Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 9 of 373
Found at i:2575346 original size:25 final size:25
Alignment explanation
Indices: 2575317--2575365 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2575307 ATTAAACTAT
2575317 TTAAAAATATAATATTAATAAATAC
1 TTAAAAATATAATATTAATAAATAC
** * *
2575342 TTAAATCTATAATTTTATTAAATA
1 TTAAAAATATAATATTAATAAATA
2575366 TCTATTTCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTAAAAATATAATATTAATAAATAC
Found at i:2576451 original size:24 final size:25
Alignment explanation
Indices: 2576412--2576459 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
2576402 TTAATTTAAT
*
2576412 CTATTAAAAATTATAAAAATATATA
1 CTATTAAAAATAATAAAAATATATA
*
2576437 CTATT-AAAATAATAAAATTATAT
1 CTATTAAAAATAATAAAAATATAT
2576460 TTTTATTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
CTATTAAAAATAATAAAAATATATA
Found at i:2580434 original size:15 final size:15
Alignment explanation
Indices: 2580414--2580445 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2580404 ATACAAACGC
2580414 ACAACTAGAAACAGT
1 ACAACTAGAAACAGT
*
2580429 ACAACTGGAAACAGT
1 ACAACTAGAAACAGT
2580444 AC
1 AC
2580446 TTTCACATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (15 bp):
ACAACTAGAAACAGT
Found at i:2582889 original size:25 final size:27
Alignment explanation
Indices: 2582843--2582898 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
2582833 TTTTATTTTA
* *
2582843 TTTTAATTTTGTTTGTA-GTTTTAAGG
1 TTTTAATTTTGTCTATATGTTTTAAGG
* *
2582869 TTTT-ATTTTGTCTATATTTTTTGAGG
1 TTTTAATTTTGTCTATATGTTTTAAGG
2582895 TTTT
1 TTTT
2582899 TGTTTTACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.66
Consensus pattern (27 bp):
TTTTAATTTTGTCTATATGTTTTAAGG
Found at i:2584578 original size:27 final size:28
Alignment explanation
Indices: 2584548--2584600 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2584538 TAAAAAATAT
* *
2584548 TTTTTTA-ATATTTAATAATTTTATACA
1 TTTTTTATATATTAAAAAATTTTATACA
*
2584575 TTTTTTATTTATTAAAAAATTTTATA
1 TTTTTTATATATTAAAAAATTTTATA
2584601 TAATCATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTTTATATATTAAAAAATTTTATACA
Found at i:2585950 original size:22 final size:21
Alignment explanation
Indices: 2585925--2585965 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2585915 ATTGCTGAGA
2585925 CTAAGAAAAATCCAATAAAACT
1 CTAA-AAAAATCCAATAAAACT
* *
2585947 CTAAAGAAATTCAATAAAA
1 CTAAAAAAATCCAATAAAA
2585966 ATTTCCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.20
Consensus pattern (21 bp):
CTAAAAAAATCCAATAAAACT
Found at i:2591158 original size:21 final size:21
Alignment explanation
Indices: 2591132--2591172 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2591122 GTATGGAATA
*
2591132 ATACAA-CACAATTACAATATT
1 ATACAAGCA-AATGACAATATT
2591153 ATACAAGCAAATGACAATAT
1 ATACAAGCAAATGACAATAT
2591173 ACGAATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (21 bp):
ATACAAGCAAATGACAATATT
Found at i:2591415 original size:49 final size:48
Alignment explanation
Indices: 2591345--2591486 Score: 121
Period size: 49 Copynumber: 2.9 Consensus size: 48
2591335 ACAACGAATA
* * *
2591345 AATAATAAAAAGGTCTCAAATAA-ATGATATATATAAAC-TTAAAGTAAAT
1 AATAATAAAAA-GTTTCAAATAATA-AATATATAAAAACTTTAAA-TAAAT
*
2591394 AATAATAAAACAGTTTGAAATAATAAATATATAAAAACTTTAAATAAAT
1 AATAATAAAA-AGTTTCAAATAATAAATATATAAAAACTTTAAATAAAT
* * * *
2591443 AACATATAAAATAGTTTTAACTTCAT-AATATATAAAAA-TTTAAA
1 AATA-ATAAAA-AGTTTCAA-ATAATAAATATATAAAAACTTTAAA
2591487 ATATATGATA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
49 44 0.56
50 32 0.41
51 3 0.04
ACGTcount: A:0.58, C:0.06, G:0.05, T:0.32
Consensus pattern (48 bp):
AATAATAAAAAGTTTCAAATAATAAATATATAAAAACTTTAAATAAAT
Found at i:2591438 original size:24 final size:24
Alignment explanation
Indices: 2591371--2591450 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 24
2591361 CAAATAAATG
*
2591371 ATATATATAAAC-TTAAAGTAA-ATA
1 ATATATAAAAACTTTAAA-TAATA-A
*
2591395 ATA-ATAAAACAGTTTGAAATAATAA
1 ATATATAAAA-ACTTT-AAATAATAA
2591420 ATATATAAAAACTTTAAATAAATAA
1 ATATATAAAAACTTTAAAT-AATAA
2591445 CATATA
1 -ATATA
2591451 AAATAGTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
23 5 0.11
24 8 0.17
25 18 0.39
26 15 0.33
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (24 bp):
ATATATAAAAACTTTAAATAATAA
Found at i:2591451 original size:24 final size:24
Alignment explanation
Indices: 2591362--2591547 Score: 96
Period size: 24 Copynumber: 7.5 Consensus size: 24
2591352 AAAAGGTCTC
* *
2591362 AAATAAATGATATATATAAAC-TT
1 AAATAAATAATATATAAAAACTTT
*
2591385 AAAGTAAATAATA-ATAAAACAGTTT
1 AAA-TAAATAATATATAAAA-ACTTT
2591410 GAAAT-AATAAATATATAAAAACTTT
1 -AAATAAAT-AATATATAAAAACTTT
* *
2591435 AAATAAATAACATATAAAATAGTTTT
1 AAATAAATAATATATAAAA-A-CTTT
* **
2591461 AACTTCATAATATATAAAAA-TTT
1 AAATAAATAATATATAAAAACTTT
* * * * * *
2591484 AAAATATATGATATGT-AGAAGTTC
1 -AAATAAATAATATATAAAAACTTT
*
2591508 AGAATAAATAATATATATATAAAC-AT
1 A-AATAAATAATATATA-A-AAACTTT
2591534 ACAATAAATAATAT
1 A-AATAAATAATAT
2591548 GCAAGGTAAT
Statistics
Matches: 123, Mismatches: 25, Indels: 27
0.70 0.14 0.15
Matches are distributed among these distances:
23 15 0.12
24 49 0.40
25 16 0.13
26 41 0.33
27 2 0.02
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (24 bp):
AAATAAATAATATATAAAAACTTT
Found at i:2591459 original size:50 final size:50
Alignment explanation
Indices: 2591371--2591486 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
2591361 CAAATAAATG
* *
2591371 ATATATATAAAC-TTAAAGTAAATAATAATAAAACAGTTTGAA-ATAATAA
1 ATATATAAAAACTTTAAAGTAAATAACAATAAAACAGTTTGAACATAAT-A
* * * *
2591420 ATATATAAAAACTTTAAA-TAAATAACATATAAAATAGTTTTAACTTCATA
1 ATATATAAAAACTTTAAAGTAAATAACA-ATAAAACAGTTTGAACATAATA
2591470 ATATATAAAAA-TTTAAA
1 ATATATAAAAACTTTAAA
2591487 ATATATGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
49 25 0.43
50 30 0.52
51 3 0.05
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (50 bp):
ATATATAAAAACTTTAAAGTAAATAACAATAAAACAGTTTGAACATAATA
Found at i:2591576 original size:17 final size:17
Alignment explanation
Indices: 2591554--2591591 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2591544 ATATGCAAGG
*
2591554 TAATTTAAAATAACATA
1 TAATTTAAAACAACATA
*
2591571 TAATTTAAAACAATATA
1 TAATTTAAAACAACATA
2591588 TAAT
1 TAAT
2591592 AAAACCGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATTTAAAACAACATA
Found at i:2592621 original size:11 final size:12
Alignment explanation
Indices: 2592596--2592639 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
2592586 TTGTAAGTAA
* *
2592596 AAATAAAAAAGG
1 AAATTAAAAACG
2592608 AAATTAAAAA-G
1 AAATTAAAAACG
2592619 AAATTAAAAACG
1 AAATTAAAAACG
*
2592631 AAATGAAAA
1 AAATTAAAA
2592640 CAAAGAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (12 bp):
AAATTAAAAACG
Found at i:2592622 original size:23 final size:23
Alignment explanation
Indices: 2592596--2592639 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2592586 TTGTAAGTAA
* *
2592596 AAATAAAAAAGGAAATTAAAAAG
1 AAATAAAAAACGAAATGAAAAAG
*
2592619 AAATTAAAAACGAAATGAAAA
1 AAATAAAAAACGAAATGAAAA
2592640 CAAAGAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (23 bp):
AAATAAAAAACGAAATGAAAAAG
Found at i:2594790 original size:23 final size:24
Alignment explanation
Indices: 2594757--2594804 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
2594747 TAAAGTTAGA
*
2594757 GTTTAGAGGTTTTTAA-AGATTTTT
1 GTTTAGAGGTTTGTAATA-ATTTTT
2594781 GTTTAG-GGTTTGTAATAATTTTT
1 GTTTAGAGGTTTGTAATAATTTTT
2594804 G
1 G
2594805 AAATTTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (24 bp):
GTTTAGAGGTTTGTAATAATTTTT
Found at i:2597605 original size:50 final size:50
Alignment explanation
Indices: 2597550--2597650 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
2597540 ATGCTAACTA
2597550 AAACATTAATTTTTTTAACAATATTGGTGTTGTAATCTGTATAACAGTCC
1 AAACATTAATTTTTTTAACAATATTGGTGTTGTAATCTGTATAACAGTCC
2597600 AAACATTAATTTTTTTAACAATATTGGTGTTGTAATCTGTATAACAGTCC
1 AAACATTAATTTTTTTAACAATATTGGTGTTGTAATCTGTATAACAGTCC
2597650 A
1 A
2597651 CATGTACCTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (50 bp):
AAACATTAATTTTTTTAACAATATTGGTGTTGTAATCTGTATAACAGTCC
Found at i:2607036 original size:36 final size:36
Alignment explanation
Indices: 2606989--2607063 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
2606979 TCACATGTCC
2606989 ATTTTATTGCTCAATTAACAAAAATAGTATTAAAAA
1 ATTTTATTGCTCAATTAACAAAAATAGTATTAAAAA
*
2607025 ATTTTATTGCTCAATTAATAAAAATAGTATTAAAAA
1 ATTTTATTGCTCAATTAACAAAAATAGTATTAAAAA
2607061 ATT
1 ATT
2607064 GTCTTTCTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (36 bp):
ATTTTATTGCTCAATTAACAAAAATAGTATTAAAAA
Found at i:2612592 original size:22 final size:22
Alignment explanation
Indices: 2612567--2612616 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2612557 ATAGATATAA
2612567 ATTTTAAATTATGTA-ATTTTTT
1 ATTTTAAATT-TGTATATTTTTT
* * *
2612589 ATTTTATATTTTTATCTTTTTT
1 ATTTTAAATTTGTATATTTTTT
2612611 ATTTTA
1 ATTTTA
2612617 CATTGTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (22 bp):
ATTTTAAATTTGTATATTTTTT
Found at i:2627380 original size:84 final size:85
Alignment explanation
Indices: 2627265--2627420 Score: 185
Period size: 84 Copynumber: 1.8 Consensus size: 85
2627255 ATAAAAAATA
* * * * * *
2627265 TATATTTTTACTATTTTAATAATTTATATCTTA-ATAATTTATAGAAGATTAAATTAA-TTTTTT
1 TATAGTTTTACTATTTT-ATAATTTAAATCTTATA-AATTAAAAAAAAATTAAA-TAATTTTTTT
2627328 A-TTATTTTTAATAAAATTAAAG
63 ATTTATTTTTAATAAAATTAAAG
*
2627350 TATAGTTTTATTATTTT-TAATTTAAAATCTTATAAATTAAAAAAAAATTAAATAATTTTTTTAT
1 TATAGTTTTACTATTTTATAATTT-AAATCTTATAAATTAAAAAAAAATTAAATAATTTTTTTAT
2627414 TTATTTT
65 TTATTTT
2627421 AGAACCGAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
83 9 0.15
84 28 0.47
85 23 0.38
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (85 bp):
TATAGTTTTACTATTTTATAATTTAAATCTTATAAATTAAAAAAAAATTAAATAATTTTTTTATT
TATTTTTAATAAAATTAAAG
Found at i:2628064 original size:17 final size:19
Alignment explanation
Indices: 2628028--2628067 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2628018 TTTCCAAATT
*
2628028 ATAAAATTCAAAAATTTAA
1 ATAAAATTCAAAAATATAA
2628047 ATAAAATT-AAAAA-ATAA
1 ATAAAATTCAAAAATATAA
2628064 ATAA
1 ATAA
2628068 CTAAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAATTCAAAAATATAA
Found at i:2628468 original size:23 final size:23
Alignment explanation
Indices: 2628424--2628475 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
2628414 TGCTTGTATT
** *
2628424 TTTTTATTTATTTTGAATTTAATA
1 TTTTTATTTATTAAGAAATTAA-A
2628448 TTTTTATTT-TTAAGAAATTAAA
1 TTTTTATTTATTAAGAAATTAAA
2628470 TTTTTA
1 TTTTTA
2628476 CCTTTTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.28
23 9 0.36
24 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTTATTTATTAAGAAATTAAA
Found at i:2633629 original size:22 final size:21
Alignment explanation
Indices: 2633603--2633645 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2633593 AAAAACTATC
2633603 TCAAAATTAT-ACATGAATTTTG
1 TCAAAATT-TGACAT-AATTTTG
2633625 TCAAAATTTGACATAATTTTG
1 TCAAAATTTGACATAATTTTG
2633646 ATTCAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (21 bp):
TCAAAATTTGACATAATTTTG
Found at i:2643256 original size:23 final size:22
Alignment explanation
Indices: 2643221--2643265 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
2643211 TGGTAGATTA
2643221 TTTTATGAATAAT-TTTAAATT
1 TTTTATGAATAATATTTAAATT
*
2643242 TTTTATTGAAATAATATTTTAATT
1 TTTTA-TG-AATAATATTTAAATT
2643266 AAAAATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
23 6 0.30
24 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (22 bp):
TTTTATGAATAATATTTAAATT
Found at i:2643558 original size:24 final size:21
Alignment explanation
Indices: 2643519--2643562 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
2643509 AGGTAATTAA
2643519 ATATTTTTAAAATAATATTTAT
1 ATATTTTTAAAATAAT-TTTAT
*
2643541 ATATATTTTATAATTAATTTTA
1 ATAT-TTTTA-AAATAATTTTA
2643563 AAAAATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTTAAAATAATTTTAT
Found at i:2656818 original size:15 final size:16
Alignment explanation
Indices: 2656798--2656833 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2656788 AATATAAATT
2656798 AAATAAAGTA-AAAAG
1 AAATAAAGTATAAAAG
*
2656813 AAATAAAGTATAAAAT
1 AAATAAAGTATAAAAG
2656829 AAATA
1 AAATA
2656834 GAAACAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (16 bp):
AAATAAAGTATAAAAG
Found at i:2656832 original size:16 final size:16
Alignment explanation
Indices: 2656781--2656833 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
2656771 ACTTATTAAT
*
2656781 TAAATATAA-TATAAAT
1 TAAATA-AAGTATAAAA
2656797 TAAATAAAGTA-AAAA
1 TAAATAAAGTATAAAA
*
2656812 GAAATAAAGTATAAAA
1 TAAATAAAGTATAAAA
2656828 TAAATA
1 TAAATA
2656834 GAAACAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
TAAATAAAGTATAAAA
Found at i:2657659 original size:40 final size:40
Alignment explanation
Indices: 2657614--2657700 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
2657604 AATTATAGAA
*
2657614 TACTGAATATTGTTTTGAGTACTAAATTGAATTGTAAAAT
1 TACTGAATATTGTTATGAGTACTAAATTGAATTGTAAAAT
* ** *
2657654 TACTGAATATTGTTATGTGTACTGCATTGAATTGTGAAAT
1 TACTGAATATTGTTATGAGTACTAAATTGAATTGTAAAAT
2657694 TACTGAA
1 TACTGAA
2657701 GTAATGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTAAATTGAATTGTAAAAT
Found at i:2657976 original size:45 final size:45
Alignment explanation
Indices: 2657904--2658000 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
2657894 GATGACTACT
** * *
2657904 GTTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGTTACC
1 GTTACTGTTACAAATTCGACACATTGTGTGTCGAATACTGTTACC
* *
2657949 GTTACTGTTACAAATTC-AGCACATTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAAATTCGA-CACATTGTGTGTCGAATACTGTTACC
2657994 GTTACTG
1 GTTACTG
2658001 CTATCGTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (45 bp):
GTTACTGTTACAAATTCGACACATTGTGTGTCGAATACTGTTACC
Found at i:2662683 original size:29 final size:29
Alignment explanation
Indices: 2662641--2662701 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
2662631 CATTCCACTA
2662641 TAAGGAGACTATAATCACCTTGTCCTAAT
1 TAAGGAGACTATAATCACCTTGTCCTAAT
2662670 TAAGGAGACTATAATCACCTTGTCCTAAT
1 TAAGGAGACTATAATCACCTTGTCCTAAT
2662699 TAA
1 TAA
2662702 CATTCTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (29 bp):
TAAGGAGACTATAATCACCTTGTCCTAAT
Found at i:2668613 original size:48 final size:48
Alignment explanation
Indices: 2668522--2668614 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
2668512 TTGTTTCACT
* *
2668522 ATTTAAACTAATATTAAAAATTATTATTTATTTATTTTATTAATACAA
1 ATTTAAACTAATATTAAAAATTATTATTTATTAATTGTATTAATACAA
*
2668570 ATTTAAACTGAATA-TATACAATT-TTACTTTATTAATTGT-TTAATA
1 ATTTAAACT-AATATTA-AAAATTATTA-TTTATTAATTGTATTAATA
2668615 ATAAACCCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
48 20 0.51
49 19 0.49
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.49
Consensus pattern (48 bp):
ATTTAAACTAATATTAAAAATTATTATTTATTAATTGTATTAATACAA
Found at i:2672141 original size:42 final size:42
Alignment explanation
Indices: 2672090--2672462 Score: 466
Period size: 42 Copynumber: 8.9 Consensus size: 42
2672080 GTTTACAAAC
*
2672090 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
2672132 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
2672174 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
2672216 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
2672258 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
2672300 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * * ****
2672342 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAA
** * * * ***
2672385 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
2672425 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
2672463 TTATACAAAA
Statistics
Matches: 298, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
40 33 0.11
41 8 0.03
42 223 0.75
43 34 0.11
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:2672553 original size:14 final size:14
Alignment explanation
Indices: 2672530--2672563 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2672520 GCCCTCCTGT
*
2672530 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
2672544 AGCAACATTTCAAA
1 AGCAACATTTCAAA
2672558 AGCAAC
1 AGCAAC
2672564 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:2672855 original size:21 final size:21
Alignment explanation
Indices: 2672787--2672857 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
2672777 TTTTGCTCTG
* *
2672787 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
2672808 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
2672829 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
2672850 CTCTGCTT
1 CTCTGCTT
2672858 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:2673838 original size:27 final size:25
Alignment explanation
Indices: 2673800--2673850 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
2673790 AGTACTTATT
2673800 ATGTATTATGTAAGTAATGTAAGTTAA
1 ATGTATTATGTAAGT--TGTAAGTTAA
2673827 ATGTATTATGTAAGTTGTAAGTTA
1 ATGTATTATGTAAGTTGTAAGTTA
2673851 TTAAGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (25 bp):
ATGTATTATGTAAGTTGTAAGTTAA
Found at i:2673981 original size:73 final size:73
Alignment explanation
Indices: 2673898--2674047 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
2673888 ACATTACTAA
2673898 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
2673963 TATTTTTT
66 TATTTTTT
2673971 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
2674036 TATTTTTT
66 TATTTTTT
2674044 TATA
1 TATA
2674048 TTTTATTTTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:2674041 original size:35 final size:35
Alignment explanation
Indices: 2673929--2674041 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
2673919 ATAAAATAAC
2673929 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
2673964 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
2674002 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
2674037 ATTTT
1 ATTTT
2674042 TTTATATTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:2674212 original size:13 final size:13
Alignment explanation
Indices: 2674194--2674264 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
2674184 ATTTATAATT
2674194 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
2674207 ATTTAAGTAACAT
1 ATTTAAGTAATAA
2674220 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
2674233 ATTTAAGTAACAT
1 ATTTAAGTAATAA
2674246 ATTTAAGTAATAA
1 ATTTAAGTAATAA
2674259 ATTTAA
1 ATTTAA
2674265 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:2674223 original size:26 final size:26
Alignment explanation
Indices: 2674193--2674264 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
2674183 TATTTATAAT
2674193 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
2674219 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
2674245 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
2674265 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:2674291 original size:17 final size:17
Alignment explanation
Indices: 2674269--2674312 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
2674259 ATTTAAACAA
2674269 ATTTTAGTAACTAATGT
1 ATTTTAGTAACTAATGT
* *
2674286 ATTTTAGTAAGTACTGT
1 ATTTTAGTAACTAATGT
2674303 ATTTTAGTAA
1 ATTTTAGTAA
2674313 TAAATTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAACTAATGT
Found at i:2677221 original size:115 final size:114
Alignment explanation
Indices: 2677083--2677399 Score: 553
Period size: 115 Copynumber: 2.8 Consensus size: 114
2677073 AATAAACACC
2677083 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
2677148 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
2677198 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * *
2677263 ATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
2677313 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
2677378 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
2677400 TAAAAACGCC
Statistics
Matches: 190, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
114 50 0.26
115 105 0.55
116 35 0.18
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:2677226 original size:40 final size:40
Alignment explanation
Indices: 2677148--2677226 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
2677138 AAACACAAAA
* * * * * *
2677148 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
2677188 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
2677227 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:2677341 original size:40 final size:39
Alignment explanation
Indices: 2677264--2677341 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
2677254 AAACACATAA
* * *
2677264 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
2677303 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
2677342 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:2677489 original size:74 final size:74
Alignment explanation
Indices: 2677303--2677473 Score: 315
Period size: 74 Copynumber: 2.3 Consensus size: 74
2677293 GCCGCTAAAG
2677303 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
2677368 AAACACAAAA
65 AAACACAAAA
*
2677378 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
2677443 AACACAAAA
66 AACACAAAA
*
2677452 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
2677474 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
74 88 0.94
75 6 0.06
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:2677513 original size:188 final size:189
Alignment explanation
Indices: 2677188--2677565 Score: 580
Period size: 188 Copynumber: 2.0 Consensus size: 189
2677178 GCCGCTAAAG
2677188 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * * *
2677253 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
* * *
2677318 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
2677378 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
2677441 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
** *
2677506 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
2677565 T
1 T
2677566 CCAACAAAAC
Statistics
Matches: 171, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
187 26 0.15
188 104 0.61
189 35 0.20
190 6 0.04
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:2677761 original size:112 final size:115
Alignment explanation
Indices: 2677625--2677845 Score: 306
Period size: 115 Copynumber: 1.9 Consensus size: 115
2677615 TTTCCAACGC
* * * *
2677625 AGCGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTA-CAAAAACGCCACTAATAAATCCTACACCA
1 AGCGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACCAAAAACGCCACTAAGAAATACTACACAA
* *
2677688 CGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACAT
66 CGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACAT
* * *
2677737 AGCGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAGAAATATTACAGA
1 AGCGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACCAAAAACGCCACTAAGAAATACTACACA
* *
2677801 ACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
65 ACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
2677846 ACCCAAAACG
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
112 21 0.22
113 11 0.12
114 30 0.32
115 32 0.34
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (115 bp):
AGCGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACCAAAAACGCCACTAAGAAATACTACACAA
CGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACAT
Found at i:2678362 original size:7 final size:7
Alignment explanation
Indices: 2678350--2678523 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
2678340 ACTAATCAAT
2678350 CTAAACC
1 CTAAACC
*
2678357 CTAAACA
1 CTAAACC
2678364 C-ATAACC
1 CTA-AACC
2678371 CTTAAATCC
1 C-TAAA-CC
2678380 CTTAAACC
1 C-TAAACC
2678388 CTAAACC
1 CTAAACC
*
2678395 C-AAATC
1 CTAAACC
* *
2678401 ATAATCC
1 CTAAACC
2678408 CTAAA-C
1 CTAAACC
*
2678414 CT--AGC
1 CTAAACC
*
2678419 CTAGACC
1 CTAAACC
*
2678426 CTGAACC
1 CTAAACC
*
2678433 C-CAACC
1 CTAAACC
2678439 CGTAAACC
1 C-TAAACC
*
2678447 TTAAACC
1 CTAAACC
*
2678454 C-CAACC
1 CTAAACC
*
2678460 C-CAACC
1 CTAAACC
2678466 CGTAAACC
1 C-TAAACC
*
2678474 TTAAACC
1 CTAAACC
*
2678481 C-CAACTC
1 CTAAAC-C
*
2678488 GTAAACC
1 CTAAACC
*
2678495 CTAAACT
1 CTAAACC
*
2678502 GTAAACC
1 CTAAACC
* * *
2678509 ATAATCA
1 CTAAACC
2678516 CTAAACC
1 CTAAACC
2678523 C
1 C
2678524 ATAATTTGCA
Statistics
Matches: 121, Mismatches: 32, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 27 0.22
7 65 0.54
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:2678453 original size:21 final size:21
Alignment explanation
Indices: 2678429--2678500 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 21
2678419 CTAGACCCTG
2678429 AACCCCAACCCGTAAACCTTAA
1 AACCCCAACCCGTAAACCTT-A
2678451 ACCCCAACCCCAACCCGTAAACCTTA
1 A-----ACCCCAACCCGTAAACCTTA
* *
2678477 AACCCCAACTCGTAAACCCTA
1 AACCCCAACCCGTAAACCTTA
2678498 AAC
1 AAC
2678501 TGTAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 21 0.49
22 1 0.02
26 2 0.05
27 19 0.44
ACGTcount: A:0.39, C:0.44, G:0.04, T:0.12
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCTTA
Found at i:2678459 original size:27 final size:27
Alignment explanation
Indices: 2678429--2678485 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
2678419 CTAGACCCTG
2678429 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
2678456 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
2678483 AAC
1 AAC
2678486 TCGTAAACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.47, G:0.04, T:0.11
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:2679050 original size:73 final size:72
Alignment explanation
Indices: 2678955--2679092 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
2678945 AAAGACTCGA
2678955 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
2679019 AGCCTCCC
65 AGCCTCCC
* * * * * *
2679027 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
2679092 A
65 A
2679093 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:2679146 original size:114 final size:114
Alignment explanation
Indices: 2678992--2679318 Score: 408
Period size: 113 Copynumber: 2.9 Consensus size: 114
2678982 TAGGCTTTTT
** * ** *
2678992 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * * *
2679057 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* *
2679106 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGTCGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * *
2679170 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
2679219 -CTTGCGC-TTCTCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
*
2679282 TAGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
2679319 TGCTCATTAT
Statistics
Matches: 183, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
112 4 0.02
113 93 0.51
114 86 0.47
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:2679353 original size:39 final size:39
Alignment explanation
Indices: 2679289--2679438 Score: 124
Period size: 39 Copynumber: 3.8 Consensus size: 39
2679279 GTTTAGGTTT
* * *
2679289 TTAGCGGCGCTTTT-TAAGAAACGCCGCTAATGCTCATTA
1 TTAGCGGCGTTTTTGTAA-AATCGCCGCTAATGCTAATTA
* * * *
2679328 TTAGCGGCGTTTTTGTAAAAGCGCCGGTAATACTGA-TA
1 TTAGCGGCGTTTTTGTAAAATCGCCGCTAATGCTAATTA
* * * *
2679366 TTTAGCGGCATTTTTTTTTAAATCGCCGCTAATGCTTAATTT
1 -TTAGCGGC-GTTTTTGTAAAATCGCCGCTAATGC-TAATTA
**
2679408 TTAGCGGCGTTTGTTGTCCAATCGCCGCTAA
1 TTAGCGGCGTTT-TTGTAAAATCGCCGCTAA
2679439 AAGCGCCGCT
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 35 0.40
40 25 0.28
41 25 0.28
42 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (39 bp):
TTAGCGGCGTTTTTGTAAAATCGCCGCTAATGCTAATTA
Found at i:2683391 original size:43 final size:43
Alignment explanation
Indices: 2683344--2683610 Score: 294
Period size: 43 Copynumber: 6.3 Consensus size: 43
2683334 CACAAAAATT
* * *
2683344 AACGCCGCCAAAGACCAGGACCTTTAGCAGCGCTTTTTTAAAA
1 AACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAA
2683387 AACGCCGCTAGAA-ACCAGGACCTTTAGCGGCGC--TTATAAAA
1 AACGCCGCTA-AAGACCAGGACCTTTAGCGGCGCTTTTATAAAA
* * * *
2683428 AATGCCGCTATAGACCTA-TACTTTTAGCGGCGCTTTTATAAAA
1 AACGCCGCTAAAGACC-AGGACCTTTAGCGGCGCTTTTATAAAA
* * * *
2683471 AACGCCGCTAAAGGTCCTGG-TCTTTGGCGGCGCTTTTAT-AAA
1 AACGCCGCTAAA-GACCAGGACCTTTAGCGGCGCTTTTATAAAA
* * * * *
2683513 AACGCCACTATAGACCTGTACTTTTAGCGGCGCTTTTATAAAAA
1 AACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT-AAAA
* *
2683557 AACGCCGCTAAAGACCAGGACCTTTAGCGGTGCTTTTTTAAAA
1 AACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAA
2683600 AACGCCGCTAA
1 AACGCCGCTAA
2683611 TTTGCCCAGT
Statistics
Matches: 185, Mismatches: 29, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 37 0.20
42 30 0.16
43 77 0.42
44 40 0.22
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
AACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTATAAAA
Found at i:2683541 original size:85 final size:84
Alignment explanation
Indices: 2683366--2683605 Score: 304
Period size: 85 Copynumber: 2.8 Consensus size: 84
2683356 GACCAGGACC
* *
2683366 TTTAGCAGCGCTTTTTTAAAAAACGCCGCTAGAA-ACCAGGACCTTTAGCGGCGCTTATAAAAAA
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTA-AAGACCAGGACCTTTAGCGGCGCTTATAAAAAA
* *
2683430 TGCCGCTATAGACCTATACT
65 CGCCACTATAGACCTATACT
* * * * *
2683450 TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGG-TCTTTGGCGGCGCTTTTATAAAA
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAA-GACCAGGACCTTTAGCGGCGCTTATA-AAAA
*
2683514 ACGCCACTATAGACCTGTACT
64 ACGCCACTATAGACCTATACT
* *
2683535 TTTAGCGGCGCTTTTATAAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGTGCTTTTTTAAAA
1 TTTAGCGGCGCTTTTAT-AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGC--TTATAAAA
2683600 AACGCC
63 AACGCC
2683606 GCTAATTTGC
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
83 2 0.01
84 44 0.33
85 48 0.36
86 26 0.19
87 9 0.07
88 5 0.04
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (84 bp):
TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTATAAAAAAC
GCCACTATAGACCTATACT
Found at i:2683933 original size:21 final size:21
Alignment explanation
Indices: 2683909--2683956 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
2683899 TCCTGTTCTG
*
2683909 CTCCGCCTCCCTTGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
2683930 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
2683951 CTCCGC
1 CTCCGC
2683957 TCTAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.00, C:0.56, G:0.19, T:0.25
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:2684544 original size:18 final size:18
Alignment explanation
Indices: 2684512--2684549 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2684502 TACAATATAG
2684512 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
2684531 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
2684548 TA
1 TA
2684550 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:2692528 original size:23 final size:23
Alignment explanation
Indices: 2692496--2692542 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
2692486 CAGCAATTTG
2692496 GTATAACATTAACAGGAGAAATA
1 GTATAACATTAACAGGAGAAATA
*
2692519 GTATACCATTAACAGGAGAAATA
1 GTATAACATTAACAGGAGAAATA
2692542 G
1 G
2692543 GACCAAGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (23 bp):
GTATAACATTAACAGGAGAAATA
Found at i:2695116 original size:22 final size:24
Alignment explanation
Indices: 2695070--2695134 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
2695060 CACACTAAAC
* *
2695070 TATTTTCATATATATATTTATATA
1 TATTTTCAAATATATATATATATA
2695094 TATTTTCAAATA-ATA-ATATATA
1 TATTTTCAAATATATATATATATA
**
2695116 TATTTATCTTATATATATA
1 TATTT-TCAAATATATATA
2695135 CATTTATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.32
23 8 0.24
24 14 0.41
25 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTTCAAATATATATATATATA
Found at i:2695541 original size:25 final size:25
Alignment explanation
Indices: 2695507--2695554 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
2695497 TAGCTAATAA
2695507 TTCAACAAATGCTAATTCCACATAG
1 TTCAACAAATGCTAATTCCACATAG
2695532 TTCAACAAATGCTAATTCCACAT
1 TTCAACAAATGCTAATTCCACAT
2695555 TCAAAATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (25 bp):
TTCAACAAATGCTAATTCCACATAG
Found at i:2695753 original size:36 final size:38
Alignment explanation
Indices: 2695712--2695787 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
2695702 CTTCAAATAC
* * *
2695712 TAGTTAACTCCTAAACC-G-TAAATCTTAAACCATATA
1 TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
2695748 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATA
1 TAGTTAACTCATAAACCTGC-TAAACCCTAAACCATATA
2695787 T
1 T
2695788 CTTAAACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
39 17 0.50
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (38 bp):
TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
Found at i:2696258 original size:41 final size:41
Alignment explanation
Indices: 2695967--2696251 Score: 347
Period size: 41 Copynumber: 7.0 Consensus size: 41
2695957 GTTCTATGAC
* * * *
2695967 TTTTAGCAGCGTTTTACTGAAAGCGTCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
*
2696008 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAACGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
*
2696049 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
2696090 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
2696131 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *** ** **
2696172 TTTTAGCGGCGCTTTAGTAAAAAATGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCGTTTTA-CCGAAAGCGCCGCTAATGCTCTGGT
* ** * *
2696213 TTTTAGCGGCGTTTTTCTTAAAACGCCGCTATTGCTCTG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTG
2696252 TATTTTAAAA
Statistics
Matches: 218, Mismatches: 24, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
40 17 0.08
41 187 0.86
42 14 0.06
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:2696299 original size:12 final size:12
Alignment explanation
Indices: 2696282--2696307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2696272 GTTTGTTGAT
2696282 AAAACGCCGCTA
1 AAAACGCCGCTA
2696294 AAAACGCCGCTA
1 AAAACGCCGCTA
2696306 AA
1 AA
2696308 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:2696866 original size:15 final size:15
Alignment explanation
Indices: 2696827--2696867 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
2696817 GGTGAGCAAA
**
2696827 ATTCAATTTAATTCG
1 ATTCAATTCGATTCG
2696842 ATTCAATTCGATTCG
1 ATTCAATTCGATTCG
2696857 ATTCAATTCGA
1 ATTCAATTCGA
2696868 AAAACTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (15 bp):
ATTCAATTCGATTCG
Found at i:2701154 original size:9 final size:9
Alignment explanation
Indices: 2701140--2701169 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2701130 TTGTTTTGTC
2701140 ATTGTTATT
1 ATTGTTATT
*
2701149 ATTGTTATC
1 ATTGTTATT
2701158 ATTGTTATT
1 ATTGTTATT
2701167 ATT
1 ATT
2701170 TATTTCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.63
Consensus pattern (9 bp):
ATTGTTATT
Found at i:2707926 original size:39 final size:39
Alignment explanation
Indices: 2707872--2707963 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
2707862 ACAACGTTAA
* *
2707872 CAACATCTTCAACATCACCGACAGTGTCAGCAATGCCGG
1 CAACATCTTCAACATCACCGACAATGTCAGCAACGCCGG
* *
2707911 CAACATCTTCAACATCACTGCCAATGTCAGCAACGCCGG
1 CAACATCTTCAACATCACCGACAATGTCAGCAACGCCGG
*
2707950 CAACATCTCCAACA
1 CAACATCTTCAACA
2707964 CCAGCAACAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (39 bp):
CAACATCTTCAACATCACCGACAATGTCAGCAACGCCGG
Found at i:2714497 original size:26 final size:27
Alignment explanation
Indices: 2714438--2714499 Score: 72
Period size: 31 Copynumber: 2.2 Consensus size: 27
2714428 ACTTATGACA
*
2714438 ATCTTCTAAGTATAATATAATAAACCAATTC
1 ATCTTCTAAGTATAATATAAT--A--AATCC
2714469 ATCTTCTAAGTATAATATAAT-AATCC
1 ATCTTCTAAGTATAATATAATAAATCC
2714495 ATCTT
1 ATCTT
2714500 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.30
31 21 0.70
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (27 bp):
ATCTTCTAAGTATAATATAATAAATCC
Found at i:2721065 original size:7 final size:7
Alignment explanation
Indices: 2721053--2721097 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
2721043 TTGCTTTCTT
2721053 TTTTTTC
1 TTTTTTC
2721060 TTTTTTC
1 TTTTTTC
2721067 TTTTTTC
1 TTTTTTC
2721074 -TTTTTC
1 TTTTTTC
2721080 -TTTTTC
1 TTTTTTC
2721086 -TTTTTC
1 TTTTTTC
2721092 TTTTTT
1 TTTTTT
2721098 TGACTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 18 0.49
7 19 0.51
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:2721070 original size:6 final size:6
Alignment explanation
Indices: 2721054--2721096 Score: 68
Period size: 6 Copynumber: 6.8 Consensus size: 6
2721044 TGCTTTCTTT
2721054 TTTTTC TTTTTTC TTTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC -TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
2721097 TTGACTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.64
7 13 0.36
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:2721077 original size:12 final size:11
Alignment explanation
Indices: 2721047--2721096 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
2721037 TAGACTTTGC
2721047 TTTCTTTTTTT
1 TTTCTTTTTTT
2721058 TCTT-TTTTCTTT
1 T-TTCTTTT-TTT
2721070 TTTCTTTTTCTT
1 TTTCTTTTT-TT
2721082 TTTCTTTTTCTT
1 TTTCTTTTT-TT
2721094 TTT
1 TTT
2721097 TTGACTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:2721709 original size:23 final size:24
Alignment explanation
Indices: 2721683--2721739 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
2721673 GAAATATCTT
* *
2721683 TAAAATAATAGCAAAAT-TAACAA
1 TAAAATAACAACAAAATATAACAA
2721706 TAAAATAACAACAAAATAGTAACAA
1 TAAAATAACAACAAAATA-TAACAA
*
2721731 TATAATAAC
1 TAAAATAAC
2721740 GAAATGACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.52
25 14 0.48
ACGTcount: A:0.65, C:0.11, G:0.04, T:0.21
Consensus pattern (24 bp):
TAAAATAACAACAAAATATAACAA
Found at i:2721729 original size:11 final size:11
Alignment explanation
Indices: 2721684--2721744 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
2721674 AAATATCTTT
*
2721684 AAAATAATAGC
1 AAAATAATAAC
* *
2721695 AAAATTAACAAT
1 AAAA-TAATAAC
*
2721707 AAAATAACAAC
1 AAAATAATAAC
*
2721718 AAAATAGTAAC
1 AAAATAATAAC
*
2721729 AATATAATAAC
1 AAAATAATAAC
*
2721740 GAAAT
1 AAAAT
2721745 GACAGCAAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 31 0.79
12 8 0.21
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:2723596 original size:46 final size:46
Alignment explanation
Indices: 2723554--2723863 Score: 406
Period size: 46 Copynumber: 6.7 Consensus size: 46
2723544 ATGAAATATG
** *
2723554 TAAGACCATGGTTGAAAGATACCATAACAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
*
2723600 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* * * * **
2723646 TAAAACCATGGTTGAAAGATATCATGGCAACATGATATAAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* ***
2723692 TAAGACTATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
2723738 TAAGACCACGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
2723784 TAAAACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAA
* * * *
2723830 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
2723864 TCAAAGATAA
Statistics
Matches: 231, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 230 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:2723800 original size:138 final size:138
Alignment explanation
Indices: 2723547--2723863 Score: 463
Period size: 138 Copynumber: 2.3 Consensus size: 138
2723537 GTAAACAATG
* ** * * *
2723547 AAATATGTAAGACCATGGTTGAAAGATACCATAACAACGTGACATGAAATGAATAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCACGGT
* *
2723612 TGAAAGATACCATGGCAACATGATATGAAATGAATAAAACCATGGTTGAAAGATATCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
* *
2723677 ATGATATA
131 ATGACAGA
* **
2723685 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAGACCACGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCACGGT
*
2723750 TGAAAGATACCATGGCAACGTGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
2723815 ATGACAGA
131 ATGACAGA
* * * * *
2723823 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
2723864 TCAAAGATAA
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 159 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (138 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCACGGT
TGAAAGATACCATGGCAACATGACATGAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
ATGACAGA
Found at i:2727188 original size:132 final size:129
Alignment explanation
Indices: 2726777--2727217 Score: 559
Period size: 127 Copynumber: 3.4 Consensus size: 129
2726767 AACGATAAAT
* * * ** * * * *
2726777 CGAAACCCAGCACGATTGGGCACGATTTATCGAA-TTTCCAAATATGAAACATTGTCTCATTTTA
1 CGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCGTTTTA
* * * * * * *
2726841 ATTCAAGAAAACATGGATGAAATGTC-AAAAGA-ATATTCCGTATCTTAGTCGAATGAAAAAAAA
66 ATTTAAGAAAACGTGGATGAAATTTCAAAAAAAGATATTCCATATTTTAGTCGAA-GGAAAAAAA
* * * *
2726904 CGAAACCCAGCACAATTGGGCACGATCTCTCAAACT-TCCAAACACGAAATATGGCCAT-GTTTT
1 CGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCC-TCGTTTT
* * * *
2726967 AGTTTAAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTGTAGTCGAATGAAAAAAA
65 AATTTAAGAAAACGTGGATGAAATTTCAAAAAAAGATATTCCATATTTTAGTCGAAGGAAAAAAA
* *
2727032 CGAAACCCATCACGATTGAGCACGATCTCTCAAAACTCCCCAAATACGAAATATTGCCTCGTTTT
1 CGAAACCCAGCACGATTGGGCACGATCTCTC-AAACTCCCCAAATACGAAATATTGCCTCGTTTT
2727097 AATTTAAGAAAACGTGGATGAAATTTCAAAAAAAAAGATATTCCATATTTTAGTCGAAGGAAAAA
65 AATTTAAGAAAACGTGGATGAAATTTC--AAAAAAAGATATTCCATATTTTAGTCGAAGGAAAAA
2727162 AA
128 AA
*
2727164 CGAAACCCAGCGCGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATT
1 CGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATT
2727218 TCCTTATATT
Statistics
Matches: 271, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
127 72 0.27
128 41 0.15
129 24 0.09
130 48 0.18
131 23 0.08
132 63 0.23
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (129 bp):
CGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCGTTTTA
ATTTAAGAAAACGTGGATGAAATTTCAAAAAAAGATATTCCATATTTTAGTCGAAGGAAAAAAA
Found at i:2729383 original size:132 final size:132
Alignment explanation
Indices: 2729215--2729689 Score: 448
Period size: 132 Copynumber: 3.6 Consensus size: 132
2729205 ATTTCTGATA
* *
2729215 TGCTCCATAG-TCGATACATGGAGATAAGATCCGTAATTTTTAGTCTGTTTCCTGTAACTTCAGG
1 TGCTCCATAGCT-GATACATGGAGATAAGATCCGTAATTTTTAGTCTGCTTCCTGCAACTTCAGG
* * * * * *
2729279 AAGATAAGACTAGTATTTTCAACCTGCTCTCTTGCTGCCCCAGAAAGATAAG-GTCGGTGGTTAA
65 AAGATAAGACTACTATGTTCAACCTGCTCTCTTGCTACCCCAGAAAGATAAGACT-AGTGGCTAA
2729343 AATC
129 AATC
* *
2729347 TGCTCCATAGCTGATACATGGATATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGA
1 TGCTCCATAGCTGATACATGGAGATAAGATCCGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGA
* * *
2729412 AGATAAGACTTCTATGTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAA
66 AGATAAGACTACTATGTTCAACCTGCTCTCTTGCTACCCCAGAAAGATAAGACTAGTGGCTAAAA
2729477 TC
131 TC
** * * * *
2729479 TGCTCCATAGCCAATACAT-GAGGATAAGA-CTCGCCATTTTTTA-TCTGCTTCATAGCCAA-TA
1 TGCTCCATAGCTGATACATGGA-GATAAGATC-CG-TAATTTTTAGTCTGCTTCCT-G-CAACTT
* ** * * **** *
2729540 CATGG-ATATAAGATCTGTAACT-T-TTCAGTCTACT-TCTTGCAATTTTAGGAAGATAAGACTA
61 CA-GGAAGATAAGA-C--T-ACTATGTTCAACCTGCTCTCTTGCTACCCCAGAAAGATAAGACTA
2729601 GTGGCTAAAATC
121 GTGGCTAAAATC
* * * * *
2729613 TGCTCCATAGCCGTTACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTCAGG
1 TGCTCCATAGCTGATACATGGAGATAAGATCCGTAA-TTTTTAGTCTGCTTCCTGCAACTTCAGG
*
2729678 AAGACAAGACTA
65 AAGATAAGACTA
2729690 GTAGCTGAGA
Statistics
Matches: 282, Mismatches: 43, Indels: 38
0.78 0.12 0.10
Matches are distributed among these distances:
130 1 0.00
131 4 0.01
132 148 0.52
133 27 0.10
134 78 0.28
135 20 0.07
136 2 0.01
137 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (132 bp):
TGCTCCATAGCTGATACATGGAGATAAGATCCGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGA
AGATAAGACTACTATGTTCAACCTGCTCTCTTGCTACCCCAGAAAGATAAGACTAGTGGCTAAAA
TC
Found at i:2729631 original size:89 final size:89
Alignment explanation
Indices: 2729521--2729776 Score: 354
Period size: 89 Copynumber: 2.9 Consensus size: 89
2729511 GCCATTTTTT
* * * * * * *
2729521 ATCTGCTTCATAGCCAATACATGGATATAAGATCTGTAACTTTTCAGTCTACTTCTTGCAATTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAATTTC
*
2729586 AGGAAGATAAGACTAGTGGCTAAA
66 AGGAAGATAAGACTAGTAGCTAAA
* *
2729610 ATCTGCTCCATAGCCGTTACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAATTTC
* * *
2729675 AGGAAGACAAGACTAGTAGCTGAG
66 AGGAAGATAAGACTAGTAGCTAAA
*
2729699 ATCTGCTCCATAGCTGATACATGGAGATAA-AGTCTGTAA-TTTTCAGTCTGCTTCCTACAATTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAACTTTTCAGTCTGCTTCCTACAATTT
*
2729762 CAAGAAGATAAGACT
65 CAGGAAGATAAGACT
2729777 TGCTATCTTC
Statistics
Matches: 148, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
88 37 0.25
89 111 0.75
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTCAGTCTGCTTCCTACAATTTC
AGGAAGATAAGACTAGTAGCTAAA
Found at i:2729974 original size:100 final size:100
Alignment explanation
Indices: 2729801--2729991 Score: 346
Period size: 100 Copynumber: 1.9 Consensus size: 100
2729791 TGCTCCACTG
* * *
2729801 CAACTTCAGGGAGATAAGACTTGTCATTTTTGATTTGCTCCATAGCCGATACATGGAGATAAGAT
1 CAACTTCAGGAAGATAAGACTTGTCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGAT
2729866 CTGTAAATTTTCAGTCTGCTTCCTGCTGCTTCTTA
66 CTGTAAATTTTCAGTCTGCTTCCTGCTGCTTCTTA
*
2729901 CAACTTCAGGAAGATGAGACTTGTCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGAT
1 CAACTTCAGGAAGATAAGACTTGTCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGAT
2729966 CTGTAAATTTTCAGTCTGCTTCCTGC
66 CTGTAAATTTTCAGTCTGCTTCCTGC
2729992 AACTTCAGGA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (100 bp):
CAACTTCAGGAAGATAAGACTTGTCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGAT
CTGTAAATTTTCAGTCTGCTTCCTGCTGCTTCTTA
Found at i:2730185 original size:64 final size:63
Alignment explanation
Indices: 2730077--2730208 Score: 185
Period size: 64 Copynumber: 2.1 Consensus size: 63
2730067 GATTTCATGT
* *
2730077 ATGTATGCTTATGCCGAATAGTTAGGATGCTATGATCGAAATGAATCAAACGCTCCTAACTAG
1 ATGTATGCTTATGCCAAATAGTTAAGATGCTATGATCGAAATGAATCAAACGCTCCTAACTAG
* ***
2730140 ATGTGATGCTTATGTCAAATAGTTAAGATGCTATGATC-AACATGAATCACGTGCTCCTAACTAG
1 ATGT-ATGCTTATGCCAAATAGTTAAGATGCTATGATCGAA-ATGAATCAAACGCTCCTAACTAG
2730204 ATGTA
1 ATGTA
2730209 CTATGAATGA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
63 7 0.11
64 54 0.89
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (63 bp):
ATGTATGCTTATGCCAAATAGTTAAGATGCTATGATCGAAATGAATCAAACGCTCCTAACTAG
Found at i:2741780 original size:132 final size:129
Alignment explanation
Indices: 2741398--2741800 Score: 562
Period size: 128 Copynumber: 3.1 Consensus size: 129
2741388 TATCGAATTT
* * * * *
2741398 CCAAATACGAAACATTGCCTCATTTTAATTCAAGAAAACATGGATGAAATGTC--AAAAGGATAT
1 CCAAATACGAAATATTGCCTCGTTTTAGTTTAAGAAAACATGGATGAAATTTCAAAAAAGGATAT
* * * * * * * *
2741461 TCCGTATCTTAGTCAAATGAAAAAAATGAAACCCAACACGATTGGGCACGATCTCTCGAACT-T
66 TCCATATTTTAGTCGAATGAAAAAAAAGAAACCCAGCACGATTGAGCACGATCTCTCAAACTCC
* *
2741524 CCAAACACGAAATATTGCCTTGTTTTAGTTTAAGAAAACATGGATGAAATTTCAAAAAAGGATAT
1 CCAAATACGAAATATTGCCTCGTTTTAGTTTAAGAAAACATGGATGAAATTTCAAAAAAGGATAT
* *
2741589 TCCATATTGTAGTCGAATGAAAAAAACGAAACCCAGCACGATTGAGCACGATCTCTCAAAACTCC
66 TCCATATTTTAGTCGAATGAAAAAAAAGAAACCCAGCACGATTGAGCACGATCTCTC-AAACTCC
*
2741654 CCAAATACGAAATATTGCCTCGTTTTAGTTTAAGAAAACGTGGATGAAATTTCAAAAAAAAAGGA
1 CCAAATACGAAATATTGCCTCGTTTTAGTTTAAGAAAACATGGATGAAATTTC---AAAAAAGGA
* *
2741719 T-TTCCATATTTTACTCGAAGGAAAAAAAAGAAACCCAGCACGATTGAGCACGATCTCTCAAACT
63 TATTCCATATTTTAGTCGAATGAAAAAAAAGAAACCCAGCACGATTGAGCACGATCTCTCAAACT
2741783 CC
128 CC
2741785 CCAAATACGAAATATT
1 CCAAATACGAAATATT
2741801 TCCTTATATT
Statistics
Matches: 247, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
126 46 0.19
128 60 0.24
129 4 0.02
130 50 0.20
131 23 0.09
132 54 0.22
133 10 0.04
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (129 bp):
CCAAATACGAAATATTGCCTCGTTTTAGTTTAAGAAAACATGGATGAAATTTCAAAAAAGGATAT
TCCATATTTTAGTCGAATGAAAAAAAAGAAACCCAGCACGATTGAGCACGATCTCTCAAACTCC
Found at i:2745425 original size:15 final size:15
Alignment explanation
Indices: 2745405--2745438 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2745395 TTAATCATAA
2745405 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
2745420 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
2745435 TTAA
1 TTAA
2745439 GTGTAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:2748028 original size:31 final size:30
Alignment explanation
Indices: 2747959--2748059 Score: 73
Period size: 31 Copynumber: 3.3 Consensus size: 30
2747949 GTATTTAAAT
* *
2747959 TTTTTTTAGAATTTTATAATTATATAA-TT-A
1 TTTTTTTAGAA-TTTATAA-AAAATAATTTAA
*
2747989 TATATTTTAGAATTTCATAAAAAATAATTTAA
1 T-TTTTTTAGAATTT-ATAAAAAATAATTTAA
* * *
2748021 TTTTTTTAAAATTTTTAAAATAAT-TTTTACA
1 TTTTTTTAGAATTTATAAAA-AATAATTTA-A
2748052 TTTTTTTA
1 TTTTTTTA
2748060 CACTTTTAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
30 18 0.31
31 38 0.66
32 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
TTTTTTTAGAATTTATAAAAAATAATTTAA
Found at i:2753651 original size:12 final size:12
Alignment explanation
Indices: 2753634--2753658 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2753624 ACTATCAACC
2753634 AACCAACCCGAG
1 AACCAACCCGAG
2753646 AACCAACCCGAG
1 AACCAACCCGAG
2753658 A
1 A
2753659 TATATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.40, G:0.16, T:0.00
Consensus pattern (12 bp):
AACCAACCCGAG
Found at i:2753744 original size:15 final size:15
Alignment explanation
Indices: 2753708--2753746 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
2753698 ATAGTAAAAA
2753708 TATAATTTATTATTT
1 TATAATTTATTATTT
2753723 TAGTAATTTA-TATTTT
1 TA-TAATTTATTA-TTT
2753739 TATAATTT
1 TATAATTT
2753747 TTAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TATAATTTATTATTT
Found at i:2753918 original size:27 final size:27
Alignment explanation
Indices: 2753878--2753939 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
2753868 TGGGCCCTAC
* * *
2753878 TATTAGAGAGTATTTTTTTAATAATTT
1 TATTATAGACTATTTTTTTAACAATTT
2753905 TATTATAGACTATTTTTTTAACAATTT
1 TATTATAGACTATTTTTTTAACAATTT
2753932 TATTATAG
1 TATTATAG
2753940 GTTTAGTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (27 bp):
TATTATAGACTATTTTTTTAACAATTT
Found at i:2755155 original size:19 final size:18
Alignment explanation
Indices: 2755133--2755169 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
2755123 ATTTAAAAAC
2755133 AAAAAAAAACAAAAAGCTA
1 AAAAAAAAAC-AAAAGCTA
2755152 AAAAAAAAACAAAAGCTA
1 AAAAAAAAACAAAAGCTA
2755170 GCAGATCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.78, C:0.11, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAAAAAAACAAAAGCTA
Found at i:2755512 original size:18 final size:18
Alignment explanation
Indices: 2755479--2755513 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2755469 TTTTTGTCAC
**
2755479 TTTTTTTTTAGCTTTTTG
1 TTTTTTTTTAAATTTTTG
2755497 TTTTTTTTTAAATTTTT
1 TTTTTTTTTAAATTTTT
2755514 ATACAGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTAAATTTTTG
Found at i:2762411 original size:30 final size:29
Alignment explanation
Indices: 2762377--2762438 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
2762367 TCACTCAATT
*
2762377 TTAGTAAATTTATTTTTGGTCACCCAACTA
1 TTAGTAAATTT-GTTTTGGTCACCCAACTA
* *
2762407 TTAGTAAATTTGTTTTGGTCATCCAATTA
1 TTAGTAAATTTGTTTTGGTCACCCAACTA
2762436 TTA
1 TTA
2762439 AAAGTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (29 bp):
TTAGTAAATTTGTTTTGGTCACCCAACTA
Found at i:2771015 original size:24 final size:24
Alignment explanation
Indices: 2770984--2771042 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
2770974 ATTGTAAATT
*
2770984 AATAAAATTAATACAAT-TCTTTAA
1 AATAAAATTAACACAATAT-TTTAA
*
2771008 AATAAAATTAGCACAATATTTTAA
1 AATAAAATTAACACAATATTTTAA
2771032 AATAATAATTA
1 AATAA-AATTA
2771043 TGAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAAATTAACACAATATTTTAA
Found at i:2775999 original size:21 final size:20
Alignment explanation
Indices: 2775952--2775991 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2775942 GACCTCCGAC
*
2775952 GAGAAGAAAAGAGACGGGAA
1 GAGACGAAAAGAGACGGGAA
*
2775972 GATACGAAAACGAGACGGGA
1 GAGACGAAAA-GAGACGGGA
2775992 CAAGACGAGA
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:0.10, G:0.38, T:0.03
Consensus pattern (20 bp):
GAGACGAAAAGAGACGGGAA
Found at i:2778074 original size:19 final size:18
Alignment explanation
Indices: 2778047--2778101 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
2778037 TTAAAAAGAA
2778047 ATAAA-ATTTGAAATTTTT
1 ATAAATATTTG-AATTTTT
2778065 ATAAATATTTTGAATTTTT
1 ATAAATA-TTTGAATTTTT
2778084 -TAAATTATTCTGAATTTT
1 ATAAA-TATT-TGAATTTT
2778102 CTTTTTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
18 11 0.33
19 18 0.55
20 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
ATAAATATTTGAATTTTT
Found at i:2778078 original size:20 final size:19
Alignment explanation
Indices: 2778053--2778101 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
2778043 AGAAATAAAA
2778053 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTT-TAAATTAT
2778073 TTTGAATTTTTTAAATTAT
1 TTTGAATTTTTTAAATTAT
*
2778092 TCTGAATTTT
1 TTTGAATTTT
2778102 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 19 0.70
20 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (19 bp):
TTTGAATTTTTTAAATTAT
Found at i:2788280 original size:12 final size:13
Alignment explanation
Indices: 2788263--2788299 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
2788253 GAACCGGACA
2788263 CGAACCGAA-CTC
1 CGAACCGAAGCTC
2788275 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
2788287 CGAACCGTAGCTC
1 CGAACCGAAGCTC
2788300 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:2790767 original size:19 final size:19
Alignment explanation
Indices: 2790745--2790782 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2790735 AATTTTTATG
*
2790745 TTTAA-ATTTATTTTTTAAA
1 TTTAATATTT-TTATTTAAA
2790764 TTTAATATTTTTATTTAAA
1 TTTAATATTTTTATTTAAA
2790783 CTTGTTCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATATTTTTATTTAAA
Found at i:2795034 original size:28 final size:29
Alignment explanation
Indices: 2794987--2795043 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
2794977 AATACACTTC
* * *
2794987 AAGACTCAAGAGAGAGATATCCAAGTATT
1 AAGACTCAAGAGAAAAATATCCAAATATT
*
2795016 AAGA-TCAAGAGAAAAATATTCAAATATT
1 AAGACTCAAGAGAAAAATATCCAAATATT
2795044 TATTATTTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.23
Consensus pattern (29 bp):
AAGACTCAAGAGAAAAATATCCAAATATT
Found at i:2795912 original size:29 final size:29
Alignment explanation
Indices: 2795877--2795932 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2795867 CATTAAGGGC
*
2795877 TCACCTATAAGGT-TTCACATGCAAGGGGT
1 TCACCTAT-AGGTGTTCACATACAAGGGGT
*
2795906 TCACCTATAGGTGTTCGCATACAAGGG
1 TCACCTATAGGTGTTCACATACAAGGG
2795933 TTTTACATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (29 bp):
TCACCTATAGGTGTTCACATACAAGGGGT
Found at i:2795934 original size:28 final size:28
Alignment explanation
Indices: 2795871--2795934 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
2795861 AGCTTGCATT
* *
2795871 AAGGGCTCACCTATAAGGTTTCACATGC
1 AAGGGTTCACCTATAAGGTTTCACATAC
*
2795899 AAGGGGTTCACCTAT-AGGTGTTCGCATAC
1 AA-GGGTTCACCTATAAGGT-TTCACATAC
2795928 AAGGGTT
1 AAGGGTT
2795935 TTACATGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (28 bp):
AAGGGTTCACCTATAAGGTTTCACATAC
Found at i:2796084 original size:23 final size:22
Alignment explanation
Indices: 2796052--2796107 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
2796042 GTAGGGTTCC
*
2796052 CATAA-TAAACAAGTATGTTTCG
1 CATAACTAAACAACT-TGTTTCG
*
2796074 CATAACTAAACAACTTGTTTTG
1 CATAACTAAACAACTTGTTTCG
2796096 CATAACTAAACA
1 CATAACTAAACA
2796108 TGTACAGTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 23 0.74
23 8 0.26
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (22 bp):
CATAACTAAACAACTTGTTTCG
Found at i:2797200 original size:30 final size:30
Alignment explanation
Indices: 2797140--2797202 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
2797130 AATATATTAT
*
2797140 TAATTAATAAATTTATAAAATCATTGAATA
1 TAATTAATAAATTTATAAAATCATTAAATA
2797170 TAATTAGATAAATTTA-AAAAT-ATATAAATA
1 TAATTA-ATAAATTTATAAAATCAT-TAAATA
2797200 TAA
1 TAA
2797203 AATTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 2 0.07
30 19 0.63
31 9 0.30
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (30 bp):
TAATTAATAAATTTATAAAATCATTAAATA
Found at i:2797633 original size:6 final size:6
Alignment explanation
Indices: 2797603--2797648 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
2797593 AAATATATAA
**
2797603 ATAA-T ATAA-T ATAA-T ATAAAA ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
2797648 A
1 A
2797649 ATTTATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
5 14 0.38
6 23 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
ATAATT
Found at i:2797639 original size:12 final size:11
Alignment explanation
Indices: 2797598--2797651 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
2797588 CTTTTAAATA
2797598 TATAA-ATAA-
1 TATAATATAAT
2797607 TATAATATAA-
1 TATAATATAAT
*
2797617 TATAAAAATAAT
1 TAT-AATATAAT
2797629 TATAATTATAAT
1 TATAA-TATAAT
2797641 TATAAT-TAAT
1 TATAATATAAT
2797651 T
1 T
2797652 TATTAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 5 0.13
10 12 0.31
11 9 0.23
12 13 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATAATATAAT
Found at i:2798103 original size:25 final size:26
Alignment explanation
Indices: 2798042--2798122 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 26
2798032 GTAAGTACGA
2798042 AATTAAAAATAGAAA-T-ATTAATAATT
1 AATT-AAAATA-AAATTAATTAATAATT
*
2798068 AAATTAGAAATAAAATTATTTAATAATT
1 -AATTA-AAATAAAATTAATTAATAATT
* *
2798096 AATT-AAATAGAATTAATTAGTAATT
1 AATTAAAATAAAATTAATTAATAATT
2798121 AA
1 AA
2798123 ATTGTTGAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
25 20 0.43
26 4 0.09
27 14 0.30
28 9 0.19
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (26 bp):
AATTAAAATAAAATTAATTAATAATT
Found at i:2799880 original size:31 final size:29
Alignment explanation
Indices: 2799839--2799899 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
2799829 TAATGCAAAA
*
2799839 AAATTCAAAAAAAAGTTGTTAAAAATTCAAT
1 AAATTCAAAAAAAAATTG-TAAAAATT-AAT
*
2799870 AAATTTAAAAAAAAATTGTAAAAATTAAT
1 AAATTCAAAAAAAAATTGTAAAAATTAAT
2799899 A
1 A
2799900 TATATATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.14
30 8 0.29
31 16 0.57
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATTCAAAAAAAAATTGTAAAAATTAAT
Found at i:2804704 original size:30 final size:30
Alignment explanation
Indices: 2804668--2804727 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2804658 GATGAACATA
2804668 TCTTAAAGGAAAAGTAATCAAAATTGTTGC
1 TCTTAAAGGAAAAGTAATCAAAATTGTTGC
2804698 TCTTAAAGGAAAAGTAATCAAAATTGTTGC
1 TCTTAAAGGAAAAGTAATCAAAATTGTTGC
2804728 CCAACAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (30 bp):
TCTTAAAGGAAAAGTAATCAAAATTGTTGC
Found at i:2816228 original size:24 final size:23
Alignment explanation
Indices: 2816200--2816253 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
2816190 TAAAATTTTA
2816200 ATAAATAAAAAATATATAAA-AAT
1 ATAAATAAAAAAT-TATAAATAAT
**
2816223 ATTAAATATTAAATTATAAATAAT
1 A-TAAATAAAAAATTATAAATAAT
2816247 ATAAATA
1 ATAAATA
2816254 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAAATAAAAAATTATAAATAAT
Found at i:2818309 original size:16 final size:15
Alignment explanation
Indices: 2818288--2818318 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2818278 CTGAGATTGC
2818288 CTTTTTCTTTTCTTTT
1 CTTTTTCTTTT-TTTT
2818304 CTTTTTCTTTTTTTT
1 CTTTTTCTTTTTTTT
2818319 GGGGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
CTTTTTCTTTTTTTT
Found at i:2820168 original size:18 final size:18
Alignment explanation
Indices: 2820145--2820181 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2820135 CTACTTGTCT
2820145 GAAGAAAGTTATTAGATC
1 GAAGAAAGTTATTAGATC
2820163 GAAGAAAGTTATTAGATC
1 GAAGAAAGTTATTAGATC
2820181 G
1 G
2820182 GTTGATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (18 bp):
GAAGAAAGTTATTAGATC
Found at i:2822601 original size:15 final size:16
Alignment explanation
Indices: 2822575--2822607 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2822565 TGCAACGAAA
2822575 CCCACACCCCACCACC
1 CCCACACCCCACCACC
2822591 CCCAC-CCCCACCACC
1 CCCACACCCCACCACC
2822606 CC
1 CC
2822608 TCGTTTTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.21, C:0.79, G:0.00, T:0.00
Consensus pattern (16 bp):
CCCACACCCCACCACC
Found at i:2822999 original size:15 final size:14
Alignment explanation
Indices: 2822973--2823002 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2822963 ATAAAGATAA
2822973 TTATTAATTATATT
1 TTATTAATTATATT
2822987 TTATTATATTATATT
1 TTATTA-ATTATATT
2823002 T
1 T
2823003 AATCTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTAATTATATT
Found at i:2826016 original size:16 final size:16
Alignment explanation
Indices: 2825995--2826025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2825985 AATCATTGAA
2825995 AAATGATATGAATCTT
1 AAATGATATGAATCTT
*
2826011 AAATGATTTGAATCT
1 AAATGATATGAATCT
2826026 GAAAATAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
AAATGATATGAATCTT
Found at i:2828145 original size:18 final size:18
Alignment explanation
Indices: 2828112--2828157 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2828102 GAGAAAGCAG
*
2828112 ATGGAAAA-AGAAAGAAA
1 ATGGAAAAGACAAAGAAA
2828129 ATGGAAAAGACAAAGAAA
1 ATGGAAAAGACAAAGAAA
*
2828147 AGGGTAAAAGA
1 ATGG-AAAAGA
2828158 GAAGGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.32
18 11 0.44
19 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (18 bp):
ATGGAAAAGACAAAGAAA
Found at i:2829053 original size:2 final size:2
Alignment explanation
Indices: 2829046--2829089 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2829036 TTATTATACC
2829046 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2829088 CT
1 CT
2829090 TTTAATGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2829347 original size:30 final size:30
Alignment explanation
Indices: 2829284--2829346 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
2829274 AGTTTATATC
* *
2829284 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTATAATTTTTAAAGGATCAAAGTAAATT
* *
2829314 TTTATCATTTTTAAAGGATCATAGTATAATT
1 TTTATAATTTTTAAAGGATCAAAGTA-AATT
2829345 TT
1 TT
2829347 ACTATTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGATCAAAGTAAATT
Found at i:2832125 original size:22 final size:22
Alignment explanation
Indices: 2832100--2832142 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2832090 TATCCAAACA
2832100 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAGTAGCAAT
* **
2832122 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
2832143 AATAGGAAAA
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAT
Found at i:2832146 original size:11 final size:11
Alignment explanation
Indices: 2832107--2832147 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2832097 ACAATAACAA
2832107 CAAAATAGTAG
1 CAAAATAGTAG
* *
2832118 CAATATAATAG
1 CAAAATAGTAG
*
2832129 TAAAATAGTAG
1 CAAAATAGTAG
2832140 CAAAATAG
1 CAAAATAG
2832148 GAAAAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:2840179 original size:18 final size:18
Alignment explanation
Indices: 2840158--2840195 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2840148 TTTTTTTTTT
2840158 TTTTTTTTTTAATAGTCA
1 TTTTTTTTTTAATAGTCA
**
2840176 TTTTTTTTTTTTTAGTCA
1 TTTTTTTTTTAATAGTCA
2840194 TT
1 TT
2840196 ATGTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTTAATAGTCA
Found at i:2854397 original size:23 final size:23
Alignment explanation
Indices: 2854371--2854414 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2854361 ATTACAAATG
2854371 AAAATATATATTATT-TTTAATAT
1 AAAATATATATT-TTATTTAATAT
*
2854394 AAAATATTTATTTTATTTAAT
1 AAAATATATATTTTATTTAAT
2854415 TTTAGCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
AAAATATATATTTTATTTAATAT
Found at i:2858659 original size:9 final size:9
Alignment explanation
Indices: 2858645--2858676 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2858635 AACTGGTCAT
*
2858645 TCCACCATC
1 TCCACCACC
2858654 TCCACCACC
1 TCCACCACC
2858663 TCCACCACC
1 TCCACCACC
2858672 TCCAC
1 TCCAC
2858677 AGCCAAGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.22, C:0.62, G:0.00, T:0.16
Consensus pattern (9 bp):
TCCACCACC
Found at i:2861924 original size:30 final size:30
Alignment explanation
Indices: 2861890--2861946 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
2861880 AATACGTGAT
*
2861890 AAAAAAACAATTTTATATTTAATAATTTCG
1 AAAAAAACAAGTTTATATTTAATAATTTCG
*
2861920 AAAAAAATAAGTTTATATTTAATAATT
1 AAAAAAACAAGTTTATATTTAATAATT
2861947 AAAAATGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (30 bp):
AAAAAAACAAGTTTATATTTAATAATTTCG
Found at i:2862792 original size:17 final size:20
Alignment explanation
Indices: 2862772--2862809 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
2862762 TTGAAATTAT
2862772 AATTTTT-T-TAA-TAAATA
1 AATTTTTATATAATTAAATA
2862789 AATTTTTATATAATTAAATA
1 AATTTTTATATAATTAAATA
2862809 A
1 A
2862810 TAATGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 3 0.17
20 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTTTATATAATTAAATA
Found at i:2864856 original size:42 final size:42
Alignment explanation
Indices: 2864777--2864857 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
2864767 TAGTGTTGTC
*
2864777 TCTAATTTATAATTATTTTATTTTGAATAAAATTTTTTATTA
1 TCTAATTTATAATTAATTTATTTTGAATAAAATTTTTTATTA
* ** *
2864819 TCTAATTTATGATTAAATTTATTTTTTATAATATTTTTT
1 TCTAATTTATAATT-AATTTATTTTGAATAAAATTTTTT
2864858 TGGCCAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 13 0.39
43 20 0.61
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (42 bp):
TCTAATTTATAATTAATTTATTTTGAATAAAATTTTTTATTA
Found at i:2869382 original size:30 final size:30
Alignment explanation
Indices: 2869346--2869406 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
2869336 CGAGCAGTAT
*
2869346 GAAGCTCAATACTCCTTAAGTTAGGTCCCG
1 GAAGCTCAATACTCCTTAAGTTAGGTACCG
2869376 GAAGCTCAATACTCCTTAAGTTAGGTACCG
1 GAAGCTCAATACTCCTTAAGTTAGGTACCG
2869406 G
1 G
2869407 TTTCAAGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (30 bp):
GAAGCTCAATACTCCTTAAGTTAGGTACCG
Done.