Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 4 of 147
Found at i:626785 original size:19 final size:18
Alignment explanation
Indices: 626745--626799 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
626735 GTTTTTATGT
*
626745 TTTAAAACTTTTTTTAACA
1 TTTAAAA-TTTTTTTTACA
*
626764 TTTAAAATTCTTTTTTATA
1 TTTAAAATT-TTTTTTACA
* *
626783 TTTTATATTTTTTTTAC
1 TTTAAAATTTTTTTTAC
626800 TTTTTGACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTAAAATTTTTTTTACA
Found at i:626787 original size:20 final size:19
Alignment explanation
Indices: 626736--626787 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
626726 TTGTTTTTTG
*
626736 TTTTTATGTTTTAAAACTT
1 TTTTTATATTTTAAAACTT
* *
626755 TTTTTA-ACATTTAAAATTCT
1 TTTTTATA-TTTTAAAACT-T
626775 TTTTTATATTTTA
1 TTTTTATATTTTA
626788 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 14 0.54
20 11 0.42
21 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATATTTTAAAACTT
Found at i:628999 original size:19 final size:19
Alignment explanation
Indices: 628962--629008 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
628952 TATAAAATTT
628962 AAAATATTTTAGATATTTTAA
1 AAAAT-TTTTAGATATTTT-A
* *
628983 AAAATTTTTA-ATTTTTTT
1 AAAATTTTTAGATATTTTA
629001 AAAATTTT
1 AAAATTTT
629009 ATTTTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 6 0.25
20 5 0.21
21 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AAAATTTTTAGATATTTTA
Found at i:632617 original size:21 final size:21
Alignment explanation
Indices: 632593--632640 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
632583 GTCACGGTTC
632593 TCGCAATTGTCGTTGGCGGTA
1 TCGCAATTGTCGTTGGCGGTA
632614 TCGCAATTGTCGTTGGCGGTA
1 TCGCAATTGTCGTTGGCGGTA
632635 TC-CAAT
1 TCGCAAT
632641 CATATCAACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (21 bp):
TCGCAATTGTCGTTGGCGGTA
Found at i:648724 original size:64 final size:64
Alignment explanation
Indices: 648642--648793 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
648632 ATCAGTCCTT
* *
648642 GGTTCAAGAACACCAGTATCAGTCAAATAGGGGATGCAAATATGGCTGCTACTATGTAGTGCATA
1 GGTTC-AGAACACTAGTATCAGTCAAATAGGGGATGCAAATATGGCTGCTACTATGTAGTACATA
*
648707 GGTTCAGAACACTAGTATCAGTCAAATAGGGGATGCAAATATGGCTGCTAGTATGTAGTACATA
1 GGTTCAGAACACTAGTATCAGTCAAATAGGGGATGCAAATATGGCTGCTACTATGTAGTACATA
*
648771 GATTCAG-ACACTAGTATCAGTCA
1 GGTTCAGAACACTAGTATCAGTCA
648794 TCAGTTGAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
63 16 0.19
64 62 0.75
65 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (64 bp):
GGTTCAGAACACTAGTATCAGTCAAATAGGGGATGCAAATATGGCTGCTACTATGTAGTACATA
Found at i:650413 original size:17 final size:19
Alignment explanation
Indices: 650377--650415 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
650367 ACCATGGTTT
*
650377 TTAATTTTTATATTATTTG
1 TTAATTTATATATTATTTG
650396 TTAATTTAT-TATTA-TTG
1 TTAATTTATATATTATTTG
650413 TTA
1 TTA
650416 CGAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTAATTTATATATTATTTG
Found at i:651091 original size:17 final size:17
Alignment explanation
Indices: 651069--651102 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
651059 CTATACTTTA
*
651069 ATTAGTGTTGATGGTGG
1 ATTAGTGATGATGGTGG
651086 ATTAGTGATGATGGTGG
1 ATTAGTGATGATGGTGG
651103 TGAGGTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (17 bp):
ATTAGTGATGATGGTGG
Found at i:653591 original size:13 final size:14
Alignment explanation
Indices: 653573--653601 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
653563 TTGTTTGTTA
653573 TTTTATT-TTTATT
1 TTTTATTATTTATT
653586 TTTTATTATTTATT
1 TTTTATTATTTATT
653600 TT
1 TT
653602 ATTTTAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTATTTATT
Found at i:653886 original size:13 final size:13
Alignment explanation
Indices: 653868--653899 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
653858 AGAAATACAT
653868 ATAGGTTAATCAA
1 ATAGGTTAATCAA
653881 ATAGGTTAATCAA
1 ATAGGTTAATCAA
653894 ATAGGT
1 ATAGGT
653900 CACACATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (13 bp):
ATAGGTTAATCAA
Found at i:656160 original size:16 final size:16
Alignment explanation
Indices: 656119--656156 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
656109 AATTCATAAA
**
656119 TTAAAATAAAAAAATT
1 TTAAAATATTAAAATT
656135 TTAAAATATTAAAA-T
1 TTAAAATATTAAAATT
656150 TTAAAAT
1 TTAAAAT
656157 TATTCGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAATATTAAAATT
Found at i:659604 original size:3 final size:3
Alignment explanation
Indices: 659596--659620 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
659586 ATCTGCAATA
659596 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
659621 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:664805 original size:5 final size:5
Alignment explanation
Indices: 664795--664838 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
664785 ATGTTAGGAA
* *
664795 TTTAT TTTAT TTTAT TTTAT TTTAT TCTAT TTTAAT TTAAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TTTAT TTT
664839 TAAAGTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:664904 original size:17 final size:16
Alignment explanation
Indices: 664860--664908 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
664850 ATTTTAATAT
664860 TTTTTATATAATAAAAA
1 TTTTTATATAA-AAAAA
* *
664877 TTTATGTATAACAAAAA
1 TTTTTATATAA-AAAAA
*
664894 TTTTTACATAAAAAA
1 TTTTTATATAAAAAA
664909 TTAAGATTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTTTATATAAAAAAA
Found at i:667185 original size:61 final size:60
Alignment explanation
Indices: 667117--667235 Score: 166
Period size: 61 Copynumber: 2.0 Consensus size: 60
667107 TAGTAGTAGA
* * *
667117 TAATTAATAATTTAGTAATTGACAATTAAAAACTTAAATATAATTAGTATAACTTAGAATT
1 TAATTAATAATTTAGCAATTAACAATTAAAAACTT-AATATAATTAATATAACTTAGAATT
* * * *
667178 TAATTAATAATTTAGCAATTAATAATTTAAAACTTAATGTAATTAATGTAACTTAGAA
1 TAATTAATAATTTAGCAATTAACAATTAAAAACTTAATATAATTAATATAACTTAGAA
667236 GTAATTATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 20 0.39
61 31 0.61
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (60 bp):
TAATTAATAATTTAGCAATTAACAATTAAAAACTTAATATAATTAATATAACTTAGAATT
Found at i:667265 original size:11 final size:11
Alignment explanation
Indices: 667245--667288 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
667235 AGTAATTATC
*
667245 AATAACTTAGT
1 AATAAATTAGT
667256 AATAAATTAGT
1 AATAAATTAGT
* *
667267 GATAACTTAGT
1 AATAAATTAGT
*
667278 AGTAAATTAGT
1 AATAAATTAGT
667289 GGTAATAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (11 bp):
AATAAATTAGT
Found at i:667271 original size:22 final size:22
Alignment explanation
Indices: 667246--667289 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
667236 GTAATTATCA
667246 ATAACTTAGTAATAAATTAGTG
1 ATAACTTAGTAATAAATTAGTG
*
667268 ATAACTTAGTAGTAAATTAGTG
1 ATAACTTAGTAATAAATTAGTG
667290 GTAATAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (22 bp):
ATAACTTAGTAATAAATTAGTG
Found at i:667500 original size:22 final size:22
Alignment explanation
Indices: 667457--667502 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
667447 AATAAGTGAC
* *
667457 AACTTAGTCATTAATTATTGAT
1 AACTTAGTCAATAATTAATGAT
667479 AACTTAGT-AATAATTCAATGAT
1 AACTTAGTCAATAATT-AATGAT
667501 AA
1 AA
667503 TGTAATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (22 bp):
AACTTAGTCAATAATTAATGAT
Found at i:667632 original size:22 final size:22
Alignment explanation
Indices: 667560--667633 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
667550 AGTAGTAATT
* * *
667560 TAGTTAATCATTGATAACTTTT
1 TAGTAAATCATTGATAAATTTA
667582 TAGTAAATCATTGATAAA-TTA
1 TAGTAAATCATTGATAAATTTA
* *
667603 GTAATAAATCATTTATAAATTTA
1 -TAGTAAATCATTGATAAATTTA
667626 TAGTAAAT
1 TAGTAAAT
667634 TATCAATAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.05
22 39 0.89
23 3 0.07
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (22 bp):
TAGTAAATCATTGATAAATTTA
Found at i:667648 original size:44 final size:44
Alignment explanation
Indices: 667565--667655 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
667555 TAATTTAGTT
* * **
667565 AATCATTGATAACTTTTTAGTAAATCATTGATAAATTAGTAATA
1 AATCATTGATAAATTTATAGTAAATCATCAATAAATTAGTAATA
* * * *
667609 AATCATTTATAAATTTATAGTAAATTATCAATAACTTAGTGATA
1 AATCATTGATAAATTTATAGTAAATCATCAATAAATTAGTAATA
667653 AAT
1 AAT
667656 TAACAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (44 bp):
AATCATTGATAAATTTATAGTAAATCATCAATAAATTAGTAATA
Found at i:668049 original size:22 final size:22
Alignment explanation
Indices: 668024--668342 Score: 91
Period size: 22 Copynumber: 14.4 Consensus size: 22
668014 GAAAAAGAAG
* * *
668024 TGATAACTTAATACTTAATCAA
1 TGATAATTTAATAATAAATCAA
*
668046 TGATAATTTAATAATAAATTAA
1 TGATAATTTAATAATAAATCAA
*
668068 TGATAATTTAATAGTAAATCAA
1 TGATAATTTAATAATAAATCAA
* * *
668090 T-TTCAATTTAATAGT-AATTAA
1 TGAT-AATTTAATAATAAATCAA
* * ** *
668111 TTGATAAACTTAGTGGTAAAT-TA
1 -TGAT-AATTTAATAATAAATCAA
* * *
668134 TGAATAACTTAGTAGTAAATCAA
1 TG-ATAATTTAATAATAAATCAA
* * *
668157 TGATAATTTAATAGTTAATCAT
1 TGATAATTTAATAATAAATCAA
* * * *
668179 TGAAAACTTACA-AGTAAATTAA
1 TGATAATTTA-ATAATAAATCAA
* * * *
668201 -AATAACTTAGTCATAGTAAAT-TA
1 TGATAA-TT--TAATAATAAATCAA
* * * * *
668224 TCAATAACTTAATAGTTAATTAA
1 T-GATAATTTAATAATAAATCAA
* *
668247 TGAAAATTTAATAATAAAT-TA
1 TGATAATTTAATAATAAATCAA
* *
668268 TAGATAATTTAAT-ATAAATTAG
1 T-GATAATTTAATAATAAATCAA
* * *
668290 TGATAACTTAGTAATGAATC-A
1 TGATAATTTAATAATAAATCAA
* *
668311 TAGTTAATTTAGTAATAAAT-ATA
1 T-GATAATTTAATAATAAATCA-A
668334 TGATAATTT
1 TGATAATTT
668343 TGTAGTAAAT
Statistics
Matches: 225, Mismatches: 52, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
21 27 0.12
22 159 0.71
23 22 0.10
24 12 0.05
25 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (22 bp):
TGATAATTTAATAATAAATCAA
Found at i:668072 original size:44 final size:44
Alignment explanation
Indices: 668024--668122 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
668014 GAAAAAGAAG
*
668024 TGATAACTTAATACTTAATCAATGAT-AATTTAATAATAAATTAA-
1 TGATAACTTAATACTAAATCAAT-ATCAATTTAATAAT-AATTAAT
* * * *
668068 TGATAATTTAATAGTAAATCAATTTCAATTTAATAGTAATTAAT
1 TGATAACTTAATACTAAATCAATATCAATTTAATAATAATTAAT
668112 TGATAAACTTA
1 TGAT-AACTTA
668123 GTGGTAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
43 7 0.15
44 34 0.74
45 5 0.11
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (44 bp):
TGATAACTTAATACTAAATCAATATCAATTTAATAATAATTAAT
Found at i:668150 original size:67 final size:66
Alignment explanation
Indices: 668060--668211 Score: 168
Period size: 67 Copynumber: 2.3 Consensus size: 66
668050 AATTTAATAA
* * *
668060 TAAATTAATG-ATAATTTAATAGTAAATCAAT-TTCAATTTAATAG-TAATTAATTGATAAACTT
1 TAAATT-ATGAATAACTTAGTAGTAAATCAATGAT-AATTTAATAGTTAA-TAATTGA-AAACTT
***
668122 AGTGG
62 ACAAG
*
668127 TAAATTATGAATAACTTAGTAGTAAATCAATGATAATTTAATAGTTAATCATTGAAAACTTACAA
1 TAAATTATGAATAACTTAGTAGTAAATCAATGATAATTTAATAGTTAATAATTGAAAACTTACAA
668192 G
66 G
*
668193 TAAATTA-AAATAACTTAGT
1 TAAATTATGAATAACTTAGT
668212 CATAGTAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
65 11 0.15
66 18 0.24
67 41 0.55
68 4 0.05
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.38
Consensus pattern (66 bp):
TAAATTATGAATAACTTAGTAGTAAATCAATGATAATTTAATAGTTAATAATTGAAAACTTACAA
G
Found at i:668439 original size:22 final size:22
Alignment explanation
Indices: 668414--668518 Score: 90
Period size: 22 Copynumber: 4.8 Consensus size: 22
668404 TAACATAATA
*
668414 GTAAATTATTGATAATTTAGAT
1 GTAAATTAGTGATAATTTAGAT
* *
668436 GTAAATTATTGATAACTTAG-T
1 GTAAATTAGTGATAATTTAGAT
* *
668457 AGTAAATTAGTAATAACTTA-ATT
1 -GTAAATTAGTGATAATTTAGA-T
* *
668480 GTAAATCAGTGAT-ATTTAGTT
1 GTAAATTAGTGATAATTTAGAT
* *
668501 ATAAATCAGTGATAATTT
1 GTAAATTAGTGATAATTT
668519 TATACTAAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
21 18 0.26
22 51 0.73
23 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (22 bp):
GTAAATTAGTGATAATTTAGAT
Found at i:668493 original size:44 final size:44
Alignment explanation
Indices: 668403--668493 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
668393 TGCATGTATA
* * * * *
668403 ATAACATAATAGTAAATTATTGATAATTTAGATGTAAATTATTG
1 ATAACATAATAGTAAATTAGTAATAACTTAGATGTAAATCAGTG
* *
668447 ATAACTTAGTAGTAAATTAGTAATAACTTA-ATTGTAAATCAGTG
1 ATAACATAATAGTAAATTAGTAATAACTTAGA-TGTAAATCAGTG
668491 ATA
1 ATA
668494 TTTAGTTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.38
Consensus pattern (44 bp):
ATAACATAATAGTAAATTAGTAATAACTTAGATGTAAATCAGTG
Found at i:668673 original size:22 final size:22
Alignment explanation
Indices: 668529--668765 Score: 149
Period size: 22 Copynumber: 10.8 Consensus size: 22
668519 TATACTAAGT
* *
668529 TAGTTAATCATTGATAACTTTA-
1 TAGTAAATCATTTATAAC-TTAG
* * * *
668551 TAGTAAATTATTGATAAATTAA
1 TAGTAAATCATTTATAACTTAG
* *
668573 TAGTAAAACAATTATAACTTTA-
1 TAGTAAATCATTTATAAC-TTAG
* *
668595 TAATAAATCA-TTAGTCACTTAG
1 TAGTAAATCATTTA-TAACTTAG
* * *
668617 TAGTAAATCATTAATAATTTAT
1 TAGTAAATCATTTATAACTTAG
668639 TAGTAAATCATTTATAACTTAG
1 TAGTAAATCATTTATAACTTAG
* * *
668661 TAGTAAAACATTTAGAAATTAG
1 TAGTAAATCATTTATAACTTAG
* ** * ** *
668683 TTGTATTTCAATGCTAATTTAG
1 TAGTAAATCATTTATAACTTAG
* * *
668705 TAATAAATCATTGATAATTTAG
1 TAGTAAATCATTTATAACTTAG
* *
668727 TAG-AATATCATTGATAGCTTAG
1 TAGTAA-ATCATTTATAACTTAG
*
668749 TAGTAAATCATTGATAA
1 TAGTAAATCATTTATAA
668766 AATTGAACTA
Statistics
Matches: 167, Mismatches: 41, Indels: 14
0.75 0.18 0.06
Matches are distributed among these distances:
21 11 0.07
22 149 0.89
23 7 0.04
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
TAGTAAATCATTTATAACTTAG
Found at i:668683 original size:66 final size:66
Alignment explanation
Indices: 668529--668765 Score: 185
Period size: 66 Copynumber: 3.6 Consensus size: 66
668519 TATACTAAGT
* * * * * * *
668529 TAGTTAATCATTGATAACTTTA-TAGTAAATTATTGATAAATTAATAGTAAAACAATTATAACTT
1 TAGTAAATCATTTAGAAC-TTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTTATAAC-T
668593 TA-
64 TAG
* * * *
668595 TAATAAATCA-TTAGTCACTTAGTAGTAAATCATTAATAATTTATTAGTAAATCATTTATAACTT
1 TAGTAAATCATTTAG-AACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTTATAACTT
668659 AG
65 AG
* * * ** * * * * * *
668661 TAGTAAAACATTTAGAAATTAGTTGTATTTCAATGCTAATTTAGTAATAAATCATTGATAATTTA
1 TAGTAAATCATTTAGAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTTATAACTTA
668726 G
66 G
* * *
668727 TAG-AATATCATTGATAGCTTAGTAGTAAATCATTGATAA
1 TAGTAA-ATCATTTAGAACTTAGTAGTAAATCATTGATAA
668766 AATTGAACTA
Statistics
Matches: 131, Mismatches: 35, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
65 10 0.08
66 117 0.89
67 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (66 bp):
TAGTAAATCATTTAGAACTTAGTAGTAAATCATTGATAATTTAATAGTAAATCATTTATAACTTA
G
Found at i:668883 original size:69 final size:71
Alignment explanation
Indices: 668777--668927 Score: 198
Period size: 70 Copynumber: 2.1 Consensus size: 71
668767 ATTGAACTAA
* *
668777 ATTAATGATAACTTAATTATTAATTATTGATAAA-TTTTTATACTTAAAATTGGGAAGAATTGAA
1 ATTAAT-A-AACTTAATTATTAATCATTGATAAATTTTTTACACTTAAAATTGGGAAGAATTGAA
668841 TCTTGGTT
64 TCTTGGTT
* ** * *
668849 ATTAATAAACTTAATTATT-ATCATTGATAAATTTTTTACACTTAAAGTTGTTAGGATTTGAATC
1 ATTAATAAACTTAATTATTAATCATTGATAAATTTTTTACACTTAAAATTGGGAAGAATTGAATC
668913 TTGGTT
66 TTGGTT
*
668919 ACTAATAAA
1 ATTAATAAA
668928 AATGAAGCTA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
69 11 0.16
70 52 0.74
71 1 0.01
72 6 0.09
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.44
Consensus pattern (71 bp):
ATTAATAAACTTAATTATTAATCATTGATAAATTTTTTACACTTAAAATTGGGAAGAATTGAATC
TTGGTT
Found at i:669414 original size:34 final size:33
Alignment explanation
Indices: 669376--669449 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
669366 TGGATTTTTG
669376 GAAAGTCATATAACTTTCATG-AAATTCATTTCTA
1 GAAAGT-ATATAACTTT-ATGAAAATTCATTTCTA
* * * *
669410 GAAAGGTTTATGACTTTTTGAAAATTCATTTCTG
1 GAAA-GTATATAACTTTATGAAAATTCATTTCTA
669444 GAAAGT
1 GAAAGT
669450 GATAAGACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
33 4 0.12
34 28 0.82
35 2 0.06
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (33 bp):
GAAAGTATATAACTTTATGAAAATTCATTTCTA
Found at i:669591 original size:21 final size:20
Alignment explanation
Indices: 669562--669614 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
669552 TAATCTTACT
*
669562 TTATCACAAATT-TCCAAAAG
1 TTATTACAAATTAT-CAAAAG
*
669582 TATATTACAAGTTATCAAAAG
1 T-TATTACAAATTATCAAAAG
669603 TTATTA-AAATTA
1 TTATTACAAATTA
669615 CATTAAGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.18
20 6 0.21
21 16 0.57
22 1 0.04
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (20 bp):
TTATTACAAATTATCAAAAG
Found at i:669691 original size:42 final size:42
Alignment explanation
Indices: 669594--669752 Score: 151
Period size: 42 Copynumber: 3.8 Consensus size: 42
669584 TATTACAAGT
* * * * * *
669594 TATCAAAAGTTATTAAAATTACATTAAGATGTTACCAAAGTTT
1 TATCAAAAGTTATCAAAATTATATCAA-AGGTTACCAAAATTA
* * *
669637 TATC-AAAGATTATTAAAATTATATCAATGGTTACGAAAATTA
1 TATCAAAAG-TTATCAAAATTATATCAAAGGTTACCAAAATTA
* * * *
669679 TATCATAAA-TTATCAAACTAATATGAAAGGTTACTAAAATTA
1 TATCA-AAAGTTATCAAAATTATATCAAAGGTTACCAAAATTA
*
669721 TATCAAAAGTTATCAAAATTTTATCAAAGGTT
1 TATCAAAAGTTATCAAAATTATATCAAAGGTT
669753 TTCGAAATCA
Statistics
Matches: 95, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 3 0.03
42 69 0.73
43 20 0.21
44 3 0.03
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (42 bp):
TATCAAAAGTTATCAAAATTATATCAAAGGTTACCAAAATTA
Found at i:669760 original size:21 final size:21
Alignment explanation
Indices: 669594--669748 Score: 102
Period size: 21 Copynumber: 7.3 Consensus size: 21
669584 TATTACAAGT
*
669594 TATCAAAAGTTATTAAAATTA
1 TATCAAAAGTTATCAAAATTA
* * * * * *
669615 CATTAAGATGTTACCAAAGTTT
1 TATCAA-AAGTTATCAAAATTA
*
669637 TATC-AAAGATTATTAAAATTA
1 TATCAAAAG-TTATCAAAATTA
**
669658 TATCAATGGTTA-CGAAAATTA
1 TATCAAAAGTTATC-AAAATTA
* *
669679 TATCATAAA-TTATCAAACTAA
1 TATCA-AAAGTTATCAAAATTA
* *
669700 TATGAAAGGTTA-CTAAAATTA
1 TATCAAAAGTTATC-AAAATTA
*
669721 TATCAAAAGTTATCAAAATTT
1 TATCAAAAGTTATCAAAATTA
669742 TATCAAA
1 TATCAAA
669749 GGTTTTCGAA
Statistics
Matches: 97, Mismatches: 28, Indels: 18
0.68 0.20 0.13
Matches are distributed among these distances:
20 5 0.05
21 75 0.77
22 17 0.18
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (21 bp):
TATCAAAAGTTATCAAAATTA
Found at i:669887 original size:74 final size:71
Alignment explanation
Indices: 669765--669916 Score: 200
Period size: 74 Copynumber: 2.1 Consensus size: 71
669755 CGAAATCAAA
* * *
669765 ATTATT-TCAAAAGTTATCTAATTTTACTTATAGTATTAAAATACAAATTAAATTGTTAGTATTT
1 ATTATTATCAAAAGTTATCAAAATTTACTTATAGTATTAAAATACAAATTAAATTATTAGTATTT
*
669829 ATTATT
66 ATTATG
* *
669835 ATTATTATCAAAAGTATATCAAAATTTATTTATATTATATCAAAAT-CAAAATTAAATTATTAGT
1 ATTATTATCAAAAGT-TATCAAAATTTACTTATAGTAT-T-AAAATAC-AAATTAAATTATTAGT
669899 ATTTATTATG
62 ATTTATTATG
669909 ATTATTAT
1 ATTATTAT
669917 TATTATTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
70 6 0.08
71 8 0.11
72 18 0.25
73 2 0.03
74 37 0.52
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (71 bp):
ATTATTATCAAAAGTTATCAAAATTTACTTATAGTATTAAAATACAAATTAAATTATTAGTATTT
ATTATG
Found at i:669907 original size:3 final size:3
Alignment explanation
Indices: 669890--669931 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
669880 TCAAAATTAA
* *
669890 ATT ATT AGT ATTT ATT ATG ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
669932 CATAGTATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:692464 original size:2 final size:2
Alignment explanation
Indices: 692457--692490 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
692447 GTTCATCCTC
692457 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
692491 TTGTTCCCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:694086 original size:2 final size:2
Alignment explanation
Indices: 694045--694069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
694035 CAGAACTCAA
694045 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
694070 GAGCTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:697965 original size:145 final size:145
Alignment explanation
Indices: 697743--698013 Score: 375
Period size: 145 Copynumber: 1.9 Consensus size: 145
697733 GTGACATTCT
** * * *
697743 AATCCCATATTGGGATGTTCTGAGAATCTGTTATAATATATAAGTTGAAACTTAAATCGATACTT
1 AATCCCATATCAGGATGTTCTGAGAATCTATTATAATAAATAAGTTGAAACTTAAACCGATACTT
* * *
697808 ATAAGACGTTTTTTGTGAAACAAAACTATGAGACTTTTAGG-TCAAAACAAATAATACCTTGCAA
66 ATAAGACATTTTTTGTGAAACAAAACTATGAAACCTTT-GGATCAAAACAAATAATACCTTGCAA
697872 TTATTTGTGACAACCC
130 TTATTTGTGACAACCC
* * *
697888 AATCCCATATCAGGATGCTT-TGAGAATCTATTATGATAAATAAGTTGAAACTTAAACCTATGCT
1 AATCCCATATCAGGATG-TTCTGAGAATCTATTATAATAAATAAGTTGAAACTTAAACCGATACT
* * * *
697952 TATGAGATATTTTTTGTGAAACAAAATTGTGAAACCTTTGGATCAAAACAAATAATACCTTG
65 TATAAGACATTTTTTGTGAAACAAAACTATGAAACCTTTGGATCAAAACAAATAATACCTTG
698014 TAAATTATAC
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
144 2 0.02
145 105 0.96
146 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (145 bp):
AATCCCATATCAGGATGTTCTGAGAATCTATTATAATAAATAAGTTGAAACTTAAACCGATACTT
ATAAGACATTTTTTGTGAAACAAAACTATGAAACCTTTGGATCAAAACAAATAATACCTTGCAAT
TATTTGTGACAACCC
Found at i:707517 original size:22 final size:22
Alignment explanation
Indices: 707486--707528 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
707476 TGTATATTTA
* * *
707486 TATTTGTATCCTTAGAATTAAG
1 TATTTATATCCCTAAAATTAAG
707508 TATTTATATCCCTAAAATTAA
1 TATTTATATCCCTAAAATTAA
707529 TGACAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (22 bp):
TATTTATATCCCTAAAATTAAG
Found at i:708718 original size:18 final size:18
Alignment explanation
Indices: 708697--708735 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
708687 TGAACATGAC
*
708697 TATTTATTTATGTAAATA
1 TATTTAATTATGTAAATA
*
708715 TATTTAATTATGTATATA
1 TATTTAATTATGTAAATA
708733 TAT
1 TAT
708736 ATATATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TATTTAATTATGTAAATA
Found at i:715164 original size:2 final size:2
Alignment explanation
Indices: 715157--715191 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
715147 ATATAAAATC
715157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
715192 ATGTTGGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:715337 original size:204 final size:204
Alignment explanation
Indices: 714987--715385 Score: 771
Period size: 204 Copynumber: 2.0 Consensus size: 204
714977 CACTGGTCGC
714987 AATGTTGGGAAACAGTTGATTGTTGTCTCCCATGATTGGTGAAACTATACCAAACCTTGTAGAAG
1 AATGTTGGGAAACAGTTGATTGTTGTCTCCCATGATTGGTGAAACTATACCAAACCTTGTAGAAG
*
715052 TTGCTTGATTGTTGCGTTGGCTTCCTTAAGAACTGATCGACAGTTTGTGTTTTGGTTGAATAAAA
66 TTGCTTGATTGTTGCGTTGGCTTCCTTAAGAACTGATCGACAGTTTGTGTTTAGGTTGAATAAAA
715117 AGGATTTAGAATACTAAATCCTATTATGTAATATAAAATCATATATATATATATATATATATATA
131 AGGATTTAGAATACTAAATCCTATTATGTAATATAAAATCATATATATATATATATATATATATA
715182 TATATATAT
196 TATATATAT
*
715191 AATGTTGGGAAACAGTTGGTTGTTGTCTCCCATGATTGGTGAAACTATACCAAACCTTGTAGAAG
1 AATGTTGGGAAACAGTTGATTGTTGTCTCCCATGATTGGTGAAACTATACCAAACCTTGTAGAAG
*
715256 TTGCTTGATTGTTGTGTTGGCTTCCTTAAGAACTGATCGACAGTTTGTGTTTAGGTTGAATAAAA
66 TTGCTTGATTGTTGCGTTGGCTTCCTTAAGAACTGATCGACAGTTTGTGTTTAGGTTGAATAAAA
715321 AGGATTTAGAATACTAAATCCTATTATGTAATATAAAATCATATATATATATATATATATATATA
131 AGGATTTAGAATACTAAATCCTATTATGTAATATAAAATCATATATATATATATATATATATATA
715386 CACTAATTTT
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 192 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (204 bp):
AATGTTGGGAAACAGTTGATTGTTGTCTCCCATGATTGGTGAAACTATACCAAACCTTGTAGAAG
TTGCTTGATTGTTGCGTTGGCTTCCTTAAGAACTGATCGACAGTTTGTGTTTAGGTTGAATAAAA
AGGATTTAGAATACTAAATCCTATTATGTAATATAAAATCATATATATATATATATATATATATA
TATATATAT
Found at i:715368 original size:2 final size:2
Alignment explanation
Indices: 715361--715385 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
715351 ATATAAAATC
715361 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
715386 CACTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:715500 original size:2 final size:2
Alignment explanation
Indices: 715493--715517 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
715483 TTTGATTTTG
715493 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
715518 ATTTGATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:716110 original size:18 final size:18
Alignment explanation
Indices: 716084--716120 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
716074 ATATTATGTT
*
716084 ATTAGTGATTTATTACTA
1 ATTAATGATTTATTACTA
716102 ATTAATGATTTATTACTA
1 ATTAATGATTTATTACTA
716120 A
1 A
716121 ATTATCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTAATGATTTATTACTA
Found at i:716207 original size:22 final size:22
Alignment explanation
Indices: 716126--716208 Score: 62
Period size: 22 Copynumber: 3.6 Consensus size: 22
716116 ACTAAATTAT
* * *
716126 CTATTAAATTATTGATGATTTA
1 CTATTAAGTTATCGATTATTTA
716148 CTATTAAGTTA-CTGATAATTTATTTA
1 CTATTAAGTTATC-G---A-TTATTTA
*
716174 CTATTAATTTATCGATTATTTA
1 CTATTAAGTTATCGATTATTTA
716196 CT-TTAAAGTTATC
1 CTATT-AAGTTATC
716209 TGTGATTAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.04
22 27 0.55
23 1 0.02
25 1 0.02
26 17 0.35
27 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (22 bp):
CTATTAAGTTATCGATTATTTA
Found at i:716446 original size:22 final size:22
Alignment explanation
Indices: 716376--716502 Score: 109
Period size: 22 Copynumber: 5.9 Consensus size: 22
716366 TAGTTTTTAA
* * *
716376 TTATTTATTATAAAATTATTAC
1 TTATTTACTATTAAATTATCAC
* *
716398 ATGTTTA-TATTAAATTATTCA-
1 TTATTTACTATTAAATTA-TCAC
* * *
716419 TAATTTACTATCAATTTATCAC
1 TTATTTACTATTAAATTATCAC
716441 TTATTTA-TATTAAATTAT-AC
1 TTATTTACTATTAAATTATCAC
716461 TTGATTTACTATTAAATTATCAC
1 TT-ATTTACTATTAAATTATCAC
* * *
716484 TAATTAACTATTAAGTTAT
1 TTATTTACTATTAAATTAT
716503 TAATAATTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 12
0.76 0.14 0.11
Matches are distributed among these distances:
20 4 0.05
21 30 0.36
22 47 0.56
23 3 0.04
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATTTACTATTAAATTATCAC
Found at i:716448 original size:43 final size:43
Alignment explanation
Indices: 716401--716511 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
716391 TTATTACATG
* *
716401 TTTATATTAAATTATTCATAATTTACTATCAATTTATCACTTA
1 TTTATATTAAATTATTCATAATTTACTATCAAATTATCACTAA
* * * *
716444 TTTATATTAAATTATACTTGATTTACTATTAAATTATCACTAA
1 TTTATATTAAATTATTCATAATTTACTATCAAATTATCACTAA
* * *
716487 TTAACTATTAAGTTATTAATAATTT
1 TTTA-TATTAAATTATTCATAATTT
716512 CTACTAAGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
43 40 0.73
44 15 0.27
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTATATTAAATTATTCATAATTTACTATCAAATTATCACTAA
Found at i:716509 original size:22 final size:21
Alignment explanation
Indices: 716466--716523 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
716456 TATACTTGAT
* *
716466 TTACTATTAAATTATCACTAA
1 TTACTATTAAGTTATCAATAA
*
716487 TTAACTATTAAGTTATTAATAA
1 TT-ACTATTAAGTTATCAATAA
* *
716509 TTTCTACTAAGTTAT
1 TTACTATTAAGTTAT
716524 ATTGATTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
TTACTATTAAGTTATCAATAA
Found at i:716524 original size:65 final size:63
Alignment explanation
Indices: 716401--716538 Score: 152
Period size: 65 Copynumber: 2.2 Consensus size: 63
716391 TTATTACATG
* * * * *
716401 TTTATATTAAATTATTCATAATTTACTATCAATTTATCACTTATTTATATTAAATTATACTTGA
1 TTTATATTAAATTATTCATAATTAACTATCAAGTTATCAATAATTTATACTAAATTATA-TTGA
* * * *
716465 TTTACTATTAAATTA-TCACTAATTAACTATTAAGTTATTAATAATTTCTACTAAGTTATATTGA
1 TTTA-TATTAAATTATTCA-TAATTAACTATCAAGTTATCAATAATTTATACTAAATTATATTGA
*
716529 TTTATTTTAA
1 TTTATATTAA
716539 GTTTTCAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
63 5 0.08
64 15 0.24
65 42 0.68
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (63 bp):
TTTATATTAAATTATTCATAATTAACTATCAAGTTATCAATAATTTATACTAAATTATATTGA
Found at i:716660 original size:22 final size:22
Alignment explanation
Indices: 716635--716676 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
716625 CAAACTGAAG
716635 CTAATTTACTATTAAGTTATTA
1 CTAATTTACTATTAAGTTATTA
**
716657 CTAATTTTTTATTAAGTTAT
1 CTAATTTACTATTAAGTTAT
716677 CAATAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (22 bp):
CTAATTTACTATTAAGTTATTA
Found at i:716683 original size:22 final size:22
Alignment explanation
Indices: 716644--716721 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
716634 GCTAATTTAC
* *
716644 TATTAAGTTATTACTAATTTTT
1 TATTAAGTTATCACTAATTATT
* *
716666 TATTAAGTTATCAATAATTAAT
1 TATTAAGTTATCACTAATTATT
* * *
716688 TACTAAGTTATCACTTATTCTT
1 TATTAAGTTATCACTAATTATT
*
716710 TATTAAGCTATC
1 TATTAAGTTATC
716722 CTTAATTTAC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (22 bp):
TATTAAGTTATCACTAATTATT
Found at i:716742 original size:44 final size:44
Alignment explanation
Indices: 716636--716742 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
716626 AAACTGAAGC
* * * *
716636 TAATTTACTATTAAGTTATTACTAATTTTTTATTAAGTTATCAA
1 TAATTTACTAATAAGTTATCACTAATTCTTTATTAAGCTATCAA
* * * * **
716680 TAATTAATTACTAAGTTATCACTTATTCTTTATTAAGCTATCCT
1 TAATTTACTAATAAGTTATCACTAATTCTTTATTAAGCTATCAA
*
716724 TAATTTACTAATATGTTAT
1 TAATTTACTAATAAGTTAT
716743 TATGTATTTA
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (44 bp):
TAATTTACTAATAAGTTATCACTAATTCTTTATTAAGCTATCAA
Found at i:717044 original size:22 final size:20
Alignment explanation
Indices: 717006--717082 Score: 55
Period size: 22 Copynumber: 3.5 Consensus size: 20
716996 TTTTTCATTG
*
717006 ATTTACTATTATATTATCAGTA
1 ATTTACTACTA-ATTATCA-TA
* *
717028 ATTTACTACTAAGTTATTAATG
1 ATTTACTACTAA-TTA-TCATA
*
717050 ATTTACTAATAAATTATCCATA
1 ATTTACTACT-AATTAT-CATA
*
717072 ATTTATTACTA
1 ATTTACTACTA
717083 TTTTATTAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
21 3 0.07
22 36 0.84
23 4 0.09
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (20 bp):
ATTTACTACTAATTATCATA
Found at i:717053 original size:44 final size:44
Alignment explanation
Indices: 717004--717191 Score: 157
Period size: 44 Copynumber: 4.3 Consensus size: 44
716994 AATTTTTCAT
*
717004 TGATTTACTATTATATTATCAGTAATTTACTACTAAGTTATTAA
1 TGATTTACTATTAAATTATCAGTAATTTACTACTAAGTTATTAA
* * **
717048 TGATTTACTAATAAATTATCCA-TAATTTATTACTATTTTATTAA
1 TGATTTACTATTAAATTAT-CAGTAATTTACTACTAAGTTATTAA
* * * * * * *
717092 TGATTTACCATTAAGTTATGAATCATTTA-TCATTAAGTTATAAA
1 TGATTTACTATTAAATTATCAGTAATTTACT-ACTAAGTTATTAA
* * * * *
717136 TTATTTGCTATTAAATTGT-TGATAATTTACTACTAAGTTATTTA
1 TGATTTACTATTAAATTATCAG-TAATTTACTACTAAGTTATTAA
* *
717180 TTATTTATTATT
1 TGATTTACTATT
717192 TATTATAAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
43 2 0.02
44 107 0.96
45 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (44 bp):
TGATTTACTATTAAATTATCAGTAATTTACTACTAAGTTATTAA
Found at i:717110 original size:22 final size:22
Alignment explanation
Indices: 717085--717186 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 22
717075 TATTACTATT
*
717085 TTATTAATGATTTACCATTAAG
1 TTATTAATTATTTACCATTAAG
* * *
717107 TTATGAATCATTTATCATTAAG
1 TTATTAATTATTTACCATTAAG
* * * *
717129 TTATAAATTATTTGCTATTAAA
1 TTATTAATTATTTACCATTAAG
* * * * *
717151 TTGTTGATAATTTACTACTAAG
1 TTATTAATTATTTACCATTAAG
*
717173 TTATTTATTATTTA
1 TTATTAATTATTTA
717187 TTATTTATTA
Statistics
Matches: 61, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (22 bp):
TTATTAATTATTTACCATTAAG
Found at i:717185 original size:7 final size:7
Alignment explanation
Indices: 717173--717197 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
717163 TACTACTAAG
717173 TTATTTA
1 TTATTTA
717180 TTATTTA
1 TTATTTA
717187 TTATTTA
1 TTATTTA
717194 TTAT
1 TTAT
717198 AAAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:717323 original size:22 final size:22
Alignment explanation
Indices: 717263--717385 Score: 83
Period size: 22 Copynumber: 5.7 Consensus size: 22
717253 TGTTTAACTT
* *
717263 ATTTACTACTAAATTATCATTA
1 ATTTACTACTAAATTATTAGTA
*
717285 ATTTA-TAACCAAATTATTAGTA
1 ATTTACT-ACTAAATTATTAGTA
* ** *
717307 ATTTACTACTAAGTTATTTTTG
1 ATTTACTACTAAATTATTAGTA
* * *
717329 ATTTAATATTAAATTA-T--CA
1 ATTTACTACTAAATTATTAGTA
* **
717348 ATTTACTACTAAATTATAAAAA
1 ATTTACTACTAAATTATTAGTA
*
717370 ATTTACTATTAAATTA
1 ATTTACTACTAAATTA
717386 CCAATGATTA
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
19 14 0.18
21 2 0.03
22 61 0.78
23 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAGTA
Found at i:717461 original size:22 final size:21
Alignment explanation
Indices: 717413--717462 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
717403 TATTTTTGTG
717413 TATTTATTACTATGTTATTAT
1 TATTTATTACTATGTTATTAT
*
717434 TGATTTATTACTTAAT-TTTTTAT
1 T-ATTTATTAC-T-ATGTTATTAT
717457 TATTTA
1 TATTTA
717463 CAACAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 14 0.56
23 8 0.32
24 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (21 bp):
TATTTATTACTATGTTATTAT
Found at i:717686 original size:11 final size:11
Alignment explanation
Indices: 717666--717719 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
717656 AAGCCAAAAC
717666 TAATTTATTAT
1 TAATTTATTAT
* *
717677 TAAATTATTAC
1 TAATTTATTAT
717688 TAATTTATTAT
1 TAATTTATTAT
* *
717699 TAAGTTGTTAT
1 TAATTTATTAT
717710 TAATTTATTA
1 TAATTTATTA
717720 CTAAGTTATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (11 bp):
TAATTTATTAT
Found at i:717689 original size:22 final size:22
Alignment explanation
Indices: 717664--717728 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
717654 TTAAGCCAAA
*
717664 ACTAATTTATTATTAAATTATT
1 ACTAATTTATTATTAAGTTATT
*
717686 ACTAATTTATTATTAAGTTGTT
1 ACTAATTTATTATTAAGTTATT
* *
717708 ATTAATTTATTACTAAGTTAT
1 ACTAATTTATTATTAAGTTAT
717729 CAATGACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (22 bp):
ACTAATTTATTATTAAGTTATT
Found at i:717728 original size:11 final size:11
Alignment explanation
Indices: 717664--717728 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
717654 TTAAGCCAAA
717664 ACTAATTTATT
1 ACTAATTTATT
* *
717675 ATTAAATTATT
1 ACTAATTTATT
717686 ACTAATTTATT
1 ACTAATTTATT
* * *
717697 ATTAAGTTGTT
1 ACTAATTTATT
*
717708 ATTAATTTATT
1 ACTAATTTATT
*
717719 ACTAAGTTAT
1 ACTAATTTAT
717729 CAATGACTAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 43 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (11 bp):
ACTAATTTATT
Found at i:717802 original size:22 final size:21
Alignment explanation
Indices: 717768--717970 Score: 102
Period size: 22 Copynumber: 9.3 Consensus size: 21
717758 TTTTAATAAG
* * *
717768 TTATTCTTAATTTACTATTATA
1 TTATTATT-ATTTACTACTAAA
* *
717790 TTATTATGTATTTACAACTATA
1 TTATTAT-TATTTACTACTAAA
*
717812 TTATAATTGATTTACTACTAAA
1 TTATTATT-ATTTACTACTAAA
* * *
717834 TTATTATACAATTACTA-TATA
1 TTATTAT-TATTTACTACTAAA
* * *
717855 TTATTATTGATTTACAATTAAG
1 TTATTATT-ATTTACTACTAAA
* * *
717877 TTATCAATGATTGACTACTAAA
1 TTAT-TATTATTTACTACTAAA
* *
717899 TTATTATTTATTTATTATTAAA
1 TTATTA-TTATTTACTACTAAA
* * * * *
717921 TTATCACTAACTTACCACTAAG
1 TTATTA-TTATTTACTACTAAA
* *
717943 TTATCTATAATTTACTATTAAA
1 TTAT-TATTATTTACTACTAAA
717965 TTATTA
1 TTATTA
717971 CTGATTAATT
Statistics
Matches: 134, Mismatches: 39, Indels: 17
0.71 0.21 0.09
Matches are distributed among these distances:
21 20 0.15
22 110 0.82
23 4 0.03
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (21 bp):
TTATTATTATTTACTACTAAA
Found at i:717837 original size:44 final size:43
Alignment explanation
Indices: 717777--717869 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 43
717767 GTTATTCTTA
* * ** *
717777 ATTTACTATTATATTATTATGTATTTACAACTATATTATAATTG
1 ATTTACTACTAAATTATTATACAATTACAA-TATATTATAATTG
* *
717821 ATTTACTACTAAATTATTATACAATTACTATATATTATTATTG
1 ATTTACTACTAAATTATTATACAATTACAATATATTATAATTG
717864 ATTTAC
1 ATTTAC
717870 AATTAAGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 18 0.43
44 24 0.57
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (43 bp):
ATTTACTACTAAATTATTATACAATTACAATATATTATAATTG
Found at i:717868 original size:65 final size:66
Alignment explanation
Indices: 717779--717905 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 66
717769 TATTCTTAAT
*
717779 TTACTATTATATTATTATGTATTTACAACTATA-TTAT-AATTGATTTACTACTAAATTATTATA
1 TTACTATTATATTATTATGTATTTACAACTA-AGTTATCAA-TGATTGACTACTAAATTATTATA
717842 CAA
64 CAA
*
717845 TTACTA-TATATTATTAT-TGATTTACAATTAAGTTATCAATGATTGACTACTAAATTATTAT
1 TTACTATTATATTATTATGT-ATTTACAACTAAGTTATCAATGATTGACTACTAAATTATTAT
717906 TTATTTATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
64 2 0.04
65 46 0.82
66 8 0.14
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (66 bp):
TTACTATTATATTATTATGTATTTACAACTAAGTTATCAATGATTGACTACTAAATTATTATACA
A
Found at i:718219 original size:35 final size:35
Alignment explanation
Indices: 718170--718258 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
718160 ACCCATTTTG
* *
718170 TATTTTATTTTATTTTAT-TATTATTTATTAATATA
1 TATTTT-TTCTATTTTATCTATTAATTATTAATATA
*
718205 TATTTTTTACTA-TTTATCTATTAATTATTAATATG
1 TATTTTTT-CTATTTTATCTATTAATTATTAATATA
*
718240 TATTTTTTTTATTTTATCT
1 TATTTTTTCTATTTTATCT
718259 TGATTGATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
34 9 0.19
35 38 0.81
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.67
Consensus pattern (35 bp):
TATTTTTTCTATTTTATCTATTAATTATTAATATA
Found at i:718989 original size:3 final size:3
Alignment explanation
Indices: 718981--719015 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
718971 TTTACCTTAT
*
718981 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
719016 TATTTACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:719137 original size:57 final size:56
Alignment explanation
Indices: 719077--719304 Score: 197
Period size: 58 Copynumber: 4.1 Consensus size: 56
719067 TTTTTAATGA
719077 TTTTCTTAAAATAAAATTCTAAAAAATATATTTTTGAGGAAAAGTTAAAAGTATCAAT
1 TTTTCTTAAAATAAAATT-TAAAAAA-ATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* * *
719135 TTTCCTTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAACAGTTGAAAA-TATCAAT
1 TTTTCTT-AAAATAAAA-TTTAAAAAAATATTTTTGAGGAAAAGTT-AAAAGTATCAAT
* * * * * * * *
719193 TTTTCTCGAAATTAAAGTTTCAGAAAAACA-TTTTGAGAAAAAGTTAGAAGTACCAAT
1 TTTTCT-TAAAATAAAATTT-AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* * *
719250 TTTTCTT---A-AAAA---AAAAAAAT-GTTTTAAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTAAAATAAAATTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
719298 TTTTCTT
1 TTTTCTT
719305 GTACAAAAGC
Statistics
Matches: 139, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
48 35 0.25
52 3 0.02
56 3 0.02
57 28 0.20
58 49 0.35
59 19 0.14
60 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (56 bp):
TTTTCTTAAAATAAAATTTAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
Found at i:723991 original size:14 final size:14
Alignment explanation
Indices: 723972--724006 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
723962 TTGGTTGTTA
723972 CTTTTT-CTTATTTG
1 CTTTTTACTT-TTTG
723986 CTTTTTACTTTTTG
1 CTTTTTACTTTTTG
724000 CTTTTTA
1 CTTTTTA
724007 AATTTTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 17 0.85
15 3 0.15
ACGTcount: A:0.09, C:0.14, G:0.06, T:0.71
Consensus pattern (14 bp):
CTTTTTACTTTTTG
Found at i:724012 original size:14 final size:14
Alignment explanation
Indices: 723982--724015 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
723972 CTTTTTCTTA
**
723982 TTTGCTTTTTACTT
1 TTTGCTTTTTAAAT
723996 TTTGCTTTTTAAAT
1 TTTGCTTTTTAAAT
724010 TTTGCT
1 TTTGCT
724016 ATAAAGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.68
Consensus pattern (14 bp):
TTTGCTTTTTAAAT
Found at i:729367 original size:22 final size:21
Alignment explanation
Indices: 729342--729392 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
729332 TAATCAAATT
729342 AATAAATTAT-TGATTTAAAAAA
1 AATAAATTATGT-A-TTAAAAAA
*
729364 AATAGAA-TATGTATTGAAAAA
1 AATA-AATTATGTATTAAAAAA
729385 AATAAATT
1 AATAAATT
729393 TACCTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 12 0.48
22 8 0.32
23 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATAAATTATGTATTAAAAAA
Found at i:732508 original size:10 final size:11
Alignment explanation
Indices: 732480--732505 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
732470 TTTTAATAAT
732480 ATTTTAAATTA
1 ATTTTAAATTA
732491 ATTTTAAATTA
1 ATTTTAAATTA
732502 ATTT
1 ATTT
732506 AAAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTTTAAATTA
Found at i:732558 original size:21 final size:22
Alignment explanation
Indices: 732534--732575 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
732524 GGTTATAAAA
732534 ATTAATT-TAATTATTATTTTT
1 ATTAATTATAATTATTATTTTT
* *
732555 ATTAATTATATTTTTTATTTT
1 ATTAATTATAATTATTATTTT
732576 GTAACATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTAATTATAATTATTATTTTT
Found at i:732573 original size:16 final size:16
Alignment explanation
Indices: 732540--732569 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
732530 AAAAATTAAT
732540 TTAATTATTATTTTTA
1 TTAATTATTATTTTTA
732556 TTAATTA-TATTTTT
1 TTAATTATTATTTTT
732570 TATTTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTAATTATTATTTTTA
Found at i:738173 original size:16 final size:17
Alignment explanation
Indices: 738142--738176 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
738132 TAGGATAATT
738142 TTATTTATTGATTAAAA
1 TTATTTATTGATTAAAA
*
738159 TTATTT-TTTATTAAAA
1 TTATTTATTGATTAAAA
738175 TT
1 TT
738177 TATATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TTATTTATTGATTAAAA
Found at i:738179 original size:17 final size:18
Alignment explanation
Indices: 738141--738179 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
738131 ATAGGATAAT
738141 TTTATTTATTGATTAAAA
1 TTTATTTATTGATTAAAA
*
738159 -TTATTT-TTTATTAAAA
1 TTTATTTATTGATTAAAA
738175 TTTAT
1 TTTAT
738180 ATAATTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTTATTGATTAAAA
Found at i:743447 original size:14 final size:16
Alignment explanation
Indices: 743412--743449 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
743402 GACATTTTTG
*
743412 TGTGTGTCTGTATGTT
1 TGTGTGTTTGTATGTT
743428 TGTGTGTTTGT-TGTT
1 TGTGTGTTTGTATGTT
743443 T-TGTGTT
1 TGTGTGTT
743450 CCTTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.03, C:0.03, G:0.32, T:0.63
Consensus pattern (16 bp):
TGTGTGTTTGTATGTT
Found at i:746092 original size:22 final size:22
Alignment explanation
Indices: 746064--746107 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
746054 AAGTGTAAGG
* *
746064 TTCCAAAACGTATAATAGAGTA
1 TTCCAAAACGCATAATACAGTA
*
746086 TTCCAAAGCGCATAATACAGTA
1 TTCCAAAACGCATAATACAGTA
746108 AGTTTACATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (22 bp):
TTCCAAAACGCATAATACAGTA
Found at i:746877 original size:14 final size:15
Alignment explanation
Indices: 746858--746890 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
746848 AAAAACACTT
*
746858 AATATT-TTTTGGGA
1 AATATTCTTTAGGGA
746872 AATATTCTTTAGGGA
1 AATATTCTTTAGGGA
746887 AATA
1 AATA
746891 CTCTAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.42
Consensus pattern (15 bp):
AATATTCTTTAGGGA
Found at i:749460 original size:111 final size:112
Alignment explanation
Indices: 749267--749697 Score: 264
Period size: 113 Copynumber: 3.9 Consensus size: 112
749257 AAAAATGTAA
* * * *
749267 TTTTTTATATTATTAACTACGTTTCTAACATAAAAAATGTAATCTTTGAACATAGTGATTGTATA
1 TTTTTTATATTATTAACTACATTTCTAACATAAAAAACGTAATCTTTGAACATAATAATTGTATA
* * * *
749332 ATTTTATAGAACATCAAAGATTACGT-TTTCTATGTCAGAAACTTAGT
66 ATTTTAAAAAACATCAAAGACTACATCTTT-TATGTCAGAAACTTAGT
* * *
749379 TTTTTTATATTATTAACTCCATTTCTTAA-ATAAAAACCGTAATC-TTGAATATAATAATTGTAT
1 TTTTTTATATTATTAACTACATTTC-TAACATAAAAAACGTAATCTTTGAACATAATAATTGTAT
* * * *
749442 -ATTTTAAAAAAACGTCAAAGACTACATCTTTTATGTTAGAAACATA-A
65 AATTTT-AAAAAACATCAAAGACTACATCTTTTATGTCAGAAACTTAGT
* * * * * * * * * * * * ** *
749489 TCTTTAATATTATTAACCACGTTTTTTACCTAAGAAACCTAGTTTTTGAACACAATGGTTATATA
1 TTTTTTATATTATTAACTACATTTCTAACATAAAAAACGTAATCTTTGAACATAATAATTGTATA
* **** ** * ** * * *
749554 TTTTTAAATGGTATCACGGATTATGTTTTTTTTATGTTAGAAACGTAG-
66 ATTTTAAAAAACATCAAAGACTA--CATCTTTTATGTCAGAAACTTAGT
* * * * * * * *
749602 TCTTTGAAATTACTAACTACGTTTCTAACATAAAAAACGTAATCTTTGAGCACAATGATTGTATA
1 TTTTTTATATTATTAACTACATTTCTAACATAAAAAACGTAATCTTTGAACATAATAATTGTATA
* * ** *
749667 TTTTTAGACGACATCAAAAACTACAT-TTTTA
66 ATTTTAAAAAACATCAAAGACTACATCTTTTA
749698 GAGGTTTGAT
Statistics
Matches: 240, Mismatches: 70, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
109 2 0.01
110 38 0.16
111 70 0.29
112 43 0.18
113 87 0.36
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (112 bp):
TTTTTTATATTATTAACTACATTTCTAACATAAAAAACGTAATCTTTGAACATAATAATTGTATA
ATTTTAAAAAACATCAAAGACTACATCTTTTATGTCAGAAACTTAGT
Found at i:749696 original size:113 final size:111
Alignment explanation
Indices: 749246--749696 Score: 336
Period size: 111 Copynumber: 4.0 Consensus size: 111
749236 TTTAACTACG
* * * * *
749246 TTTTTTATGTTAAAAATGTAATTTTTTATATTATTAACTACGTTTCTAACATAAAAAATGTAATC
1 TTTTTTATGTTAGAAACGTAATCTTTTAAATTATTAACTACGTTTCTAACATAAAAAACGTAATC
* * * * * *
749311 TTTGAACATAGTGATTGTATAATTTTATAGAACATCAAAGATTAC-G
66 TTTGAACACAATGATTGTATATTTTTAAAG-ACATCAAAGACTACAT
* * * * * * * * *
749357 TTTTCTATGTCAGAAACTTAGTTTTTTTATATTATTAACTCCATTTCTTAA-ATAAAAACCGTAA
1 TTTTTTATGTTAGAAACGTA-ATCTTTTAAATTATTAACTACGTTTC-TAACATAAAAAACGTAA
* * * * * *
749421 TC-TTGAATATAATAATTGTATATTTTAAAAAAACGTCAAAGACTACA-
64 TCTTTGAACACAATGATTGTATATTTT-TAAAGACATCAAAGACTACAT
* * * * * * * * *
749468 TCTTTTATGTTAGAAACATAATC-TTTAATATTATTAACCACGTTTTTTACCTAAGAAACCTAGT
1 TTTTTTATGTTAGAAACGTAATCTTTTAA-ATTATTAACTACGTTTCTAACATAAAAAACGTAAT
* * * ** ** * **
749532 TTTTGAACACAATGGTTATATATTTTTAAATGGTATCACGGATTATGTT
65 CTTTGAACACAATGATTGTATATTTTTAAA-GACATCAAAGACTA-CAT
* * *
749581 TTTTTTATGTTAGAAACGTAGTCTTTGAAATTACTAACTACGTTTCTAACATAAAAAACGTAATC
1 TTTTTTATGTTAGAAACGTAATCTTTTAAATTATTAACTACGTTTCTAACATAAAAAACGTAATC
* * *
749646 TTTGAGCACAATGATTGTATATTTTTAGACGACATCAAAAACTACAT
66 TTTGAACACAATGATTGTATATTTTTA-AAGACATCAAAGACTACAT
749693 TTTT
1 TTTT
749697 AGAGGTTTGA
Statistics
Matches: 251, Mismatches: 77, Indels: 23
0.72 0.22 0.07
Matches are distributed among these distances:
109 6 0.02
110 26 0.10
111 89 0.35
112 43 0.17
113 82 0.33
114 5 0.02
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (111 bp):
TTTTTTATGTTAGAAACGTAATCTTTTAAATTATTAACTACGTTTCTAACATAAAAAACGTAATC
TTTGAACACAATGATTGTATATTTTTAAAGACATCAAAGACTACAT
Found at i:749790 original size:153 final size:153
Alignment explanation
Indices: 749599--749905 Score: 481
Period size: 153 Copynumber: 2.0 Consensus size: 153
749589 GTTAGAAACG
* **
749599 TAGTCTTTGAAATTACTAACTACGTTTCTAACATAAAAAACGTAATCTTTGAGCACAAT-GATTG
1 TAGTCTTTGAAATTACTAACTACATTTCTAACATAAAAAACGTAATCTTCAAGCACAATAG-TTG
* * **
749663 TATATTTTTAGACGACATCAAAAACTACATTTTTAGAGGTTTGATTATTCGGTATGGTTTATAAG
65 TATATTTTTAGAAGACATCAAAAACTACATTTTTAGAGGTATGATTATTCAATATGGTTTATAAG
749728 GTAATCAAATACTACATTATTTTA
130 GTAATCAAATACTACATTATTTTA
* * *
749752 TAGTCTTTGAAATTATTAACTACATTTCTAATATAAAAAATGTAATCTTCAAGCACAATAGTTGT
1 TAGTCTTTGAAATTACTAACTACATTTCTAACATAAAAAACGTAATCTTCAAGCACAATAGTTGT
**
749817 ATATTTTTAGAAGATGTCAAAAACTACATTTTTAGAGGTATGATTATTCAATATGGTTTATAAGG
66 ATATTTTTAGAAGACATCAAAAACTACATTTTTAGAGGTATGATTATTCAATATGGTTTATAAGG
*
749882 TAATCAAATATTACATTATTTTA
131 TAATCAAATACTACATTATTTTA
749905 T
1 T
749906 TTGAATAGTC
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
153 139 0.99
154 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (153 bp):
TAGTCTTTGAAATTACTAACTACATTTCTAACATAAAAAACGTAATCTTCAAGCACAATAGTTGT
ATATTTTTAGAAGACATCAAAAACTACATTTTTAGAGGTATGATTATTCAATATGGTTTATAAGG
TAATCAAATACTACATTATTTTA
Found at i:750640 original size:10 final size:10
Alignment explanation
Indices: 750622--750655 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
750612 TACATGTATT
*
750622 TATATATACA
1 TATACATACA
750632 TATACATACA
1 TATACATACA
*
750642 TATACATATA
1 TATACATACA
750652 TATA
1 TATA
750656 TAAGGTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
TATACATACA
Found at i:754919 original size:92 final size:92
Alignment explanation
Indices: 754737--754918 Score: 296
Period size: 92 Copynumber: 2.0 Consensus size: 92
754727 AACTTTTGTC
* *
754737 ATTGCTTTGTAAAAATAGATTGATTATTTGCATGTTATAATCTTAGTTGTTTGGTCTCTTTATGA
1 ATTGCTTTGCAAAAATAGATTGATTATTTGCATGTTATAATCTTAGTTGTTTGGTCTCTCTATGA
754802 CTAATCAATTCTAACATGAATTTTTTT
66 CTAATCAATTCTAACATGAATTTTTTT
* *
754829 ATTGCTTTGCAAAAATAGATTGATTATTTGTATGTTATAGTCTTAGTTGTTTGGT-T-TCTATGA
1 ATTGCTTTGCAAAAATAGATTGATTATTTGCATGTTATAATCTTAGTTGTTTGGTCTCTCTATGA
* *
754892 CTAATCAATTTTAATATGAATTTTTTT
66 CTAATCAATTCTAACATGAATTTTTTT
754919 TATTCTCTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
90 31 0.37
91 1 0.01
92 52 0.62
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (92 bp):
ATTGCTTTGCAAAAATAGATTGATTATTTGCATGTTATAATCTTAGTTGTTTGGTCTCTCTATGA
CTAATCAATTCTAACATGAATTTTTTT
Found at i:757099 original size:16 final size:15
Alignment explanation
Indices: 757059--757253 Score: 112
Period size: 16 Copynumber: 12.7 Consensus size: 15
757049 ATTTTGAAGA
757059 TTTGGATTTTAGGGT
1 TTTGGATTTTAGGGT
757074 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGG-T
*
757090 TTT-GAGTTTT-GGGG
1 TTTGGA-TTTTAGGGT
* * * *
757104 TCTAGATTTAAAGG-
1 TTTGGATTTTAGGGT
*
757118 TTGGGATTTTAGGGT
1 TTTGGATTTTAGGGT
*
757133 TTTGGATTTTAGGGAG
1 TTTGGATTTTAGGG-T
*
757149 TTTGGATTTAAGGGT
1 TTTGGATTTTAGGGT
* *
757164 TTAAAGG-TTTTAAGGT
1 TT--TGGATTTTAGGGT
** *
757180 TTCAGATTTTAGAGGG
1 TTTGGATTTTAG-GGT
*
757196 TTTGGATTTAAGGGAT
1 TTTGGATTTTAGGG-T
*
757212 TTTGTATTTTAGGGGT
1 TTTGGATTTTA-GGGT
* **
757228 TTTAGAATCCTAGGGT
1 TTT-GGATTTTAGGGT
757244 TTTGG-TTTTA
1 TTTGGATTTTA
757254 AAAAAAGAGG
Statistics
Matches: 135, Mismatches: 32, Indels: 27
0.70 0.16 0.14
Matches are distributed among these distances:
14 18 0.13
15 46 0.34
16 61 0.45
17 10 0.07
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (15 bp):
TTTGGATTTTAGGGT
Found at i:757550 original size:12 final size:12
Alignment explanation
Indices: 757487--757557 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 12
757477 AATAATAAAA
*
757487 ATTATTTTTTTT
1 ATTATTTTTATT
** *
757499 AGCATTTTTAAT
1 ATTATTTTTATT
757511 ATATATTTTTAATT
1 AT-TATTTTT-ATT
757525 ATTATCTTACTTATT
1 ATTAT-TT--TTATT
*
757540 TTTATTTTTATT
1 ATTATTTTTATT
757552 ATTATT
1 ATTATT
757558 AAAACAATTA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
12 19 0.42
13 9 0.20
14 8 0.18
15 7 0.16
16 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:758315 original size:13 final size:13
Alignment explanation
Indices: 758289--758329 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
758279 GAGGACTGTG
*
758289 TTTGTCTTTTTTT
1 TTTGTTTTTTTTT
758302 TTTGTTTTTGTTTT
1 TTTGTTTTT-TTTT
758316 TTTGTTTATTTTTT
1 TTTGTTT-TTTTTT
758330 CTTTTGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (13 bp):
TTTGTTTTTTTTT
Found at i:758329 original size:14 final size:13
Alignment explanation
Indices: 758289--758329 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
758279 GAGGACTGTG
*
758289 TTTGTCTTTTTTT
1 TTTGTTTTTTTTT
758302 TTTGTTTTTGTTTT
1 TTTGTTTTT-TTTT
*
758316 TTTGTTTATTTTT
1 TTTGTTTTTTTTT
758329 T
1 T
758330 CTTTTGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (13 bp):
TTTGTTTTTTTTT
Found at i:758334 original size:18 final size:19
Alignment explanation
Indices: 758289--758334 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
758279 GAGGACTGTG
* *
758289 TTTGTCTTTTTTTTTTGTT
1 TTTGTCTTTTTTGTTTATT
758308 TTTGT-TTTTTTGTTTATT
1 TTTGTCTTTTTTGTTTATT
758326 TTT-TCTTTT
1 TTTGTCTTTT
758335 GGTTGGTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.75
19 5 0.21
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (19 bp):
TTTGTCTTTTTTGTTTATT
Found at i:758709 original size:3 final size:3
Alignment explanation
Indices: 758703--758746 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
758693 TTCATTTTTT
*
758703 TTA TTA TTA -TA TT- TT- TTA -AA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
758747 AATTAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 7 0.19
3 29 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:761661 original size:41 final size:41
Alignment explanation
Indices: 761596--761677 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
761586 GACTCCTTGA
* *
761596 TTGATGTGATGCAATTTAAGGATTATTTATTTAAAAAAGAG
1 TTGATGTCATGCAATTCAAGGATTATTTATTTAAAAAAGAG
*
761637 TTGATGTCATGCAATTC-AGAGATTATTTATTTAAACAAGAG
1 TTGATGTCATGCAATTCAAG-GATTATTTATTTAAAAAAGAG
761678 AAGAGTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.05
41 35 0.95
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (41 bp):
TTGATGTCATGCAATTCAAGGATTATTTATTTAAAAAAGAG
Found at i:773618 original size:28 final size:27
Alignment explanation
Indices: 773561--773618 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
773551 ATTTTTAATT
773561 TTTAAATAATTTTTTTCTTAAATACTAA
1 TTTAAATAATTTTTTTCTTAAATAC-AA
773589 TTTAAATAACATTTTTTGT-TTAAATA-AA
1 TTTAAAT-A-ATTTTTT-TCTTAAATACAA
773617 TT
1 TT
773619 AATTAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
28 11 0.41
29 1 0.04
30 14 0.52
31 1 0.04
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (27 bp):
TTTAAATAATTTTTTTCTTAAATACAA
Found at i:773814 original size:25 final size:26
Alignment explanation
Indices: 773763--773816 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
773753 TTAATTATTC
* * *
773763 TTATCATTTAAATATTTGTATCGTAT
1 TTATCATTAAAATATTTATATCATAT
*
773789 TTAT-ATTAAAATATTTATATTATAT
1 TTATCATTAAAATATTTATATCATAT
773814 TTA
1 TTA
773817 AAATCATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TTATCATTAAAATATTTATATCATAT
Found at i:774196 original size:20 final size:20
Alignment explanation
Indices: 774159--774198 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
774149 TTATATTTTG
*
774159 AATAATTATATTTAAATAAA
1 AATAATTATATATAAATAAA
774179 AATAATTAT-TATATAATAAA
1 AATAATTATATATA-AATAAA
774199 TAGTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAATTATATATAAATAAA
Found at i:774407 original size:13 final size:12
Alignment explanation
Indices: 774389--774427 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
774379 TCAAAATAAA
774389 TTTTTATTTTTAT
1 TTTTTATTTTT-T
774402 TTTTTATATTTTT
1 TTTTTAT-TTTTT
*
774415 TATTTATTTTTT
1 TTTTTATTTTTT
774427 T
1 T
774428 CTAACACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 6 0.25
13 14 0.58
14 4 0.17
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTTT
Found at i:775104 original size:25 final size:26
Alignment explanation
Indices: 775070--775131 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
775060 ATAGAAAAAA
* * *
775070 ATAATTTAAAATGTGATAT-GATAAT
1 ATAATTTAAAATATAATATAAATAAT
*
775095 ATAATATAAAA-ATAATATAAATAAT
1 ATAATTTAAAATATAATATAAATAAT
775120 ATAATTTAAAAT
1 ATAATTTAAAAT
775132 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (26 bp):
ATAATTTAAAATATAATATAAATAAT
Found at i:775240 original size:31 final size:32
Alignment explanation
Indices: 775205--775283 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 32
775195 TATAAATTAT
*
775205 AATATATAATTTTTATATAAAAT-ATGATACG
1 AATATATAATTTTTATATAAAATAATAATACG
*
775236 -A-ATATAATATTTTATATAATATAATAATACG
1 AATATATAAT-TTTTATATAAAATAATAATACG
* *
775267 AAT-TATCATGTTTATAT
1 AATATATAATTTTTATAT
775284 GTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 7 0.17
30 13 0.32
31 14 0.35
32 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (32 bp):
AATATATAATTTTTATATAAAATAATAATACG
Found at i:775778 original size:20 final size:21
Alignment explanation
Indices: 775738--775778 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
775728 TATATATTAT
* *
775738 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
775759 TTTAAT-TAAATTTAAATATA
1 TTTAATATAAATTTAAATATA
775779 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:776496 original size:16 final size:16
Alignment explanation
Indices: 776475--776506 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
776465 TTAAAATATT
776475 ATATAATATTATATAA
1 ATATAATATTATATAA
*
776491 ATATAATATTTTATAA
1 ATATAATATTATATAA
776507 CATAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATATTATATAA
Found at i:780867 original size:18 final size:19
Alignment explanation
Indices: 780840--780877 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
780830 AAAAATAAAA
780840 ATTAAATTATATAT-TTTT
1 ATTAAATTATATATATTTT
*
780858 ATTAATTTATATATATTTT
1 ATTAAATTATATATATTTT
780877 A
1 A
780878 AATCTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTAAATTATATATATTTT
Found at i:780973 original size:5 final size:5
Alignment explanation
Indices: 780953--781035 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
780943 TAAATCGTTG
** * * *
780953 AATTA AATCG AATTA AATT- AATAA AATTTA ATTTA AATCA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA AA-TTA AATTA AATTA AATTA AATTA
* *
781003 CATAAA AATTTA AATTA AAGTTTA AATTA AATT
1 AAT-TA AA-TTA AATTA AA--TTA AATTA AATT
781036 TTAAAATTTT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
4 3 0.05
5 41 0.71
6 8 0.14
7 6 0.10
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:780989 original size:30 final size:32
Alignment explanation
Indices: 780953--781035 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 32
780943 TAAATCGTTG
*
780953 AATTAAATCGAATTAAATTA-AT-AAAATTTA
1 AATTAAATCAAATTAAATTACATAAAAATTTA
*
780983 ATTTAAATCAAATTAAATTACATAAAAATTTA
1 AATTAAATCAAATTAAATTACATAAAAATTTA
*
781015 AATTAAAGTTTAAATTAAATT
1 AATTAAA--TCAAATTAAATT
781036 TTAAAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 18 0.40
31 2 0.04
32 14 0.31
34 11 0.24
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (32 bp):
AATTAAATCAAATTAAATTACATAAAAATTTA
Found at i:781028 original size:12 final size:12
Alignment explanation
Indices: 781011--781040 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
781001 TACATAAAAA
781011 TTTAAATTAAAG
1 TTTAAATTAAAG
*
781023 TTTAAATTAAAT
1 TTTAAATTAAAG
781035 TTTAAA
1 TTTAAA
781041 ATTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TTTAAATTAAAG
Found at i:785405 original size:30 final size:30
Alignment explanation
Indices: 785371--785435 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
785361 GAAGGCTAGA
* * *
785371 GGCTTATTTGAACACAAATTAAAGTTTAAT
1 GGCTTAGTTGAACACAAATTAAAGGTCAAT
* **
785401 GGCTTAGTTGGATGCAAATTAAAGGTCAAT
1 GGCTTAGTTGAACACAAATTAAAGGTCAAT
785431 GGCTT
1 GGCTT
785436 TAGGTGCATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.34
Consensus pattern (30 bp):
GGCTTAGTTGAACACAAATTAAAGGTCAAT
Found at i:788662 original size:3 final size:3
Alignment explanation
Indices: 788646--788687 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
788636 ATGACAATTC
* *
788646 ATA ATA A-A AGA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
788688 AAGCGTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:798207 original size:37 final size:37
Alignment explanation
Indices: 798152--798230 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
798142 AGCTCAATCG
*
798152 ATTTCATCATTATTAAGTTCAAACAATTTGAGTTTAA
1 ATTTTATCATTATTAAGTTCAAACAATTTGAGTTTAA
*
798189 ATTTTATCATTATTAAGTTCGAACAATTTGAGTTTAA
1 ATTTTATCATTATTAAGTTCAAACAATTTGAGTTTAA
798226 ATTTT
1 ATTTT
798231 TTAATATCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (37 bp):
ATTTTATCATTATTAAGTTCAAACAATTTGAGTTTAA
Found at i:798420 original size:24 final size:24
Alignment explanation
Indices: 798392--798439 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
798382 AAACTTATTT
798392 TTTATTTAATAAATGAACCTAATC
1 TTTATTTAATAAATGAACCTAATC
*
798416 TTTATTTAATAAATGAACTTAATC
1 TTTATTTAATAAATGAACCTAATC
798440 GAATTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (24 bp):
TTTATTTAATAAATGAACCTAATC
Found at i:813901 original size:22 final size:23
Alignment explanation
Indices: 813876--813922 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
813866 ATAAATTATA
*
813876 ATTTGAATTCAAATTA-ATTTTC
1 ATTTAAATTCAAATTACATTTTC
**
813898 ATTTAAATTTGAATTACATTTTC
1 ATTTAAATTCAAATTACATTTTC
813921 AT
1 AT
813923 ATGATGTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTAAATTCAAATTACATTTTC
Found at i:820292 original size:2 final size:2
Alignment explanation
Indices: 820285--820310 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
820275 GCACATGCAT
820285 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
820311 AACACCTATT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:823540 original size:2 final size:2
Alignment explanation
Indices: 823533--823565 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
823523 ACTCAAATTC
823533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
823566 AGGTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:824720 original size:19 final size:20
Alignment explanation
Indices: 824696--824736 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
824686 TTCTGTCAAA
*
824696 ATTTATTATTA-TTTAATAT
1 ATTTATAATTATTTTAATAT
824715 ATTTATAATTATTTTAATAT
1 ATTTATAATTATTTTAATAT
824735 AT
1 AT
824737 AATTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTATAATTATTTTAATAT
Found at i:824872 original size:57 final size:56
Alignment explanation
Indices: 824805--824978 Score: 213
Period size: 57 Copynumber: 3.0 Consensus size: 56
824795 AAATAATCAT
* * * **
824805 AAAAACATTTTCGTAATTATAAGTAAAAGTATTATAATAATTTTGTTAATTATGGTA
1 AAAAATATTTTCATAATTATAA-TAAAAATATTATAATAATTTTGTTAATTATAATA
* * *
824862 AAAAATATTTTCATGATTATAATAAAAATATTATAATAATTTTGATCAATTAAAATA
1 AAAAATATTTTCATAATTATAATAAAAATATTATAATAATTTTG-TTAATTATAATA
* *
824919 AAAAATATTTTCATAATTATAATAAAAAATATCATAATAATTTTCATTAATTATTAATA
1 AAAAATATTTTCATAATTATAAT-AAAAATATTATAATAATTTT-GTTAATTA-TAATA
824978 A
1 A
824979 CTTTGGCTTA
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
56 21 0.21
57 49 0.49
58 25 0.25
59 5 0.05
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (56 bp):
AAAAATATTTTCATAATTATAATAAAAATATTATAATAATTTTGTTAATTATAATA
Found at i:824942 original size:24 final size:25
Alignment explanation
Indices: 824900--824950 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
824890 TATTATAATA
*
824900 ATTTTGATCAATTAAAATAAAAAAT
1 ATTTTCATCAATTAAAATAAAAAAT
*
824925 ATTTTCAT-AATTATAATAAAAAAT
1 ATTTTCATCAATTAAAATAAAAAAT
824949 AT
1 AT
824951 CATAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
ATTTTCATCAATTAAAATAAAAAAT
Found at i:824958 original size:24 final size:24
Alignment explanation
Indices: 824909--824960 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
824899 AATTTTGATC
** *
824909 AATTAAAATAAAAAATATTTTCAT
1 AATTAAAATAAAAAATATCATAAT
*
824933 AATTATAATAAAAAATATCATAAT
1 AATTAAAATAAAAAATATCATAAT
824957 AATT
1 AATT
824961 TTCATTAATT
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:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (24 bp):
AATTAAAATAAAAAATATCATAAT
Found at i:825769 original size:29 final size:29
Alignment explanation
Indices: 825706--825769 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
825696 ATTATATGTT
* *
825706 TAATTA-AATAAAAAATTAAAAATTTAAG
1 TAATTATAATAAAAAATTAAAAACTTAAA
* * *
825734 TATTTATAATAAAATATTTAAAACTTAAA
1 TAATTATAATAAAAAATTAAAAACTTAAA
825763 TAATTAT
1 TAATTAT
825770 TGAGTTATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
TAATTATAATAAAAAATTAAAAACTTAAA
Found at i:838318 original size:123 final size:123
Alignment explanation
Indices: 838098--838338 Score: 378
Period size: 123 Copynumber: 2.0 Consensus size: 123
838088 GTGATCATAG
838098 CTTCAGCCAGGACGAAATGCTAGATGATGACTTGGACGAAACTGAAGGCTTGAACCATGATGAGG
1 CTTCAGCCAGGACGAAATGCTAGATGATGACTTGGACGAAACTGAAGGCTTGAACCATGATGAGG
*
838163 ATTTGCTGGTCAGCTTGGAGCCTCACTTAAATCCCAAACGAAGCTATGTAAGTGGGTT
66 ATTTGCTGGTCAGCTTGGAGCCTCACTCAAATCCCAAACGAAGCTATGTAAGTGGGTT
* * * * *
838221 CTTCAGCCGGGAC-AAAGTGCTGGATGATGACTTGGATGAAAGTGAAGGCTTTAACCATGATGAG
1 CTTCAGCCAGGACGAAA-TGCTAGATGATGACTTGGACGAAACTGAAGGCTTGAACCATGATGAG
* *
838285 GATTTGTTGGTCAGCTT-GAGGCCTCACTCAAATCCCAAACGGAGCTATGTAAGT
65 GATTTGCTGGTCAGCTTGGA-GCCTCACTCAAATCCCAAACGAAGCTATGTAAGT
838339 AAGTTCAATC
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
122 5 0.05
123 103 0.95
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (123 bp):
CTTCAGCCAGGACGAAATGCTAGATGATGACTTGGACGAAACTGAAGGCTTGAACCATGATGAGG
ATTTGCTGGTCAGCTTGGAGCCTCACTCAAATCCCAAACGAAGCTATGTAAGTGGGTT
Found at i:842941 original size:26 final size:23
Alignment explanation
Indices: 842912--842969 Score: 55
Period size: 26 Copynumber: 2.3 Consensus size: 23
842902 TAATAAATTT
842912 TTAATTTTTTTAATTT-TATATTCAAA
1 TTAATTTTTTT-ATTTAT-TATT--AA
*
842938 TTAAACTTTTTTATTTATTATTAA
1 TT-AATTTTTTTATTTATTATTAA
842962 TTAATTTT
1 TTAATTTT
842970 AAGTTGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 5 0.18
24 4 0.14
26 10 0.36
27 9 0.32
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (23 bp):
TTAATTTTTTTATTTATTATTAA
Found at i:843467 original size:16 final size:17
Alignment explanation
Indices: 843448--843491 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
843438 ATTATAACTG
* *
843448 TTTTATATTTTATTTTT
1 TTTTATATTTAATTTTA
843465 TTTTATATTTAA-TTTA
1 TTTTATATTTAATTTTA
*
843481 TTTCATATTTA
1 TTTTATATTTA
843492 TATAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATATTTAATTTTA
Found at i:844863 original size:29 final size:29
Alignment explanation
Indices: 844817--844874 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
844807 ATCAATTTGA
* * *
844817 ATCATACTTATAAGAAAAGAGTCCTATCT
1 ATCATACCTATAAAAAAAGAATCCTATCT
*
844846 ATCATACCTATAAAAAAAGAATCTTATCT
1 ATCATACCTATAAAAAAAGAATCCTATCT
844875 TAAACAGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (29 bp):
ATCATACCTATAAAAAAAGAATCCTATCT
Found at i:845424 original size:17 final size:17
Alignment explanation
Indices: 845402--845434 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
845392 ATCAAACATT
*
845402 AAATTATTATTTTTAAC
1 AAATTATAATTTTTAAC
845419 AAATTATAATTTTTAA
1 AAATTATAATTTTTAA
845435 TCTAACTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTATAATTTTTAAC
Found at i:850105 original size:65 final size:65
Alignment explanation
Indices: 850009--850134 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
849999 AAATAGAGTT
* * *
850009 AATGCATTTGGTTACCAAAGTATAGTCAAATGTTCGATTTGGTACCTAAATTTTAAAAATATACA
1 AATGCATTTGCTTACCAAAGTATAGTAAAATGTTCGATTTGGTACCTAAAGTTTAAAAATATACA
850074 AATGCATTTGCTTACCAAAGTATAGTAAAATGTTCGATTTGGTACCTAAAGTTTAAAAATA
1 AATGCATTTGCTTACCAAAGTATAGTAAAATGTTCGATTTGGTACCTAAAGTTTAAAAATA
850135 CATAATTAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (65 bp):
AATGCATTTGCTTACCAAAGTATAGTAAAATGTTCGATTTGGTACCTAAAGTTTAAAAATATACA
Found at i:850125 original size:31 final size:30
Alignment explanation
Indices: 850014--850125 Score: 75
Period size: 31 Copynumber: 3.5 Consensus size: 30
850004 GAGTTAATGC
*
850014 ATTTGGTTACCAAAGTATAGTCAAATGTTCG
1 ATTTGG-TACCAAAGTATAGTAAAATGTTCG
* * * *
850045 ATTTGGTACCTAAATTTTA--AAAATATACAAATG
1 ATTTGGTACC-AAAGTATAGTAAAATGTTC----G
*
850078 CATTTGCTTACCAAAGTATAGTAAAATGTTCG
1 -ATTTG-GTACCAAAGTATAGTAAAATGTTCG
850110 ATTTGGTACCTAAAGT
1 ATTTGGTACC-AAAGT
850126 TTAAAAATAC
Statistics
Matches: 60, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
29 6 0.10
30 8 0.13
31 22 0.37
32 1 0.02
33 1 0.02
34 11 0.18
35 4 0.07
36 7 0.12
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (30 bp):
ATTTGGTACCAAAGTATAGTAAAATGTTCG
Done.