Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 12 of 195
Found at i:2616746 original size:21 final size:21
Alignment explanation
Indices: 2616722--2616762 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2616712 TCATATTTCT
2616722 TTTTTTGAATA-TTTAAAATTC
1 TTTTTT-AATATTTTAAAATTC
*
2616743 TTTTTTTATATTTTAAAATT
1 TTTTTTAATATTTTAAAATT
2616763 ATGTTAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTAATATTTTAAAATTC
Found at i:2616823 original size:18 final size:19
Alignment explanation
Indices: 2616786--2616823 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2616776 GATATTAAAA
* *
2616786 ATAATAAAATTTTAATTTT
1 ATAATAAAATTTAAAATTT
2616805 ATAA-AAAATTTAAAATTT
1 ATAATAAAATTTAAAATTT
2616823 A
1 A
2616824 ACATTAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATAAAATTTAAAATTT
Found at i:2618681 original size:41 final size:41
Alignment explanation
Indices: 2618624--2618705 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
2618614 GGGGAAAGCA
2618624 GATTGGGACAACGTTCAAAATTTTCACGTCTTATGCTACAC
1 GATTGGGACAACGTTCAAAATTTTCACGTCTTATGCTACAC
2618665 GATTGGGACAACGTTCAAAATTTTCACGTCTTATGCTACAC
1 GATTGGGACAACGTTCAAAATTTTCACGTCTTATGCTACAC
2618706 TACTCAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (41 bp):
GATTGGGACAACGTTCAAAATTTTCACGTCTTATGCTACAC
Found at i:2620372 original size:21 final size:22
Alignment explanation
Indices: 2620343--2620384 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2620333 GGTTTTTGAG
*
2620343 TTTCAGATTTTGAGATTTAGGA
1 TTTCAGATTTTAAGATTTAGGA
*
2620365 TTTC-GATTTTAAGGTTTAGG
1 TTTCAGATTTTAAGATTTAGG
2620385 GTTAGTGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.48
Consensus pattern (22 bp):
TTTCAGATTTTAAGATTTAGGA
Found at i:2620572 original size:3 final size:3
Alignment explanation
Indices: 2620564--2620621 Score: 64
Period size: 3 Copynumber: 18.3 Consensus size: 3
2620554 TAATGAAGAT
*
2620564 TTA TTA TTA TTA TTA TTA TTA TCTA TTA TTA TTTA TTTA TTCA -TC TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA -TTA TT-A TTA TTA
2620612 TTA TTA TTA T
1 TTA TTA TTA T
2620622 ATTTTGATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
3 38 0.78
4 11 0.22
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2620956 original size:19 final size:20
Alignment explanation
Indices: 2620912--2620956 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
2620902 CAAGAATAAT
*
2620912 AAAAA-TAATAATATAAAAA
1 AAAAATTAAAAATATAAAAA
2620931 AAAAATTAAAAAT-TAAAAA
1 AAAAATTAAAAATATAAAAA
2620950 AAAAATT
1 AAAAATT
2620957 TTTTTACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATTAAAAATATAAAAA
Found at i:2622567 original size:106 final size:105
Alignment explanation
Indices: 2622431--2622724 Score: 376
Period size: 106 Copynumber: 2.8 Consensus size: 105
2622421 CCATGAGTCA
* *
2622431 AGAAAATA-AAAAGACCGAGATTAAATCGTAAGTCAAAAAAATAATGAGGATCGGGATTAAACCA
1 AGAAAATAGAAAAGATCGAGATTAAATCGTAAGTCAAAGAAATAATGAGGATCGGGATTAAACCA
* *
2622495 TGAGTTAAAGATTAAAGATGACTGGGACTAAATCGCAAGTT
66 TGAGTCAAAGATTAAAGACGACTGGGACTAAATCGCAAG-T
* * * * *
2622536 AGAAAATAGAAATGATCGAGATTAAACCGTAAGTCAGAGAAATAATGAGGATAGGGATTAAATCA
1 AGAAAATAGAAAAGATCGAGATTAAATCGTAAGTCAAAGAAATAATGAGGATCGGGATTAAACCA
* *
2622601 TGAGTCAAAGATTAAATACGACTGGGACTAAATCGTAAGT
66 TGAGTCAAAGATTAAAGACGACTGGGACTAAATCGCAAGT
* ** * * * *
2622641 AAAAAATTAGAAGCGATCGGGATTAAATCGTAAGTCATAGAAATAATGAGGATCGAGATTAAA-T
1 AGAAAA-TAGAAAAGATCGAGATTAAATCGTAAGTCAAAGAAATAATGAGGATCGGGATTAAACC
*
2622705 AGCGAGTCAAAGATTAAAGA
65 A-TGAGTCAAAGATTAAAGA
2622725 GGATCAGGAT
Statistics
Matches: 164, Mismatches: 22, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
105 15 0.09
106 149 0.91
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.21
Consensus pattern (105 bp):
AGAAAATAGAAAAGATCGAGATTAAATCGTAAGTCAAAGAAATAATGAGGATCGGGATTAAACCA
TGAGTCAAAGATTAAAGACGACTGGGACTAAATCGCAAGT
Found at i:2622720 original size:19 final size:18
Alignment explanation
Indices: 2622696--2622757 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
2622686 ATGAGGATCG
2622696 AGATTAAATAGCGAGTCAA
1 AGATTAAATAG-GAGTCAA
*
2622715 AGATTAAAGAGGA-TC-A
1 AGATTAAATAGGAGTCAA
* *
2622731 GGATTAAATCGTGAGTCAA
1 AGATTAAATAG-GAGTCAA
*
2622750 ATATTAAA
1 AGATTAAA
2622758 GACGACTGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 9 0.26
17 4 0.12
18 4 0.12
19 17 0.50
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (18 bp):
AGATTAAATAGGAGTCAA
Found at i:2622736 original size:35 final size:35
Alignment explanation
Indices: 2622688--2622759 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
2622678 TAGAAATAAT
2622688 GAGGATCGAGATTAAATAGCGAGTCAAAGATTAAA
1 GAGGATCGAGATTAAATAGCGAGTCAAAGATTAAA
* * *
2622723 GAGGATC-AGGATTAAATCGTGAGTCAAATATTAAA
1 GAGGATCGA-GATTAAATAGCGAGTCAAAGATTAAA
2622758 GA
1 GA
2622760 CGACTGAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 32 0.97
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.22
Consensus pattern (35 bp):
GAGGATCGAGATTAAATAGCGAGTCAAAGATTAAA
Found at i:2629836 original size:26 final size:25
Alignment explanation
Indices: 2629788--2629837 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2629778 TTTGTCTCTT
*
2629788 TTTTTAATTTTTAATAATTAATTTA
1 TTTTTAATTTTTAATAATCAATTTA
2629813 TTTTTAA-TTTTAATTAAATCAATTT
1 TTTTTAATTTTTAA-T-AATCAATTT
2629838 TATTGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTAATTTTTAATAATCAATTTA
Found at i:2631693 original size:24 final size:26
Alignment explanation
Indices: 2631661--2631726 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 26
2631651 AAACAGAATT
*
2631661 CTCAAGTCTTGGTCTTTTTC-T-ACA
1 CTCAAGTCTTGGTCTTTTTCTTGAAA
2631685 CTCAAGTCTTGGTC-TTTTCTTGAAA
1 CTCAAGTCTTGGTCTTTTTCTTGAAA
*
2631710 CTCAAGTCTTAGTCTTT
1 CTCAAGTCTTGGTCTTT
2631727 ATATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 5 0.14
24 15 0.41
25 15 0.41
26 2 0.05
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (26 bp):
CTCAAGTCTTGGTCTTTTTCTTGAAA
Found at i:2644961 original size:22 final size:21
Alignment explanation
Indices: 2644920--2644963 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
2644910 TATAATTTAA
2644920 GATTTTAAAAATAGTTATAAAT
1 GATTTTAAAAATA-TTATAAAT
2644942 GATTTTAATAAAT-TTAATAAAT
1 GATTTTAA-AAATATT-ATAAAT
2644964 TTATTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
GATTTTAAAAATATTATAAAT
Found at i:2645454 original size:20 final size:20
Alignment explanation
Indices: 2645411--2645455 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
2645401 TATAAGAAAG
*
2645411 ATATCATGAGTTCATTTAAT
1 ATATCATGAGTTCAGTTAAT
2645431 ATATCATGAGTTCGAGTTGAAT
1 ATATCATGAGTTC-AGTT-AAT
2645453 ATA
1 ATA
2645456 AATTGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 3 0.14
22 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (20 bp):
ATATCATGAGTTCAGTTAAT
Found at i:2645502 original size:15 final size:15
Alignment explanation
Indices: 2645478--2645509 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2645468 ATATTTTATT
2645478 ATTTAAATAAATAAA
1 ATTTAAATAAATAAA
*
2645493 ATTTATATAAATAAA
1 ATTTAAATAAATAAA
2645508 AT
1 AT
2645510 AAATTTTTTA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTTAAATAAATAAA
Found at i:2645648 original size:16 final size:16
Alignment explanation
Indices: 2645618--2645647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2645608 TAGGAAGCTA
2645618 AATTCTTTTCTTTTTC
1 AATTCTTTTCTTTTTC
2645634 AATTCTTTT-TTTTT
1 AATTCTTTTCTTTTT
2645648 TTTCAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (16 bp):
AATTCTTTTCTTTTTC
Found at i:2648080 original size:15 final size:16
Alignment explanation
Indices: 2648044--2648082 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
2648034 CATTATATAT
*
2648044 TTAAAATTATCAAATA
1 TTAAAATTATCAAACA
2648060 TT-AAATTAT-AAACA
1 TTAAAATTATCAAACA
2648074 TTAAAATTA
1 TTAAAATTA
2648083 AAATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 13 0.62
16 2 0.10
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAATTATCAAACA
Found at i:2650574 original size:29 final size:29
Alignment explanation
Indices: 2650541--2650599 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2650531 ATGATTCAAA
2650541 CTTTTACATAGTGTTTTAATGAAGCATCT
1 CTTTTACATAGTGTTTTAATGAAGCATCT
*
2650570 CTTTTACATGGTGTTTTAATGAAGCATCT
1 CTTTTACATAGTGTTTTAATGAAGCATCT
2650599 C
1 C
2650600 ATGAAAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (29 bp):
CTTTTACATAGTGTTTTAATGAAGCATCT
Found at i:2659247 original size:22 final size:22
Alignment explanation
Indices: 2659169--2659263 Score: 68
Period size: 22 Copynumber: 4.3 Consensus size: 22
2659159 TAAGCTGAGT
*
2659169 TCATTTA-TAATA-GTTATTAA
1 TCATTTATTATTATGTTATTAA
* * * * *
2659189 TTAGTTGTTGTTATGTTATTGA
1 TCATTTATTATTATGTTATTAA
* * * *
2659211 TAAATTACTACTATGTTATTAA
1 TCATTTATTATTATGTTATTAA
2659233 TCATTTATTATTATGTTATTTATA
1 TCATTTATTATTATGTTA-TTA-A
2659257 TCATTTA
1 TCATTTA
2659264 CTAACGATAT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
20 4 0.07
21 3 0.06
22 36 0.67
23 3 0.06
24 8 0.15
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (22 bp):
TCATTTATTATTATGTTATTAA
Found at i:2669906 original size:21 final size:21
Alignment explanation
Indices: 2669881--2669921 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2669871 AATTAAATGT
2669881 ATAAAATTTGAAAAAATTTTA
1 ATAAAATTTGAAAAAATTTTA
* * *
2669902 ATAAATTTTTAAATAATTTT
1 ATAAAATTTGAAAAAATTTT
2669922 TAAATAGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATAAAATTTGAAAAAATTTTA
Found at i:2687190 original size:6 final size:6
Alignment explanation
Indices: 2687176--2687215 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
2687166 AGAGTTATTG
*
2687176 TTGGTT TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT TTGG
1 TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT TTGGCT TTGG
2687216 GGTGGTTGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.12, G:0.35, T:0.53
Consensus pattern (6 bp):
TTGGCT
Found at i:2690429 original size:20 final size:20
Alignment explanation
Indices: 2690404--2690478 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
2690394 TAAAAATAAT
2690404 TTTTATAATTATTTATTTAA
1 TTTTATAATTATTTATTTAA
2690424 TTTTATAATTA-TT-TTTATA
1 TTTTATAATTATTTATTTA-A
*
2690443 TATTTAT-A-TATATATTTAA
1 T-TTTATAATTATTTATTTAA
*
2690462 TTTTATATTTATATTAT
1 TTTTATAATTAT-TTAT
2690479 AAATAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
18 11 0.24
19 8 0.18
20 23 0.51
21 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATAATTATTTATTTAA
Found at i:2690454 original size:12 final size:12
Alignment explanation
Indices: 2690405--2690479 Score: 53
Period size: 12 Copynumber: 7.0 Consensus size: 12
2690395 AAAAATAATT
2690405 TTTATA-AT-TA
1 TTTATATATATA
*
2690415 TTTATTTA-AT-
1 TTTATATATATA
2690425 TTTATA-AT-TA
1 TTTATATATATA
2690435 TTT-T-TATATA
1 TTTATATATATA
2690445 TTTATATATATA
1 TTTATATATATA
*
2690457 TTTA-ATTTTATA
1 TTTATA-TATATA
2690469 TTTATAT-TATA
1 TTTATATATATA
2690480 AATAATATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
9 5 0.10
10 18 0.35
11 8 0.15
12 20 0.38
13 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTATATATATA
Found at i:2691822 original size:19 final size:20
Alignment explanation
Indices: 2691798--2691841 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2691788 CTCAAATTTA
2691798 ATAAAATATTA-TTTTAAAT
1 ATAAAATATTATTTTTAAAT
*
2691817 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTAAAT
2691837 ATAAA
1 ATAAA
2691842 TATAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:2691842 original size:19 final size:18
Alignment explanation
Indices: 2691794--2691844 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
2691784 CCAACTCAAA
2691794 TTTAATA-AAATATTATT
1 TTTAATATAAATATTATT
*
2691811 TTAAATATAAAATATTATTT
1 TTTAATAT-AAATATTA-TT
2691831 TTTAATATAAATAT
1 TTTAATATAAATAT
2691845 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 6 0.21
19 14 0.48
20 9 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAATATAAATATTATT
Found at i:2691858 original size:16 final size:16
Alignment explanation
Indices: 2691832--2691891 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
2691822 ATATTATTTT
2691832 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
2691849 TTAAATAAATAT----
1 TTAAATAAATATAAAA
2691861 TT--ATAAATATAAAA
1 TTAAATAAATATAAAA
2691875 TTAAATAAATATTAAAA
1 TTAAATAAATA-TAAAA
2691892 ATAATTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
10 8 0.22
12 2 0.06
14 2 0.06
16 15 0.42
17 9 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:2691865 original size:26 final size:26
Alignment explanation
Indices: 2691836--2691887 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2691826 TATTTTTTAA
2691836 TATAAATATAAAATTAAATAAATATT
1 TATAAATATAAAATTAAATAAATATT
2691862 TATAAATATAAAATTAAATAAATATT
1 TATAAATATAAAATTAAATAAATATT
2691888 AAAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TATAAATATAAAATTAAATAAATATT
Found at i:2691903 original size:17 final size:18
Alignment explanation
Indices: 2691855--2691906 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
2691845 AAAATTAAAT
* *
2691855 AAATATTTATAAATATAA
1 AAATAATTATATATATAA
* * *
2691873 AATTAAATAAATAT-TAA
1 AAATAATTATATATATAA
2691890 AAATAATTATATATATA
1 AAATAATTATATATATA
2691907 TATATATCCA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAATTATATATATAA
Found at i:2716069 original size:28 final size:26
Alignment explanation
Indices: 2716025--2716088 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
2716015 AATTATCAAT
*
2716025 AATTTTATAATTTATTAATAAAAAATTA
1 AATTTTA-ATTTTATT-ATAAAAAATTA
* *
2716053 AATTTTAATTTTGATTATCAAAATTTA
1 AATTTTAATTTT-ATTATAAAAAATTA
*
2716080 AATTCTAAT
1 AATTTTAAT
2716089 AATGATCGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 21 0.68
28 10 0.32
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTTTAATTTTATTATAAAAAATTA
Found at i:2727307 original size:17 final size:17
Alignment explanation
Indices: 2727287--2727335 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
2727277 AAGAAATAAA
2727287 AAAATTAAAATTAATTT
1 AAAATTAAAATTAATTT
2727304 AAAATTATAATATTCAATTT
1 AAAATTA-AA-ATT-AATTT
*
2727324 -AAATTAATATTA
1 AAAATTAAAATTA
2727336 TTATTCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 3 0.11
19 9 0.32
20 5 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTAAAATTAATTT
Found at i:2727337 original size:20 final size:20
Alignment explanation
Indices: 2727287--2727326 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2727277 AAGAAATAAA
2727287 AAAATTA-AA-ATT-AATTT
1 AAAATTATAATATTCAATTT
2727304 AAAATTATAATATTCAATTT
1 AAAATTATAATATTCAATTT
2727324 AAA
1 AAA
2727327 TTAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 3 0.15
20 8 0.40
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTATAATATTCAATTT
Found at i:2728678 original size:20 final size:20
Alignment explanation
Indices: 2728645--2728684 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2728635 GAATTTTGGG
* *
2728645 TTTTTTTTTTTTTGGTACAA
1 TTTTTGTTTGTTTGGTACAA
*
2728665 TTTTTGTTTGTTTGTTACAA
1 TTTTTGTTTGTTTGGTACAA
2728685 ATTGTTAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTTGTTTGTTTGGTACAA
Found at i:2731585 original size:10 final size:10
Alignment explanation
Indices: 2731570--2731599 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2731560 ATCAAAATTT
2731570 TATATTTTAA
1 TATATTTTAA
2731580 TATATTTTAA
1 TATATTTTAA
2731590 T-TATTTTAA
1 TATATTTTAA
2731599 T
1 T
2731600 TGATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:2733036 original size:1 final size:1
Alignment explanation
Indices: 2733030--2733063 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
2733020 TATTGTTAGG
2733030 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2733064 CTGATTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2733759 original size:12 final size:12
Alignment explanation
Indices: 2733738--2733772 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2733728 TTTATAATTT
*
2733738 ATAATTTATATC
1 ATAATTTATATA
*
2733750 ATATTTTATATA
1 ATAATTTATATA
2733762 ATAATTTATAT
1 ATAATTTATAT
2733773 TAGTATGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
ATAATTTATATA
Found at i:2733810 original size:21 final size:22
Alignment explanation
Indices: 2733786--2733834 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
2733776 TATGAAAATA
* *
2733786 TAAAATAAAATTTTA-TTTTAT
1 TAAAATAAAATGTAATTTTTAT
*
2733807 TAAAATAATATGTAATTTTTAT
1 TAAAATAAAATGTAATTTTTAT
2733829 TAAAAT
1 TAAAAT
2733835 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAAATAAAATGTAATTTTTAT
Found at i:2735966 original size:28 final size:25
Alignment explanation
Indices: 2735911--2735967 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
2735901 GTAAAATGAC
* *
2735911 TTTATTATTTTTATATCTCTAAACT
1 TTTATTATTTTTATATATCTAAAAT
*
2735936 TTTATTATTATTATATATATTTAAATAT
1 TTTATTATT-TT-TATATATCTAAA-AT
2735964 TTTA
1 TTTA
2735968 ATTTATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 10 0.38
28 5 0.19
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTATTATTTTTATATATCTAAAAT
Found at i:2751435 original size:2 final size:2
Alignment explanation
Indices: 2751394--2751425 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2751384 AAAAAAAGGA
*
2751394 CT CT CA 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
2751426 TTAACTCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:2753555 original size:27 final size:27
Alignment explanation
Indices: 2753524--2753578 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
2753514 ACTTATAAGT
*
2753524 TTTATATAAAATTTTAATTTA-ATAAAA
1 TTTATAT-AAATTTTAAATTATATAAAA
*
2753551 TTTATATAATTTTTAAATTATATAAAA
1 TTTATATAAATTTTAAATTATATAAAA
2753578 T
1 T
2753579 CAATTGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTATATAAATTTTAAATTATATAAAA
Found at i:2753562 original size:25 final size:27
Alignment explanation
Indices: 2753528--2753578 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
2753518 ATAAGTTTTA
*
2753528 TATAAAA-TTTTAATTTA-ATAAAATT
1 TATAAAATTTTTAAATTATATAAAATT
*
2753553 TATATAATTTTTAAATTATATAAAAT
1 TATAAAATTTTTAAATTATATAAAAT
2753579 CAATTGTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 9 0.41
27 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATAAAATTTTTAAATTATATAAAATT
Found at i:2754165 original size:2 final size:2
Alignment explanation
Indices: 2754158--2754204 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2754148 CATGCATGGT
2754158 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2754200 TC TC T
1 TC TC T
2754205 TCCATTTTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2755288 original size:6 final size:6
Alignment explanation
Indices: 2755277--2755302 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2755267 CAACCCAAAG
2755277 CCGAAA CCGAAA CCGAAA CCGAAA CC
1 CCGAAA CCGAAA CCGAAA CCGAAA CC
2755303 AAAATCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.38, G:0.15, T:0.00
Consensus pattern (6 bp):
CCGAAA
Found at i:2756406 original size:41 final size:41
Alignment explanation
Indices: 2756350--2756433 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
2756340 CTTTAATATT
*
2756350 TTTTTTAAATTATTTTGATCATTAAATCAAATAACCCAAAA
1 TTTTTTAAATTATTTTGATCACTAAATCAAATAACCCAAAA
*
2756391 TTTTTTAAATTATTTTGATCACTAAATTAAATAACCCAAAA
1 TTTTTTAAATTATTTTGATCACTAAATCAAATAACCCAAAA
2756432 TT
1 TT
2756434 GTTAAAATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (41 bp):
TTTTTTAAATTATTTTGATCACTAAATCAAATAACCCAAAA
Found at i:2758651 original size:16 final size:16
Alignment explanation
Indices: 2758611--2758703 Score: 68
Period size: 16 Copynumber: 5.9 Consensus size: 16
2758601 TTTACTTATA
*
2758611 AATAATATTATATA--
1 AATAATATAATATACT
2758625 AATAA-ATAATATACT
1 AATAATATAATATACT
* *
2758640 ATTAATATAATATATT
1 AATAATATAATATACT
* *
2758656 AATAATATGATTAATTAAT
1 AATAATAT-AAT-A-TACT
* *
2758675 AATATTATAATATATT
1 AATAATATAATATACT
2758691 AATAA-ATAATATA
1 AATAATATAATATA
2758704 AAGAATAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
13 7 0.11
14 5 0.08
15 12 0.19
16 23 0.37
17 3 0.05
18 3 0.05
19 10 0.16
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
AATAATATAATATACT
Found at i:2758691 original size:19 final size:19
Alignment explanation
Indices: 2758645--2758695 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 19
2758635 ATACTATTAA
2758645 TATAATATATTAATAATAT
1 TATAATATATTAATAATAT
*
2758664 GAT--TA-ATTAATAATAT
1 TATAATATATTAATAATAT
2758680 TATAATATATTAATAA
1 TATAATATATTAATAA
2758696 ATAATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 13 0.48
17 2 0.07
18 2 0.07
19 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TATAATATATTAATAATAT
Found at i:2758711 original size:35 final size:35
Alignment explanation
Indices: 2758645--2758713 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
2758635 ATACTATTAA
* **
2758645 TATAATATATTAATAATATGATTAATTAATAATAT
1 TATAATATATTAATAATATAATTAAAGAATAATAT
2758680 TATAATATATTAATAA-ATAATATAAAGAATAATA
1 TATAATATATTAATAATATAAT-TAAAGAATAATA
2758714 ACTGGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (35 bp):
TATAATATATTAATAATATAATTAAAGAATAATAT
Found at i:2758810 original size:15 final size:15
Alignment explanation
Indices: 2758790--2758830 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
2758780 TATAATTATT
*
2758790 TTTTAATATTAATAA
1 TTTTAATATAAATAA
2758805 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
2758821 TTTCAATATA
1 TTTTAATATA
2758831 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:2758828 original size:25 final size:25
Alignment explanation
Indices: 2758804--2758862 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
2758794 AATATTAATA
2758804 ATTTTAATAATAAAT-AATTTCAAT
1 ATTTTAATAATAAATCAATTTCAAT
* *
2758828 ATATTTAATAATAAATCATTTTTAAT
1 AT-TTTAATAATAAATCAATTTCAAT
2758854 ATTTTAATA
1 ATTTTAATA
2758863 GTTATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 20 0.65
26 9 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTTAATAATAAATCAATTTCAAT
Found at i:2764279 original size:3 final size:3
Alignment explanation
Indices: 2764271--2764299 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2764261 AGGGACTTAA
2764271 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
2764300 AGTACTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:2773599 original size:3 final size:3
Alignment explanation
Indices: 2773593--2773681 Score: 54
Period size: 3 Copynumber: 29.3 Consensus size: 3
2773583 CTTTTTTCAT
* * * * * *
2773593 TTA TTA TTA TTA TTT TTA -TA TAA TTAA TAA TTA TTT TTT TTAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT-A TTA
* * ** *
2773639 TTA TTA TTT TTA TTA CTA TTA TTA TTA AAA TTA TTA ATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
2773682 ACTGAAATAA
Statistics
Matches: 63, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2773637 original size:16 final size:16
Alignment explanation
Indices: 2773616--2773674 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 16
2773606 TTTTATATAA
*
2773616 TTAATAATTATTTTTT
1 TTAATAATTATTATTT
2773632 TTAATAATTATTATTT
1 TTAATAATTATTATTT
* * *
2773648 TT-ATTACTATTATTA
1 TTAATAATTATTATTT
2773663 TTAA-AATTATTA
1 TTAATAATTATTA
2773675 ATATTATACT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
15 18 0.50
16 18 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATAATTATTATTT
Found at i:2774047 original size:21 final size:21
Alignment explanation
Indices: 2774018--2774060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2774008 ACCACGAATC
*
2774018 AAAATTATGCCCGGAGGTCTT
1 AAAAATATGCCCGGAGGTCTT
**
2774039 AAAAATATGCTTGGAGGTCTT
1 AAAAATATGCCCGGAGGTCTT
2774060 A
1 A
2774061 CAGAATCGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (21 bp):
AAAAATATGCCCGGAGGTCTT
Found at i:2774197 original size:110 final size:110
Alignment explanation
Indices: 2773920--2774271 Score: 512
Period size: 109 Copynumber: 3.2 Consensus size: 110
2773910 AATCATGTCT
* *
2773920 GGAGGTCTTAAGAAA-CATG-TCCGAAAGTCTTACAGAATCGACTGGGATAACACCGTAAGTAAA
1 GGAGGTCTTAA-AAATCATGCT-TGAAGGTCTTACAGAATCGACTGGGATAACACCGTAAGTAAA
2773983 AAAATAACGAATCAATCGGGATAACACCACGAATCAAAATTATGCCC
64 AAAATAACGAATCAATCGGGATAACACCACGAATCAAAATTATGCCC
*
2774030 GGAGGTCTTAAAAAT-ATGCTTGGAGGTCTTACAGAATCGACTGGGATAACACCGTAAGTAAAAA
1 GGAGGTCTTAAAAATCATGCTTGAAGGTCTTACAGAATCGACTGGGATAACACCGTAAGTAAAAA
2774094 AATAACGAATCAATCGGGATAACACCACGAATCAAAATTATGCCC
66 AATAACGAATCAATCGGGATAACACCACGAATCAAAATTATGCCC
* *
2774139 GGAGGTCTTAAAAATCATGCTTGAAGGTCTTACAGAATCGACTGGGATAACACAGTAAGTCAAAA
1 GGAGGTCTTAAAAATCATGCTTGAAGGTCTTACAGAATCGACTGGGATAACACCGTAAGTAAAAA
** * ** ** *
2774204 AATAAAAAAATCGATTAGGATAACACTGCGAATCAAAATTATATACCC
66 AAT-AACGAATCAATCGGGATAACACCACGAATCAAAA-T-TATGCCC
*
2774252 GGATGTCTTAAAAATCATGC
1 GGAGGTCTTAAAAATCATGC
2774272 CGGAGGGTCT
Statistics
Matches: 221, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
109 107 0.48
110 61 0.28
111 27 0.12
112 1 0.00
113 25 0.11
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (110 bp):
GGAGGTCTTAAAAATCATGCTTGAAGGTCTTACAGAATCGACTGGGATAACACCGTAAGTAAAAA
AATAACGAATCAATCGGGATAACACCACGAATCAAAATTATGCCC
Found at i:2774302 original size:22 final size:23
Alignment explanation
Indices: 2774256--2774311 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
2774246 ATACCCGGAT
*
2774256 GTCTT-AAAAATCATGCCGGAGG
1 GTCTTAAAAAATCATGCCGGAAG
2774278 GTCTTAAAAAATC-TGTCC-GAAG
1 GTCTTAAAAAATCATG-CCGGAAG
*
2774300 GTCTTACAAAAT
1 GTCTTAAAAAAT
2774312 TGACTAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (23 bp):
GTCTTAAAAAATCATGCCGGAAG
Found at i:2774458 original size:88 final size:87
Alignment explanation
Indices: 2774296--2774466 Score: 229
Period size: 88 Copynumber: 2.0 Consensus size: 87
2774286 AAATCTGTCC
* * * *
2774296 GAAGGTCTTACAAAATTGACTAGGATAACACCGCAGTTAAAAAATAAAGAATCGATCGAGATAAC
1 GAAGGTCTTACAAAATCGACTAGGATAACACCGAAGTCAAAAAATAAAAAATCGATCGAGATAAC
2774361 ATCACGAATCAAAATTATACCT
66 ATCACGAATCAAAATTATACCT
* * *
2774383 GAAGGTCTTACAGAATCGATTGGGATAACACCGTAAGTCAAAAAATAAAAAATCGATC-AGGATA
1 GAAGGTCTTACAAAATCGACTAGGATAACACCG-AAGTCAAAAAATAAAAAATCGATCGA-GATA
*
2774447 ACAT-AGTGAATCAAAATTAT
64 ACATCA-CGAATCAAAATTAT
2774467 GTCCAGAGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 31 0.42
88 42 0.58
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.22
Consensus pattern (87 bp):
GAAGGTCTTACAAAATCGACTAGGATAACACCGAAGTCAAAAAATAAAAAATCGATCGAGATAAC
ATCACGAATCAAAATTATACCT
Found at i:2774494 original size:22 final size:22
Alignment explanation
Indices: 2774460--2774502 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2774450 TAGTGAATCA
* *
2774460 AAATTATGTCCAGAGGTCTTAG
1 AAATCATGCCCAGAGGTCTTAG
2774482 AAATCATGCCCAGAGGTCTTA
1 AAATCATGCCCAGAGGTCTTA
2774503 CAGAATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (22 bp):
AAATCATGCCCAGAGGTCTTAG
Found at i:2774611 original size:133 final size:133
Alignment explanation
Indices: 2774373--2774772 Score: 518
Period size: 131 Copynumber: 3.0 Consensus size: 133
2774363 CACGAATCAA
* * * * *
2774373 AATTATACCTGAAGGTCTTACAGAATCGATTGGGATAACACCGTAAGTCAAAAAATAAAAAATCG
1 AATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCG
* ** *
2774438 ATCAGGATAACATAGTGAATCAAAATTATGTCCAGAGGTCTTAGAAATCATGCCC-AGAGGTCTT
66 ATCGGGATAACACCGTGAATCAAAATTATGTCCAGAGGTCTTAGAAATCATACCCGA-AGGTCTT
2774502 ACAG
130 ACAG
** * * * *
2774506 AATTATGTTCGAAGGTCTTACAGAATCAACTGGGATAACACCGCAAGTCGAAAGATAAGAAATTG
1 AATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCG
** * * *
2774571 ATCGGGATAACACCGTGAATTGAAATTATGCCCGGAGGTCTTAGAAATCATACTCGAAGGTCTTA
66 ATCGGGATAACACCGTGAATCAAAATTATGTCCAGAGGTCTTAGAAATCATACCCGAAGGTCTTA
2774636 -A-
131 CAG
* * * * *
2774637 AAATCTGCCCGAAGGTCTTATAGAATCGACTGGGATAACACCGCAAGTTAAAAAATAAGGAATCG
1 AATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCG
* * *
2774702 ATCGAGATAACACCGTGAATCAAAATTATGTCTAGAGGTCTTAGAAATCATACCCGAAGATCTTA
66 ATCGGGATAACACCGTGAATCAAAATTATGTCCAGAGGTCTTAGAAATCATACCCGAAGGTCTTA
2774767 CAG
131 CAG
2774770 AAT
1 AAT
2774773 CGACTGGGAT
Statistics
Matches: 224, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
131 111 0.50
132 2 0.01
133 110 0.49
134 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (133 bp):
AATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCG
ATCGGGATAACACCGTGAATCAAAATTATGTCCAGAGGTCTTAGAAATCATACCCGAAGGTCTTA
CAG
Found at i:2774612 original size:221 final size:221
Alignment explanation
Indices: 2774161--2774613 Score: 547
Period size: 221 Copynumber: 2.0 Consensus size: 221
2774151 AATCATGCTT
*
2774161 GAAGGTCTTACAGAATCGACTGGGATAACACAGTAAGTCAAAAAATAAAAAAATCGATTAGGATA
1 GAAGGTCTTACAGAATCGACTGGGATAACACAGTAAGTCAAAAAATAAAAAAATCGATCAGGATA
* * * *
2774226 ACACTGCGAATCAAAATTATATACCCGGATGTCTTAAAAATCATGCCGGAGGGTCTTAAAAAATC
66 ACACTGCGAATCAAAATTATATA-CCAGAGGTCTTAAAAATCATGCCAGAGGGTCTTAAAAAATA
** *
2774291 TGTCCGAAGGTCTTACAAAATTGACTAGGATAACACCGCAGTTAAAAAATAAAGAATCGATCGAG
130 TGTCCGAAGGTCTTACAAAATCAACTAGGATAACACCGCAGTCAAAAAATAAAGAATCGATCGAG
* *
2774356 ATAACATCACGAATCAAAATTATACCT
195 ATAACACCACGAATCAAAATTATACCC
* *
2774383 GAAGGTCTTACAGAATCGATTGGGATAACACCGTAAGTCAAAAAAT-AAAAAATCGATCAGGATA
1 GAAGGTCTTACAGAATCGACTGGGATAACACAGTAAGTCAAAAAATAAAAAAATCGATCAGGATA
* * * * *
2774447 ACA-TAGTGAATCAAAATTATGT-CCAGAGGTCTTAGAAATCATGCCCAGA-GGTCTTACAGAAT
66 ACACT-GCGAATCAAAATTATATACCAGAGGTCTTAAAAATCATG-CCAGAGGGTCTTA-AAAAA
* * * * * *
2774509 TATGTTCGAAGGTCTTACAGAATCAACTGGGATAACACCGCAAGTCGAAAGAT-AAGAAATTGAT
128 TATGTCCGAAGGTCTTACAAAATCAACTAGGATAACACCGC-AGTCAAAAAATAAAG-AATCGAT
* ** ** *
2774573 CGGGATAACACCGTGAATTGAAATTATGCCC
191 CGAGATAACACCACGAATCAAAATTATACCC
*
2774604 GGAGGTCTTA
1 GAAGGTCTTA
2774614 GAAATCATAC
Statistics
Matches: 196, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
219 25 0.13
220 46 0.23
221 81 0.41
222 44 0.22
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (221 bp):
GAAGGTCTTACAGAATCGACTGGGATAACACAGTAAGTCAAAAAATAAAAAAATCGATCAGGATA
ACACTGCGAATCAAAATTATATACCAGAGGTCTTAAAAATCATGCCAGAGGGTCTTAAAAAATAT
GTCCGAAGGTCTTACAAAATCAACTAGGATAACACCGCAGTCAAAAAATAAAGAATCGATCGAGA
TAACACCACGAATCAAAATTATACCC
Found at i:2774651 original size:21 final size:22
Alignment explanation
Indices: 2774593--2774656 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
2774583 CCGTGAATTG
* * *
2774593 AAATTATGCCCGGAGGTCTTAG
1 AAATCATGCCCGAAGGTCTTAA
* *
2774615 AAATCATACTCGAAGGTCTTAA
1 AAATCATGCCCGAAGGTCTTAA
2774637 AAATC-TGCCCGAAGGTCTTA
1 AAATCATGCCCGAAGGTCTTA
2774657 TAGAATCGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (22 bp):
AAATCATGCCCGAAGGTCTTAA
Found at i:2774834 original size:161 final size:161
Alignment explanation
Indices: 2774642--2774945 Score: 439
Period size: 161 Copynumber: 1.9 Consensus size: 161
2774632 CTTAAAAATC
* * *
2774642 TGCCCGAAGGTCTTATAGAATCGACTGGGATAACACCGCAAGTTAAAAAATAAGGAATCGATCGA
1 TGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCACAAGTTAAAAAATAAAGAATCGATCGA
*
2774707 GATAACACCGTGAATCAAAATTATG-TCTAGAGGTCTTAGAAATCATACCCGAAGATCTTACAGA
66 GATAACACCATGAATCAAAATTATGTTC-AGAGGTCTTAGAAATCATACCCGAAGATCTTACAGA
*
2774771 ATCGACTGGGATAATATCGCGAATCAAATTTA
130 ATCGACTAGGATAATATCGCGAATCAAATTTA
* * *
2774803 TGCCCGAAGGTCTTACAGAATCGATTGGGATAACATCACAAGTTAAAAGATAAAGAATCGATCGA
1 TGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCACAAGTTAAAAAATAAAGAATCGATCGA
* ** * * * * * *
2774868 GATAACATCATGAATTGAATTTATGTTCGGAGGTCTTAGAAATCATGCTCGAAGGTCTTATAGAA
66 GATAACACCATGAATCAAAATTATGTTCAGAGGTCTTAGAAATCATACCCGAAGATCTTACAGAA
2774933 TCGACTAGGATAA
131 TCGACTAGGATAA
2774946 CACCATAAGT
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
161 123 0.98
162 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (161 bp):
TGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCACAAGTTAAAAAATAAAGAATCGATCGA
GATAACACCATGAATCAAAATTATGTTCAGAGGTCTTAGAAATCATACCCGAAGATCTTACAGAA
TCGACTAGGATAATATCGCGAATCAAATTTA
Found at i:2775018 original size:110 final size:110
Alignment explanation
Indices: 2774802--2775044 Score: 270
Period size: 110 Copynumber: 2.2 Consensus size: 110
2774792 AATCAAATTT
* * * *
2774802 ATGCCCGAAGGTCTTACAGAATCGATTGGGATAACATCACAAGTTAAAAGATAAAGAATCGATCG
1 ATGCCCGAAGGTCTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
* * ** * *** * * *
2774867 AGATAACATCATGAATTGAATTTATGTTCGGAGGTCTTAGAAATC
66 AGATAACACCACGAATCAAAATTATACCCAGAGATCATAGAAATC
* * * * * *
2774912 ATGCTCGAAGGTCTTATAGAATCGACTAGGATAACACCATAAGTCGAAAGATAAAGAGTTGATCG
1 ATGCCCGAAGGTCTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
*
2774977 AGATAACACCCCGAATCAAAATTATACCCAGAGATCATAGAAATC
66 AGATAACACCACGAATCAAAATTATACCCAGAGATCATAGAAATC
* *
2775022 ATACCCGAAAGTCTTACAGAATC
1 ATGCCCGAAGGTCTTACAGAATC
2775045 ATGCTCGAAG
Statistics
Matches: 107, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (110 bp):
ATGCCCGAAGGTCTTACAGAATCGACTAGGATAACACCACAAGTCAAAAGATAAAGAATCGATCG
AGATAACACCACGAATCAAAATTATACCCAGAGATCATAGAAATC
Found at i:2775082 original size:22 final size:23
Alignment explanation
Indices: 2775056--2775104 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
2775046 TGCTCGAAGA
* *
2775056 TCTTAAAAG-TTTTGTCTGGAGG
1 TCTTAAAAGATTATGTCCGGAGG
*
2775078 TCTT-AGAGATTATGTCCGGAGG
1 TCTTAAAAGATTATGTCCGGAGG
2775100 TCTTA
1 TCTTA
2775105 CAGATTCGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (23 bp):
TCTTAAAAGATTATGTCCGGAGG
Found at i:2775109 original size:22 final size:22
Alignment explanation
Indices: 2775068--2775110 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2775058 TTAAAAGTTT
* *
2775068 TGTCTGGAGGTCTTAGAGATTA
1 TGTCCGGAGGTCTTACAGATTA
2775090 TGTCCGGAGGTCTTACAGATT
1 TGTCCGGAGGTCTTACAGATT
2775111 CGACTGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (22 bp):
TGTCCGGAGGTCTTACAGATTA
Found at i:2775504 original size:41 final size:41
Alignment explanation
Indices: 2775421--2775520 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 41
2775411 AGGTTCCTTC
* **
2775421 TAAACAGAGGCTTTAAAATCTTGATTAAAATTTGTATCTCT
1 TAAACAGAAGCTTTAAAATCTTGATTAAAATCGGTATCTCT
*
2775462 TAAACAGAAGCTTTAAAATCTTGATTGAGAA-CGGT-TCATCT
1 TAAACAGAAGCTTTAAAATCTTGATT-AAAATCGGTATC-TCT
*
2775503 TAAATAG-AGACTTTAAAA
1 TAAACAGAAG-CTTTAAAA
2775521 CTTTAAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 4 0.08
41 44 0.86
42 3 0.06
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (41 bp):
TAAACAGAAGCTTTAAAATCTTGATTAAAATCGGTATCTCT
Found at i:2775865 original size:15 final size:15
Alignment explanation
Indices: 2775845--2775874 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2775835 TGTCTTTCTT
*
2775845 GTGATGCAGATGCAA
1 GTGATGCAAATGCAA
2775860 GTGATGCAAATGCAA
1 GTGATGCAAATGCAA
2775875 AGACTCCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (15 bp):
GTGATGCAAATGCAA
Found at i:2782679 original size:15 final size:16
Alignment explanation
Indices: 2782661--2782694 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2782651 GATTTAAGGG
2782661 TTTGAATTTTAGGA-T
1 TTTGAATTTTAGGAGT
*
2782676 TTTGGATTTTAGGAGT
1 TTTGAATTTTAGGAGT
2782692 TTT
1 TTT
2782695 AAAAACCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.56
Consensus pattern (16 bp):
TTTGAATTTTAGGAGT
Found at i:2783744 original size:14 final size:14
Alignment explanation
Indices: 2783727--2783762 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2783717 ACTGTTTGTC
*
2783727 TTTTTTTGTTTCTA
1 TTTTTGTGTTTCTA
*
2783741 TTTTTGTGTTTCTG
1 TTTTTGTGTTTCTA
2783755 TTTTTGTG
1 TTTTTGTG
2783763 GTTGGTGTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.03, C:0.06, G:0.17, T:0.75
Consensus pattern (14 bp):
TTTTTGTGTTTCTA
Found at i:2784137 original size:26 final size:27
Alignment explanation
Indices: 2784082--2784138 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
2784072 CCCTACTTTC
* **
2784082 TATTTTTCTTTTTTTTTGTTATTTTGT
1 TATTTTGCTTTTTTTTTGTTATTTCAT
2784109 TATTTTGCTTTTTTTATT-TT-TTTCAT
1 TATTTTGCTTTTTTT-TTGTTATTTCAT
2784135 TATT
1 TATT
2784139 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 16 0.62
28 2 0.08
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (27 bp):
TATTTTGCTTTTTTTTTGTTATTTCAT
Found at i:2784165 original size:34 final size:34
Alignment explanation
Indices: 2784127--2784196 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
2784117 TTTTTTTATT
** *
2784127 TTTTTCATTATTATTTTTA-TATAATTAATAATTA
1 TTTTTCAAAATTATTATTATTATAATTAA-AATTA
* *
2784161 TTTTTTAAAATTATTATTATTATTATTAAAATTA
1 TTTTTCAAAATTATTATTATTATAATTAAAATTA
2784195 TT
1 TT
2784197 AATATTATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (34 bp):
TTTTTCAAAATTATTATTATTATAATTAAAATTA
Found at i:2795668 original size:32 final size:31
Alignment explanation
Indices: 2795603--2795675 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 31
2795593 TATATTTTAT
* *
2795603 ATTTTTATATCAATATAAATTATAATTCAAA
1 ATTTTTATATAAATATAAATTATAATACAAA
2795634 ATTTTTATATAAA-ATATAA-TATAAATACATAA
1 ATTTTTATATAAATATA-AATTAT-AATACA-AA
*
2795666 ATTTTAATAT
1 ATTTTTATAT
2795676 TTACATAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 6 0.17
31 19 0.53
32 11 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTTTTATATAAATATAAATTATAATACAAA
Found at i:2802616 original size:27 final size:27
Alignment explanation
Indices: 2802554--2802613 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
2802544 CATTTTATTA
* **
2802554 AAATCATATTTTATATTTTAATAGTTAG
1 AAATAATA-TTTATATTTTAATAAATAG
2802582 AAATAATATTTATATTTTAATAAATA-
1 AAATAATATTTATATTTTAATAAATAG
2802608 AAATAA
1 AAATAA
2802614 ATAATAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 16 0.55
28 7 0.24
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
AAATAATATTTATATTTTAATAAATAG
Found at i:2803309 original size:17 final size:17
Alignment explanation
Indices: 2803279--2803320 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2803269 AGTTTAAGTG
*
2803279 GATCAATTATAAAATT-
1 GATCAATTACAAAATTA
2803295 GATCTAATTACAAAATTA
1 GATC-AATTACAAAATTA
2803313 GATCAATT
1 GATCAATT
2803321 TCAACATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (17 bp):
GATCAATTACAAAATTA
Found at i:2808601 original size:11 final size:11
Alignment explanation
Indices: 2808587--2808623 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
2808577 TTTATATTTT
2808587 ATATTTATATC
1 ATATTTATATC
2808598 ATATTTATATC
1 ATATTTATATC
2808609 ATATTTATATC
1 ATATTTATATC
2808620 ATAT
1 ATAT
2808624 CATCATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTTATATC
Found at i:2811390 original size:2 final size:2
Alignment explanation
Indices: 2811377--2811408 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
2811367 GTAAAACTTT
2811377 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
2811409 TGAGCATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2814070 original size:42 final size:42
Alignment explanation
Indices: 2814011--2814096 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
2814001 TACCTACTCC
2814011 TAGTAACCTTGACTTAGCCCTCCTTGCATCTCCTCATATATA
1 TAGTAACCTTGACTTAGCCCTCCTTGCATCTCCTCATATATA
2814053 TAGTAACCTTGACTTAGCCCTCCTTGCATCTCCTCATATATA
1 TAGTAACCTTGACTTAGCCCTCCTTGCATCTCCTCATATATA
2814095 TA
1 TA
2814097 TATATATGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.30, G:0.09, T:0.36
Consensus pattern (42 bp):
TAGTAACCTTGACTTAGCCCTCCTTGCATCTCCTCATATATA
Found at i:2816805 original size:96 final size:96
Alignment explanation
Indices: 2816641--2816833 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 96
2816631 GGATAGCTAT
2816641 GGTACGAGTTTATTTAAGGTTTTCGGATCGAACCTGCAAGTGGGCAGATTGAGTAGGGTTAAAGC
1 GGTACGAGTTTATTTAAGGTTTTCGGATCGAACCTGCAAGTGGGCAGATTGAGTAGGGTTAAAGC
*
2816706 AATGGACTTCGTTGAATTTTCCGTTTCTGGG
66 AATGGACTTCGTTGAATTTTCCATTTCTGGG
* *
2816737 GGTACGAGTTTATTTAAGGTTTTCTGATCGAACCTGCAAGTGGGCAGATTGAGTAGGGTTTAAGC
1 GGTACGAGTTTATTTAAGGTTTTCGGATCGAACCTGCAAGTGGGCAGATTGAGTAGGGTTAAAGC
2816802 AATGGACTTCGTTGAATTTTCCATTTCTGGG
66 AATGGACTTCGTTGAATTTTCCATTTCTGGG
2816833 G
1 G
2816834 TTCTGCTTAT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (96 bp):
GGTACGAGTTTATTTAAGGTTTTCGGATCGAACCTGCAAGTGGGCAGATTGAGTAGGGTTAAAGC
AATGGACTTCGTTGAATTTTCCATTTCTGGG
Found at i:2818226 original size:2 final size:2
Alignment explanation
Indices: 2818219--2818250 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2818209 GTTACCAAAT
2818219 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2818251 CCCCAACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2822101 original size:27 final size:26
Alignment explanation
Indices: 2822078--2822134 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
2822068 CATTTTATGA
*
2822078 ATTTTATTAAATTATA-TATTTTTAT
1 ATTTTATTAAATCATATTATTTTTAT
2822103 -TATTT-TTAAATCATATTATTTTTAT
1 AT-TTTATTAAATCATATTATTTTTAT
2822128 ATTTTAT
1 ATTTTAT
2822135 ATTTTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
24 10 0.37
25 15 0.56
26 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTTATTAAATCATATTATTTTTAT
Found at i:2822118 original size:24 final size:24
Alignment explanation
Indices: 2822084--2822132 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
2822074 ATGAATTTTA
*
2822084 TTAAATTATA-TATTTTTATTATTT
1 TTAAATCATATTATTTTTA-TATTT
2822108 TTAAATCATATTATTTTTATATTT
1 TTAAATCATATTATTTTTATATTT
2822132 T
1 T
2822133 ATATTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAAATCATATTATTTTTATATTT
Found at i:2824031 original size:2 final size:2
Alignment explanation
Indices: 2824024--2824049 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2824014 CCATCTAATG
2824024 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2824050 GCTTTTTCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2829787 original size:23 final size:24
Alignment explanation
Indices: 2829755--2829809 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
2829745 AAAAAATAAT
* * *
2829755 AAAAATTATTGTAGTTATAATT-A
1 AAAAAATATTATAATTATAATTGA
*
2829778 AAAAAATATTATAATTATGATTGA
1 AAAAAATATTATAATTATAATTGA
2829802 AAAAAATA
1 AAAAAATA
2829810 AAAAATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (24 bp):
AAAAAATATTATAATTATAATTGA
Found at i:2830677 original size:21 final size:21
Alignment explanation
Indices: 2830648--2830705 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2830638 TATCTATTAT
2830648 TAAT-TTTAATTTTATTACTA
1 TAATATTTAATTTTATTACTA
* *
2830668 TAATATTTAATTTCATTATTA
1 TAATATTTAATTTTATTACTA
* *
2830689 TAATAATTAGTTTTATT
1 TAATATTTAATTTTATT
2830706 TTTAATATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (21 bp):
TAATATTTAATTTTATTACTA
Found at i:2830716 original size:12 final size:12
Alignment explanation
Indices: 2830701--2830725 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2830691 ATAATTAGTT
2830701 TTATTTTTAATA
1 TTATTTTTAATA
2830713 TTATTTTTAATA
1 TTATTTTTAATA
2830725 T
1 T
2830726 CACTAAAATC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTTTAATA
Found at i:2831173 original size:14 final size:14
Alignment explanation
Indices: 2831154--2831183 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2831144 TCATTAATTA
*
2831154 TTAATTTTTTAAAT
1 TTAATTATTTAAAT
2831168 TTAATTATTTAAAT
1 TTAATTATTTAAAT
2831182 TT
1 TT
2831184 GACTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTAATTATTTAAAT
Found at i:2831426 original size:14 final size:14
Alignment explanation
Indices: 2831404--2831437 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2831394 AAAAAAATTT
*
2831404 TAATCAAATTAAAA
1 TAATTAAATTAAAA
2831418 TAATTAAATTAAAA
1 TAATTAAATTAAAA
2831432 -AATTAA
1 TAATTAA
2831438 TAATTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATTAAATTAAAA
Found at i:2831457 original size:28 final size:30
Alignment explanation
Indices: 2831426--2831482 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
2831416 AATAATTAAA
*
2831426 TTAAAAA-AT-TAATAATTAAATGATTATT
1 TTAAAAATATATAATAATTAAATCATTATT
2831454 TTAAAAATATAATAATAATTAAATCATTA
1 TTAAAAATAT-ATAATAATTAAATCATTA
2831483 ATAATGCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 2 0.08
31 16 0.64
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (30 bp):
TTAAAAATATATAATAATTAAATCATTATT
Found at i:2834619 original size:15 final size:15
Alignment explanation
Indices: 2834585--2834620 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2834575 TCTTGTCCCA
*
2834585 AATAATATCCATACT
1 AATAATATCCATACC
*
2834600 GATAATATCCATACC
1 AATAATATCCATACC
2834615 AATAAT
1 AATAAT
2834621 CTAGTTTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATATCCATACC
Found at i:2840212 original size:161 final size:160
Alignment explanation
Indices: 2840026--2841313 Score: 1075
Period size: 161 Copynumber: 8.0 Consensus size: 160
2840016 AAACACATAT
* * * * *
2840026 TATTGAAGCTATCAAAACTGTTAAAACATAATAATAACAATAAATTTGTATTTTTACCTTTTAAT
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
* * * * * *
2840091 AGCACAAAAAGTTCTAAACAGACCTTAAATGATAATTTTTTCATACATATCAACTGTGAAAACTA
66 AGCATAAAAAGTTCTAAACA-A-CGTAAACGATAACTTTTTCACACATATGAACTGTGAAAACTA
*
2840156 TA-TTCAATCATTCAAACAAGTTTAGTATCATG
129 -AGTTCAATCATTCAGACAAGTTTAGTATCATG
** * * * * *
2840188 TATTTAA-CTATTGAAACTGTTAAAATAAAATAATAACAATAAATTTGTATTTTTGCCTCTTAAT
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
* ** * * * * * **
2840252 GGCATAAAAAAAT-TAAATAGACGTAAACGATAATTTTTTCACATATATGAACAGTGGAAACCGA
66 AGCATAAAAAGTTCTAAACA-ACGTAAACGATAACTTTTTCACACATATGAACTGTGAAAACTAA
* * *
2840316 GTTCAATTATTCGGACAGGTTTAGTATCATG
130 GTTCAATCATTCAGACAAGTTTAGTATCATG
* * * * *
2840347 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAATAACAATTTTATATTTTTGCCTTTTAA-
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
* * ** * * * * *
2840411 CGATATAAAAAGCACTAAACAAACATAAATGGTAACTTTTTCACATATATGAACTGTTGAAATC-
66 AG-CATAAAAAGTTCTAAAC-AACGTAAACGATAACTTTTTCACACATATGAACTG-TGAAAACT
* *
2840475 AAGTTCAATTATTCAGACAAGTTTAATATCATG
128 AAGTTCAATCATTCAGACAAGTTTAGTATCATG
** * *
2840508 TATTTAAGCTATCGTAACTGTTAAAATAAAATAATAACAATAAATTTATATTTTTACCTTTTAAT
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
* ** ** *
2840573 GGCATAAAAAGCACTAAACAGACGTAAATAATAACTTTTTCACACATATGAACTGTGAAAACCAA
66 AGCATAAAAAGTTCTAAACA-ACGTAAACGATAACTTTTTCACACATATGAACTGTGAAAACTAA
* *
2840638 GTTCAATCATTCGGACAAGTTTAGTATCATA
130 GTTCAATCATTCAGACAAGTTTAGTATCATG
* **
2840669 TATTTAAGCTATCAAAATTGTTAAAATAGAACAATAAC-ATCAAATTTGCATTTTTACCTTTTAA
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAAT-AAATTTATATTTTTACCTTTTAA
* ** * * * * * *
2840733 CAATAAAAAAAAGTTTTAAACAAACGTAAACGATAATTTTTTCACACATATCAATTATGAAAA-T
65 -TAGCATAAAAAGTTCTAAAC-AACGTAAACGATAACTTTTTCACACATATGAACTGTGAAAACT
*
2840797 TAGTTCAATCATTCAGACAAGTTTAGTATCATG
128 AAGTTCAATCATTCAGACAAGTTTAGTATCATG
* *
2840830 TATTTAAGCTATCAAAACTATTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAC
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
* * * *
2840895 AGTACA-AAAAATGTCCTAAACAAATGTAAACGATAACTTTGTCACACATATGAATTGTGAAAAC
66 AG--CATAAAAA-GTTCTAAAC-AACGTAAACGATAACTTTTTCACACATATGAACTGTGAAAA-
* * * *
2840959 CTTCA-TT-AATCATTCTGATAAGTTTAATATCATG
126 C-TAAGTTCAATCATTCAGACAAGTTTAGTATCATG
* ** * *
2840993 TATTTAAGCTACTC-AAA-TGGTTAAAATAGAACAATAATAGA-ATTTTTAAATTTTTGCCTTTT
1 TATTTAAGCTA-TCAAAACT-GTTAAAATAGAACAATAACA-ATAAATTTATATTTTTACCTTTT
* * * * * * * * *
2841055 AACT-GCATAAAAAG-CCTTAAATAAATGTAAACTATAACTTTTTTATACATATCAATTAT-AGA
63 AA-TAGCATAAAAAGTTC-TAAA-CAACGTAAACGATAACTTTTTCACACATATGAACTGTGA-A
* * *
2841117 AACTAGGTTCAATCATTCGGACAAGTTTATTATCATG
124 AACTAAGTTCAATCATTCAGACAAGTTTAGTATCATG
* * * * * * * * * * * * ** *
2841154 TATTGAAACTATCCAAATTGTCAAAATAAAAGAATAATAGTCAAGTTGTATTTTGGCCTTTTAAC
1 TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
* * * *
2841219 AGCACAAAAAG-TCATAAACAAACGTTAACGATAACTTTTTCACATATATCAA-TCGTG-AAACT
66 AGCATAAAAAGTTC-TAAAC-AACGTAAACGATAACTTTTTCACACATATGAACT-GTGAAAAC-
* * * * *
2841281 TAAGTTCAAACATTCGGATAAATTTAATATCAT
127 TAAGTTCAATCATTCAGACAAGTTTAGTATCAT
2841314 AAACTTATTT
Statistics
Matches: 925, Mismatches: 164, Indels: 75
0.79 0.14 0.06
Matches are distributed among these distances:
158 1 0.00
159 68 0.07
160 83 0.09
161 576 0.62
162 113 0.12
163 77 0.08
164 5 0.01
165 2 0.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (160 bp):
TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAATAAATTTATATTTTTACCTTTTAAT
AGCATAAAAAGTTCTAAACAACGTAAACGATAACTTTTTCACACATATGAACTGTGAAAACTAAG
TTCAATCATTCAGACAAGTTTAGTATCATG
Found at i:2840695 original size:322 final size:324
Alignment explanation
Indices: 2840021--2841314 Score: 1227
Period size: 322 Copynumber: 4.0 Consensus size: 324
2840011 CATTAAAACA
* * * * * *
2840021 CATATTATTGAAGCTATCAAAACTGTTAAAACATAATAATAACAATAAATTTGTATTTTTACCTT
1 CATA-TATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAACAAATTTATATTTTTACCTT
* * * * * * *
2840086 TTAA-TAGCACAAAAAGTTCTAAACAGACCTTAAATGATAATTTTTTCATACATATCAACTG-TG
65 TTAACGA-CATAAAAAGCTCTAAACA-AACGTAAATGATAACTTTTTCACACATATCAACTGTTG
* * *
2840149 AAAACTATA-TTCAATCATTCAAACAAGTTTAGTATCATGTATTTAA-CTATTGAAACTGTTAAA
128 AAATCTA-AGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCGAAACTGTTAAA
* * * * * * *
2840212 ATAAAATAATAACAATAAATTTGTATTTTTGCCTCTTAATGGCATAAAAA--AATTAAATAGACG
192 ATAAAATAATAACAATAAATTTATATTTTTACCTTTTAATGGCATAAAAAGTCACTAAACAAACG
* * * * * * * *
2840275 TAAACGATAATTTTTTCACATATATGAACAGTGGAAACCGAGTTCAATTATTCGGACAGGTTTAG
257 TAAACGATAACTTTTTCACACATATGAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAA
2840340 TAT
322 TAT
* * * * *
2840343 CATGTATTTAAGCTATCAAAACTATTAAAATAGAACAATAATAACAATTTTATATTTTTGCCTTT
1 CATATATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAACAAATTTATATTTTTACCTTT
* * * * * *
2840408 TAACGATATAAAAAGCACTAAACAAACATAAATGGTAACTTTTTCACATATATGAACTGTTGAAA
66 TAACGACATAAAAAGCTCTAAACAAACGTAAATGATAACTTTTTCACACATATCAACTGTTGAAA
* * *
2840473 TC-AAGTTCAATTATTCAGACAAGTTTAATATCATGTATTTAAGCTATCGTAACTGTTAAAATAA
131 TCTAAGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCGAAACTGTTAAAATAA
*
2840537 AATAATAACAATAAATTTATATTTTTACCTTTTAATGGCATAAAAAG-CACTAAACAGACGTAAA
196 AATAATAACAATAAATTTATATTTTTACCTTTTAATGGCATAAAAAGTCACTAAACAAACGTAAA
** *
2840601 TAATAACTTTTTCACACATATGAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAGTAT
261 CGATAACTTTTTCACACATATGAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAATAT
* * **
2840665 CATATATTTAAGCTATCAAAATTGTTAAAATAGAACAATAACATCAAATTTGCATTTTTACCTTT
1 CATATATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAACAAATTTATATTTTTACCTTT
* * * * * * *
2840730 TAACAATAAAAAAAAGTTTTAAACAAACGTAAACGATAATTTTTTCACACATATCAA-T-TATGA
66 TAACGA-CATAAAAAGCTCTAAACAAACGTAAATGATAACTTTTTCACACATATCAACTGT-TG-
* *
2840793 AAAT-T-AGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCAAAACTATTAAAA
128 AAATCTAAGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCGAAACTGTTAAAA
* * * *
2840856 TAGAACAATAACAATAAATTTATATTTTTACCTTTTAACAGTACA-AAAAATGTC-CTAAACAAA
193 TAAAATAATAACAATAAATTTATATTTTTACCTTTTAA-TG-GCATAAAAA-GTCACTAAACAAA
* * * * * *
2840919 TGTAAACGATAACTTTGTCACACATATGAATTGTGAAAACCTTCA-TT-AATCATTCTGATAAGT
255 CGTAAACGATAACTTTTTCACACATATGAACTGTGAAAACC--AAGTTCAATCATTCGGACAAGT
2840982 TTAATAT
318 TTAATAT
* * ** * *
2840989 CATGTATTTAAGCTACTC-AAA-TGGTTAAAATAGAACAATAATAGA-ATTTTTAAATTTTTGCC
1 CATATATTTAAGCTA-TCAAAACT-GTTAAAATAGAACAATAACA-ACAAATTTATATTTTTACC
* * * * * *
2841051 TTTTAACTG-CATAAAAAGC-CTTAAATAAATGTAAACT-ATAACTTTTTTATACATATCAATTA
63 TTTTAAC-GACATAAAAAGCTC-TAAACAAACGTAAA-TGATAACTTTTTCACACATATCAACTG
* * * * * * * * *
2841113 TAGAAA-CTAGGTTCAATCATTCGGACAAGTTTATTATCATGTATTGAAACTATCCAAATTGTCA
125 TTGAAATCTAAGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCGAAACTGTTA
* * * * * * ** ** *
2841177 AAATAAAAGAATAATAGTCAAGTTGTATTTTGGCCTTTTAACAGCACAAAAAGTCA-TAAACAAA
190 AAATAAAATAATAACAATAAATTTATATTTTTACCTTTTAATGGCATAAAAAGTCACTAAACAAA
* * * * * * *
2841241 CGTTAACGATAACTTTTTCACATATATCAA-TCGTG-AAACTTAAGTTCAAACATTCGGATAAAT
255 CGTAAACGATAACTTTTTCACACATATGAACT-GTGAAAAC-CAAGTTCAATCATTCGGACAAGT
2841304 TTAATAT
318 TTAATAT
2841311 CATA
1 CATA
2841315 AACTTATTTT
Statistics
Matches: 805, Mismatches: 136, Indels: 62
0.80 0.14 0.06
Matches are distributed among these distances:
319 1 0.00
320 64 0.08
321 144 0.18
322 290 0.36
323 97 0.12
324 202 0.25
325 6 0.01
326 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (324 bp):
CATATATTTAAGCTATCAAAACTGTTAAAATAGAACAATAACAACAAATTTATATTTTTACCTTT
TAACGACATAAAAAGCTCTAAACAAACGTAAATGATAACTTTTTCACACATATCAACTGTTGAAA
TCTAAGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCGAAACTGTTAAAATAA
AATAATAACAATAAATTTATATTTTTACCTTTTAATGGCATAAAAAGTCACTAAACAAACGTAAA
CGATAACTTTTTCACACATATGAACTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAATAT
Found at i:2841258 original size:646 final size:644
Alignment explanation
Indices: 2840021--2841314 Score: 1461
Period size: 646 Copynumber: 2.0 Consensus size: 644
2840011 CATTAAAACA
* * *
2840021 CATATTATTGAAGCTATCAAAACTGTTAAAACATAATAATAACAATAAATTTGTATTTTTACCTT
1 CATATTATTGAAGCTATCAAAACTGTTAAAACAGAACAATAACAATAAATTTGCATTTTTACCTT
* * * * * * * *
2840086 TTAATAGCACAAAAAGTTCTAAACAGACCTTAAATGATAATTTTTTCATACATATCAACTGTGAA
66 TTAAAAGAAAAAAAAGTTCTAAACAGAACGTAAACGATAATTTTTTCACACATATCAACTATGAA
** *
2840151 AACTATATTCAATCATTCAAACAAGTTTAGTATCATGTATTTAACTATTGAAACTGTTAAAATAA
131 AACTATATTCAATCATTCAAACAAGTTTAGTATCATGTATTTAACTATCAAAACTATTAAAATAA
* * * ** * * *
2840216 AATAATAACAATAAATTTGTATTTTTGCCTCTTAATGGCATAAAAAAATTAAATAGACGTAAACG
196 AACAATAACAATAAATTTATATTTTTACCTCTTAACAGCACAAAAAAATTAAACAAACGTAAACG
* * * * * * * *
2840281 ATAATTTTTTCACATATATGAACAGTGGAAACCGAGTTCAATTATTCGGACAGGTTTAGTATCAT
261 ATAACTTTGTCACACATATGAACAGTGAAAACCCAGTTCAATCATTCGGACAAGTTTAATATCAT
*
2840346 GTATTTAAGCTATCAAAACTATTAAAATAGAACAATAATAACAATTTTATATTTTTGCCTTTTAA
326 GTATTTAAGCTATCAAAACTATTAAAATAGAACAATAATAACAATTTTAAATTTTTGCCTTTTAA
* * * * * *
2840411 CGATATAAAAAGCACTAAACAAACATAAATGGTAACTTTTTCACATATATGAACTGTTGAAATCA
391 CGACATAAAAAGCACTAAACAAACATAAATGATAACTTTTTCACACATATCAACTATAGAAATCA
* * * ** * *
2840476 AGTTCAATTATTCAGACAAGTTTAATATCATGTATTTAAGCTATCGTAACTGTTAAAATAAAATA
456 AGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTCAAAATAAAAGA
* * ** * * *
2840541 ATAACAATAAATTTATATTTTTACCTTTTAATGGCATAAAAAGCACTAAACAGACGTAAATAATA
521 ATAACAATAAAGTTATATTTTGACCTTTTAACAGCACAAAAAGCACTAAACAAACGTAAACAATA
* * * *
2840606 ACTTTTTCACACATATGAA-CTGTGAAAAC-CAAGTTCAATCATTCGGACAAGTTTAGTAT
586 ACTTTTTCACACATATCAATC-GTG-AAACTCAAGTTCAAACATTCGGACAAATTTAATAT
* * *
2840665 CATA-TATTTAAGCTATCAAAATTGTTAAAATAGAACAATAAC-ATCAAATTTGCATTTTTACCT
1 CATATTATTGAAGCTATCAAAACTGTTAAAACAGAACAATAACAAT-AAATTTGCATTTTTACCT
* * *
2840728 TTTAACAATAAAAAAAAGTTTTAAACA-AACGTAAACGATAATTTTTTCACACATATCAATTATG
65 TTTAA-AAGAAAAAAAAGTTCTAAACAGAACGTAAACGATAATTTTTTCACACATATCAACTATG
*
2840792 AAAA-T-TAGTTCAATCATTCAGACAAGTTTAGTATCATGTATTTAAGCTATCAAAACTATTAAA
129 AAAACTATA-TTCAATCATTCAAACAAGTTTAGTATCATGTATTTAA-CTATCAAAACTATTAAA
* * * * *
2840855 ATAGAACAATAACAATAAATTTATATTTTTACCTTTTAACAGTACAAAAAATGTCCTAAACAAAT
192 ATAAAACAATAACAATAAATTTATATTTTTACCTCTTAACAGCACAAAAAA-AT--TAAACAAAC
** * *
2840920 GTAAACGATAACTTTGTCACACATATGAATTGTGAAAACCTTCA-TT-AATCATTCTGATAAGTT
254 GTAAACGATAACTTTGTCACACATATGAACAGTGAAAACC--CAGTTCAATCATTCGGACAAGTT
* *
2840983 TAATATCATGTATTTAAGCTACTC-AAA-TGGTTAAAATAGAACAATAATAGA-ATTTTTAAATT
317 TAATATCATGTATTTAAGCTA-TCAAAACT-ATTAAAATAGAACAATAATA-ACAATTTTAAATT
* ** * *
2841045 TTTGCCTTTTAACTG-CATAAAAAGC-CTTAAATAAATGTAAACT-ATAACTTTTTTATACATAT
379 TTTGCCTTTTAAC-GACATAAAAAGCAC-TAAACAAACATAAA-TGATAACTTTTTCACACATAT
* * * *
2841107 CAATTATAGAAA-CTAGGTTCAATCATTCGGACAAGTTTATTATCATGTATTGAAACTATCCAAA
441 CAACTATAGAAATC-AAGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAACTATCCAAA
* * * * * *
2841171 TTGTCAAAATAAAAGAATAATAGTCAAGTTGTATTTTGGCCTTTTAACAGCACAAAAAGTCA-TA
505 CTGTCAAAATAAAAGAATAACAATAAAGTTATATTTTGACCTTTTAACAGCACAAAAAG-CACTA
* * * * *
2841235 AACAAACGTTAACGATAACTTTTTCACATATATCAATCGTGAAACTTAAGTTCAAACATTCGGAT
569 AACAAACGTAAACAATAACTTTTTCACACATATCAATCGTGAAACTCAAGTTCAAACATTCGGAC
2841300 AAATTTAATAT
634 AAATTTAATAT
2841311 CATA
1 CATA
2841315 AACTTATTTT
Statistics
Matches: 538, Mismatches: 93, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
641 2 0.00
642 39 0.07
643 146 0.27
644 21 0.04
645 7 0.01
646 312 0.58
647 10 0.02
648 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (644 bp):
CATATTATTGAAGCTATCAAAACTGTTAAAACAGAACAATAACAATAAATTTGCATTTTTACCTT
TTAAAAGAAAAAAAAGTTCTAAACAGAACGTAAACGATAATTTTTTCACACATATCAACTATGAA
AACTATATTCAATCATTCAAACAAGTTTAGTATCATGTATTTAACTATCAAAACTATTAAAATAA
AACAATAACAATAAATTTATATTTTTACCTCTTAACAGCACAAAAAAATTAAACAAACGTAAACG
ATAACTTTGTCACACATATGAACAGTGAAAACCCAGTTCAATCATTCGGACAAGTTTAATATCAT
GTATTTAAGCTATCAAAACTATTAAAATAGAACAATAATAACAATTTTAAATTTTTGCCTTTTAA
CGACATAAAAAGCACTAAACAAACATAAATGATAACTTTTTCACACATATCAACTATAGAAATCA
AGTTCAATCATTCAGACAAGTTTAATATCATGTATTGAAACTATCCAAACTGTCAAAATAAAAGA
ATAACAATAAAGTTATATTTTGACCTTTTAACAGCACAAAAAGCACTAAACAAACGTAAACAATA
ACTTTTTCACACATATCAATCGTGAAACTCAAGTTCAAACATTCGGACAAATTTAATAT
Found at i:2848796 original size:42 final size:42
Alignment explanation
Indices: 2848718--2848815 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
2848708 GTGAATTCAG
* ** *
2848718 CAAACGCCACTAAAAATTGGTAAATGGCGACATTTTAGAATA
1 CAAACGCCACTAAAAATTGATAAATAACAACATTTTAGAATA
** *
2848760 CAAACGCCACTAAAAATTGATAAATAACAATGTTTTAGAATG
1 CAAACGCCACTAAAAATTGATAAATAACAACATTTTAGAATA
* *
2848802 TAAATGCCACTAAA
1 CAAACGCCACTAAA
2848816 TATAGGTCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.24
Consensus pattern (42 bp):
CAAACGCCACTAAAAATTGATAAATAACAACATTTTAGAATA
Found at i:2849122 original size:1 final size:1
Alignment explanation
Indices: 2849118--2849148 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
2849108 TTTTTTTTTT
2849118 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
2849149 ATTTGGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:2853424 original size:2 final size:2
Alignment explanation
Indices: 2853417--2853444 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2853407 ATCAGTCTGC
2853417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2853445 TGTGAACGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2859717 original size:18 final size:19
Alignment explanation
Indices: 2859694--2859731 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2859684 ATATTTTTTA
2859694 TAATT-AAAAAAATTAAAT
1 TAATTAAAAAAAATTAAAT
2859712 TAATTAAAAAAAATTAAAT
1 TAATTAAAAAAAATTAAAT
2859731 T
1 T
2859732 TTAAATCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATTAAAAAAAATTAAAT
Found at i:2859735 original size:17 final size:18
Alignment explanation
Indices: 2859699--2859746 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
2859689 TTTTATAATT
2859699 AAAAAAATTAAATTAATTA
1 AAAAAAATTAAATT-ATTA
2859718 AAAAAAATTAAATT-TTA
1 AAAAAAATTAAATTATTA
**
2859735 AATCAAATTAAA
1 AAAAAAATTAAA
2859747 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAAATTAAATTATTA
Found at i:2859866 original size:20 final size:20
Alignment explanation
Indices: 2859841--2859879 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2859831 CCGCTGGCCA
2859841 CCCACGCCCTGCCACTACTC
1 CCCACGCCCTGCCACTACTC
2859861 CCCACGCCCTGCCACTACT
1 CCCACGCCCTGCCACTACT
2859880 TCAGCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.59, G:0.10, T:0.15
Consensus pattern (20 bp):
CCCACGCCCTGCCACTACTC
Found at i:2860829 original size:17 final size:18
Alignment explanation
Indices: 2860807--2860856 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
2860797 AATTTTTTTA
*
2860807 ATTTTTTATATATT-ATT
1 ATTTTTTATATATTAAGT
*
2860824 ATTTTTGT-TATTTTAAGT
1 ATTTTT-TATATATTAAGT
2860842 ATTTTTTTATATATT
1 A-TTTTTTATATATT
2860857 TATGCATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
ATTTTTTATATATTAAGT
Found at i:2869090 original size:23 final size:22
Alignment explanation
Indices: 2869056--2869120 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
2869046 AATATAAAAT
2869056 ATTTATTT-TAATAAATTAATTA
1 ATTT-TTTATAATAAATTAATTA
2869078 ATTATTTTATAATAAA-TAATTA
1 ATT-TTTTATAATAAATTAATTA
2869100 ATTTTTTA-AAT-AATATAATTA
1 ATTTTTTATAATAAAT-TAATTA
2869121 TATGATATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 11 0.28
22 15 0.38
23 8 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTTATAATAAATTAATTA
Found at i:2869114 original size:19 final size:22
Alignment explanation
Indices: 2869064--2869120 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
2869054 ATATTTATTT
2869064 TAATAAATTAATTAATTATTTTA
1 TAATAAA-TAATTAATTATTTTA
2869087 TAATAAATAATTAATT-TTTTA
1 TAATAAATAATTAATTATTTTA
2869108 -AATAATATAATTA
1 TAATAA-ATAATTA
2869121 TATGATATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.15
21 12 0.36
22 9 0.27
23 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATAAATAATTAATTATTTTA
Found at i:2869288 original size:3 final size:3
Alignment explanation
Indices: 2869280--2869314 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2869270 CGCAATAAAC
2869280 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2869315 TTACAGAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2874936 original size:40 final size:40
Alignment explanation
Indices: 2874836--2874945 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
2874826 ATTTAATCTA
2874836 TTATTATAT-ATATAATAGAAAATAGTAATAATTAATTTG
1 TTATTATATGATATAATAGAAAATAGTAATAATTAATTTG
* *** *
2874875 TTAGTATATGCGGTAATAGAAAGTAGTAATAATTAATTTG
1 TTATTATATGATATAATAGAAAATAGTAATAATTAATTTG
* * *
2874915 TTATTATATGTTATAAAAGAAAACAGTAATA
1 TTATTATATGATATAATAGAAAATAGTAATA
2874946 CTATATTTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 8 0.14
40 50 0.86
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.39
Consensus pattern (40 bp):
TTATTATATGATATAATAGAAAATAGTAATAATTAATTTG
Found at i:2875971 original size:21 final size:20
Alignment explanation
Indices: 2875934--2875972 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2875924 TATGGTTATT
*
2875934 ATTACACTTATTGTTAATAA
1 ATTACAATTATTGTTAATAA
*
2875954 ATTACAATATATTTTTAAT
1 ATTACAAT-TATTGTTAAT
2875973 TAGCTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTACAATTATTGTTAATAA
Found at i:2876021 original size:19 final size:20
Alignment explanation
Indices: 2875985--2876022 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2875975 GCTATAATTA
**
2875985 GTTTTACAAATTTTTTTTTT
1 GTTTTACAAATTACTTTTTT
2876005 GTTTT-CAAATTACTTTTT
1 GTTTTACAAATTACTTTTT
2876023 ATTATAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (20 bp):
GTTTTACAAATTACTTTTTT
Found at i:2876021 original size:20 final size:20
Alignment explanation
Indices: 2875985--2876022 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2875975 GCTATAATTA
*
2875985 GTTTTACAAATTTTTTTTTT
1 GTTTTACAAATTCTTTTTTT
2876005 GTTTT-CAAATTACTTTTT
1 GTTTTACAAATT-CTTTTT
2876023 ATTATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (20 bp):
GTTTTACAAATTCTTTTTTT
Found at i:2878873 original size:9 final size:9
Alignment explanation
Indices: 2878861--2878887 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
2878851 GCCTAAAATC
2878861 TAAAATAAA
1 TAAAATAAA
2878870 TAAAATAAA
1 TAAAATAAA
2878879 TAAAATAAA
1 TAAAATAAA
2878888 AGCCAGCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:2879294 original size:29 final size:29
Alignment explanation
Indices: 2879244--2879312 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
2879234 TTCTTCTCTC
2879244 TAATTTTA-TTTTTTGATTAAATTTACTA
1 TAATTTTATTTTTTTGATTAAATTTACTA
2879272 TAATTTTATTTTTTTGATTAAATTTACTA
1 TAATTTTATTTTTTTGATTAAATTTACTA
2879301 TAATTTTATTTT
1 TAATTTTATTTT
2879313 ATTTTTACTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 8 0.20
29 32 0.80
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TAATTTTATTTTTTTGATTAAATTTACTA
Found at i:2890208 original size:77 final size:77
Alignment explanation
Indices: 2890081--2890231 Score: 284
Period size: 77 Copynumber: 2.0 Consensus size: 77
2890071 TGTGTACCAT
*
2890081 GAATGATGATTTAGCAATGCTGTTATGTATCACATAATTTGTCTTGATTGACAGAATAATTCTTT
1 GAATGATGACTTAGCAATGCTGTTATGTATCACATAATTTGTCTTGATTGACAGAATAATTCTTT
2890146 TCTATGACTAGA
66 TCTATGACTAGA
*
2890158 GAATGATGACTTAGCAGTGCTGTTATGTATCACATAATTTGTCTTGATTGACAGAATAATTCTTT
1 GAATGATGACTTAGCAATGCTGTTATGTATCACATAATTTGTCTTGATTGACAGAATAATTCTTT
2890223 TCTATGACT
66 TCTATGACT
2890232 GGAGCTTGCC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (77 bp):
GAATGATGACTTAGCAATGCTGTTATGTATCACATAATTTGTCTTGATTGACAGAATAATTCTTT
TCTATGACTAGA
Found at i:2899681 original size:14 final size:14
Alignment explanation
Indices: 2899628--2899690 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
2899618 AATTAAATTG
*
2899628 TAATTTTATTAAAAA
1 TAATTTTATT-AAAT
*
2899643 TAATATT-TTATAAT
1 TAATTTTATTA-AAT
* *
2899657 T-ATTATATTAAGT
1 TAATTTTATTAAAT
2899670 TAATTTTATTAAAT
1 TAATTTTATTAAAT
2899684 TAATTTT
1 TAATTTT
2899691 CAATCGAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
13 7 0.18
14 25 0.66
15 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TAATTTTATTAAAT
Found at i:2899682 original size:42 final size:41
Alignment explanation
Indices: 2899591--2899682 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 41
2899581 AAGATACTAA
* *
2899591 TTTATTAAAAATATTATATTTATTTATAATTAAATTGTAAT
1 TTTATTAAAAATAATATATTTATTTATAATTAAAGTGTAAT
2899632 TTTATTAAAAATAATAT-TTTATAATTATTATATT-AAGT-TAAT
1 TTTATTAAAAATAATATATTTAT--TTA-TA-ATTAAAGTGTAAT
2899674 TTTATTAAA
1 TTTATTAAA
2899683 TTAATTTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
40 5 0.11
41 16 0.36
42 16 0.36
43 5 0.11
44 3 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (41 bp):
TTTATTAAAAATAATATATTTATTTATAATTAAAGTGTAAT
Found at i:2901820 original size:95 final size:95
Alignment explanation
Indices: 2901657--2901847 Score: 348
Period size: 95 Copynumber: 2.0 Consensus size: 95
2901647 TGTCTTTTTG
*
2901657 TTCATTTAGAATATAAAAATGTTTGAAAGTGATTGGATGAAGAGGTGATAGTATTTATATGTTGG
1 TTCATTCAGAATATAAAAATGTTTGAAAGTGATTGGATGAAGAGGTGATAGTATTTATATGTTGG
2901722 CATTGTTAGCTAATTCTGCTGGCATAATGA
66 CATTGTTAGCTAATTCTGCTGGCATAATGA
2901752 TTCATTCAGAATATAAAAATGTTTGAAAGTGATTGGATGAAGAGGTGAT-GTTATTTATATGTTG
1 TTCATTCAGAATATAAAAATGTTTGAAAGTGATTGGATGAAGAGGTGATAG-TATTTATATGTTG
*
2901816 GCATTGTTAGCTAATTCTTCTGGCATAATGA
65 GCATTGTTAGCTAATTCTGCTGGCATAATGA
2901847 T
1 T
2901848 CCCACCAATC
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 1 0.01
95 92 0.99
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (95 bp):
TTCATTCAGAATATAAAAATGTTTGAAAGTGATTGGATGAAGAGGTGATAGTATTTATATGTTGG
CATTGTTAGCTAATTCTGCTGGCATAATGA
Found at i:2905648 original size:23 final size:23
Alignment explanation
Indices: 2905618--2905661 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
2905608 AAATCATGTC
2905618 ATTTTTATAT-ATATATATTTTTT
1 ATTTTTATATCATAT-TATTTTTT
2905641 ATTTTTATATCATATTATTTT
1 ATTTTTATATCATATTATTTT
2905662 ATCGTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTTTATATCATATTATTTTTT
Found at i:2909803 original size:15 final size:17
Alignment explanation
Indices: 2909783--2909815 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2909773 TAATACATAT
2909783 TTTTTAAA-AT-TAAAA
1 TTTTTAAATATATAAAA
2909798 TTTTTAAATATATAAAA
1 TTTTTAAATATATAAAA
2909815 T
1 T
2909816 ATGTACCACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAAATATATAAAA
Found at i:2910144 original size:16 final size:17
Alignment explanation
Indices: 2910125--2910157 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2910115 ATAAATTTAA
*
2910125 AATTTTTAT-TATTTTT
1 AATTTATATATATTTTT
2910141 AATTTATATATATTTTT
1 AATTTATATATATTTTT
2910158 TAAGATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTATATATATTTTT
Found at i:2910714 original size:25 final size:25
Alignment explanation
Indices: 2910669--2910716 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
2910659 ATTAATTAAA
*
2910669 ATTAATATATTTTATTTAAAAATAT
1 ATTAATATATTTTATTAAAAAATAT
2910694 ATTAATATATATTTA-TAAAAAAT
1 ATTAATATAT-TTTATTAAAAAAT
2910717 TTTATAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTAATATATTTTATTAAAAAATAT
Found at i:2910867 original size:12 final size:12
Alignment explanation
Indices: 2910816--2910886 Score: 58
Period size: 12 Copynumber: 5.9 Consensus size: 12
2910806 TATTAAAGAT
2910816 ATAAA-AATAAA
1 ATAAATAATAAA
*
2910827 GATAAAT-TTAAA
1 -ATAAATAATAAA
** *
2910839 ATATTTATTAAA
1 ATAAATAATAAA
2910851 TATAAATAATAAA
1 -ATAAATAATAAA
2910864 ATAAATAATAATA
1 ATAAATAATAA-A
2910877 AT-AATAATAA
1 ATAAATAATAA
2910887 TCTTTCTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
11 4 0.08
12 33 0.67
13 12 0.24
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAA
Found at i:2910873 original size:3 final size:3
Alignment explanation
Indices: 2910855--2910887 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
2910845 ATTAAATATA
2910855 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
2910888 CTTTCTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2916185 original size:2 final size:2
Alignment explanation
Indices: 2916178--2916208 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2916168 ATTTTCATAT
2916178 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2916209 TTGGGACTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2924796 original size:23 final size:24
Alignment explanation
Indices: 2924770--2924820 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
2924760 TAATAGTAAT
*
2924770 AATTATTATAATTA-TGATAAAAA
1 AATTATTATAACTATTGATAAAAA
* *
2924793 AATTATTGTAACTATTGATTAAAA
1 AATTATTATAACTATTGATAAAAA
2924817 AATT
1 AATT
2924821 TTAAAAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (24 bp):
AATTATTATAACTATTGATAAAAA
Found at i:2925054 original size:2 final size:2
Alignment explanation
Indices: 2925047--2925073 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2925037 CCAAAAAGTT
2925047 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2925074 GGGATAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2925450 original size:2 final size:2
Alignment explanation
Indices: 2925443--2925470 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2925433 TTCGCAACAA
2925443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2925471 TAATAGCAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2939206 original size:2 final size:2
Alignment explanation
Indices: 2939201--2939235 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
2939191 AAGGTAAAAA
*
2939201 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
2939236 CATGTCATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Done.