Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 3 of 75
Found at i:672448 original size:20 final size:20
Alignment explanation
Indices: 672419--672459 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
672409 GATTTTTTTC
*
672419 TTTTTTTTTTGAAAACACGAA
1 TTTTCTTTTTG-AAACACGAA
672440 TTTTCTTTTTGAAACACGAA
1 TTTTCTTTTTGAAACACGAA
672460 AATTTTTAAA
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:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTTCTTTTTGAAACACGAA
Found at i:672477 original size:16 final size:17
Alignment explanation
Indices: 672445--672480 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
672435 ACGAATTTTC
*
672445 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
672462 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACGAAAA
672478 TTT
1 TTT
672481 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:672558 original size:38 final size:39
Alignment explanation
Indices: 672516--672635 Score: 133
Period size: 38 Copynumber: 3.2 Consensus size: 39
672506 TATAAAATAC
672516 GAAACACGAGGATTTTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGAGGATTTTTTTTTGAAAACACGAAAATTTAT
*** * *
672554 GAAACAC--GG-TCAATTTTTGAAAACATGAAAATTTTT
1 GAAACACGAGGATTTTTTTTTGAAAACACGAAAATTTAT
* * *
672590 GAAAGACGA-GAATTTTTTTTGAAAACACGGAAATTTAT
1 GAAACACGAGGATTTTTTTTTGAAAACACGAAAATTTAT
672628 GAAACACG
1 GAAACACG
672636 GAAAAATTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
35 7 0.11
36 22 0.34
37 1 0.02
38 34 0.53
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (39 bp):
GAAACACGAGGATTTTTTTTTGAAAACACGAAAATTTAT
Found at i:672574 original size:18 final size:17
Alignment explanation
Indices: 672532--672831 Score: 156
Period size: 17 Copynumber: 16.6 Consensus size: 17
672522 CGAGGATTTT
672532 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
672549 TTTATGAAACACGGTCAA
1 TTTTTGAAACAC-GAAAA
*
672567 TTTTTGAAAACATGAAAA
1 TTTTTG-AAACACGAAAA
* *
672585 TTTTTGAAAGACGAGAATTT
1 TTTTTGAAACACGA-AA--A
*
672605 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
*
672623 TTTATGAAACACGGAAAAA
1 TTTTTGAAACAC-G-AAAA
* * **
672642 TTTTCGAAATACGGGAA
1 TTTTTGAAACACGAAAA
*
672659 TTTTTGAAAACACGGGAAAT
1 TTTTTG-AAACAC--GAAAA
* *
672679 TTTTTGAAAAAACAAAAA
1 TTTTTG-AAACACGAAAA
*
672697 TTTTTGAAACACTG-GAA
1 TTTTTGAAACAC-GAAAA
*
672714 -TTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
** *
672731 TTTTTGAAACATTAGAA
1 TTTTTGAAACACGAAAA
**
672748 TTTTTGAAAACACGAATTT
1 TTTTTG-AAACACGAA-AA
* *
672767 TTTTTAAAAACACGAAAT
1 TTTTT-GAAACACGAAAA
*
672785 TTTTTGAAACGA-GAAATTT
1 TTTTTGAAAC-ACGAAA--A
*
672804 TTTTTGAAAACACGAAAT
1 TTTTTG-AAACACGAAAA
672822 TTTTTGAAAC
1 TTTTTGAAAC
672832 CCGATTTTTT
Statistics
Matches: 215, Mismatches: 45, Indels: 46
0.70 0.15 0.15
Matches are distributed among these distances:
16 6 0.03
17 69 0.32
18 65 0.30
19 39 0.18
20 30 0.14
21 6 0.03
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:672661 original size:74 final size:75
Alignment explanation
Indices: 672517--672763 Score: 214
Period size: 74 Copynumber: 3.4 Consensus size: 75
672507 ATAAAATACG
* ** *
672517 AAACACGAGGATTTTTTTTTG-AAACACGAAAATTTATGAAACACGG-TCAATTTTTGAAAACAT
1 AAACACGA-GAATTTTTTTTGAAAACACGAAAATTTATGAAACACGGAAAAATTTTCGAAAACA-
672580 GAAAATTTTTG-
64 GAAAATTTTTGA
* *
672591 AAAGACGAGAATTTTTTTTGAAAACACGGAAATTTATGAAACACGGAAAAATTTTCGAAATAC-G
1 AAACACGAGAATTTTTTTTGAAAACACGAAAATTTATGAAACACGGAAAAATTTTCGAAA-ACAG
**
672655 GGAATTTTTGA
65 AAAATTTTTGA
* * * * *
672666 AAACACGGGAA-ATTTTTTGAAAAAACAAAAATTTTTGAAACACTGG---AATTTT-GAAAACAC
1 AAACACGAGAATTTTTTTTGAAAACACGAAAATTTATGAAACAC-GGAAAAATTTTCGAAAACA-
*
672726 GAAGATTTTTG-
64 GAAAATTTTTGA
**
672737 AAACATTAGAA---TTTTTGAAAACACGAA
1 AAACACGAGAATTTTTTTTGAAAACACGAA
672764 TTTTTTTTAA
Statistics
Matches: 143, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
69 14 0.10
70 2 0.01
71 12 0.08
72 14 0.10
73 11 0.08
74 67 0.47
75 21 0.15
76 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (75 bp):
AAACACGAGAATTTTTTTTGAAAACACGAAAATTTATGAAACACGGAAAAATTTTCGAAAACAGA
AAATTTTTGA
Found at i:672769 original size:34 final size:34
Alignment explanation
Indices: 672532--672769 Score: 142
Period size: 38 Copynumber: 6.6 Consensus size: 34
672522 CGAGGATTTT
* *
672532 TTTTTG-AAACACGAAAATTTATGAAACACGGT-CAA
1 TTTTTGAAAACACG-AAATTTTTGAAACAC--TAGAA
* * *
672567 TTTTTGAAAACATGAAAATTTTTGAAAGACGAGAA
1 TTTTTGAAAACACG-AAATTTTTGAAACACTAGAA
* * *
672602 TTTTTTTTGAAAACACGGAAATTTATGAAACACGGAAAAA
1 ---TTTTTGAAAACAC-GAAATTTTTGAAACAC--TAGAA
* * * **
672642 TTTTCGAAATAC-GGGAATTTTTGAAAACACGGGAAA
1 TTTTTGAAA-ACACGAAATTTTTG-AAACACTAG-AA
* * *
672678 TTTTTTGAAAAAACAAAAATTTTTGAAACACTGGAA
1 -TTTTTGAAAACAC-GAAATTTTTGAAACACTAGAA
*
672714 -TTTTGAAAACACGAAGATTTTTGAAACATTAGAA
1 TTTTTGAAAACACGAA-ATTTTTGAAACACTAGAA
*
672748 TTTTTGAAAACACGAATTTTTT
1 TTTTTGAAAACACGAAATTTTT
672770 TTAAAAACAC
Statistics
Matches: 159, Mismatches: 28, Indels: 33
0.72 0.13 0.15
Matches are distributed among these distances:
33 2 0.01
34 32 0.20
35 23 0.14
36 33 0.21
37 30 0.19
38 35 0.22
39 1 0.01
40 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TTTTTGAAAACACGAAATTTTTGAAACACTAGAA
Found at i:672789 original size:37 final size:36
Alignment explanation
Indices: 672748--672842 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 36
672738 AACATTAGAA
672748 TTTTTGAAAACACGAATTTTTTTTAAAAACACGAAAT
1 TTTTTG-AAACACGAATTTTTTTTAAAAACACGAAAT
*
672785 TTTTTGAAACGA-GAAATTTTTTTTGAAAACACGAAAT
1 TTTTTGAAAC-ACG-AATTTTTTTTAAAAACACGAAAT
*
672822 TTTTTGAAACCCG-ATTTTTTT
1 TTTTTGAAACACGAATTTTTTT
672843 AAAGAAGTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
35 8 0.15
36 5 0.09
37 40 0.75
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTTGAAACACGAATTTTTTTTAAAAACACGAAAT
Found at i:672841 original size:17 final size:18
Alignment explanation
Indices: 672748--672842 Score: 79
Period size: 19 Copynumber: 5.2 Consensus size: 18
672738 AACATTAGAA
672748 TTTTTGAAAACACGAATTT
1 TTTTTGAAAACACG-ATTT
* **
672767 TTTTTAAAAACACGAAAT
1 TTTTTGAAAACACGATTT
672785 TTTTTG-AAACGA-GAAATTT
1 TTTTTGAAAAC-ACG--ATTT
**
672804 TTTTTGAAAACACGAAAT
1 TTTTTGAAAACACGATTT
*
672822 TTTTTG-AAACCCGATTT
1 TTTTTGAAAACACGATTT
672839 TTTT
1 TTTT
672843 AAAGAAGTAC
Statistics
Matches: 60, Mismatches: 11, Indels: 12
0.72 0.13 0.14
Matches are distributed among these distances:
17 17 0.28
18 16 0.27
19 22 0.37
20 5 0.08
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTTTGAAAACACGATTT
Found at i:673613 original size:3 final size:3
Alignment explanation
Indices: 673607--673681 Score: 80
Period size: 3 Copynumber: 23.3 Consensus size: 3
673597 TTTTTTGTTC
*
673607 CTT CTT CTT CCT CTT -TT CTT CTTT CTTT CTT CTTT CTT CTTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT C-TT C-TT CTT C-TT CTT C-TT CTT CTT
673655 CCTT CTT CTT CCTT CTT CTT CTT CTT C
1 -CTT CTT CTT -CTT CTT CTT CTT CTT C
673682 AAAGTCTAGC
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
2 2 0.03
3 43 0.67
4 19 0.30
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:673617 original size:10 final size:10
Alignment explanation
Indices: 673604--673681 Score: 92
Period size: 10 Copynumber: 8.0 Consensus size: 10
673594 TTTTTTTTTG
673604 TTCCTTCTTC
1 TTCCTTCTTC
673614 TTCC-TCTT-
1 TTCCTTCTTC
673622 TT-CTTCTTTC
1 TTCCTTC-TTC
*
673632 TTTCTTCTTTC
1 TTCCTTC-TTC
*
673643 TTCTTTCTTC
1 TTCCTTCTTC
673653 TTCCTTCTTC
1 TTCCTTCTTC
673663 TTCCTTCTTC
1 TTCCTTCTTC
673673 TT-CTTCTTC
1 TTCCTTCTTC
673682 AAAGTCTAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 13 0.21
10 30 0.49
11 13 0.21
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (10 bp):
TTCCTTCTTC
Found at i:673627 original size:14 final size:14
Alignment explanation
Indices: 673608--673681 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
673598 TTTTTGTTCC
673608 TTCTTCTTCCTCTT
1 TTCTTCTTCCTCTT
673622 TTCTTCTT--TC-T
1 TTCTTCTTCCTCTT
*
673633 TTCTTCTTTCT-TCT
1 TTCTTCTTCCTCT-T
*
673647 TTCTTCTTCCT-TC
1 TTCTTCTTCCTCTT
*
673660 TTCTTCCTTCTTCTT
1 TTCTT-CTTCCTCTT
673675 CTTCTTC
1 -TTCTTC
673682 AAAGTCTAGC
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
11 9 0.18
12 2 0.04
13 6 0.12
14 25 0.51
15 2 0.04
16 5 0.10
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCTTCTTCCTCTT
Found at i:673633 original size:7 final size:7
Alignment explanation
Indices: 673629--673680 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
673619 CTTTTCTTCT
673629 TTCTTTC
1 TTCTTTC
673636 TTCTTTC
1 TTCTTTC
673643 TTCTTTC
1 TTCTTTC
*
673650 TTCTTCC
1 TTCTTTC
673657 TTC-TTC
1 TTCTTTC
*
673663 TTCCTTC
1 TTCTTTC
673670 TTC-TTC
1 TTCTTTC
673676 TTCTT
1 TTCTT
673681 CAAAGTCTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 11 0.27
7 30 0.73
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (7 bp):
TTCTTTC
Found at i:674030 original size:30 final size:29
Alignment explanation
Indices: 673996--674087 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 29
673986 GGTTTAAACA
*
673996 TAATTTTGAGAAAGTTTAGAGGTTAAAATG
1 TAATTTTAAGAAAGTTTAG-GGTTAAAATG
* *
674026 TAATTTTAAGAAAGTTAAGGGGTCAAAATG
1 TAATTTTAAGAAAGTTTA-GGGTTAAAATG
* *
674056 TAATTTCAA-AAAGTTTAGGGTTGAAATG
1 TAATTTTAAGAAAGTTTAGGGTTAAAATG
674084 TAAT
1 TAAT
674088 AAAAAATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.24
29 7 0.13
30 33 0.61
31 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.35
Consensus pattern (29 bp):
TAATTTTAAGAAAGTTTAGGGTTAAAATG
Found at i:681460 original size:31 final size:29
Alignment explanation
Indices: 681425--681491 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 29
681415 ATATCAAAAT
*
681425 TATACATCAACTTTGGTTTAATGTGCAATTA
1 TATACATCAACTTTGATTT--TGTGCAATTA
* *
681456 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATCAACTTTGATTTTGTGCAATTA
681485 TATACAT
1 TATACAT
681492 GGATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 16 0.48
31 17 0.52
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
TATACATCAACTTTGATTTTGTGCAATTA
Found at i:681488 original size:29 final size:30
Alignment explanation
Indices: 681424--681492 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
681414 AATATCAAAA
* *
681424 TTATACATCAACTTTGGTTTAATGTGCAATT
1 TTATACATGAACTTTGATTT-ATGTGCAATT
*
681455 ATATACATGAACTTTGATTT-TGTGCAATT
1 TTATACATGAACTTTGATTTATGTGCAATT
681484 TTATACATG
1 TTATACATG
681493 GATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.50
31 17 0.50
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (30 bp):
TTATACATGAACTTTGATTTATGTGCAATT
Found at i:683387 original size:9 final size:10
Alignment explanation
Indices: 683366--683410 Score: 65
Period size: 10 Copynumber: 4.6 Consensus size: 10
683356 TAAAAATAAA
683366 TTTTAAAATT
1 TTTTAAAATT
683376 TTTTAAAATT
1 TTTTAAAATT
683386 TTTTAAAA-T
1 TTTTAAAATT
*
683395 TTTAAAAATT
1 TTTTAAAATT
*
683405 ATTTAA
1 TTTTAA
683411 TTACTGACGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:683397 original size:19 final size:20
Alignment explanation
Indices: 683366--683410 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
683356 TAAAAATAAA
*
683366 TTTTAAAATTTTTTAAAATT
1 TTTTAAAATTTTTAAAAATT
683386 TTTTAAAA-TTTTAAAAATT
1 TTTTAAAATTTTTAAAAATT
*
683405 ATTTAA
1 TTTTAA
683411 TTACTGACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTAAAATTTTTAAAAATT
Found at i:685650 original size:39 final size:39
Alignment explanation
Indices: 685588--685668 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
685578 TGAAGAATGG
** *
685588 GTGGACGAGAACCTTCCGGCAAGAACGAA-TGGCTAGCTA
1 GTGGACGAGAACCTTCCAACAAGAAC-AAGTGACTAGCTA
* *
685627 GTGGATGAGAACCTTCCAACAAGAGCAAGTGACTAGCTA
1 GTGGACGAGAACCTTCCAACAAGAACAAGTGACTAGCTA
685666 GTG
1 GTG
685669 ATCATGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
38 2 0.06
39 34 0.94
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.17
Consensus pattern (39 bp):
GTGGACGAGAACCTTCCAACAAGAACAAGTGACTAGCTA
Found at i:689902 original size:75 final size:76
Alignment explanation
Indices: 689812--689964 Score: 299
Period size: 75 Copynumber: 2.0 Consensus size: 76
689802 CTGTTATAAA
689812 TAAATATTCATAATTTCCCCTTTAAGATCTTGGGTTTAATGGTTTAAGATGTTGAGATTTATTTA
1 TAAATATTCATAATTTCCCCTTTAAGATCTTGGGTTTAATGGTTTAAGATGTTGAGATTTATTTA
689877 T-ATTAATTAT
66 TAATTAATTAT
689887 TAAATATTCATAATTTCCCCTTTAAGATCTTGGGTTTAATGGTTTAAGATGTTGAGATTTATTTA
1 TAAATATTCATAATTTCCCCTTTAAGATCTTGGGTTTAATGGTTTAAGATGTTGAGATTTATTTA
689952 TAATTAATTAT
66 TAATTAATTAT
689963 TA
1 TA
689965 TTTAATTATG
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 66 0.86
76 11 0.14
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (76 bp):
TAAATATTCATAATTTCCCCTTTAAGATCTTGGGTTTAATGGTTTAAGATGTTGAGATTTATTTA
TAATTAATTAT
Found at i:695225 original size:31 final size:31
Alignment explanation
Indices: 695189--695254 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
695179 TTACTATCCG
*
695189 GTCACTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTTAAAAGTTTTCATTTAA
*
695220 GTCACTGAACTATTTAAAAGTTTTTATTTAA
1 GTCACTGAACTATTTAAAAGTTTTCATTTAA
695251 GTCA
1 GTCA
695255 ATAGGCTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (31 bp):
GTCACTGAACTATTTAAAAGTTTTCATTTAA
Found at i:696085 original size:18 final size:19
Alignment explanation
Indices: 696050--696086 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
696040 TAAGGTAGAA
696050 GAGAAAGTAAATAATTTAG
1 GAGAAAGTAAATAATTTAG
*
696069 GAGAAATTAAA-AATTTAG
1 GAGAAAGTAAATAATTTAG
696087 ACTTAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (19 bp):
GAGAAAGTAAATAATTTAG
Found at i:703384 original size:79 final size:79
Alignment explanation
Indices: 703289--703446 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
703279 TTGGTTTTTT
*
703289 TTATAAACAGTAGTCCATTCACCAACTATTTCTTTTAGATGCTTTTTACCTCTATCCATGAGGCC
1 TTATAAACAGTAGTCCATTCACCAACTATTTCTTTTAGAGGCTTTTTACCTCTATCCATGAGGCC
703354 TGCTCAAATAATCA
66 TGCTCAAATAATCA
*
703368 TTATGAACAGTAGTCCATTCACCAACTATTTCTTTTAGAGGCTTTTTACCTCTATCCATGAGGCC
1 TTATAAACAGTAGTCCATTCACCAACTATTTCTTTTAGAGGCTTTTTACCTCTATCCATGAGGCC
703433 TGCTCAAATAATCA
66 TGCTCAAATAATCA
703447 ACAATTATTA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (79 bp):
TTATAAACAGTAGTCCATTCACCAACTATTTCTTTTAGAGGCTTTTTACCTCTATCCATGAGGCC
TGCTCAAATAATCA
Found at i:705300 original size:284 final size:284
Alignment explanation
Indices: 704790--705362 Score: 1092
Period size: 284 Copynumber: 2.0 Consensus size: 284
704780 GCCTTTTAGT
704790 CAAGGCATTCCCATGGATTCGAGGCATCAACTTTGATCTCCCCCATGTCGTCGCCGTTGCAGCAA
1 CAAGGCATTCCCATGGATTCGAGGCATCAACTTTGATCTCCCCCATGTCGTCGCCGTTGCAGCAA
704855 CATCCGATAGCATTGAAAACGTAGGAGGAGACATGTTCATGTCTATCCCAAACGCCGACGCAGCG
66 CATCCGATAGCATTGAAAACGTAGGAGGAGACATGTTCATGTCTATCCCAAACGCCGACGCAGCG
* *
704920 TTTCTCGTGGTTAGTACTTTCTTTCCCTTCATTATATGGTCTTATACGATTAATCCGTACATTGC
131 TTTCTCATGGTTAGTACTTTCTTTCCCTTCATTATATGGTCTTATACGATTAATCCATACATTGC
*
704985 AAACTGCAGTGGGTATTGCATGATTGGGACGACGAGGAGTGCATTAAAATCCTAAAAAAATGTCG
196 AAACTGCAGTGGGTATTGCATGATTGGGACGACGAGGAATGCATTAAAATCCTAAAAAAATGTCG
705050 AGAAGCCATTCCAGAAGATAAAGG
261 AGAAGCCATTCCAGAAGATAAAGG
705074 CAAGGCATTCCCATGGATTCGAGGCATCAACTTTGATCTCCCCCATGTCGTCGCCGTTGCAGCAA
1 CAAGGCATTCCCATGGATTCGAGGCATCAACTTTGATCTCCCCCATGTCGTCGCCGTTGCAGCAA
705139 CATCCGATAGCATTGAAAACGTAGGAGGAGACATGTTCATGTCTATCCCAAACGCCGACGCAGCG
66 CATCCGATAGCATTGAAAACGTAGGAGGAGACATGTTCATGTCTATCCCAAACGCCGACGCAGCG
705204 TTTCTCATGGTTAGTACTTTCTTTCCCTTCATTATATGGTCTTATACGATTAATCCATACATTGC
131 TTTCTCATGGTTAGTACTTTCTTTCCCTTCATTATATGGTCTTATACGATTAATCCATACATTGC
* *
705269 AAATTGCAGTGTGTATTGCATGATTGGGACGACGAGGAATGCATTAAAATCCTAAAAAAATGTCG
196 AAACTGCAGTGGGTATTGCATGATTGGGACGACGAGGAATGCATTAAAATCCTAAAAAAATGTCG
705334 AGAAGCCATTCCAGAAGATAAAGG
261 AGAAGCCATTCCAGAAGATAAAGG
*
705358 GAAGG
1 CAAGG
705363 TTGTAATCGT
Statistics
Matches: 283, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
284 283 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (284 bp):
CAAGGCATTCCCATGGATTCGAGGCATCAACTTTGATCTCCCCCATGTCGTCGCCGTTGCAGCAA
CATCCGATAGCATTGAAAACGTAGGAGGAGACATGTTCATGTCTATCCCAAACGCCGACGCAGCG
TTTCTCATGGTTAGTACTTTCTTTCCCTTCATTATATGGTCTTATACGATTAATCCATACATTGC
AAACTGCAGTGGGTATTGCATGATTGGGACGACGAGGAATGCATTAAAATCCTAAAAAAATGTCG
AGAAGCCATTCCAGAAGATAAAGG
Found at i:711304 original size:31 final size:31
Alignment explanation
Indices: 711269--711334 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
711259 TTACAATCCG
*
711269 GTCACTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTTAAAAGTTTTCATTTAA
*
711300 GTCACTGAACTATTTAAAAGTTTTTATTTAA
1 GTCACTGAACTATTTAAAAGTTTTCATTTAA
711331 GTCA
1 GTCA
711335 ATAGGCTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (31 bp):
GTCACTGAACTATTTAAAAGTTTTCATTTAA
Found at i:712612 original size:17 final size:16
Alignment explanation
Indices: 712571--712604 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
712561 TTAGAATTAG
*
712571 AATAAATCAATTAAAA
1 AATAAATAAATTAAAA
712587 AATATAATAAATTAAAA
1 AATA-AATAAATTAAAA
712604 A
1 A
712605 TTGAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAAATAAATTAAAA
Found at i:725539 original size:32 final size:32
Alignment explanation
Indices: 725503--725569 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
725493 TGATAATTAT
*
725503 ATTATTTTAGGATGTTCATTATGATTGTATGA
1 ATTATTTTAGGATGTTCATCATGATTGTATGA
725535 ATTATTTTAGGATGTTCATCATGATTGTATGA
1 ATTATTTTAGGATGTTCATCATGATTGTATGA
725567 ATT
1 ATT
725570 TGAGATCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.49
Consensus pattern (32 bp):
ATTATTTTAGGATGTTCATCATGATTGTATGA
Found at i:731453 original size:9 final size:9
Alignment explanation
Indices: 731435--731510 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
731425 TTTGGTTAAA
731435 AATTAACCG
1 AATTAACCG
*
731444 AATTACCCG
1 AATTAACCG
731453 AATTAACCG
1 AATTAACCG
731462 AATTAACCG
1 AATTAACCG
* *
731471 GATTACCCG
1 AATTAACCG
*
731480 AATTAATCG
1 AATTAACCG
*
731489 AATTACCCG
1 AATTAACCG
731498 AATTAACCG
1 AATTAACCG
731507 AATT
1 AATT
731511 GAATCACTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:743341 original size:13 final size:14
Alignment explanation
Indices: 743316--743342 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
743306 CAGAAAATTA
743316 ATTGAATTTTTTTG
1 ATTGAATTTTTTTG
743330 ATTGAATTTTTTT
1 ATTGAATTTTTTT
743343 ATCTTTATCA
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:0.00, G:0.11, T:0.67
Consensus pattern (14 bp):
ATTGAATTTTTTTG
Found at i:748834 original size:21 final size:21
Alignment explanation
Indices: 748808--748860 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
748798 CGCTATTTCT
** *
748808 AATCTCACTGCTACAGTATCC
1 AATCTCACCACTACAGTAACC
*
748829 AATCTCACCACTACAGTAACT
1 AATCTCACCACTACAGTAACC
748850 AATCTCACCAC
1 AATCTCACCAC
748861 CACCACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.36, G:0.06, T:0.25
Consensus pattern (21 bp):
AATCTCACCACTACAGTAACC
Found at i:751025 original size:13 final size:13
Alignment explanation
Indices: 751007--751034 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
750997 TGCTTCTCTC
751007 ACCTCTTATACAG
1 ACCTCTTATACAG
751020 ACCTCTTATACAG
1 ACCTCTTATACAG
751033 AC
1 AC
751035 AAGTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (13 bp):
ACCTCTTATACAG
Found at i:754070 original size:17 final size:18
Alignment explanation
Indices: 754031--754070 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
754021 TATTCGAAAT
754031 TATTAATTTTTTAATCTA
1 TATTAATTTTTTAATCTA
754049 T-TTAATATTTTT-AT-TA
1 TATTAAT-TTTTTAATCTA
754065 TATTAA
1 TATTAA
754071 ATTAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.15
17 11 0.55
18 6 0.30
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTAATTTTTTAATCTA
Found at i:755176 original size:3 final size:3
Alignment explanation
Indices: 755168--755204 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
755158 CGGTAATTGC
755168 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
755205 AGAAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:759237 original size:200 final size:200
Alignment explanation
Indices: 758894--759284 Score: 782
Period size: 200 Copynumber: 2.0 Consensus size: 200
758884 TTATAAATTC
758894 TTATTTTAATATGCACAATTTATTATCTCCATCGTTTGTATATCTATACTATTATTTGAACTCGT
1 TTATTTTAATATGCACAATTTATTATCTCCATCGTTTGTATATCTATACTATTATTTGAACTCGT
758959 AACTAAGTTGGTGTCATAAATCAATCGGGCACCAACTCGGTTAAAAAATTACGAGAATGCCCTTT
66 AACTAAGTTGGTGTCATAAATCAATCGGGCACCAACTCGGTTAAAAAATTACGAGAATGCCCTTT
759024 TGTAATTAAAATAAGTAATATTATTCGAGAGTATTTTAATTTTTTCACTTTAAAAAAGCAAATAT
131 TGTAATTAAAATAAGTAATATTATTCGAGAGTATTTTAATTTTTTCACTTTAAAAAAGCAAATAT
759089 GCATA
196 GCATA
759094 TTATTTTAATATGCACAATTTATTATCTCCATCGTTTGTATATCTATACTATTATTTGAACTCGT
1 TTATTTTAATATGCACAATTTATTATCTCCATCGTTTGTATATCTATACTATTATTTGAACTCGT
759159 AACTAAGTTGGTGTCATAAATCAATCGGGCACCAACTCGGTTAAAAAATTACGAGAATGCCCTTT
66 AACTAAGTTGGTGTCATAAATCAATCGGGCACCAACTCGGTTAAAAAATTACGAGAATGCCCTTT
759224 TGTAATTAAAATAAGTAATATTATTCGAGAGTATTTTAATTTTTTCACTTTAAAAAAGCAA
131 TGTAATTAAAATAAGTAATATTATTCGAGAGTATTTTAATTTTTTCACTTTAAAAAAGCAA
759285 TAAAAATATG
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 191 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (200 bp):
TTATTTTAATATGCACAATTTATTATCTCCATCGTTTGTATATCTATACTATTATTTGAACTCGT
AACTAAGTTGGTGTCATAAATCAATCGGGCACCAACTCGGTTAAAAAATTACGAGAATGCCCTTT
TGTAATTAAAATAAGTAATATTATTCGAGAGTATTTTAATTTTTTCACTTTAAAAAAGCAAATAT
GCATA
Found at i:760318 original size:10 final size:10
Alignment explanation
Indices: 760303--760334 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
760293 CAGAAAACTG
760303 TCGGATCAGA
1 TCGGATCAGA
760313 TCGGATCAGA
1 TCGGATCAGA
*
760323 TCAGATCAGA
1 TCGGATCAGA
760333 TC
1 TC
760335 CTTCAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (10 bp):
TCGGATCAGA
Found at i:765033 original size:16 final size:17
Alignment explanation
Indices: 765007--765044 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
764997 CCTTTTGTCA
* *
765007 CTTTGTTTTGCTCTCTT
1 CTTTTTTTTGCTATCTT
765024 -TTTTTTTTGCTATCTT
1 CTTTTTTTTGCTATCTT
765040 CTTTT
1 CTTTT
765045 CTCTTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.03, C:0.18, G:0.08, T:0.71
Consensus pattern (17 bp):
CTTTTTTTTGCTATCTT
Found at i:765869 original size:7 final size:8
Alignment explanation
Indices: 765852--765880 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
765842 ATTATTTTTT
765852 AAAATTAA
1 AAAATTAA
765860 AAAATTAA
1 AAAATTAA
765868 AAAATTAA
1 AAAATTAA
765876 AAAAT
1 AAAAT
765881 ATTTAAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:769033 original size:3 final size:3
Alignment explanation
Indices: 769025--769067 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
769015 TATTCTTACT
769025 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
769068 CACAAGGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:770108 original size:17 final size:17
Alignment explanation
Indices: 770082--770115 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
770072 ATTTCCTAAG
*
770082 TATGTAATATATTTTAT
1 TATGTAATATAATTTAT
*
770099 TATGTTATATAATTTAT
1 TATGTAATATAATTTAT
770116 AACACATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATGTAATATAATTTAT
Found at i:772965 original size:25 final size:24
Alignment explanation
Indices: 772937--772984 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
772927 ATCCAGGCAA
772937 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
*
772962 TATAACGGGTAGCTCCAAAGAGC
1 TATAACGGGAAGCTCCAAAGAGC
772985 AATTAACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:772991 original size:24 final size:26
Alignment explanation
Indices: 772933--772999 Score: 95
Period size: 24 Copynumber: 2.7 Consensus size: 26
772923 GCTTATCCAG
*
772933 GCAATATAACGGGAAGCTCACAAAGA
1 GCAATATAACGGGTAGCTCACAAAGA
*
772959 GC-CTATAACGGGTAGCTC-CAAAGA
1 GCAATATAACGGGTAGCTCACAAAGA
772983 GCAAT-TAACGGGTAGCT
1 GCAATATAACGGGTAGCT
773000 TCGAACAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 20 0.54
25 15 0.41
26 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.16
Consensus pattern (26 bp):
GCAATATAACGGGTAGCTCACAAAGA
Found at i:773011 original size:24 final size:24
Alignment explanation
Indices: 772964--773015 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
772954 AAAGAGCCTA
* *
772964 TAACGGGTAGCTCCAAAGAGCAAT
1 TAACGGGTAGCTCCAAACAACAAT
* *
772988 TAACGGGTAGCTTCGAACAACAAT
1 TAACGGGTAGCTCCAAACAACAAT
773012 TAAC
1 TAAC
773016 AGGAAGCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
TAACGGGTAGCTCCAAACAACAAT
Found at i:773095 original size:26 final size:26
Alignment explanation
Indices: 773066--773125 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
773056 GCACTAATGA
*
773066 GAAGCTCACAAAGAGCC-TTTAATCGG
1 GAAGCTCACAAAGAGCCATATAA-CGG
* *
773092 GAAGCTTACGAAGAGCCATATAACGG
1 GAAGCTCACAAAGAGCCATATAACGG
*
773118 GACGCTCA
1 GAAGCTCA
773126 TAAGAGTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATATAACGG
Found at i:775562 original size:78 final size:78
Alignment explanation
Indices: 775472--775666 Score: 329
Period size: 78 Copynumber: 2.5 Consensus size: 78
775462 ATAGTGGATA
* *
775472 ATATATGTATATACATGTATAAGTTCTGGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
1 ATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
775537 ATAAAGCTCGAAT
66 ATAAAGCTCGAAT
*
775550 ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
1 ATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
* *
775615 ATAAAGTTCGGAT
66 ATAAAGCTCGAAT
*
775628 ATATGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 ATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAA
775667 TGTTGAATGT
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 14 0.13
78 96 0.87
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (78 bp):
ATATATGTATATACATGAATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTATATAT
ATAAAGCTCGAAT
Found at i:775710 original size:153 final size:155
Alignment explanation
Indices: 775467--775770 Score: 352
Period size: 153 Copynumber: 2.0 Consensus size: 155
775457 AACTAATAGT
* *
775467 GGATAATATATGTATATACATGTATAAGTTCTGGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGATAATATATGTATATACATGAATAAGTTCTGGAATTTAGTTAAAAGTATGAATGTTATA-TTA
* *
775532 TATATATAAAGCTCGAATATATATGTATATACATGA-ATAAATTCTT-GAATTTAGTTAAAAGTA
65 TATATACAAAGCTCGAATAGATATGTA-A-ACATGAGATAAATTCTTGGAATTTA-TTAAAAGTA
* * *
775595 TGTATGTTATATTTATATATATAAAGTTC
127 TGGATGTTACATATATATATATAAAGTTC
* * *
775624 GGAT-ATATGTGTATATACATGAATAAGTT-TTGAATTTAGTT-AATGT-TGAATGTTATA-TAT
1 GGATAATATATGTATATACATGAATAAGTTCTGGAATTTAGTTAAAAGTATGAATGTTATATTAT
* * * * * *
775684 GTTTACAAGAGGTTCGAATAGGTATGTAAATATGAGTATAAATTCTTGGATTTTATTAAAAGTAT
66 ATATACAA-A-GCTCGAATAGATATGTAAACATGAG-ATAAATTCTTGGAATTTATTAAAAGTAT
775749 GGATGTTACATATATATATATA
128 GGATGTTACATATATATATATA
775771 TATGTATAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
151 13 0.10
152 2 0.02
153 63 0.50
154 10 0.08
155 11 0.09
156 23 0.18
157 4 0.03
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (155 bp):
GGATAATATATGTATATACATGAATAAGTTCTGGAATTTAGTTAAAAGTATGAATGTTATATTAT
ATATACAAAGCTCGAATAGATATGTAAACATGAGATAAATTCTTGGAATTTATTAAAAGTATGGA
TGTTACATATATATATATAAAGTTC
Found at i:776462 original size:41 final size:41
Alignment explanation
Indices: 776409--776641 Score: 333
Period size: 41 Copynumber: 5.7 Consensus size: 41
776399 AGTTTTAAAA
* *
776409 CCTAACAGGCTAAGTGTCGGTGATCTGAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
776450 CCTAGCAGGCTAAGTGCCGGTGATCTAAACTAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
776491 CCTAGCAGGCTGAGTGCCGGTGATCTGAGCCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
776532 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAAGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
* *
776573 CCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGCTT-TAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGG-TTATAAG
* *
776614 CCTAACAGGCTAAGTGCTGGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
776642 TTTAAATTAA
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
41 166 0.96
42 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAG
Found at i:776524 original size:82 final size:82
Alignment explanation
Indices: 776360--776636 Score: 335
Period size: 82 Copynumber: 3.4 Consensus size: 82
776350 ACATTCGGAC
* ** * * * * *
776360 TATAAGTCTAGCAGGCTAAAAGCCAGTG-TACTGAGATCAAGTTTTAAAACCTAACAGGCTAAGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAT-CT-AAATCAAGTTAT-AAGCCTAGCAGGCTAAGT
*
776424 GTCGGTGATCTGAACCAGGT
63 GCCGGTGATCTGAACCAGGT
* *
776444 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAAA-CTAGGTTATAAGCCTAGCAGGCTGAGTGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAAATC-AAGTTATAAGCCTAGCAGGCTAAGTGC
*
776508 CGGTGATCTGAGCCAGGT
65 CGGTGATCTGAACCAGGT
*
776526 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAAGTTATAAGCCTAGCAGGCTAAGTGCC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAAATCAAGTTATAAGCCTAGCAGGCTAAGTGCC
* *
776591 GATGATCTGAATCAGGCT
66 GGTGATCTGAACCAGG-T
* *
776609 T-TAAGCCTAACAGGCTAAGTGCTGGTGA
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGA
776637 ATCTGTTTAA
Statistics
Matches: 169, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
82 132 0.78
83 10 0.06
84 26 0.15
85 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (82 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAAATCAAGTTATAAGCCTAGCAGGCTAAGTGCC
GGTGATCTGAACCAGGT
Found at i:780592 original size:60 final size:60
Alignment explanation
Indices: 780453--780592 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
780443 TGAAAACCCT
* * * *
780453 AAAGTTCAAGCACCCTATGTGGGAACAATTACCAAGTTCAAGGACTAATTTGGACAAAGAA
1 AAAGTTCAAGC-CCCAATGTGAGAACAATTACCAAGTTCAAGGACTAACTTGGACAAAAAA
* ** * * *
780514 AAACTTCAAGCCTTAATGTGAGAACAATTATCAAGTTCAATGATTAACTTGGACAAAAAA
1 AAAGTTCAAGCCCCAATGTGAGAACAATTACCAAGTTCAAGGACTAACTTGGACAAAAAA
*
780574 AAAGTGCAAGCCCCAATGT
1 AAAGTTCAAGCCCCAATGT
780593 AGGAGTTGTT
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
60 55 0.85
61 10 0.15
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (60 bp):
AAAGTTCAAGCCCCAATGTGAGAACAATTACCAAGTTCAAGGACTAACTTGGACAAAAAA
Found at i:783459 original size:18 final size:17
Alignment explanation
Indices: 783426--783464 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
783416 TTTTATAAAT
783426 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
783444 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
783461 TGTG
1 TGTG
783465 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:792842 original size:31 final size:30
Alignment explanation
Indices: 792794--792880 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 30
792784 AATAAACACC
*
792794 AAAAAAATTTTAGAAAATTAAAAAAGTATGTT
1 AAAAATATTTTA-AAAATTAAAAAAGTAT-TT
*
792826 AAAAATATTTTAAAAATAAAAAAAAGTATTT
1 AAAAATATTTTAAAAAT-TAAAAAAGTATTT
*
792857 TAAAATATTTTTAAAAA-TAAAAAA
1 AAAAATA-TTTTAAAAATTAAAAAA
792881 TACATATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.12
31 13 0.27
32 30 0.61
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (30 bp):
AAAAATATTTTAAAAATTAAAAAAGTATTT
Found at i:792897 original size:32 final size:32
Alignment explanation
Indices: 792813--792880 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
792803 TTAGAAAATT
*
792813 AAAAAAGTATGTTAAAA-ATATTTTAAAAATAA
1 AAAAAAGTATTTTAAAATAT-TTTTAAAAATAA
792845 AAAAAAGTATTTTAAAATATTTTTAAAAATAA
1 AAAAAAGTATTTTAAAATATTTTTAAAAATAA
792877 AAAA
1 AAAA
792881 TACATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 32 0.94
33 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (32 bp):
AAAAAAGTATTTTAAAATATTTTTAAAAATAA
Found at i:793597 original size:41 final size:38
Alignment explanation
Indices: 793501--793600 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 38
793491 GAAGCAATGA
*
793501 TTGACACCCAGTGTCTCATCG-GCCAAGCCGAAGTAAG
1 TTGACACCCAGTGTCTCATCGAACCAAGCCGAAGTAAG
** ** * * *
793538 TTGGTACCCAGTACCTCATCGAATCTATCCGAAGTAACAG
1 TTGACACCCAGTGTCTCATCGAACCAAGCCGAAGT-A-AG
793578 TATGACACCCAGTGTCTCATCGA
1 T-TGACACCCAGTGTCTCATCGA
793601 CTCAAGGTCG
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
37 17 0.36
38 9 0.19
39 1 0.02
40 3 0.06
41 17 0.36
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (38 bp):
TTGACACCCAGTGTCTCATCGAACCAAGCCGAAGTAAG
Found at i:794405 original size:16 final size:16
Alignment explanation
Indices: 794370--794405 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
794360 ATAAATATGT
* *
794370 AATAATATAATATTAT
1 AATAATATAATATAAC
794386 AATAATATAATATAAC
1 AATAATATAATATAAC
794402 AATA
1 AATA
794406 TACTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATATAATATAAC
Found at i:795418 original size:22 final size:22
Alignment explanation
Indices: 795385--795427 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
795375 TATCGAAATA
* *
795385 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAACAGCAGCAAT
795407 ATAATAGA-AAAACAGCAGCAA
1 ATAATA-ACAAAACAGCAGCAA
795428 AAAAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAATAACAAAACAGCAGCAAT
Found at i:797617 original size:13 final size:14
Alignment explanation
Indices: 797595--797623 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
797585 ATAACTATTT
797595 TTAT-ATTTTTAAA
1 TTATAATTTTTAAA
797608 TTATAATTTTTAAA
1 TTATAATTTTTAAA
797622 TT
1 TT
797624 TTATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATAATTTTTAAA
Found at i:797692 original size:68 final size:69
Alignment explanation
Indices: 797573--797715 Score: 166
Period size: 68 Copynumber: 2.1 Consensus size: 69
797563 AAAATGCAAC
* * * * * *
797573 TATTTTAATTTTATAACTATTTTTATATTTTTAAATTATAATTTTTAAATTTTATAATATTTTAT
1 TATTTTAATATTAAAAATATTTATATATTTTT-AATTAAAATTTTTAAATTTTATAAGATTTTAT
797638 AACATA
65 AA-ATA
* *
797644 TATTTTAATATTAAAAATA-TTATATATTTTT-ATTAAAATTTCTT-AATTTTATAGGGTTTTAT
1 TATTTTAATATTAAAAATATTTATATATTTTTAATTAAAATTT-TTAAATTTTATAAGATTTTAT
797706 AAATA
65 AAATA
797711 TATTT
1 TATTT
797716 GATTGAATCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 8 0.13
68 26 0.41
69 2 0.03
70 11 0.17
71 16 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (69 bp):
TATTTTAATATTAAAAATATTTATATATTTTTAATTAAAATTTTTAAATTTTATAAGATTTTATA
AATA
Found at i:797828 original size:140 final size:139
Alignment explanation
Indices: 797680--797956 Score: 500
Period size: 140 Copynumber: 2.0 Consensus size: 139
797670 TTTTTATTAA
* * *
797680 AATTTCTTAATTTTATAGGGTTTTATAAATATATTTGATTGAATCTTATATTTTTTTATTAAAAT
1 AATTTCTTAATTTTATAGAGTTTTATAAATATATTTGATTGAATATTATATATTTTTATTAAAAT
*
797745 TAAATTTTATAAAATCAACCTTAAAATCCAAAAAAAAAACTATATTTAACAAATTAAGCATAAAG
66 TAAATTTTATAAAATCAACCCTAAAATCCAAAAAAAAAA-TATATTTAACAAATTAAGCATAAAG
797810 TTAACAAAAC
130 TTAACAAAAC
797820 AATTTCTTAATTTTATAGAGTTTTATAAATATATTTGATTGAATATTATATATTTTTATTAAAAT
1 AATTTCTTAATTTTATAGAGTTTTATAAATATATTTGATTGAATATTATATATTTTTATTAAAAT
*
797885 TAAATTTTATAAAATCAACCCTAAAATCCAAAAAAAAGATATATTTAACAAATTAAGCATAAAGT
66 TAAATTTTATAAAATCAACCCTAAAATCCAAAAAAAAAATATATTTAACAAATTAAGCATAAAGT
797950 TAACAAA
131 TAACAAA
797957 TTCACAATTA
Statistics
Matches: 132, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
139 33 0.25
140 99 0.75
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (139 bp):
AATTTCTTAATTTTATAGAGTTTTATAAATATATTTGATTGAATATTATATATTTTTATTAAAAT
TAAATTTTATAAAATCAACCCTAAAATCCAAAAAAAAAATATATTTAACAAATTAAGCATAAAGT
TAACAAAAC
Found at i:798332 original size:19 final size:18
Alignment explanation
Indices: 798308--798343 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
798298 AACTTTTATG
798308 ATTTTTTAAAATAATTTTC
1 ATTTTTTAAAA-AATTTTC
*
798327 ATTTTTTTAAAAATTTT
1 ATTTTTTAAAAAATTTT
798344 ATGAAGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTAAAAAATTTTC
Found at i:798452 original size:3 final size:3
Alignment explanation
Indices: 798444--798477 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
798434 CAATTTGACT
*
798444 AGA AGA AGA AGA AGA AGA AGA AGA AGA ACA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
798478 TTAGGGTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:799893 original size:3 final size:3
Alignment explanation
Indices: 799885--799921 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
799875 GGTAATGAAT
799885 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
799922 GAAGTGATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:804923 original size:13 final size:14
Alignment explanation
Indices: 804901--804929 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
804891 ATAACTATTT
804901 TTAT-ATTTTTAAA
1 TTATAATTTTTAAA
804914 TTATAATTTTTAAA
1 TTATAATTTTTAAA
804928 TT
1 TT
804930 TTATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATAATTTTTAAA
Found at i:804998 original size:68 final size:69
Alignment explanation
Indices: 804879--805021 Score: 166
Period size: 68 Copynumber: 2.1 Consensus size: 69
804869 AAAATGCAAC
* * * * * *
804879 TATTTTAATTTTATAACTATTTTTATATTTTTAAATTATAATTTTTAAATTTTATAATATTTTAT
1 TATTTTAATATTAAAAATATTTATATATTTTT-AATTAAAATTTTTAAATTTTATAAGATTTTAT
804944 AACATA
65 AA-ATA
* *
804950 TATTTTAATATTAAAAATA-TTATATATTTTT-ATTAAAATTTCTT-AATTTTATAGGGTTTTAT
1 TATTTTAATATTAAAAATATTTATATATTTTTAATTAAAATTT-TTAAATTTTATAAGATTTTAT
805012 AAATA
65 AAATA
805017 TATTT
1 TATTT
805022 GATTGAATCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 8 0.13
68 26 0.41
69 2 0.03
70 11 0.17
71 16 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (69 bp):
TATTTTAATATTAAAAATATTTATATATTTTTAATTAAAATTTTTAAATTTTATAAGATTTTATA
AATA
Found at i:806018 original size:13 final size:14
Alignment explanation
Indices: 805996--806024 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
805986 ATAACTATTT
805996 TTAT-ATTTTTAAA
1 TTATAATTTTTAAA
806009 TTATAATTTTTAAA
1 TTATAATTTTTAAA
806023 TT
1 TT
806025 TTATAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATAATTTTTAAA
Found at i:806093 original size:68 final size:69
Alignment explanation
Indices: 805974--806116 Score: 166
Period size: 68 Copynumber: 2.1 Consensus size: 69
805964 AAAATGCAAC
* * * * * *
805974 TATTTTAATTTTATAACTATTTTTATATTTTTAAATTATAATTTTTAAATTTTATAATATTTTAT
1 TATTTTAATATTAAAAATATTTATATATTTTT-AATTAAAATTTTTAAATTTTATAAGATTTTAT
806039 AACATA
65 AA-ATA
* *
806045 TATTTTAATATTAAAAATA-TTATATATTTTT-ATTAAAATTTCTT-AATTTTATAGGGTTTTAT
1 TATTTTAATATTAAAAATATTTATATATTTTTAATTAAAATTT-TTAAATTTTATAAGATTTTAT
806107 AAATA
65 AAATA
806112 TATTT
1 TATTT
806117 GATTGAATCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 8 0.13
68 26 0.41
69 2 0.03
70 11 0.17
71 16 0.25
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (69 bp):
TATTTTAATATTAAAAATATTTATATATTTTTAATTAAAATTTTTAAATTTTATAAGATTTTATA
AATA
Found at i:808943 original size:35 final size:35
Alignment explanation
Indices: 808891--808957 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
808881 CAAAATACAA
* * *
808891 ATTTTTTTAAAATACG-AAGATTTTTGAAACAATT
1 ATTTTTTTAAAACACGAAAAATTTTTAAAACAATT
808925 ATTTTTTTGAAAACACGAAAAATTTTTAAAACA
1 ATTTTTTT-AAAACACGAAAAATTTTTAAAACA
808958 CGAGAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 8 0.29
35 7 0.25
36 13 0.46
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (35 bp):
ATTTTTTTAAAACACGAAAAATTTTTAAAACAATT
Found at i:808950 original size:18 final size:18
Alignment explanation
Indices: 808928--809410 Score: 331
Period size: 17 Copynumber: 27.3 Consensus size: 18
808918 AACAATTATT
808928 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
*
808947 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
808964 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
808981 TTCTTAAAAATACGAAAA
1 TTTTTGAAAACACGAAAA
*
808999 -TTTT-AAAACACG-ACA
1 TTTTTGAAAACACGAAAA
* *
809014 TTTTTTAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* * *
809032 TTTTTTAAAACACGGGAAT
1 TTTTTGAAAACAC-GAAAA
* *
809051 TTTTTG-AAACATTG-GAA
1 TTTTTGAAAACA-CGAAAA
*
809068 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
809086 TTTTTGAAACACAC-AAAA
1 TTTTTGAAA-ACACGAAAA
809104 -TTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
809121 TTTTTG-AAATACGAAAA
1 TTTTTGAAAACACGAAAA
* *
809138 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
809155 TTTTT-AAAACACGACAA
1 TTTTTGAAAACACGAAAA
* **
809172 TTTTTGAAACACAAGAATTT
1 TTTTTGAAA-ACACGAA-AA
* **
809192 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGAAAA
*
809210 ATTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
809227 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * **
809244 TTGTTGAAAATA--AATTTTT
1 TTTTTGAAAACACGAA---AA
*
809263 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACGAAAA
809281 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
809298 TTTTAG-AAACATGAACA
1 TTTTTGAAAACACGAAAA
*
809315 TTTTTAGAAAACAAGAAAAA
1 TTTTT-GAAAACACG-AAAA
* * * *
809335 ATTTTGAAAA-ATGGAAT
1 TTTTTGAAAACACGAAAA
*
809352 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
809370 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
809388 TTTTTG-AAACACCAGAAA
1 TTTTTGAAAACACGA-AAA
809406 TTTTT
1 TTTTT
809411 TTTGAAATAC
Statistics
Matches: 365, Mismatches: 71, Indels: 57
0.74 0.14 0.12
Matches are distributed among these distances:
15 2 0.01
16 16 0.04
17 165 0.45
18 115 0.32
19 50 0.14
20 15 0.04
21 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:809214 original size:21 final size:21
Alignment explanation
Indices: 809172--809214 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
809162 AACACGACAA
* * *
809172 TTTTTGAAACACAAGAATTTT
1 TTTTTAAAACACAAAAAATTT
*
809193 TTTTTAAAACATAAAAAATTT
1 TTTTTAAAACACAAAAAATTT
809214 T
1 T
809215 AAAACACGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
TTTTTAAAACACAAAAAATTT
Found at i:809221 original size:55 final size:56
Alignment explanation
Indices: 809086--809245 Score: 165
Period size: 55 Copynumber: 3.0 Consensus size: 56
809076 AACACGAAGA
* * * *
809086 TTTTT-GAAACACACAAAATTTTGAAAACACGAAAATTTTTGAAATACGAA-AA----
1 TTTTTAGAAACATAAAAAATTTT-AAAACACGAAAATTTGTGAAACAC-AAGAATTTT
* * * *
809138 -TTTTAGAAACATGAAAATTTTTAAAACACGACAATTTTTGAAACACAAGAATTTT
1 TTTTTAGAAACATAAAAAATTTTAAAACACGAAAATTTGTGAAACACAAGAATTTT
*
809193 TTTTTA-AAACATAAAAAATTTTAAAACACGAAAATTTGTGAAACACGAGAATT
1 TTTTTAGAAACATAAAAAATTTTAAAACACGAAAATTTGTGAAACACAAGAATT
809246 GTTGAAAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
50 2 0.02
51 28 0.31
52 13 0.14
55 42 0.47
56 5 0.06
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (56 bp):
TTTTTAGAAACATAAAAAATTTTAAAACACGAAAATTTGTGAAACACAAGAATTTT
Found at i:809237 original size:72 final size:69
Alignment explanation
Indices: 808929--809413 Score: 275
Period size: 71 Copynumber: 6.8 Consensus size: 69
808919 ACAATTATTT
* * * * *
808929 TTTTGAAAACACGAAAAATTTTTAAAACACGAGAATTTTAG-AAACACGAAA--ATTCTTAAAAA
1 TTTT-AAAACACG-AAAATTTTTGAAACACGA-AATTTTTGAAAACAAGAAATTTTTTTTAAAAA
*
808991 TACGAAAA
63 TA-AAAAA
* * * * * * * *
808999 TTTTAAAACACGACATTTTTTAAAACACGGAAATTTTTTAAAACACGGGAA-TTTTTTGAAACAT
1 TTTTAAAACACGAAAATTTTTGAAACAC-GAAATTTTTGAAAACA-AGAAATTTTTTTTAAAAAT
*** *
809063 TGGAAT
64 AAAAAA
* * * * * *
809069 TTTTGAAAACACGAAGATTTTTGAAACACACAAAATTTTGAAAACACGAAA--ATTTTT-GAAAT
1 TTTT-AAAACACGAAAATTTTTGAAACAC-GAAATTTTTGAAAACAAGAAATTTTTTTTAAAAAT
*
809131 ACGAAAA
64 A-AAAAA
* * *
809138 TTTTAGAAACATGAAAATTTTTAAAACACGACAATTTTTGAAACACAAGAATTTTTTTTTAAAAC
1 TTTTA-AAACACGAAAATTTTTGAAACACGA-AATTTTTGAAA-ACAAGAAATTTTTTTTAAAA-
809203 ATAAAAAA
62 ATAAAAAA
* * * ** *
809211 TTTTAAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAATAA-ATTTTTTTTTTGAAAATA
1 TTTTAAAACACGAAAATTTTTGAAACACGA-AATTTTTGAAAACAAGAAATTTTTTTTAAAAATA
*
809275 CGAAAAT
65 --AAAAA
* * * *** *
809282 TTTTGAAACACGAAAATTTTAGAAACATGAACATTTTTAGAAAACAAGAAAAAATTTTGAAAAAT
1 TTTTAAAACACGAAAATTTTTGAAACACGAA-ATTTTT-GAAAACAAGAAATTTTTTTTAAAAAT
** **
809347 GGAATT
64 AAAAAA
* * *
809353 TTTTGAAAACACGAGAATTTTTGAAAACATGAAAATTTTTGAAACACCAGAAATTTTTTTT
1 TTTT-AAAACACGAAAATTTTTG-AAACACG-AAATTTTTGAAA-ACAAGAAATTTTTTTT
809414 GAAATACTGA
Statistics
Matches: 320, Mismatches: 73, Indels: 41
0.74 0.17 0.09
Matches are distributed among these distances:
68 25 0.08
69 59 0.18
70 37 0.12
71 86 0.27
72 63 0.20
73 45 0.14
74 5 0.02
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (69 bp):
TTTTAAAACACGAAAATTTTTGAAACACGAAATTTTTGAAAACAAGAAATTTTTTTTAAAAATAA
AAAA
Found at i:809307 original size:71 final size:73
Alignment explanation
Indices: 809066--809434 Score: 243
Period size: 72 Copynumber: 5.2 Consensus size: 73
809056 GAAACATTGG
* * * **
809066 AATTTTTGAAAACACGAAGATTTTTGAAACAC-ACAAAATT-TTGAAA-ACACGAA--AATTTTT
1 AATTTTTG-AAACACGAAAATTTTAGAAACACGAC--AATTGTTGAAACACAAGAATTTTTTTTT
809126 G-AAATACGAA
63 GAAAATACGAA
* * * *
809136 AATTTTAGAAACATGAAAATTTTTA-AAACACGACAATTTTTGAAACACAAGAATTTTTTTTTAA
1 AATTTTTGAAACACGAAAA-TTTTAGAAACACGACAATTGTTGAAACACAAGAATTTTTTTTTGA
809200 AACATA--AA
65 AA-ATACGAA
* * * * *
809208 AAATTTTAAAACACGAAAATTTGT-GAAACACGAGAATTGTTGAAA-ATAA-ATTTTTTTTTTGA
1 AATTTTTGAAACACGAAAATTT-TAGAAACACGACAATTGTTGAAACACAAGAATTTTTTTTTGA
809270 AAATACGAA
65 AAATACGAA
* * ****
809279 AATTTTTGAAACACGAAAATTTTAGAAACATGA-ACATTTTTAGAAA-ACAAGAA-AAAATTTTG
1 AATTTTTGAAACACGAAAATTTTAGAAACACGACA-ATTGTT-GAAACACAAGAATTTTTTTTTG
* *
809341 AAAA-ATGGA
64 AAAATACGAA
* * * * * * * *
809350 ATTTTTTGAAAACACGAGAATTTTTGAAAACATGAAAATTTTTGAAACACCAGAAATTTTTTTTG
1 AATTTTTG-AAACACGAAAATTTTAG-AAACACGACAATTGTTGAAACACAAGAATTTTTTTTTG
809415 -AAATACTG-A
64 AAAATAC-GAA
809424 AATTTTTGAAA
1 AATTTTTGAAA
809435 ACATAAAGAT
Statistics
Matches: 237, Mismatches: 39, Indels: 43
0.74 0.12 0.13
Matches are distributed among these distances:
68 4 0.02
69 24 0.10
70 34 0.14
71 51 0.22
72 76 0.32
73 29 0.12
74 18 0.08
75 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (73 bp):
AATTTTTGAAACACGAAAATTTTAGAAACACGACAATTGTTGAAACACAAGAATTTTTTTTTGAA
AATACGAA
Found at i:809333 original size:36 final size:33
Alignment explanation
Indices: 809052--809464 Score: 136
Period size: 35 Copynumber: 11.6 Consensus size: 33
809042 CACGGGAATT
* * *
809052 TTTTGAAACATTGGAATTTTTGAAAACACGAAGAT
1 TTTTGAAACA-TGAAATTTTTGAAAACAAGAA-AA
** * *
809087 TTTTGAAACACACAAAATTTTGAAAACACGAAAA
1 TTTTGAAACA-TGAAATTTTTGAAAACAAGAAAA
* * * *
809121 TTTTTGAAATACGAAAATTTT-AGAAACATGAAAA
1 -TTTTGAAACATGAAATTTTTGA-AAACAAGAAAA
* * **
809155 TTTTTAAAACACGACAATTTTTGAAACACAAGAATTTTT
1 -TTTTGAAACATGA-AATTTTTGAAA-ACAAGAA---AA
* * * *
809194 TTTTAAAACATAAAAAATTTT-AAAACACGAAAA
1 TTTTGAAACAT-GAAATTTTTGAAAACAAGAAAA
* * * ***
809227 TTTGTGAAACACGAGAATTGTTGAAAATAA-ATTTTTT
1 TTT-TGAAACATGA-AATTTTTGAAAACAAGA---AAA
*
809264 TTTTGAAA-ATACGAAAATTTTTG-AAACACGAAAA
1 TTTTGAAACAT--G-AAATTTTTGAAAACAAGAAAA
809298 TTTTAGAAACATGAACATTTTTAGAAAACAAGAAAAAA
1 TTTT-GAAACATGAA-ATTTTT-GAAAACAAG--AAAA
* * * *
809336 TTTTGAAAAATGGAATTTTTTGAAAACACGAGAAT
1 TTTTGAAACAT-GAAATTTTTGAAAACAAGA-AAA
* *
809371 TTTTGAAAACATGAAAATTTTTGAAACACCAGAAATTTT
1 TTTTG-AAACATG-AAATTTTTGAAA-ACAAGAAA---A
* *
809410 TTTTGAAATACTGAAATTTTTGAAAACATA-AAGA
1 TTTTGAAACA-TGAAATTTTTGAAAACA-AGAAAA
* *
809444 TATTTGAAACAAGAATTTTTT
1 T-TTTGAAACATGAAATTTTT
809465 TAATTTTTTT
Statistics
Matches: 286, Mismatches: 55, Indels: 75
0.69 0.13 0.18
Matches are distributed among these distances:
33 7 0.02
34 64 0.22
35 71 0.25
36 56 0.20
37 34 0.12
38 45 0.16
39 9 0.03
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (33 bp):
TTTTGAAACATGAAATTTTTGAAAACAAGAAAA
Found at i:809425 original size:20 final size:21
Alignment explanation
Indices: 809388--809430 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
809378 AACATGAAAA
809388 TTTTTGAAACACCAGAAATTT
1 TTTTTGAAACACCAGAAATTT
* *
809409 TTTTTGAAATA-CTGAAATTT
1 TTTTTGAAACACCAGAAATTT
809429 TT
1 TT
809431 GAAAACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTTTGAAACACCAGAAATTT
Found at i:809431 original size:17 final size:16
Alignment explanation
Indices: 809278--809436 Score: 70
Period size: 18 Copynumber: 8.9 Consensus size: 16
809268 GAAAATACGA
809278 AAATTTTTGAAACAC-G
1 AAATTTTTGAAA-ACTG
*
809294 AAAATTTT-AGAAACATG
1 AAATTTTTGA-AAAC-TG
*
809311 AACATTTTTAGAAAACAAG
1 AA-ATTTTT-GAAAAC-TG
* *
809330 AAAAAATTTTGAAAAATGG
1 --AAATTTTTGAAAACT-G
* *
809349 AATTTTTTGAAAACACG
1 AAATTTTTGAAAAC-TG
809366 AGAATTTTTGAAAACATG
1 A-AATTTTTGAAAAC-TG
*
809384 AAAATTTTTGAAACACCAG
1 -AAATTTTTGAAA-A-CTG
809403 AAATTTTTTTTGAAATACTG
1 AAA---TTTTTGAAA-ACTG
809423 AAATTTTTGAAAAC
1 AAATTTTTGAAAAC
809437 ATAAAGATAT
Statistics
Matches: 111, Mismatches: 15, Indels: 34
0.69 0.09 0.21
Matches are distributed among these distances:
15 3 0.03
16 11 0.10
17 25 0.23
18 33 0.30
19 15 0.14
20 12 0.11
21 12 0.11
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (16 bp):
AAATTTTTGAAAACTG
Found at i:809474 original size:10 final size:9
Alignment explanation
Indices: 809457--809485 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
809447 TTGAAACAAG
809457 AATTTTTTT
1 AATTTTTTT
809466 AATTTTTTT
1 AATTTTTTT
809475 AATTTTTTT
1 AATTTTTTT
809484 AA
1 AA
809486 GGACGTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
AATTTTTTT
Found at i:809589 original size:132 final size:132
Alignment explanation
Indices: 809446--809710 Score: 329
Period size: 133 Copynumber: 2.0 Consensus size: 132
809436 CATAAAGATA
* * * * *
809446 TTTGAAACAAGAATTTTTTTAATTTTTTTAATTTTTT-TAAGGACGTATC-TTATTTAGCACAAA
1 TTTGAAACAAGAATTTTTTGAATATTTTTAATTTTTTAAAAGGACGTATCGAT-TTTAACACAAA
** * ** * *
809509 CCGGTGATATTCAGTCAACATAGCGATGAAATCATTGA-ATTAGTGTCGAATTGATTCGTTGCCT
65 CCGGTGATATTCACCCAACATAGCGATAAAATCAACGATATTA-TGTCAAATCGATTCGTTGCCT
809573 TATT
129 TATT
* * *
809577 TTTGAAAACAAGAATTTTTTGAATATTTTTGATTTTTTAAAAGGGCGTATCGATTTTAACGCAAA
1 TTTG-AAACAAGAATTTTTTGAATATTTTTAATTTTTTAAAAGGACGTATCGATTTTAACACAAA
* *
809642 CCGGTGATATTCACCCAACATAGCGATAAAATCAACGATTTTATGTTAAATCGATTCGTTGCCTT
65 CCGGTGATATTCACCCAACATAGCGATAAAATCAACGATATTATGTCAAATCGATTCGTTGCCTT
809707 ATT
130 ATT
809710 T
1 T
809711 ATTAAAATTA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
131 4 0.04
132 30 0.27
133 75 0.66
134 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (132 bp):
TTTGAAACAAGAATTTTTTGAATATTTTTAATTTTTTAAAAGGACGTATCGATTTTAACACAAAC
CGGTGATATTCACCCAACATAGCGATAAAATCAACGATATTATGTCAAATCGATTCGTTGCCTTA
TT
Found at i:809927 original size:10 final size:10
Alignment explanation
Indices: 809912--809967 Score: 71
Period size: 11 Copynumber: 5.6 Consensus size: 10
809902 CAAATTGAAC
809912 TTTTCTTTTT
1 TTTTCTTTTT
809922 TTTTC--TTT
1 TTTTCTTTTT
*
809930 TTTCCTTTTT
1 TTTTCTTTTT
809940 TCTTTCTTTTT
1 T-TTTCTTTTT
809951 TTTTCTCTTTT
1 TTTTCT-TTTT
809962 TTTTCT
1 TTTTCT
809968 CCTCTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 7 0.17
10 14 0.35
11 19 0.47
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:809945 original size:12 final size:11
Alignment explanation
Indices: 809927--809977 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
809917 TTTTTTTTTC
809927 TTTTTTCCTTT
1 TTTTTTCCTTT
809938 TTTCTTT-CTTT
1 TTT-TTTCCTTT
809949 TTTTTTCTCTTT
1 TTTTTTC-CTTT
809961 TTTTTCTCCTCTT
1 TTTTT-TCCT-TT
809974 TTTT
1 TTTT
809978 GGCCTGCTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.09
11 10 0.29
12 14 0.40
13 8 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCCTTT
Found at i:809945 original size:19 final size:17
Alignment explanation
Indices: 809912--809951 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
809902 CAAATTGAAC
809912 TTTTCTTTTTTTTTCTT
1 TTTTCTTTTTTTTTCTT
809929 TTTTCCTTTTTTCTTTCTT
1 TTTT-CTTTTTT-TTTCTT
809948 TTTT
1 TTTT
809952 TTTCTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 10 0.48
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTTTTTCTT
Found at i:809967 original size:25 final size:24
Alignment explanation
Indices: 809912--809964 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
809902 CAAATTGAAC
* *
809912 TTTTCTTTTTTTTTCTTTTTTCCTT
1 TTTTCTTTCTTTTT-TTTTCTCCTT
*
809937 TTTTCTTTCTTTTTTTTTCTCTTT
1 TTTTCTTTCTTTTTTTTTCTCCTT
809961 TTTT
1 TTTT
809965 TCTCCTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTCTTTCTTTTTTTTTCTCCTT
Found at i:809972 original size:14 final size:13
Alignment explanation
Indices: 809935--809977 Score: 61
Period size: 12 Copynumber: 3.3 Consensus size: 13
809925 TCTTTTTTCC
*
809935 TTTTTTCTTTCTT
1 TTTTTTCTCTCTT
809948 TTTTTT-TCTCTT
1 TTTTTTCTCTCTT
809960 TTTTTTCTCCTCTT
1 TTTTTTCT-CTCTT
809974 TTTT
1 TTTT
809978 GGCCTGCTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.41
13 7 0.26
14 9 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTCTCTCTT
Found at i:810249 original size:7 final size:7
Alignment explanation
Indices: 810239--810323 Score: 52
Period size: 7 Copynumber: 12.0 Consensus size: 7
810229 TTTTTAATTT
810239 TTTTCTC
1 TTTTCTC
*
810246 TTTTTTC
1 TTTTCTC
810253 TTTT-TC
1 TTTTCTC
*
810259 TTTTTTC
1 TTTTCTC
*
810266 TTTTTTC
1 TTTTCTC
*
810273 TTTTTTTC
1 -TTTTCTC
810281 TTTT-TC
1 TTTTCTC
*
810287 TTTCTTCTT
1 -TT-TTCTC
810296 TCTTTCTC
1 T-TTTCTC
810304 TTTT-T-
1 TTTTCTC
810309 TTTTCTC
1 TTTTCTC
810316 TTCTTCTC
1 TT-TTCTC
810324 CGTCCGGCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
5 4 0.06
6 10 0.15
7 30 0.45
8 20 0.30
9 2 0.03
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTC
Found at i:810270 original size:21 final size:21
Alignment explanation
Indices: 810237--810309 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 21
810227 TATTTTTAAT
810237 TTTTTTCTCTTTTTTCTTTTTC
1 TTTTTTCT-TTTTTTCTTTTTC
*
810259 TTTTTTC-TTTTTTCTTTTTT
1 TTTTTTCTTTTTTTCTTTTTC
*
810279 TCTTTTTCTTTCTTCTTTCTTTCTC
1 T-TTTTTC-TT-TT-TTTCTTTTTC
810304 TTTTTT
1 TTTTTT
810310 TTTCTCTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 13 0.30
21 6 0.14
22 7 0.16
23 1 0.02
24 7 0.16
25 9 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCTTTTTTTCTTTTTC
Found at i:810278 original size:28 final size:29
Alignment explanation
Indices: 810237--810322 Score: 124
Period size: 28 Copynumber: 3.0 Consensus size: 29
810227 TATTTTTAAT
*
810237 TTTTTTCTCTTTTTTCTTTTTCTTTTTTC
1 TTTTTTCTCTTTTTTCTTTTTCTTTCTTC
810266 TTTTTTCT-TTTTTTCTTTTTCTTTCTTC
1 TTTTTTCTCTTTTTTCTTTTTCTTTCTTC
*
810294 TTTCTTTCTCTTTTTT-TTTCTC-TTCTTC
1 TTT-TTTCTCTTTTTTCTTTTTCTTTCTTC
810322 T
1 T
810323 CCGTCCGGCC
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
28 29 0.55
29 18 0.34
30 6 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTTTCTCTTTTTTCTTTTTCTTTCTTC
Found at i:810319 original size:21 final size:20
Alignment explanation
Indices: 810240--810320 Score: 80
Period size: 21 Copynumber: 4.1 Consensus size: 20
810230 TTTTAATTTT
810240 TTTCTCTTTTTTCTT-TTTC
1 TTTCTCTTTTTTCTTCTTTC
*
810259 TTT-T-TTCTTTT-TTCTTTT
1 TTTCTCTT-TTTTCTTCTTTC
*
810277 TTTCTTTTTCTTTCTTCTTTC
1 TTTCTCTTT-TTTCTTCTTTC
*
810298 TTTCTCTTTTTTTTTCTCTTC
1 TTTCTCTTTTTTCTTCT-TTC
810319 TT
1 TT
810321 CTCCGTCCGG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
17 4 0.08
18 11 0.22
19 5 0.10
20 12 0.24
21 19 0.37
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTCTCTTTTTTCTTCTTTC
Found at i:810702 original size:30 final size:30
Alignment explanation
Indices: 810668--810790 Score: 85
Period size: 29 Copynumber: 4.2 Consensus size: 30
810658 GCCAAAACAA
*
810668 AATTTTGAGAAAA-CTTAGGGGTCAAAATGT
1 AATTTTCA-AAAAGCTTAGGGGTCAAAATGT
* *
810698 AA-TTTCAAAAAGTTTATGGGTCAAAATGT
1 AATTTTCAAAAAGCTTAGGGGTCAAAATGT
* ** * *
810727 AATTTT-AGGAAAA-TTTAAAGGTTAAAATGC
1 AATTTTCA--AAAAGCTTAGGGGTCAAAATGT
* * *
810757 AA-ATTCAAAAAGTTTATGGGTCAAAATGT
1 AATTTTCAAAAAGCTTAGGGGTCAAAATGT
810786 AATTT
1 AATTT
810791 GTTATTTTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
28 8 0.11
29 39 0.53
30 22 0.30
31 4 0.05
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (30 bp):
AATTTTCAAAAAGCTTAGGGGTCAAAATGT
Found at i:810724 original size:29 final size:29
Alignment explanation
Indices: 810686--810790 Score: 131
Period size: 29 Copynumber: 3.6 Consensus size: 29
810676 GAAAACTTAG
810686 GGGTCAAAATGTAATTTCAAAAAGTTTAT
1 GGGTCAAAATGTAATTTCAAAAAGTTTAT
* *
810715 GGGTCAAAATGTAATTTTAGGAAAA-TTTAA
1 GGGTCAAAATGTAATTTCA--AAAAGTTTAT
* * * *
810745 AGGTTAAAATGCAAATTCAAAAAGTTTAT
1 GGGTCAAAATGTAATTTCAAAAAGTTTAT
810774 GGGTCAAAATGTAATTT
1 GGGTCAAAATGTAATTT
810791 GTTATTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
28 4 0.07
29 35 0.57
30 18 0.30
31 4 0.07
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTCAAAAAGTTTAT
Found at i:810731 original size:59 final size:59
Alignment explanation
Indices: 810668--810790 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 59
810658 GCCAAAACAA
** * *
810668 AATTTT-GAGAAAACTTAGGGGTCAAAATGTAATTTCAAAAAGTTTATGGGTCAAAATGT
1 AATTTTAG-GAAAACTTAAAGGTCAAAATGCAAATTCAAAAAGTTTATGGGTCAAAATGT
* *
810727 AATTTTAGGAAAATTTAAAGGTTAAAATGCAAATTCAAAAAGTTTATGGGTCAAAATGT
1 AATTTTAGGAAAACTTAAAGGTCAAAATGCAAATTCAAAAAGTTTATGGGTCAAAATGT
810786 AATTT
1 AATTT
810791 GTTATTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 56 0.98
60 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (59 bp):
AATTTTAGGAAAACTTAAAGGTCAAAATGCAAATTCAAAAAGTTTATGGGTCAAAATGT
Found at i:811720 original size:50 final size:49
Alignment explanation
Indices: 811558--811887 Score: 288
Period size: 50 Copynumber: 6.8 Consensus size: 49
811548 TTTCTTGTAC
* * * * * * * *
811558 TGCCAATGCCATATCCCAGAAATGGTCTTACA-TGGGATCACATATCG-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCA-CTCATCTCGCA
*
811606 TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACTCATCTCG-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGCA
* * *
811654 -GCCGATGTCATGTCCCAGACAAGGTCTTACACT-G-ACTCTTCTCTGTCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-G--CA
*
811703 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCATCTCG-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGCA
* * *
811751 -GCTGATGCCATGTCCCAGACATGGT-TTACACT-G-ACTCTTCTCTGTCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-G--CA
* * * * *
811799 TGTCGATGCCATGTCCCAGACATGATCTTACACTAGCACTCGTC-GGACTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCG-C-A
* *
811849 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
811888 ACTCACTGCC
Statistics
Matches: 234, Mismatches: 31, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
44 8 0.03
45 10 0.04
46 9 0.04
47 53 0.23
48 36 0.15
49 27 0.12
50 74 0.32
51 3 0.01
52 14 0.06
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGCA
Found at i:811828 original size:96 final size:97
Alignment explanation
Indices: 811606--811883 Score: 423
Period size: 97 Copynumber: 2.8 Consensus size: 97
811596 CACATATCGG
* * *
811606 TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACTCATCTCGAGCCGATGTCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGAGCTGATGCCATGTCCCA
*
811671 GACAAGGTCTTACACTGACTCTTCTCTGTCCA
66 GACATGGTCTTACACTGACTCTTCTCTGTCCA
*
811703 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCATCTCGAGCTGATGCCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGAGCTGATGCCATGTCCCA
*
811768 GACATGGT-TTACACTGACTCTTCTCTGTCCG
66 GACATGGTCTTACACTGACTCTTCTCTGTCCA
* * * * *
811799 TGTCGATGCCATGTCCCAGACATGATCTTACACTAGCACTCGTCGGACTGTGCTGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATC--TC-GAGCTGATGCCATGTC
811864 CCAGACATGGTCTTACACTG
63 CCAGACATGGTCTTACACTG
811884 GCACACTCAC
Statistics
Matches: 165, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
96 62 0.38
97 68 0.41
98 1 0.01
99 26 0.16
100 8 0.05
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (97 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCGAGCTGATGCCATGTCCCA
GACATGGTCTTACACTGACTCTTCTCTGTCCA
Found at i:821702 original size:72 final size:73
Alignment explanation
Indices: 821585--821729 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
821575 CATATTCATA
821585 TGTCGAACTACTTGTCTAAGGCTTAAGGCCTATCCAAAATTTGAGAGGATTTGGGTTAAAA-TAT
1 TGTCGAACTACTTGTCTAAGGCTTAAGGCCTATCCAAAATTTGAGAGGATTTGGGTTAAAATTAT
821649 ATTATGTT
66 ATTATGTT
821657 TGTCGAACTACTTGTCTAAGGCTTAAGGCCTATCCAAAATTTGAGAGGATTTGGGTTAAAATTAT
1 TGTCGAACTACTTGTCTAAGGCTTAAGGCCTATCCAAAATTTGAGAGGATTTGGGTTAAAATTAT
821722 ATTATGTT
66 ATTATGTT
821730 AATCTATATT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 61 0.85
73 11 0.15
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (73 bp):
TGTCGAACTACTTGTCTAAGGCTTAAGGCCTATCCAAAATTTGAGAGGATTTGGGTTAAAATTAT
ATTATGTT
Found at i:828303 original size:30 final size:31
Alignment explanation
Indices: 828260--828328 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
828250 AAACTTAATT
* *
828260 GTTCAGTGACTTAAACAAAAACTTTTGACTA
1 GTTCAGTGACTTAAACAAAAAATTTTGAATA
*
828291 GTTCAGTG-CTTAAATAAAAAATTTTGAATA
1 GTTCAGTGACTTAAACAAAAAATTTTGAATA
*
828321 GTTTAGTG
1 GTTCAGTG
828329 GCCATTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 26 0.76
31 8 0.24
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (31 bp):
GTTCAGTGACTTAAACAAAAAATTTTGAATA
Found at i:830806 original size:24 final size:24
Alignment explanation
Indices: 830769--830816 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
830759 CCTGATGAAA
* *
830769 ACAATGCAATTGTTGAAACTAAAG
1 ACAATGCAAATGTTGAAAATAAAG
*
830793 ACAATGGAAATGTTGAAAATAAAG
1 ACAATGCAAATGTTGAAAATAAAG
830817 TCTCACTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (24 bp):
ACAATGCAAATGTTGAAAATAAAG
Found at i:836997 original size:18 final size:18
Alignment explanation
Indices: 836970--837008 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
836960 ACTCAATGTC
*
836970 ACAAAGAAAATAAAAATT
1 ACAAAAAAAATAAAAATT
**
836988 ACAAAAAAAATTCAAATT
1 ACAAAAAAAATAAAAATT
837006 ACA
1 ACA
837009 GAACGTGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (18 bp):
ACAAAAAAAATAAAAATT
Found at i:837436 original size:15 final size:16
Alignment explanation
Indices: 837409--837441 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
837399 AATTAAACTA
837409 AATATATAAAGTAATT
1 AATATATAAAGTAATT
837425 AATATA-AAAGTAATT
1 AATATATAAAGTAATT
837440 AA
1 AA
837442 AATCTTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
AATATATAAAGTAATT
Found at i:851678 original size:32 final size:31
Alignment explanation
Indices: 851628--851689 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
851618 AGTATGATGA
851628 ATAATATAAATAACAATAT-TATAAAATAATG
1 ATAATATAAATAACAATATAT-TAAAATAATG
* *
851659 ATAATAATAAATGATAATATATTAAAATAAT
1 ATAAT-ATAAATAACAATATATTAAAATAAT
851690 AAAGAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 21 0.78
33 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
ATAATATAAATAACAATATATTAAAATAATG
Found at i:852441 original size:19 final size:19
Alignment explanation
Indices: 852400--852442 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
852390 AAACAAGTAA
* *
852400 AAAAAATAAAAAGGAAAAT
1 AAAAAATAAAAACGAAAAG
*
852419 AAAAAATAAAAACGAATAG
1 AAAAAATAAAAACGAAAAG
852438 AAAAA
1 AAAAA
852443 GAATTGGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAATAAAAACGAAAAG
Found at i:854334 original size:22 final size:22
Alignment explanation
Indices: 854309--854380 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 22
854299 AGAATAAAAT
854309 AATGAAATAACAAGAACATAAA
1 AATGAAATAACAAGAACATAAA
* * * *
854331 AATG--ATGA-AATAAAATAAT
1 AATGAAATAACAAGAACATAAA
854350 AA-GAAATAACAAGAACATAAA
1 AATGAAATAACAAGAACATAAA
*
854371 AATAAAATAA
1 AATGAAATAA
854381 TAAAAGACAA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
18 1 0.03
19 10 0.27
20 6 0.16
21 10 0.27
22 10 0.27
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (22 bp):
AATGAAATAACAAGAACATAAA
Found at i:854362 original size:40 final size:39
Alignment explanation
Indices: 854296--854373 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 39
854286 CAAACATGAC
854296 ATGAGAATAAAATAATGAAATAACAAGAACATAAAAATG
1 ATGAGAATAAAATAATGAAATAACAAGAACATAAAAATG
854335 ATGA-AATAAAATAATAAGAAATAACAAGAACATAAAAAT
1 ATGAGAATAAAATAAT--GAAATAACAAGAACATAAAAAT
854374 AAAATAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
38 11 0.30
39 4 0.11
40 22 0.59
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.18
Consensus pattern (39 bp):
ATGAGAATAAAATAATGAAATAACAAGAACATAAAAATG
Found at i:854383 original size:40 final size:38
Alignment explanation
Indices: 854301--854385 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 38
854291 ATGACATGAG
**
854301 AATAAAATAATGAAATAACAAGAACATAAAAATGATGA
1 AATAAAATAATGAAATAACAAGAACATAAAAATGAAAA
854339 AATAAAATAATAAGAAATAACAAGAACATAAAAAT-AAAA
1 AATAAAATAAT--GAAATAACAAGAACATAAAAATGAAAA
854378 TAATAAAA
1 -AATAAAA
854386 GACAATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 11 0.26
39 2 0.05
40 29 0.69
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.18
Consensus pattern (38 bp):
AATAAAATAATGAAATAACAAGAACATAAAAATGAAAA
Found at i:859435 original size:6 final size:6
Alignment explanation
Indices: 859424--859467 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
859414 TCATGCACCG
* * * *
859424 GAGCCA GAGCCA GAGCTA GAGCCG GAGCCA GAGTCA GACCCA GA
1 GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GAGCCA GA
859468 ACTACATTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.30, G:0.34, T:0.05
Consensus pattern (6 bp):
GAGCCA
Found at i:862774 original size:22 final size:21
Alignment explanation
Indices: 862739--862783 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
862729 TACCTAATTT
*
862739 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
862760 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
862782 TT
1 TT
862784 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:862791 original size:18 final size:18
Alignment explanation
Indices: 862741--862792 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
862731 CCTAATTTTT
862741 TTCTTC-TT-TTCCTTCC
1 TTCTTCTTTCTTCCTTCC
862757 TTCTTTTCTTCTGCTTCCTTCC
1 TTC--TTCTT-T-CTTCCTTCC
862779 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
862793 GTTTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.10
18 8 0.27
19 2 0.07
20 6 0.20
22 11 0.37
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCTTCCTTCC
Found at i:862900 original size:27 final size:26
Alignment explanation
Indices: 862849--862933 Score: 107
Period size: 27 Copynumber: 3.2 Consensus size: 26
862839 AAAATCACAA
* *
862849 CATTGGCGCCTTCTAATATGACACCAC
1 CATTGGCGCCTCCTAATA-GGCACCAC
862876 CATTGGCGCCTCCTAGATAGGCACCAC
1 CATTGGCGCCTCCTA-ATAGGCACCAC
* *
862903 TATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCT-CCTAATAGGCACCAC
862930 CATT
1 CATT
862934 TAGGCACCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 45 0.88
28 6 0.12
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (26 bp):
CATTGGCGCCTCCTAATAGGCACCAC
Found at i:862939 original size:14 final size:14
Alignment explanation
Indices: 862920--862947 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
862910 GCCTCCCAAA
862920 TAGGCACCACCATT
1 TAGGCACCACCATT
862934 TAGGCACCACCATT
1 TAGGCACCACCATT
862948 GGCGCCTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (14 bp):
TAGGCACCACCATT
Found at i:865621 original size:35 final size:35
Alignment explanation
Indices: 865575--865642 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
865565 TATATATATA
865575 AATATAATTTTCATAATCCTAATTCAA-TTCTAACT
1 AATATAATTTTCATAATCCTAATT-AAGTTCTAACT
*
865610 AATATAATTTTCGTAATCCTAATTAAGTTCTAA
1 AATATAATTTTCATAATCCTAATTAAGTTCTAA
865643 GATAGTGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.43
Consensus pattern (35 bp):
AATATAATTTTCATAATCCTAATTAAGTTCTAACT
Found at i:865631 original size:20 final size:19
Alignment explanation
Indices: 865575--865632 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
865565 TATATATATA
865575 AATATAATTTTCATAATCCT
1 AATATAATTTTC-TAATCCT
865595 AAT-TCAA--TTCTAA--CT
1 AATAT-AATTTTCTAATCCT
865610 AATATAATTTTCGTAATCCT
1 AATATAATTTTC-TAATCCT
865630 AAT
1 AAT
865633 TAAGTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
15 7 0.23
16 1 0.03
17 6 0.19
18 6 0.19
19 1 0.03
20 10 0.32
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATAATTTTCTAATCCT
Found at i:872254 original size:28 final size:28
Alignment explanation
Indices: 872201--872254 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
872191 AAAAGATTTT
* **
872201 AAAAATATAAAAAGCATTAATTCTTTCC
1 AAAAATATAAAAAGCATAAAGACTTTCC
872229 AAAAATATAAAAAAG-ATAAAGACTTT
1 AAAAATAT-AAAAAGCATAAAGACTTT
872255 TTAAGTGGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 16 0.73
29 6 0.27
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAAATATAAAAAGCATAAAGACTTTCC
Found at i:872816 original size:23 final size:23
Alignment explanation
Indices: 872772--872816 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
872762 CTTTTTACAT
**
872772 TTTTATAAATTTTATATGTTTTC
1 TTTTATAAATTTTATAAATTTTC
872795 TTTTATAAA-TTTATACAATTTT
1 TTTTATAAATTTTATA-AATTTT
872817 ATAAGAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTATAAATTTTATAAATTTTC
Found at i:884409 original size:31 final size:31
Alignment explanation
Indices: 884356--884414 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
884346 AATAAAAATG
* * *
884356 TATAAAATTATTAAACATTAAAATAATATAA
1 TATAAAATTATTAAAAAATAAAAAAATATAA
884387 TATAAATATT-TTAAAAAATAAAAAAATA
1 TATAAA-ATTATTAAAAAATAAAAAAATA
884415 CTATGAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (31 bp):
TATAAAATTATTAAAAAATAAAAAAATATAA
Found at i:896734 original size:140 final size:141
Alignment explanation
Indices: 896482--896763 Score: 557
Period size: 140 Copynumber: 2.0 Consensus size: 141
896472 CAACATAAAC
896482 ACTTTTCACCTATGGGTATTTTTCCAAATAAAAACCCTAGGTTAAATTATTGCTAAAATAAGCTA
1 ACTTTTCACCTATGGGTATTTTTCCAAATAAAAACCCTAGGTTAAATTATTGCTAAAATAAGCTA
896547 AATTAAGCTATCGGGATCTCAAAAAACGTAAAGAACATTAAAAACGGGGCTTTGGATCACTTGCT
66 AATTAAGCTATCGGGATCTCAAAAAACGTAAAGAACATTAAAAACGGGGCTTTGGATCACTTGCT
896612 -TGGAGCTTGG
131 ATGGAGCTTGG
896622 ACTTTTCACCTATGGGTATTTTTCCAAATAAAAACCCTAGGTTAAATTATTGCTAAAATAAGCTA
1 ACTTTTCACCTATGGGTATTTTTCCAAATAAAAACCCTAGGTTAAATTATTGCTAAAATAAGCTA
896687 AATTAAGCTATCGGGATCTCAAAAAACGTAAAGAACATTAAAAACGGGGCTTTGGATCACTTGCT
66 AATTAAGCTATCGGGATCTCAAAAAACGTAAAGAACATTAAAAACGGGGCTTTGGATCACTTGCT
896752 ATGGAGCTTGG
131 ATGGAGCTTGG
896763 A
1 A
896764 AGCTTGAAAA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
140 130 0.92
141 11 0.08
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (141 bp):
ACTTTTCACCTATGGGTATTTTTCCAAATAAAAACCCTAGGTTAAATTATTGCTAAAATAAGCTA
AATTAAGCTATCGGGATCTCAAAAAACGTAAAGAACATTAAAAACGGGGCTTTGGATCACTTGCT
ATGGAGCTTGG
Found at i:898649 original size:15 final size:15
Alignment explanation
Indices: 898610--898672 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
898600 AATGATATTC
*
898610 ATAATTAATTTTTTAT
1 ATAATT-ATTTTTAAT
*
898626 ATTATTTATTTTTAAT
1 A-TAATTATTTTTAAT
*
898642 ATAATTATTCTTT-TT
1 ATAATTATT-TTTAAT
898657 ATAATTATATTTTAAT
1 ATAATTAT-TTTTAAT
898673 TTGTAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 19 0.50
16 15 0.39
17 4 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
ATAATTATTTTTAAT
Found at i:901528 original size:2 final size:2
Alignment explanation
Indices: 901523--901553 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
901513 TATATATATA
*
901523 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
901554 ATGTATTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:901538 original size:12 final size:12
Alignment explanation
Indices: 901521--901559 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
901511 GGTATATATA
901521 TATGTGTGTGTG
1 TATGTGTGTGTG
901533 TATGTGTGTGTG
1 TATGTGTGTGTG
* *
901545 TGTGTGTGTATG
1 TATGTGTGTGTG
901557 TAT
1 TAT
901560 TGACTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.10, C:0.00, G:0.38, T:0.51
Consensus pattern (12 bp):
TATGTGTGTGTG
Found at i:907150 original size:19 final size:19
Alignment explanation
Indices: 907126--907166 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
907116 AAGAAAATCA
907126 AGAATTTTGGCATTTTATT
1 AGAATTTTGGCATTTTATT
907145 AGAATTTTGGCATTTTATT
1 AGAATTTTGGCATTTTATT
907164 AGA
1 AGA
907167 TAAGCTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (19 bp):
AGAATTTTGGCATTTTATT
Found at i:909295 original size:26 final size:25
Alignment explanation
Indices: 909265--909314 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
909255 TAAAAAAAAT
909265 AAATTT-TATAATAAATAAGATTTACA
1 AAATTTATATAAT-AATAA-ATTTACA
909291 AAATTTAATATAATAATAAATTTA
1 AAATTT-ATATAATAATAAATTTA
909315 TTTAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 11 0.50
27 5 0.23
28 6 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATTTATATAATAATAAATTTACA
Found at i:909318 original size:30 final size:30
Alignment explanation
Indices: 909284--909340 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
909274 AATAAATAAG
909284 ATTTACAA-AATTTAATATAATAATAAATTT
1 ATTTA-AATAATTTAATATAATAATAAATTT
*
909314 ATTTAAATAATTTAATATAATGATAAA
1 ATTTAAATAATTTAATATAATAATAAA
909341 ATTTTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (30 bp):
ATTTAAATAATTTAATATAATAATAAATTT
Found at i:909344 original size:27 final size:27
Alignment explanation
Indices: 909271--909344 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 27
909261 AAATAAATTT
*
909271 TATAATAAATAAGATTTACAAAATTTAA
1 TATAAT-AATAAAATTTACAAAATTTAA
909299 TATAATAATAAATTTATTTA-AATAATTTAA
1 TATAATAATAAA---ATTTACAA-AATTTAA
*
909329 TATAATGATAAAATTT
1 TATAATAATAAAATTT
909345 TATATAACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 9 0.22
28 6 0.15
29 2 0.05
30 23 0.57
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (27 bp):
TATAATAATAAAATTTACAAAATTTAA
Found at i:910151 original size:31 final size:31
Alignment explanation
Indices: 910096--910158 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
910086 TTATAAAATG
*
910096 GCCATTGAACTATTCGAAAATTTTTATTTAA
1 GCCACTGAACTATTCGAAAATTTTTATTTAA
* * *
910127 GCCACTGAATTATTCGAGATTTTTTATTTAA
1 GCCACTGAACTATTCGAAAATTTTTATTTAA
910158 G
1 G
910159 TTAATGAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (31 bp):
GCCACTGAACTATTCGAAAATTTTTATTTAA
Found at i:911113 original size:14 final size:14
Alignment explanation
Indices: 911096--911136 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
911086 TGATATTTTA
911096 TAATAAAAATTATT
1 TAATAAAAATTATT
911110 TAAT-AAAATT-TT
1 TAATAAAAATTATT
*
911122 CAATAAAAATATATT
1 TAATAAAAAT-TATT
911137 AAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 5 0.22
13 11 0.48
14 5 0.22
15 2 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAAAAATTATT
Found at i:911149 original size:23 final size:23
Alignment explanation
Indices: 911123--911173 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
911113 TAAAATTTTC
911123 AATAAAAATATA-TTAAAATAATA
1 AATAAAAAT-TACTTAAAATAATA
**
911146 AATAAAAATTACTTATCATAATA
1 AATAAAAATTACTTAAAATAATA
911169 AATAA
1 AATAA
911174 TAGGTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAAATTACTTAAAATAATA
Found at i:911449 original size:48 final size:49
Alignment explanation
Indices: 911394--911487 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
911384 GGGCCTCGGG
*
911394 CACCACTTTTTTGGCCCG-GGCCCAGCCCGAATATAATAAATATATGTT
1 CACCACTTTTTTGGCCAGCGGCCCAGCCCGAATATAATAAATATATGTT
*
911442 CACCACTTTTTTGGCCAGCGGCCCGGCCCGAATATAATAAATATAT
1 CACCACTTTTTTGGCCAGCGGCCCAGCCCGAATATAATAAATATAT
911488 TTTTTATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 17 0.40
49 26 0.60
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (49 bp):
CACCACTTTTTTGGCCAGCGGCCCAGCCCGAATATAATAAATATATGTT
Done.