
12409286 AAAAAAATAATAATGACAGATAAAT
1 -AAAAAATAATAAT-A-AGATAAAT
* * *
12409311 -AGATAT-ATAATTAGATAAAT
1 AAAAAATAATAATAAGATAAAT
12409331 -AAAAATACATACA-AA-ATAAAAT
1 AAAAAATA-ATA-ATAAGAT-AAAT
* * * * *
12409353 GAAAAAGAAAAAAAAGGAAAAAT
1 AAAAAATAATAATAA-GATAAAT
* * *
12409376 AAAATAAAAATATATATATATTAAT
1 AAAA-AATAATA-ATA-AGATAAAT
*
12409401 AAATAATAATAATAA-ATAAAT
1 AAAAAATAATAATAAGATAAAT
*
12409422 AATAAATA
1 AAAAAATA
12409430 CATAGGATAT
Statistics
Matches: 150, Mismatches: 22, Indels: 38
0.71 0.10 0.18
Matches are distributed among these distances:
20 12 0.08
21 15 0.10
22 37 0.25
23 33 0.22
24 24 0.16
25 28 0.19
26 1 0.01
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAAAATAATAATAAGATAAAT
Found at i:12409309 original size:45 final size:46
Alignment explanation
Indices: 12409227--12409335 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 46
12409217 GAAAAAAAAT
* * *
12409227 TAAT-AGATAATTAGAAAAATAATAATAAGATAAATAAA-AAATAATA
1 TAATAAGATAAATAAAAAAATAATAAT-AGACAAATAAATAAAT-ATA
* * *
12409273 TTATAAGATAAATAAAAAAATAATAAT-GACAGATAAATAGATATA
1 TAATAAGATAAATAAAAAAATAATAATAGACAAATAAATAAATATA
*
12409318 TAATTAGATAAATAAAAA
1 TAATAAGATAAATAAAAA
12409336 TACATACAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 27 0.51
46 6 0.11
47 20 0.38
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (46 bp):
TAATAAGATAAATAAAAAAATAATAATAGACAAATAAATAAATATA
Found at i:12409367 original size:16 final size:17
Alignment explanation
Indices: 12409343--12409384 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
12409333 AAATACATAC
*
12409343 AAAATAAAATGAAAAAG
1 AAAATAAAAGGAAAAAG
*
12409360 AAAA-AAAAGGAAAAAT
1 AAAATAAAAGGAAAAAG
12409376 AAAATAAAA
1 AAAATAAAA
12409385 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAATAAAAGGAAAAAG
Found at i:12409456 original size:25 final size:24
Alignment explanation
Indices: 12409398--12409477 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
12409388 TATATATATT
*
12409398 AATAAATA-ATAATAATA-AATAAAT
1 AATAAATACATAA-AATATAA-AAAA
**
12409422 AATAAATACATAGGATATAAAGAAA
1 AATAAATACATAAAATATAAA-AAA
*
12409447 AATATATACATAAAATATAAAATAA
1 AATAAATACATAAAATATAAAA-AA
12409472 AATAAA
1 AATAAA
12409478 ATAAAATAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
24 13 0.29
25 32 0.71
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.25
Consensus pattern (24 bp):
AATAAATACATAAAATATAAAAAA
Found at i:12409463 original size:13 final size:12
Alignment explanation
Indices: 12409436--12409505 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 12
12409426 AATACATAGG
12409436 ATATAAAGA-AAA
1 ATATAAA-ATAAA
*
12409448 ATATATACATAAA
1 ATATA-AAATAAA
12409461 ATATAAAAT-AA
1 ATATAAAATAAA
12409472 A-ATAAAAT-AA
1 ATATAAAATAAA
*
12409482 A-ATAACA-AAA
1 ATATAAAATAAA
*
12409492 ATGTAAAATAAA
1 ATATAAAATAAA
12409504 AT
1 AT
12409506 TGGACTTACC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
10 18 0.38
11 7 0.15
12 14 0.29
13 9 0.19
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (12 bp):
ATATAAAATAAA
Found at i:12409473 original size:5 final size:5
Alignment explanation
Indices: 12409463--12409505 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
12409453 TACATAAAAT
*
12409463 ATAAA ATAAA ATAAA ATAAA ATAACA A-AAA TGTAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAA-A ATAAA -ATAAA ATAAA AT
12409506 TGGACTTACC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 1 0.03
5 27 0.82
6 5 0.15
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:12409774 original size:41 final size:41
Alignment explanation
Indices: 12409681--12409922 Score: 340
Period size: 41 Copynumber: 5.8 Consensus size: 41
12409671 TTTGACCAAA
* * * * * *
12409681 GCTCTTCTAAATAGAGGCTCAACGACTTTGGAAAAATAAATA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATT
* *
12409723 GCTCTTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* *
12409764 GCTCCTCTAAACAGAGGTACCACGACTTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTG-GAAAGTAAATT
*
12409807 GCTCCTCTAAACAGAGGCAACACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
12409848 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
*
12409889 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAA
12409923 CAGAGGCACC
Statistics
Matches: 181, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
41 112 0.62
42 35 0.19
43 34 0.19
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:12409836 original size:84 final size:84
Alignment explanation
Indices: 12409681--12409922 Score: 364
Period size: 84 Copynumber: 2.9 Consensus size: 84
12409671 TTTGACCAAA
* * * * * * *
12409681 GCTCTTCTAAATAGAGGCTCAACGACTTTGGAAAAA-TAAATAGCTCTTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
12409745 CAACTTTGGAAAGTAAATT
66 CGACTTTGGAAAGTAAATT
* *
12409764 GCTCCTCTAAACAGAGGTACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
12409829 CGACTTTGGAAAGTAAATT
66 CGACTTTGGAAAGTAAATT
*
12409848 GCTCCTCTAAACAGAGGCACCACGAC-TTTG-AAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
12409911 CGACTTTGGAAA
66 CGACTTTGGAAA
12409923 CAGAGGCACC
Statistics
Matches: 145, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
82 43 0.30
83 34 0.23
84 68 0.47
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
CGACTTTGGAAAGTAAATT
Found at i:12409931 original size:23 final size:23
Alignment explanation
Indices: 12409901--12409945 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12409891 TCCTCTAAAT
*
12409901 AGAGGCACCACGACTTTGGAAAC
1 AGAGGCACCACAACTTTGGAAAC
*
12409924 AGAGGCACCACAACTTTTGAAA
1 AGAGGCACCACAACTTTGGAAA
12409946 AGTAAATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
AGAGGCACCACAACTTTGGAAAC
Found at i:12409959 original size:65 final size:64
Alignment explanation
Indices: 12409856--12409983 Score: 229
Period size: 65 Copynumber: 2.0 Consensus size: 64
12409846 TTGCTCCTCT
* *
12409856 AAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTGG
1 AAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
12409920 AAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
1 AAACAGAGGCACCACAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTG
12409984 AAAAGTAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 17 0.28
65 44 0.72
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (64 bp):
AAACAGAGGCACCACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG
Found at i:12409996 original size:41 final size:41
Alignment explanation
Indices: 12409920--12410042 Score: 219
Period size: 41 Copynumber: 3.0 Consensus size: 41
12409910 ACGACTTTGG
*
12409920 AAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCT
1 AAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCT
12409962 AAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
1 AAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
12410003 AAACAGAGGCACCACGACTTTGAGAAAGTAAATTGCTCCT
1 AAACAGAGGCACCACGACTTTGA-AAAGTAAATTGCTCCT
12410043 TGACAATCAT
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
41 46 0.58
42 33 0.42
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (41 bp):
AAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
Found at i:12409999 original size:106 final size:106
Alignment explanation
Indices: 12409815--12410029 Score: 378
Period size: 106 Copynumber: 2.0 Consensus size: 106
12409805 TTGCTCCTCT
* *
12409815 AAACAGAGGCAACACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAA
1 AAACAGAGGCAACACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAA
*
12409880 AAGTAAATTGCTCCTCTAAATAGAGGCACCACGACTTTG-G
66 AAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAG
*
12409920 AAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA
1 AAACAGAGGCAACACAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGA
12409985 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAG
65 AAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAG
12410027 AAA
1 AAA
12410030 GTAAATTGCT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
105 16 0.15
106 84 0.81
107 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (106 bp):
AAACAGAGGCAACACAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAA
AAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAG
Found at i:12410370 original size:44 final size:44
Alignment explanation
Indices: 12410313--12410417 Score: 126
Period size: 43 Copynumber: 2.4 Consensus size: 44
12410303 AGGTTTTTTT
* *
12410313 TTCAAAGATTTTCATTTGGCAAACTTGGA-ATTCATATCCAAAAA
1 TTCAAAGCTTTTCATTTGG-AAACTTGGAGATTCACATCCAAAAA
** *
12410357 -TCTAAAGCTTTTCATTT-GAATTTTGGAGATTCACATCCACAAA
1 TTC-AAAGCTTTTCATTTGGAAACTTGGAGATTCACATCCAAAAA
12410400 TTCAAAGCTTTTCATTTG
1 TTCAAAGCTTTTCATTTG
12410418 AGTTCAAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 7 0.13
43 30 0.58
44 15 0.29
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (44 bp):
TTCAAAGCTTTTCATTTGGAAACTTGGAGATTCACATCCAAAAA
Found at i:12411715 original size:13 final size:12
Alignment explanation
Indices: 12411697--12411740 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
12411687 CATTTTCTCA
12411697 TTTTTTCCTTCTT
1 TTTTTTCCTT-TT
12411710 TTTTTTCCTTTT
1 TTTTTTCCTTTT
* *
12411722 TTTTCATCATTTT
1 TTTT-TTCCTTTT
12411735 TTTTTT
1 TTTTTT
12411741 TGCTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTCCTTTT
Found at i:12412384 original size:17 final size:18
Alignment explanation
Indices: 12412352--12412398 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
12412342 ATTGCAAATC
12412352 TTCAATGACAATATCTA-AT
1 TTCAA-GAC-ATATCTATAT
*
12412371 TTCAAGACATATCTATCT
1 TTCAAGACATATCTATAT
12412389 TTCAAGACAT
1 TTCAAGACAT
12412399 CAAATCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 7 0.27
18 14 0.54
19 5 0.19
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (18 bp):
TTCAAGACATATCTATAT
Found at i:12416283 original size:120 final size:118
Alignment explanation
Indices: 12416054--12416401 Score: 485
Period size: 120 Copynumber: 2.9 Consensus size: 118
12416044 TTGTGCAGGA
* *
12416054 AAAATTGATACTTTCAACTTTTTTCCAAAAATA--TTTTTTGAAAACTTTTATTTTC-AAGAAAA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTTATTTTCAAAG-AAA
*
12416116 ATTGATACTTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
65 ATTGATAC-TTTCAAC-TTTTCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
* *
12416172 AAAATTGACACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAGAAAA
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTTATTTTCAAAGAAAA
*
12416237 TTGATACTTTCAACTTTTCCTCAAAAACTCTTTTTTTGAAATTTTATTTTTAAGG
66 TTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTGAAATTTTATTTTTAAGG
** * *
12416292 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCTTTTTTTT-GAAA-TTTTATTTTTAATGAAA
1 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTGGAAACTTTTATTTTCAAAGAAA
*
12416354 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-ATTTTTATTT
65 ATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGAAATTTTATTT
12416402 AAAGAAAATA
Statistics
Matches: 209, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
116 9 0.04
117 9 0.04
118 76 0.36
119 25 0.12
120 87 0.42
121 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTTATTTTCAAAGAAAA
TTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
Found at i:12416356 original size:179 final size:179
Alignment explanation
Indices: 12416054--12416390 Score: 506
Period size: 179 Copynumber: 1.9 Consensus size: 179
12416044 TTGTGCAGGA
*
12416054 AAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTTGAAAACTTTTATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTTTATTTTCAAGAAAAATT
12416119 GATACTTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGACACT
66 GATACTTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGACACT
*
12416184 TTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAG
131 TTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAG
* * *
12416233 AAAATTGATACTTTCAACTTTTC-CTCAAAAACTCTTTTTTTG-AAA-TTTTATTTTTAAGGAAA
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAA-T-ATTTTTTGAAAACTTTTATTTTCAAGAAAA
* *
12416295 ATTGATAC-TTTCAAC-TTTTCCTCAAAAACCT-TTTTTTTGAAATTTTATTTTTAATGAAAATT
63 ATTGATACTTTTCAACTTTTTCC-CAAAAA--TATTTTTTTGAAAATTTATTTTTAAGGAAAATT
*
12416357 GATACTTTCAACTTTTCCCCAAAAATATTTTTTT
125 GACACTTTCAACTTTTCCCCAAAAATATTTTTTT
12416391 GATTTTTATT
Statistics
Matches: 144, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
177 6 0.04
178 14 0.10
179 112 0.78
180 5 0.03
181 7 0.05
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (179 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTGAAAACTTTTATTTTCAAGAAAAATT
GATACTTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGACACT
TTCAACTTTTCCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAG
Found at i:12416390 original size:59 final size:59
Alignment explanation
Indices: 12416054--12416390 Score: 439
Period size: 59 Copynumber: 5.7 Consensus size: 59
12416044 TTGTGCAGGA
** * *
12416054 AAAATTGATACTTTCAACTTTTTTCCAAAAATA--TTTTTTGAAAACTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTG-AAA-TTTTATTTTTAAGG
* *
12416113 AAAATTGATACTTTTCAACTTTTTCCCAAAAATA-TTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATAC-TTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
* * * * *
12416172 AAAATTGACACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAACTTTGATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAA-TTTTATTTTTAAGG
* *
12416233 AAAATTGATACTTTCAACTTTTCCTCAAAAACT-CTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTTGAAATTTTATTTTTAAGG
* ** *
12416292 AAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAATTTTATTTTTAATG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
12416351 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
12416391 GATTTTTATT
Statistics
Matches: 249, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
58 22 0.09
59 142 0.57
60 32 0.13
61 52 0.21
62 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATTTTTAAGG
Found at i:12416452 original size:6 final size:6
Alignment explanation
Indices: 12416424--12416498 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
12416414 ATAATAAAAC
* * * *
12416424 AAAATA AAAGTG AAAAT- -AAATA AAAAT- AAAATA AAGAAAA GTAAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA --AAAATA
*
12416472 AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
12416499 GAATATTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
4 4 0.07
5 10 0.19
6 32 0.59
7 3 0.06
8 3 0.06
9 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:12416454 original size:32 final size:32
Alignment explanation
Indices: 12416406--12416497 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
12416396 TTATTTAAAG
*
12416406 AAAATAGAATAATAAAACAAAATAAAAGTGAAA-A
1 AAAATA-AA-AATAAAA-AAAATAAAAGTAAAACA
* * *
12416440 TAAATAAAAATAAAATAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAAAAAATAAAAGTAAAACA
12416472 AAAATAAAAATAAAATAAAGATAAAA
1 AAAATAAAAATAAAA-AAA-ATAAAA
12416498 AGAATATTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
31 12 0.25
32 22 0.46
33 4 0.08
34 10 0.21
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (32 bp):
AAAATAAAAATAAAAAAAATAAAAGTAAAACA
Found at i:12416456 original size:5 final size:5
Alignment explanation
Indices: 12416416--12416546 Score: 61
Period size: 5 Copynumber: 24.2 Consensus size: 5
12416406 AAAATAGAAT
*
12416416 AATAA AACAA AATAA AAGTGAA AAT-A AATAAA AATAA AATAA AGA-AA
1 AATAA AATAA AATAA AA-T-AA AATAA AAT-AA AATAA AATAA A-ATAA
* * *
12416463 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA-AGA ATATTA AATAA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AATA-A A-ATAA AATAA
* * *
12416512 ACCTAA TATAATA AATAA AATAA ATAAAA AATAA A
1 A-ATAA AAT-A-A AATAA AATAA A-ATAA AATAA A
12416547 CAAATAAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 32
0.68 0.10 0.23
Matches are distributed among these distances:
4 5 0.05
5 51 0.53
6 33 0.34
7 7 0.07
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:12416457 original size:11 final size:11
Alignment explanation
Indices: 12416406--12416546 Score: 87
Period size: 11 Copynumber: 12.7 Consensus size: 11
12416396 TTATTTAAAG
12416406 AAAATAGAATAAT
1 AAAATA-AA-AAT
*
12416419 AAAA-CAAAAT
1 AAAATAAAAAT
*
12416429 AAAAGTGAAAAT
1 AAAA-TAAAAAT
12416441 -AAATAAAAAT
1 AAAATAAAAAT
*
12416451 AAAATAAAGA-
1 AAAATAAAAAT
*
12416461 AAAGTAAAACA-
1 AAAATAAAA-AT
12416472 AAAATAAAAAT
1 AAAATAAAAAT
*
12416483 AAAATAAAGAT
1 AAAATAAAAAT
*
12416494 AAAA-AGAATAT
1 AAAATA-AAAAT
* **
12416505 TAAATAAACCT
1 AAAATAAAAAT
*
12416516 AATATAATAAAT
1 AAAATAA-AAAT
12416528 AAAATAAATAA-
1 AAAATAAA-AAT
12416539 AAAATAAA
1 AAAATAAA
12416547 CAAATAAATA
Statistics
Matches: 102, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
10 22 0.22
11 60 0.59
12 16 0.16
13 4 0.04
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:12416528 original size:4 final size:4
Alignment explanation
Indices: 12416516--12416563 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
12416506 AAATAAACCT
*
12416516 AATA TAATA AATAA AATA AATA AA-A AATA AACA AATA AATA AATA AAT
1 AATA -AATA AAT-A AATA AATA AATA AATA AATA AATA AATA AATA AAT
12416564 TCAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
3 3 0.08
4 28 0.72
5 8 0.21
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:12417462 original size:23 final size:22
Alignment explanation
Indices: 12417421--12417541 Score: 106
Period size: 22 Copynumber: 5.3 Consensus size: 22
12417411 TAAAAATCAC
12417421 ATAAAAAA-AATTAAT-AGATAA
1 ATAAAAAATAA-TAATAAGATAA
*
12417442 TTAGAAAAATAATAATAAGATAA
1 ATA-AAAAATAATAATAAGATAA
12417465 ATAAAAAATAATATTATAAGATAA
1 ATAAAAAATAATA--ATAAGATAA
12417489 ATAATAATAATAATAATGACAGATAA
1 ATAA-AA-AATAATAAT-A-AGATAA
* * *
12417515 AT-AGATAT-ATAATTAGATAA
1 ATAAAAAATAATAATAAGATAA
12417535 ATAAAAA
1 ATAAAAA
12417542 TACATACAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
20 8 0.10
21 4 0.05
22 24 0.29
23 12 0.14
24 16 0.19
25 4 0.05
26 15 0.18
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (22 bp):
ATAAAAAATAATAATAAGATAA
Found at i:12417467 original size:12 final size:12
Alignment explanation
Indices: 12417452--12417538 Score: 58
Period size: 12 Copynumber: 7.4 Consensus size: 12
12417442 TTAGAAAAAT
12417452 AATAATAAGATA
1 AATAATAAGATA
*
12417464 AATAA-AAAATA
1 AATAATAAGATA
*
12417475 ATATTATAAGATA
1 A-ATAATAAGATA
12417488 AATAAT-A-AT-
1 AATAATAAGATA
*
12417497 AATAATAATGACA
1 AATAATAA-GATA
*
12417510 GATAA-ATAGATA
1 AATAATA-AGATA
* *
12417522 TATAATTAGATA
1 AATAATAAGATA
12417534 AATAA
1 AATAA
12417539 AAATACATAC
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
9 6 0.11
10 3 0.05
11 7 0.12
12 30 0.53
13 11 0.19
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (12 bp):
AATAATAAGATA
Found at i:12417534 original size:46 final size:45
Alignment explanation
Indices: 12417421--12417543 Score: 119
Period size: 46 Copynumber: 2.7 Consensus size: 45
12417411 TAAAAATCAC
* *
12417421 ATAAAAAA-AAT-TAAT-AGATAATTAGAAAAATAATAATAAGATAA
1 ATAAAAAATAATATAATAAGATAA--ATAAAAATAATAATAAGACAA
* * *
12417465 ATAAAAAATAATATTATAAGATAAATAATAATAATAATAATGACAG
1 ATAAAAAATAATATAATAAGATAAATAAAAATAATAATAA-GACAA
* *
12417511 ATAAATAGAT-ATATAATTAGATAAATAAAAATA
1 ATAAA-AAATAATATAATAAGATAAATAAAAATA
12417544 CATACAAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
44 8 0.12
45 17 0.26
46 31 0.48
47 9 0.14
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.28
Consensus pattern (45 bp):
ATAAAAAATAATATAATAAGATAAATAAAAATAATAATAAGACAA
Found at i:12417569 original size:17 final size:17
Alignment explanation
Indices: 12417549--12417590 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
12417539 AAATACATAC
*
12417549 AAAATAAAATGAAAAAG
1 AAAATAAAAGGAAAAAG
* *
12417566 AAAAAAAAAGGAAAAAT
1 AAAATAAAAGGAAAAAG
12417583 AAAATAAA
1 AAAATAAA
12417591 TATATATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAATAAAAGGAAAAAG
Found at i:12417666 original size:13 final size:12
Alignment explanation
Indices: 12417648--12417699 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
12417638 GATATTAAGA
12417648 AAAATATATACAT
1 AAAATATA-ACAT
*
12417661 AAAATATAAAAT
1 AAAATATAACAT
12417673 AAAA-ATAACA-
1 AAAATATAACAT
* *
12417683 AAAATGTAAAAT
1 AAAATATAACAT
12417695 AAAAT
1 AAAAT
12417700 TGGACTTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 4 0.12
11 9 0.27
12 12 0.36
13 8 0.24
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAATATAACAT
Found at i:12421572 original size:6 final size:6
Alignment explanation
Indices: 12421563--12421593 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
12421553 CTTCGCCTTC
12421563 GGTGTG GGTGTG GGTGTG GGTGTG GGTGTG G
1 GGTGTG GGTGTG GGTGTG GGTGTG GGTGTG G
12421594 ATATGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (6 bp):
GGTGTG
Found at i:12423104 original size:17 final size:19
Alignment explanation
Indices: 12423082--12423125 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
12423072 TTTTTCATTT
*
12423082 TTTTTTATTATTCAAGGTA
1 TTTTTGATTATTCAAGGTA
12423101 TTTTTGGATTATTCAAGGTA
1 TTTTT-GATTATTCAAGGTA
12423121 TTTTT
1 TTTTT
12423126 AGCTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
TTTTTGATTATTCAAGGTA
Found at i:12423111 original size:20 final size:20
Alignment explanation
Indices: 12423088--12423125 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12423078 ATTTTTTTTT
12423088 ATTATTCAAGGTATTTTTGG
1 ATTATTCAAGGTATTTTTGG
12423108 ATTATTCAAGGTATTTTT
1 ATTATTCAAGGTATTTTT
12423126 AGCTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTATTCAAGGTATTTTTGG
Found at i:12423437 original size:60 final size:60
Alignment explanation
Indices: 12423293--12423438 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 60
12423283 TTAAATGGGG
* * ** * ** **
12423293 TTATTCAAAGTATTTCAAGCAAAAAATGTCTTGAATAATCCCTTTTGATTTTTTTTTAGA
1 TTATTCAAAGTATTTCTAGCCAAAAATACCTTCAATAATCCCTTTCAATTTTTTTGGAGA
* * * *
12423353 TTATTCAAGGTATTTTTAGTCAAAAATACCTTCAATAATCTCTTTCAATTTTTTTGGAGA
1 TTATTCAAAGTATTTCTAGCCAAAAATACCTTCAATAATCCCTTTCAATTTTTTTGGAGA
* *
12423413 TTATTCAAAGTGTTTCTGGCCAAAAA
1 TTATTCAAAGTATTTCTAGCCAAAAA
12423439 CATCTCTAAT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (60 bp):
TTATTCAAAGTATTTCTAGCCAAAAATACCTTCAATAATCCCTTTCAATTTTTTTGGAGA
Found at i:12423696 original size:64 final size:64
Alignment explanation
Indices: 12423550--12423700 Score: 191
Period size: 64 Copynumber: 2.4 Consensus size: 64
12423540 TCGTTTCTAG
*
12423550 CAAAAAACAC-ATTGAATAATC-CCTTTTCATTTTTTTTAGGATTATTCAAGGTATTTTTTTTA
1 CAAAAAACACAATTGAATAATCTCCTTTTCATTTTTTTTAGGATTATTCAAAGTATTTTTTTTA
* * * * * *
12423612 CAAAAAAAATACCTTCAATAATCTCC-TTTCATTTTTTTTTGGATTATTCAAAGTGTTTTTTTTA
1 CAAAAAACACA-ATTGAATAATCTCCTTTTCATTTTTTTTAGGATTATTCAAAGTATTTTTTTTA
*
12423676 TCAGAAAACACAATTGAATAATCTC
1 -CAAAAAACACAATTGAATAATCTC
12423701 TTAGAAAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
62 8 0.11
64 55 0.75
65 10 0.14
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (64 bp):
CAAAAAACACAATTGAATAATCTCCTTTTCATTTTTTTTAGGATTATTCAAAGTATTTTTTTTA
Found at i:12423844 original size:61 final size:61
Alignment explanation
Indices: 12423779--12423942 Score: 175
Period size: 63 Copynumber: 2.7 Consensus size: 61
12423769 TTGAATGGGG
* * *
12423779 TATTCAAGGTATATTTGACAAAAAATACCTTGAATAATCTTCATCATTTTTTATTGGAGAT
1 TATTCAAGGTATTTTTGACAAAAAATACCTTGAATAATCCTCATCAATTTTTATTGGAGAT
* * * * * * * *
12423840 TATTCAAGACTTTTTTTTCACAGAAAATACCTTAAATAATCCTCTTTAATTTTTATTGGGGAT
1 TATTCAAG--GTATTTTTGACAAAAAATACCTTGAATAATCCTCATCAATTTTTATTGGAGAT
* * * *
12423903 TATTCAAGGTGTTTTTGACCAAAAACATCTTGAATAATCC
1 TATTCAAGGTATTTTTGACAAAAAATACCTTGAATAATCC
12423943 CTTACTAAAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
61 32 0.39
63 50 0.61
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (61 bp):
TATTCAAGGTATTTTTGACAAAAAATACCTTGAATAATCCTCATCAATTTTTATTGGAGAT
Found at i:12424052 original size:75 final size:75
Alignment explanation
Indices: 12423931--12424074 Score: 198
Period size: 75 Copynumber: 1.9 Consensus size: 75
12423921 CCAAAAACAT
* ** * * *
12423931 CTTGAATAATCCCTTACTAAAAACACTGGAGCAGTTCAGTTGGTTAGAATATATGGCTATTAGCC
1 CTTGAATAATCCCTTACTAAAAACAATGGAGCAGTTCAGTCAGTTAGAACATATGACTATTAACC
12423996 ATAAAAATAC
66 ATAAAAATAC
* * * *
12424006 CTTGAATAATTCCTTATTAAAAATAATGGAGCAGTTCAGTCAGTTAGAGCATATGACTATTAACC
1 CTTGAATAATCCCTTACTAAAAACAATGGAGCAGTTCAGTCAGTTAGAACATATGACTATTAACC
12424071 ATAA
66 ATAA
12424075 GGTCTTAAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (75 bp):
CTTGAATAATCCCTTACTAAAAACAATGGAGCAGTTCAGTCAGTTAGAACATATGACTATTAACC
ATAAAAATAC
Found at i:12431358 original size:21 final size:22
Alignment explanation
Indices: 12431315--12431359 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
12431305 ATGTAATATA
*
12431315 ATTTTATTCATAATATCATTTT
1 ATTTTATTCATAATATAATTTT
12431337 ATTTTATTC-T-ATCATAATTTT
1 ATTTTATTCATAAT-ATAATTTT
12431358 AT
1 AT
12431360 ATACTAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 10 0.48
22 9 0.43
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTATTCATAATATAATTTT
Found at i:12432222 original size:16 final size:15
Alignment explanation
Indices: 12432201--12432250 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
12432191 ATCGATGAAG
12432201 TATATACATACATAA
1 TATATACATACATAA
12432216 -ATAT--ATACATATA
1 TATATACATACATA-A
12432229 TATATACATACATATA
1 TATATACATACATA-A
12432245 TATATA
1 TATATA
12432251 TACTTGGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.23
13 1 0.03
14 8 0.26
16 15 0.48
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATATACATACATAA
Found at i:12432225 original size:12 final size:12
Alignment explanation
Indices: 12432208--12432246 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
12432198 AAGTATATAC
12432208 ATACATAAATAT
1 ATACATAAATAT
*
12432220 ATACATATATAT
1 ATACATAAATAT
*
12432232 ATACATACATAT
1 ATACATAAATAT
12432244 ATA
1 ATA
12432247 TATATACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (12 bp):
ATACATAAATAT
Found at i:12432247 original size:4 final size:4
Alignment explanation
Indices: 12432201--12432252 Score: 50
Period size: 4 Copynumber: 13.0 Consensus size: 4
12432191 ATCGATGAAG
* * * * * *
12432201 TATA TACA TACA TAAA TATA TACA TATA TATA TACA TACA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
12432249 TATA
1 TATA
12432253 CTTGGCAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (4 bp):
TATA
Found at i:12433045 original size:15 final size:15
Alignment explanation
Indices: 12432988--12433045 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
12432978 AATTTATTAA
12432988 TAAAAATATT-ATTT
1 TAAAAATATTAATTT
12433002 GATAAAAA-A-TAATTT
1 --TAAAAATATTAATTT
*
12433017 TAATTAATTATTAATTT
1 TAA--AAATATTAATTT
12433034 TAAAAATATTAA
1 TAAAAATATTAA
12433046 ATATATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 15 0.43
16 7 0.20
17 9 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAAAAATATTAATTT
Found at i:12443120 original size:14 final size:14
Alignment explanation
Indices: 12443101--12443143 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12443091 TATTATATTT
12443101 AATAATTTAAAATA
1 AATAATTTAAAATA
*
12443115 AATAATTATAAATTA
1 AATAATT-TAAAATA
*
12443130 TAT-ATTTAAAATA
1 AATAATTTAAAATA
12443143 A
1 A
12443144 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAATTTAAAATA
Found at i:12443167 original size:41 final size:38
Alignment explanation
Indices: 12443093--12443182 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 38
12443083 ATAAGATATA
12443093 TTATATTT--AATAATTTAAAATAAATAATTAT-AAAT
1 TTATATTTAAAATAATTTAAAATAAATAATTATAAAAT
12443128 TATATATTTAAAATAATTTAAAA-AAATAATCAGTAATAAAAT
1 T-TATATTTAAAATAATTTAAAATAAATAAT---T-ATAAAAT
*
12443170 TTAAATTTAAAAT
1 TTATATTTAAAAT
12443183 TTTTTATTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
35 1 0.02
36 7 0.15
37 7 0.15
38 12 0.26
40 1 0.02
41 13 0.28
42 5 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (38 bp):
TTATATTTAAAATAATTTAAAATAAATAATTATAAAAT
Found at i:12443237 original size:3 final size:3
Alignment explanation
Indices: 12443229--12443264 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12443219 ACTGATTAAT
12443229 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12443265 ACAAAGCCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12443661 original size:5 final size:5
Alignment explanation
Indices: 12443651--12443676 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12443641 TCAATACTCG
12443651 TGTTA TGTTA TGTTA TGTTA TGTTA T
1 TGTTA TGTTA TGTTA TGTTA TGTTA T
12443677 ATAACCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (5 bp):
TGTTA
Found at i:12444913 original size:43 final size:43
Alignment explanation
Indices: 12444866--12444953 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
12444856 AATACTTTAC
*
12444866 AAATTAAAAGTAAAATAAATATTTATATCTTTAGATGAATTTT
1 AAATTAAAAGTAAAATAAATATTTATATCTTTAGATCAATTTT
* *
12444909 AAATTGAAAGTAGAATAAATATTTATATCTTTAGATCAATTTT
1 AAATTAAAAGTAAAATAAATATTTATATCTTTAGATCAATTTT
12444952 AA
1 AA
12444954 CACACAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (43 bp):
AAATTAAAAGTAAAATAAATATTTATATCTTTAGATCAATTTT
Found at i:12446098 original size:32 final size:32
Alignment explanation
Indices: 12446052--12446135 Score: 80
Period size: 32 Copynumber: 2.6 Consensus size: 32
12446042 AAAAGGAGGG
* *
12446052 AGAAACAAAAAATAAAAAAAGGGAAAAAT-AAAA
1 AGAAA-AAGAAATAAAAAAA-GAAAAAATGAAAA
* **
12446085 AGCAAAAGAAATAAATTAAGAAAAAATGAAAA
1 AGAAAAAGAAATAAAAAAAGAAAAAATGAAAA
**
12446117 AGAAAAAGAAGGAAAAAAA
1 AGAAAAAGAAATAAAAAAA
12446136 ATGAAAACAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
31 7 0.17
32 29 0.73
33 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (32 bp):
AGAAAAAGAAATAAAAAAAGAAAAAATGAAAA
Found at i:12446764 original size:18 final size:18
Alignment explanation
Indices: 12446755--12446891 Score: 77
Period size: 18 Copynumber: 7.3 Consensus size: 18
12446745 AAATAATGTT
*
12446755 ATATTA-ATAAATAAATA
1 ATATTATATTAATAAATA
12446772 ATATTATATTAATAAATA
1 ATATTATATTAATAAATA
* * *
12446790 ATATAATAATAAATATGATTA
1 ATATTAT-ATTAATA--AATA
12446811 AT-TTA-ATTAATAAATA
1 ATATTATATTAATAAATA
*
12446827 TTATAATAATATATGAATAAATA
1 --AT-AT--TATATTAATAAATA
*
12446850 ATA-TATTACTAATAAATA
1 ATATTA-TATTAATAAATA
**
12446868 ATATGCTATTAATATAAT-
1 ATATTATATTAATA-AATA
12446886 ATATTA
1 ATATTA
12446892 ATAAATATTA
Statistics
Matches: 91, Mismatches: 15, Indels: 27
0.68 0.11 0.20
Matches are distributed among these distances:
16 3 0.03
17 8 0.09
18 48 0.53
19 9 0.10
20 4 0.04
21 7 0.08
22 2 0.02
23 10 0.11
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (18 bp):
ATATTATATTAATAAATA
Done.