Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold114
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: 3219552
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Warning! 36736 characters in sequence are not A, C, G, or T
File 4 of 13
Found at i:800210 original size:16 final size:16
Alignment explanation
Indices: 800189--800223 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
800179 TCTCTCACTC
*
800189 TAATAACTACCTTTTG
1 TAATAACTAACTTTTG
800205 TAATAACTAACTTTTG
1 TAATAACTAACTTTTG
800221 TAA
1 TAA
800224 CGTGATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (16 bp):
TAATAACTAACTTTTG
Found at i:800398 original size:2 final size:2
Alignment explanation
Indices: 800391--800420 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
800381 GTCCATGGCA
800391 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
800421 GAACAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:801829 original size:38 final size:38
Alignment explanation
Indices: 801787--801906 Score: 88
Period size: 38 Copynumber: 3.1 Consensus size: 38
801777 TATAATGTGT
801787 CTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTC
1 CTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTC
** * * * * *
801825 CTTTCCTAATAAATGTGACGTTAA---AAATCTATAATG-TGT-
1 CTTTCAAAAGAAA---AACCTTAAGGTGAATCT-T-CTGAT-TC
801864 CTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTC
1 CTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTC
801902 CTTTC
1 CTTTC
801907 CTAATAAATG
Statistics
Matches: 57, Mismatches: 14, Indels: 22
0.61 0.15 0.24
Matches are distributed among these distances:
36 6 0.11
37 3 0.05
38 22 0.39
39 17 0.30
40 3 0.05
41 6 0.11
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (38 bp):
CTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTC
Found at i:801893 original size:39 final size:39
Alignment explanation
Indices: 801773--801893 Score: 92
Period size: 39 Copynumber: 3.1 Consensus size: 39
801763 ATACATTAAA
801773 AATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTG
1 AATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTG
* ** * * * *
801812 AATCT-T-CTGAT-TCCTTTCCTAATAAATGTGACGTTAA---A
1 AATCTATAATG-TGT-CTTTCAAAAGAAA---AACCTTAAGGTG
801850 AATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTG
1 AATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTG
801889 AATCT
1 AATCT
801894 TCTGATTCCT
Statistics
Matches: 57, Mismatches: 14, Indels: 22
0.61 0.15 0.24
Matches are distributed among these distances:
36 6 0.11
37 3 0.05
38 17 0.30
39 22 0.39
40 3 0.05
41 6 0.11
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (39 bp):
AATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTG
Found at i:801895 original size:77 final size:77
Alignment explanation
Indices: 801768--801923 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
801758 ATAAAATACA
801768 TTAAAAATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTCCTTTCCTA
1 TTAAAAATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTCCTTTCCTA
801833 ATAAATGTGACG
66 ATAAATGTGACG
801845 TTAAAAATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTCCTTTCCTA
1 TTAAAAATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTCCTTTCCTA
801910 ATAAATGTGACG
66 ATAAATGTGACG
801922 TT
1 TT
801924 GACAAGGAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (77 bp):
TTAAAAATCTATAATGTGTCTTTCAAAAGAAAAACCTTAAGGTGAATCTTCTGATTCCTTTCCTA
ATAAATGTGACG
Found at i:813509 original size:2 final size:2
Alignment explanation
Indices: 813502--813527 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
813492 TGTCATAGGT
813502 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
813528 ATTCACACAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:818560 original size:27 final size:29
Alignment explanation
Indices: 818530--818603 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
818520 TAGAAACAAT
818530 TTGAAG-AT-GTGGATGAAAAGAATATAA
1 TTGAAGAATGGTGGATGAAAAGAATATAA
818557 TTG-AGCAATGGTGGATGAAAAGAATATAA
1 TTGAAG-AATGGTGGATGAAAAGAATATAA
*
818586 TTG-AGCAATGATGGATGA
1 TTGAAG-AATGGTGGATGA
818604 TTTATAGATG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 2 0.05
27 3 0.07
28 2 0.05
29 36 0.84
ACGTcount: A:0.43, C:0.03, G:0.28, T:0.26
Consensus pattern (29 bp):
TTGAAGAATGGTGGATGAAAAGAATATAA
Found at i:818574 original size:29 final size:29
Alignment explanation
Indices: 818538--818603 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
818528 ATTTGAAGAT
818538 GTGGATGAAAAGAATATAATTGAGCAATG
1 GTGGATGAAAAGAATATAATTGAGCAATG
818567 GTGGATGAAAAGAATATAATTGAGCAATG
1 GTGGATGAAAAGAATATAATTGAGCAATG
*
818596 ATGGATGA
1 GTGGATGA
818604 TTTATAGATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.44, C:0.03, G:0.29, T:0.24
Consensus pattern (29 bp):
GTGGATGAAAAGAATATAATTGAGCAATG
Found at i:821719 original size:2 final size:2
Alignment explanation
Indices: 821712--821751 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
821702 TTAAAAGGGG
821712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
821752 GTATGTGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:842063 original size:2 final size:2
Alignment explanation
Indices: 842056--842097 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
842046 TCCATTTGTT
*
842056 TA TA TA TA TA -A GTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
842098 GTACTAAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:842302 original size:18 final size:17
Alignment explanation
Indices: 842279--842327 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
842269 AAAACTTATT
*
842279 AAAATATTATACAATATG
1 AAAATAATATA-AATATG
842297 AAAATAATATAAATAT-
1 AAAATAATATAAATATG
*
842313 ATAATACATATAAAT
1 AAAATA-ATATAAAT
842328 TAAAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 5 0.18
17 13 0.46
18 10 0.36
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATAATATAAATATG
Found at i:843308 original size:14 final size:15
Alignment explanation
Indices: 843285--843314 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
843275 TAATAAAAAA
843285 ATTTTATTAAATATT
1 ATTTTATTAAATATT
843300 ATTTT-TTAAATATT
1 ATTTTATTAAATATT
843314 A
1 A
843315 ATAGATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTATTAAATATT
Found at i:852680 original size:19 final size:18
Alignment explanation
Indices: 852652--852689 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
852642 AAATTTAATA
*
852652 ATTTATATATTTATATTAT
1 ATTTAAATATTT-TATTAT
852671 ATTTAAATATTTTATTAT
1 ATTTAAATATTTTATTAT
852689 A
1 A
852690 ACGTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTAAATATTTTATTAT
Found at i:852758 original size:25 final size:24
Alignment explanation
Indices: 852732--852828 Score: 67
Period size: 25 Copynumber: 4.0 Consensus size: 24
852722 GTAAATTTTA
*
852732 AAATTTTAATAATTTATATTATAT
1 AAATTTTAATAATTTATATAATAT
* *
852756 AAATTTAAAAATATTTATATAATATT
1 AAATTTTAATA-ATTTATATAATA-T
* * *
852782 ATATTTTAATTATTT-T-T-ATGT
1 AAATTTTAATAATTTATATAATAT
852803 -AATATTTATATAATTATATATAATAT
1 AAAT-TTTA-ATAATT-TATATAATAT
852829 TTTTAAGTCT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
20 2 0.04
21 5 0.09
22 7 0.13
23 2 0.04
24 11 0.20
25 16 0.30
26 11 0.20
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (24 bp):
AAATTTTAATAATTTATATAATAT
Found at i:852767 original size:32 final size:34
Alignment explanation
Indices: 852706--852786 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
852696 TTAAATTTAA
* * *
852706 AATATTTTATATTAATGTAAATTTTAAAAT-TTT
1 AATAATTTATATTAATATAAATTTAAAAATATTT
852739 AATAATTTATATT-ATATAAATTTAAAAATATTT
1 AATAATTTATATTAATATAAATTTAAAAATATTT
852772 ATATAATATTATATT
1 A-ATAAT-TTATATT
852787 TTAATTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 14 0.33
33 16 0.38
34 5 0.12
35 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (34 bp):
AATAATTTATATTAATATAAATTTAAAAATATTT
Found at i:852789 original size:27 final size:27
Alignment explanation
Indices: 852743--852813 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
852733 AATTTTAATA
* *
852743 ATTTATATTATA-TA-AATTTAAAAAT
1 ATTTATATAATATTATATTTTAAAAAT
**
852768 ATTTATATAATATTATATTTTAATTAT
1 ATTTATATAATATTATATTTTAAAAAT
* *
852795 TTTTATGTAATATTTATAT
1 ATTTATATAATA-TTATAT
852814 AATTATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 11 0.30
26 2 0.05
27 18 0.49
28 6 0.16
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
ATTTATATAATATTATATTTTAAAAAT
Found at i:852826 original size:21 final size:21
Alignment explanation
Indices: 852765--852830 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
852755 TAAATTTAAA
852765 AATATTTATATAA-TAT-TAT
1 AATATTTATATAATTATATAT
* * *
852784 -AT-TTTA-ATTATTTTTATGT
1 AATATTTATA-TAATTATATAT
852803 AATATTTATATAATTATATAT
1 AATATTTATATAATTATATAT
852824 AATATTT
1 AATATTT
852831 TTAAGTCTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 4 0.11
19 2 0.06
20 2 0.06
21 19 0.54
22 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AATATTTATATAATTATATAT
Found at i:853190 original size:22 final size:22
Alignment explanation
Indices: 853144--853184 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
853134 AAAATAAAAT
853144 ATAAATATATAAATATATTAAA
1 ATAAATATATAAATATATTAAA
*
853166 ATAAATATA-ATATATATTA
1 ATAAATATATAAATATATTA
853185 TTAATATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAATATATAAATATATTAAA
Found at i:853207 original size:32 final size:33
Alignment explanation
Indices: 853129--853199 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 33
853119 AATCATTTTA
* *
853129 AAAATAAAATAAAATATAAATATATAAATATATT
1 AAAAT-AAATATAATATAAATATATAAATATATC
* *
853163 AAAATAAATATAATATATAT-TATTAATATATC
1 AAAATAAATATAATATAAATATATAAATATATC
853195 AAAAT
1 AAAAT
853200 TTATATAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 15 0.45
33 13 0.39
34 5 0.15
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (33 bp):
AAAATAAATATAATATAAATATATAAATATATC
Found at i:859247 original size:3 final size:3
Alignment explanation
Indices: 859239--859285 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
859229 ACCTAACCAT
*
859239 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
859286 TCCAAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:866721 original size:18 final size:18
Alignment explanation
Indices: 866700--866735 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
866690 TTATTATTTT
* *
866700 AAATTTAATAATTAATTA
1 AAATATAATAATAAATTA
866718 AAATATAATAATAAATTA
1 AAATATAATAATAAATTA
866736 CGTAGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATAATAAATTA
Found at i:868433 original size:11 final size:11
Alignment explanation
Indices: 868417--868459 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
868407 TAACTAAAGG
868417 AAAAAAAATAA
1 AAAAAAAATAA
868428 AAAAAAAATTGAA
1 AAAAAAAA-T-AA
*
868441 AAAAAAAAGAA
1 AAAAAAAATAA
868452 GAAAAAAA
1 -AAAAAAA
868460 CCCTAACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 10 0.36
12 8 0.29
13 10 0.36
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:873036 original size:12 final size:12
Alignment explanation
Indices: 873019--873043 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
873009 ACTATTTTTT
873019 ATTATTATTATC
1 ATTATTATTATC
873031 ATTATTATTATC
1 ATTATTATTATC
873043 A
1 A
873044 AAGTATAAAA
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:874436 original size:2 final size:2
Alignment explanation
Indices: 874431--874457 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
874421 CCCCCCCCCC
874431 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
874458 ACAAGAGTCA
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:874753 original size:12 final size:12
Alignment explanation
Indices: 874738--874762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
874728 TTCGGTTAAA
874738 ATTTTAAACTCT
1 ATTTTAAACTCT
874750 ATTTTAAACTCT
1 ATTTTAAACTCT
874762 A
1 A
874763 ACACTGATGA
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAACTCT
Found at i:876041 original size:2 final size:2
Alignment explanation
Indices: 876034--876061 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
876024 TAAACTGTCA
876034 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
876062 TTACAAAGTT
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:876218 original size:24 final size:23
Alignment explanation
Indices: 876191--876236 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
876181 TTAATGTATG
876191 ATAATTT-AATTTTATGTTTTTTAA
1 ATAATTTGAATTTT-T-TTTTTTAA
876215 ATAATTTGAATTTTTTTTTTTA
1 ATAATTTGAATTTTTTTTTTTA
876237 CTTTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 8 0.38
25 6 0.29
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (23 bp):
ATAATTTGAATTTTTTTTTTTAA
Found at i:877500 original size:25 final size:24
Alignment explanation
Indices: 877435--877500 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
877425 AATGTTATAT
**
877435 TTAAATTT-TTAT-TTATTTTGTA
1 TTAAATTTATTATATTATTTAATA
877457 TTAAATTGTA-TATATTTATTTAATA
1 TTAAATT-TATTATA-TTATTTAATA
877482 TTAAAATTTATTATATTAT
1 TT-AAATTTATTATATTAT
877501 AATTTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 7 0.19
23 4 0.11
25 16 0.44
26 9 0.25
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (24 bp):
TTAAATTTATTATATTATTTAATA
Found at i:877505 original size:28 final size:25
Alignment explanation
Indices: 877444--877509 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
877434 TTTAAATTTT
**
877444 TATTTATTTTGTATTAAATTGTATA
1 TATTTATTTAATATTAAATTGTATA
877469 TATTTATTTAATATTAAAATT-TATTA
1 TATTTATTTAATATT-AAATTGTA-TA
877495 TATTATAATTTAATA
1 TATT-T-ATTTAATA
877510 AAATATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 15 0.43
26 11 0.31
27 1 0.03
28 8 0.23
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (25 bp):
TATTTATTTAATATTAAATTGTATA
Found at i:877577 original size:14 final size:14
Alignment explanation
Indices: 877546--877621 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
877536 AATATAATAT
877546 TTATATTAAA--TA
1 TTATATTAAATTTA
*
877558 -TATATTAATTTTA
1 TTATATTAAATTTA
877571 TTATATTAAATTTA
1 TTATATTAAATTTA
*
877585 TTTATACGTATAA-TTA
1 -TTATA-TTA-AATTTA
877601 TATATATTAAATATT-
1 T-TATATTAAAT-TTA
877616 TTATAT
1 TTATAT
877622 ATATATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
11 8 0.16
13 2 0.04
14 19 0.37
15 9 0.18
16 11 0.22
17 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (14 bp):
TTATATTAAATTTA
Found at i:877614 original size:9 final size:9
Alignment explanation
Indices: 877555--877633 Score: 51
Period size: 9 Copynumber: 8.9 Consensus size: 9
877545 TTTATATTAA
877555 ATATATATT
1 ATATATATT
877564 A-AT-T-TT
1 ATATATATT
877570 AT-TATATT
1 ATATATATT
* *
877578 AAATTTATTT
1 ATATATA-TT
877588 ATACGTATAATT
1 ATA--TAT-ATT
877600 ATATATATT
1 ATATATATT
* *
877609 AAATATTTT
1 ATATATATT
877618 ATATATA-T
1 ATATATATT
877626 ATATATAT
1 ATATATAT
877634 GTAGTTTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
6 4 0.08
7 2 0.04
8 13 0.25
9 19 0.36
10 7 0.13
12 7 0.13
13 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:878553 original size:19 final size:20
Alignment explanation
Indices: 878529--878570 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
878519 TTTTAGATAC
* *
878529 AAATAT-AATATATTTTAAT
1 AAATATAAAAATATTATAAT
878548 AAATATAAAAATATTATAAT
1 AAATATAAAAATATTATAAT
878568 AAA
1 AAA
878571 AATTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATAAAAATATTATAAT
Found at i:878951 original size:15 final size:15
Alignment explanation
Indices: 878917--878953 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
878907 ATATAAAAAT
878917 AAATATATAATATTA
1 AAATATATAATATTA
*
878932 TAATATA-AATATTA
1 AAATATATAATATTA
878946 AAA-ATATA
1 AAATATATA
878954 TTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATATAATATTA
Found at i:885514 original size:2 final size:2
Alignment explanation
Indices: 885507--885538 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
885497 AATCGAGCAC
885507 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
885539 TTTACGGGCA
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):
AG
Found at i:886574 original size:13 final size:13
Alignment explanation
Indices: 886556--886584 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
886546 CACACCAGGC
886556 TCATTCAAATAAG
1 TCATTCAAATAAG
886569 TCATTCAAATAAG
1 TCATTCAAATAAG
886582 TCA
1 TCA
886585 ACTTTGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (13 bp):
TCATTCAAATAAG
Found at i:887027 original size:2 final size:2
Alignment explanation
Indices: 887020--887051 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
887010 CTAAACGAAA
*
887020 AG AG AG AG AG AG AG AG AG AC AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
887052 TTTACGGGAA
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:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:887428 original size:16 final size:16
Alignment explanation
Indices: 887407--887452 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
887397 CTATTTTTTT
887407 TTAATAATTAAAATTA
1 TTAATAATTAAAATTA
* *
887423 TTAATATTTAATA-T-
1 TTAATAATTAAAATTA
*
887437 TTAATTATTAAAATTA
1 TTAATAATTAAAATTA
887453 AATATTTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATAATTAAAATTA
Found at i:887433 original size:7 final size:7
Alignment explanation
Indices: 887423--887468 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
887413 ATTAAAATTA
887423 TTAATAT
1 TTAATAT
887430 TTAATAT
1 TTAATAT
887437 TTAAT-T
1 TTAATAT
*
887443 ATTAAAAT
1 -TTAATAT
*
887451 TAAATAT
1 TTAATAT
887458 TTAATAT
1 TTAATAT
887465 TTAA
1 TTAA
887469 CAATACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 1 0.03
7 31 0.94
8 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TTAATAT
Found at i:887468 original size:21 final size:21
Alignment explanation
Indices: 887418--887462 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
887408 TAATAATTAA
* *
887418 AATTATTAATATTTAATATTT
1 AATTATTAAAATTAAATATTT
887439 AATTATTAAAATTAAATATTT
1 AATTATTAAAATTAAATATTT
887460 AAT
1 AAT
887463 ATTTAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTAAAATTAAATATTT
Found at i:889107 original size:3 final size:3
Alignment explanation
Indices: 889101--889140 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
889091 AATTCTTTTT
889101 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
889141 CTAGAGTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:890494 original size:13 final size:13
Alignment explanation
Indices: 890462--890507 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
890452 TTAAAAAATA
**
890462 AAAAATTATTAAT
1 AAAAATTATTTTT
*
890475 AATAATTATTTTT
1 AAAAATTATTTTT
*
890488 AAAAATTATTTTA
1 AAAAATTATTTTT
890501 AAAAATT
1 AAAAATT
890508 TTGAGATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:890669 original size:40 final size:41
Alignment explanation
Indices: 890620--890700 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
890610 GGCCTAGAAA
* *
890620 GTTATTTTTTTCGTTGTGGCAAATGTCACCCCGCAATGCAT
1 GTTATTTTTTTAGTGGTGGCAAATGTCACCCCGCAATGCAT
*
890661 GTTATTTTTTTAGTGGTGGCAAATGTCACCCTGCAATGCA
1 GTTATTTTTTTAGTGGTGGCAAATGTCACCCCGCAATGCA
890701 ACATTCGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (41 bp):
GTTATTTTTTTAGTGGTGGCAAATGTCACCCCGCAATGCAT
Found at i:899585 original size:2 final size:2
Alignment explanation
Indices: 899578--899603 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
899568 AATCTTAGAA
899578 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
899604 TGAAGTTCCC
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:900348 original size:17 final size:18
Alignment explanation
Indices: 900326--900360 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
900316 TAATTAAATC
900326 AAATTTTATTAA-ATTTT
1 AAATTTTATTAATATTTT
*
900343 AAATTTTTTTAATATTTT
1 AAATTTTATTAATATTTT
900361 TAATATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AAATTTTATTAATATTTT
Found at i:900408 original size:15 final size:17
Alignment explanation
Indices: 900377--900412 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
900367 GATAAAATAT
900377 ATAAATTATTAAATTAA
1 ATAAATTATTAAATTAA
900394 ATAAATT-TT-AATTAA
1 ATAAATTATTAAATTAA
900409 ATAA
1 ATAA
900413 CAATAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 2 0.11
17 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATTATTAAATTAA
Found at i:900824 original size:5 final size:6
Alignment explanation
Indices: 900809--900834 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
900799 ATTTTAATTA
900809 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
900835 TTACCAAGAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:901258 original size:3 final size:3
Alignment explanation
Indices: 901250--901284 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
901240 ATTTAAAGTT
901250 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
901285 TTGGGTAGGA
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:901465 original size:17 final size:18
Alignment explanation
Indices: 901432--901465 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
901422 TTTTAAAATA
901432 AAATAAAATATTCTTTAT
1 AAATAAAATATTCTTTAT
*
901450 AAATAAATTATT-TTTA
1 AAATAAAATATTCTTTA
901466 ATAGGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAAAATATTCTTTAT
Found at i:903419 original size:21 final size:22
Alignment explanation
Indices: 903379--903420 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
903369 ATTACAAATC
*
903379 AAATAATATAACTTAATTAAAA
1 AAATAATATAACTAAATTAAAA
*
903401 AAATTATATAAC-AAATTAAA
1 AAATAATATAACTAAATTAAA
903421 TAATAAAAAA
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:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATATAACTAAATTAAAA
Found at i:903606 original size:24 final size:24
Alignment explanation
Indices: 903579--903652 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 24
903569 TTATTCTCTT
903579 TTAATTATTTCACATATTTATTTA
1 TTAATTATTTCACATATTTATTTA
903603 TTAATTATTT---A-A-TT-TTTA
1 TTAATTATTTCACATATTTATTTA
* *
903621 -CAATTATTGCACATATTTATTTA
1 TTAATTATTTCACATATTTATTTA
903644 TTAATTATT
1 TTAATTATT
903653 AGTTTCGCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
17 7 0.17
18 4 0.10
19 2 0.05
20 2 0.05
21 2 0.05
22 2 0.05
23 4 0.10
24 17 0.43
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (24 bp):
TTAATTATTTCACATATTTATTTA
Found at i:906349 original size:61 final size:61
Alignment explanation
Indices: 906249--906378 Score: 233
Period size: 61 Copynumber: 2.1 Consensus size: 61
906239 ATCATTTTTT
*
906249 ATAGAAGCAATGGAGAAGGAAATGAAACATTTAAGTTGCTAAGCTAGTTGGAAACATAAAGA
1 ATAG-AGCAATGGAGAAGGAAATGAAACATTTAAGTTGCTAAGCTAGTTGGAAAAATAAAGA
*
906311 ATAGAGCAATGGAGAAGGAAATGAAACATTTAAGTTGCTATGCTAGTTGGAAAAATAAAGA
1 ATAGAGCAATGGAGAAGGAAATGAAACATTTAAGTTGCTAAGCTAGTTGGAAAAATAAAGA
906372 ATAGAGC
1 ATAGAGC
906379 TTCATCTCCA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
61 62 0.94
62 4 0.06
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.22
Consensus pattern (61 bp):
ATAGAGCAATGGAGAAGGAAATGAAACATTTAAGTTGCTAAGCTAGTTGGAAAAATAAAGA
Found at i:917662 original size:16 final size:15
Alignment explanation
Indices: 917641--917685 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
917631 TTTAAGTTTA
917641 TTATATATAATAATAT
1 TTATATATAATAA-AT
*
917657 TTATATTTAATAAAT
1 TTATATATAATAAAT
*
917672 TTA-AAATAATAAAT
1 TTATATATAATAAAT
917686 AAAATTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 9 0.35
15 5 0.19
16 12 0.46
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATATATAATAAAT
Found at i:917720 original size:3 final size:3
Alignment explanation
Indices: 917712--917738 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
917702 GTATTTAATA
917712 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
917739 AAATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:921831 original size:1 final size:1
Alignment explanation
Indices: 921825--921850 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
921815 CTCGACAAGG
921825 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
921851 GTGTTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:929210 original size:15 final size:14
Alignment explanation
Indices: 929188--929277 Score: 59
Period size: 15 Copynumber: 6.7 Consensus size: 14
929178 TATTATTATT
929188 TATA-TTAATATTAA
1 TATATTTAA-ATTAA
929202 TATATTTAAATT--
1 TATATTTAAATTAA
*
929214 TA-ATTTAAATCAA
1 TATATTTAAATTAA
*
929227 AATATTTTAAA-TAA
1 TATA-TTTAAATTAA
929241 TA-ATTTAAATTAAA
1 TATATTTAAATT-AA
* *
929255 TTTATTTAATTTAA
1 TATATTTAAATTAA
*
929269 -ATAATTAAA
1 TATATTTAAA
929278 ATTTTAACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
11 8 0.14
12 8 0.14
13 9 0.15
14 16 0.27
15 18 0.31
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (14 bp):
TATATTTAAATTAA
Found at i:929945 original size:2 final size:2
Alignment explanation
Indices: 929938--929966 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
929928 GATGACAATA
929938 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 A
929967 AATGGCCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:932110 original size:8 final size:8
Alignment explanation
Indices: 932091--932136 Score: 51
Period size: 7 Copynumber: 5.9 Consensus size: 8
932081 ATGTTTATAG
932091 TATTTT-A
1 TATTTTAA
932098 TATTTTAA
1 TATTTTAA
932106 TATTTTTAA
1 TA-TTTTAA
*
932115 TATATTAA
1 TATTTTAA
*
932123 TAATTT-A
1 TATTTTAA
932130 TATTTTA
1 TATTTTA
932137 TATAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
7 12 0.38
8 12 0.38
9 8 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:932117 original size:17 final size:16
Alignment explanation
Indices: 932093--932136 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
932083 GTTTATAGTA
932093 TTTTATATTTTAATAT
1 TTTTATATTTTAATAT
*
932109 TTTTAATATATTAATA-
1 TTTT-ATATTTTAATAT
*
932125 ATTTATATTTTA
1 TTTTATATTTTA
932137 TATAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATATTTTAATAT
Found at i:937222 original size:3 final size:3
Alignment explanation
Indices: 937214--937248 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
937204 ACGATAAAAT
*
937214 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
937249 TCAGACATTA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:939458 original size:2 final size:2
Alignment explanation
Indices: 939451--939476 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
939441 ACAATAATGC
939451 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
939477 TTCTCAAATT
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:943075 original size:15 final size:15
Alignment explanation
Indices: 943051--943083 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
943041 CACAAAAATG
943051 TTTTTCTTTTTTTCC
1 TTTTTCTTTTTTTCC
*
943066 TTTTTGTTTTTTTCC
1 TTTTTCTTTTTTTCC
943081 TTT
1 TTT
943084 CCTGGTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTTCC
Found at i:944535 original size:3 final size:3
Alignment explanation
Indices: 944529--944553 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
944519 TTTTTTTTTT
944529 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
944554 CTCATATCAG
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:946182 original size:2 final size:2
Alignment explanation
Indices: 946177--946205 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
946167 ATTTTTTGTC
946177 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 A
946206 CCCTTGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:952560 original size:17 final size:18
Alignment explanation
Indices: 952528--952562 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
952518 TAGTATATAA
952528 ATTTATAAATATTAAAAT
1 ATTTATAAATATTAAAAT
*
952546 ATTTTTAAA-ATTAAAAT
1 ATTTATAAATATTAAAAT
952563 TAAATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTATAAATATTAAAAT
Found at i:953134 original size:3 final size:3
Alignment explanation
Indices: 953128--953152 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
953118 GAGAGCCTTT
953128 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
953153 TACAATGTTC
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:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:958758 original size:3 final size:3
Alignment explanation
Indices: 958750--958783 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
958740 CACTATTTAA
958750 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
958784 GTTTTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:959060 original size:38 final size:36
Alignment explanation
Indices: 959008--959101 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 36
958998 AATATTAAAT
**
959008 AATATATAAA-AATATAATTAATATATTATTTTTTAA
1 AATA-ATAAATAATATAATTAATATAAAATTTTTTAA
** * *
959044 TTTAATACAAATAATATTATAAATATAAAATTTTTTAA
1 AATAAT--AAATAATATAATTAATATAAAATTTTTTAA
959082 AATAATAAATAA-ATAATTAA
1 AATAATAAATAATATAATTAA
959102 ACTTTTATGT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
35 8 0.18
36 8 0.18
37 3 0.07
38 26 0.58
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (36 bp):
AATAATAAATAATATAATTAATATAAAATTTTTTAA
Found at i:959107 original size:29 final size:29
Alignment explanation
Indices: 959052--959107 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
959042 AATTTAATAC
* *
959052 AAATAATATTATAAATATAAAATTTTTTA
1 AAATAATATAATAAATATAAAACTTTTTA
*
959081 AAATAATA-AATAAATAATTAAACTTTT
1 AAATAATATAATAAAT-ATAAAACTTTT
959108 ATGTACCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATAATATAATAAATATAAAACTTTTTA
Found at i:961005 original size:27 final size:28
Alignment explanation
Indices: 960943--961020 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
960933 AATGATATAA
*
960943 TAAAAATAAATAAATATCTTAAAAATTAT
1 TAAAAATATAT-AATATCTTAAAAATTAT
* * * *
960972 TAAAAATTTTTAATATGTTAAAATTTA-
1 TAAAAATATATAATATCTTAAAAATTAT
* *
960999 TATAAATATATAATATTTTAAA
1 TAAAAATATATAATATCTTAAA
961021 TAATATAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
27 18 0.45
28 14 0.35
29 8 0.20
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAAAATATATAATATCTTAAAAATTAT
Found at i:961959 original size:17 final size:17
Alignment explanation
Indices: 961922--961973 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
961912 AAATATTTCA
*
961922 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
961937 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
961953 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
961970 AATT
1 AATT
961974 GCATCTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:962585 original size:21 final size:20
Alignment explanation
Indices: 962532--962588 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
962522 ATTGCAATAT
*
962532 TTTATTTTAATAAAAATAAAA
1 TTTATTTTAA-ATAAATAAAA
* *
962553 TTTAAATTTAAATAAATTAAA
1 TTT-ATTTTAAATAAATAAAA
962574 TATTATTTTAAATAA
1 T-TTATTTTAAATAA
962589 TTTATACGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTATTTTAAATAAATAAAA
Found at i:964967 original size:51 final size:50
Alignment explanation
Indices: 964898--965001 Score: 199
Period size: 51 Copynumber: 2.1 Consensus size: 50
964888 AATAAATTCG
964898 TAAAATATATCATTACTTAAAAAAATTATGTTAAAATTTATATATTTTTA
1 TAAAATATATCATTACTTAAAAAAATTATGTTAAAATTTATATATTTTTA
964948 TAAACATATATCATTACTTAAAAAAATTATGTTAAAATTTATATATTTTTA
1 TAAA-ATATATCATTACTTAAAAAAATTATGTTAAAATTTATATATTTTTA
964999 TAA
1 TAA
965002 TTAAATTTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.08
51 49 0.92
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (50 bp):
TAAAATATATCATTACTTAAAAAAATTATGTTAAAATTTATATATTTTTA
Found at i:971893 original size:15 final size:15
Alignment explanation
Indices: 971873--971902 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
971863 GTAAAAATAT
971873 TTTTTCTAACTCAAG
1 TTTTTCTAACTCAAG
*
971888 TTTTTCTGACTCAAG
1 TTTTTCTAACTCAAG
971903 ATTCTCTAGC
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:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (15 bp):
TTTTTCTAACTCAAG
Found at i:971954 original size:2 final size:2
Alignment explanation
Indices: 971947--971981 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
971937 ATAGGAGATA
971947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
971982 GCATGGAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:974153 original size:2 final size:2
Alignment explanation
Indices: 974146--974188 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
974136 TAGATGTCAA
*
974146 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
974188 A
1 A
974189 AATGAAAAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:978749 original size:25 final size:25
Alignment explanation
Indices: 978700--978750 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
978690 TAAAGTTTTT
* *
978700 AAAAGCTTTAAAATTTACTTTAAAA
1 AAAAGCTTTAAAATTTACATAAAAA
978725 AAAAGCTTTAAAATTTTA-ATAAAAA
1 AAAAGCTTTAAAA-TTTACATAAAAA
978750 A
1 A
978751 TGACAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAAGCTTTAAAATTTACATAAAAA
Found at i:983199 original size:9 final size:9
Alignment explanation
Indices: 983185--983216 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
983175 TGCGTAAAAC
983185 TCTTTTTTT
1 TCTTTTTTT
983194 TCTTTTTTT
1 TCTTTTTTT
983203 T-TTTTTTT
1 TCTTTTTTT
983211 TCTTTT
1 TCTTTT
983217 AAGATTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:983320 original size:29 final size:28
Alignment explanation
Indices: 983233--983357 Score: 80
Period size: 29 Copynumber: 4.4 Consensus size: 28
983223 TGATAATATC
* * *
983233 ATATATAAATTTATTTAAATA-AAATATA
1 ATATATAAATAT-TTTAAATATAATTTTA
983261 ATATATATATATATTTTAAA-AT--TTATATA
1 ATATATA-A-ATATTTTAAATATAATT-T-TA
983290 ATATATACAATATTTTAAATATAATTTTA
1 ATATATA-AATATTTTAAATATAATTTTA
* * * *
983319 ATAAAATAAA-ATATTTATATATAATATAA
1 AT-ATATAAATAT-TTTAAATATAATTTTA
983348 ATATATAAAT
1 ATATATAAAT
983358 TATTATATCT
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
27 1 0.01
28 26 0.34
29 40 0.52
30 8 0.10
31 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATATAAATATTTTAAATATAATTTTA
Found at i:983788 original size:2 final size:2
Alignment explanation
Indices: 983781--983810 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
983771 TGTTGATGGG
*
983781 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
983811 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:984991 original size:13 final size:13
Alignment explanation
Indices: 984962--985005 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
984952 TATCTTTTAA
*
984962 AAATAATTATA-T
1 AAATAATTAAATT
984974 AAATAATTAAATT
1 AAATAATTAAATT
984987 AAATAA-TAAATTT
1 AAATAATTAAA-TT
985000 AAATAA
1 AAATAA
985006 ATAGATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 14 0.48
13 15 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATAATTAAATT
Found at i:985353 original size:2 final size:2
Alignment explanation
Indices: 985348--985373 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
985338 AAAAAGATAC
985348 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
985374 CCTTTTGGTT
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:986835 original size:3 final size:3
Alignment explanation
Indices: 986827--986857 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
986817 TGCTTTTGTT
986827 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
986858 ATGCTTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:987613 original size:2 final size:2
Alignment explanation
Indices: 987608--987632 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
987598 TGTGTGTGTG
987608 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 T
987633 CGAGGTTATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:993043 original size:12 final size:12
Alignment explanation
Indices: 993008--993037 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
992998 TTTGTGAAAC
993008 TTTTTCTGTCAA
1 TTTTTCTGTCAA
993020 TTTTTCTGTCAA
1 TTTTTCTGTCAA
993032 TTTTTC
1 TTTTTC
993038 CTTCAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTTTCTGTCAA
Found at i:995200 original size:19 final size:17
Alignment explanation
Indices: 995158--995204 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
995148 AATAAACACT
995158 ATAAATTTATAAATATA
1 ATAAATTTATAAATATA
*
995175 TTAAAATTTATATAATATAA
1 AT-AAATTTATA-AATAT-A
995195 ATAAATTTAT
1 ATAAATTTAT
995205 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 1 0.04
18 9 0.36
19 13 0.52
20 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAATTTATAAATATA
Found at i:995205 original size:29 final size:28
Alignment explanation
Indices: 995157--995232 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
995147 AAATAAACAC
** *
995157 TATAAATTTATAAATATATTAAAATTTA
1 TATAAATAAATAAATTTATTAAAATTTA
*
995185 TATAATATAAATAAATTTATTAAAATTTT
1 TATAA-ATAAATAAATTTATTAAAATTTA
*
995214 TATAAATATATAATATTTA
1 TATAAATAAATAA-ATTTA
995233 AAATATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.29
29 29 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAAATAAATAAATTTATTAAAATTTA
Found at i:996307 original size:14 final size:14
Alignment explanation
Indices: 996288--996341 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
996278 TTATTTTTTA
996288 ATTATATAATATAT
1 ATTATATAATATAT
* *
996302 ATTATATTATCTAT
1 ATTATATAATATAT
*
996316 ATTATATAA-AAAT
1 ATTATATAATATAT
996329 ATATATATAATAT
1 AT-TATATAATAT
996342 TAAAATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 4 0.12
14 27 0.84
15 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATAATATAT
Found at i:996335 original size:19 final size:19
Alignment explanation
Indices: 996313--996350 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
996303 TTATATTATC
*
996313 TATATTATATAAAAATATA
1 TATATAATATAAAAATATA
*
996332 TATATAATATTAAAATATA
1 TATATAATATAAAAATATA
996351 AATGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATAATATAAAAATATA
Found at i:996757 original size:21 final size:23
Alignment explanation
Indices: 996732--996774 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
996722 AAATATGTTT
*
996732 ATAA-TTAAATT-TAAATAAATA
1 ATAATTTAAATTATAAAAAAATA
996753 ATAATTTAAATTATAAAAAAAT
1 ATAATTTAAATTATAAAAAAAT
996775 TGTCTCCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAATTTAAATTATAAAAAAATA
Found at i:997266 original size:2 final size:2
Alignment explanation
Indices: 997259--997291 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
997249 GGAAATGGAA
*
997259 AG AG AG AG AG AG AG AG AG AG AG AG AT AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
997292 TAGTGGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03
Consensus pattern (2 bp):
AG
Found at i:997350 original size:42 final size:42
Alignment explanation
Indices: 997291--997374 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
997281 AGATAGAGAG
997291 ATAGTGGCAATTATAAGTGATCTGTCTGTTTCGATGTGATCT
1 ATAGTGGCAATTATAAGTGATCTGTCTGTTTCGATGTGATCT
997333 ATAGTGGCAATTATAAGTGATCTGTCTGTTTCGATGTGATCT
1 ATAGTGGCAATTATAAGTGATCTGTCTGTTTCGATGTGATCT
997375 GTTCCATCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (42 bp):
ATAGTGGCAATTATAAGTGATCTGTCTGTTTCGATGTGATCT
Found at i:1000926 original size:10 final size:10
Alignment explanation
Indices: 1000911--1000945 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
1000901 AAAGAAAATG
1000911 AAAAAAATAA
1 AAAAAAATAA
*
1000921 AAAAAAAGGAA
1 AAAAAAA-TAA
1000932 AAAAAAATAA
1 AAAAAAATAA
1000942 AAAA
1 AAAA
1000946 TATCGTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.06
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:1001343 original size:3 final size:3
Alignment explanation
Indices: 1001337--1001364 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1001327 CCAAAATGTC
1001337 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1001365 ATTATTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:1006861 original size:3 final size:3
Alignment explanation
Indices: 1006855--1006903 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
1006845 ATAATAATAA
* * *
1006855 TAT TAT TAT TAT TAT TAA TAT TAT TGT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1006903 T
1 T
1006904 TGGTGGAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1007347 original size:17 final size:16
Alignment explanation
Indices: 1007306--1007355 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
1007296 AAAATGATAG
*
1007306 TAAATTATCTTTGAATT
1 TAAATTAT-TTTAAATT
*
1007323 TATATTATTTTAAATT
1 TAAATTATTTTAAATT
*
1007339 TAAATTTATTTTCAATT
1 TAAA-TTATTTTAAATT
1007356 CATATTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (16 bp):
TAAATTATTTTAAATT
Found at i:1008000 original size:14 final size:15
Alignment explanation
Indices: 1007981--1008013 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1007971 TATAATATAA
1007981 TATTTTAATTATT-T
1 TATTTTAATTATTAT
1007995 TATTTTAATTATTAT
1 TATTTTAATTATTAT
1008010 TATT
1 TATT
1008014 ATTTACTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTAATTATTAT
Found at i:1009228 original size:3 final size:3
Alignment explanation
Indices: 1009222--1009256 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1009212 TTCACATTAT
1009222 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1009257 GTACCTATCC
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1010629 original size:20 final size:21
Alignment explanation
Indices: 1010594--1010635 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1010584 GTTACTCATT
* *
1010594 AATGATATATATATATTTTAA
1 AATGATATAAATATATTGTAA
1010615 AATGA-ATAAATATATTGTAA
1 AATGATATAAATATATTGTAA
1010635 A
1 A
1010636 TATTTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
AATGATATAAATATATTGTAA
Found at i:1011244 original size:29 final size:28
Alignment explanation
Indices: 1011195--1011249 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
1011185 AAAATATATT
*
1011195 AAAATTATTTTATATTAAATTTAAATAA
1 AAAAATATTTTATATTAAATTTAAATAA
1011223 AAAAATATTTT-TATTAATAATTTAAAT
1 AAAAATATTTTATATT-A-AATTTAAAT
1011250 CTGAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAAATATTTTATATTAAATTTAAATAA
Found at i:1011678 original size:22 final size:22
Alignment explanation
Indices: 1011653--1011699 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1011643 ACTTAATTTA
*
1011653 TTAATAATAA-AAAATTAATAAT
1 TTAAT-ATAATAAAATTAAAAAT
*
1011675 TTAATTTAATAAAATTAAAAAT
1 TTAATATAATAAAATTAAAAAT
1011697 TTA
1 TTA
1011700 TGATCCTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAATATAATAAAATTAAAAAT
Found at i:1015045 original size:15 final size:15
Alignment explanation
Indices: 1015025--1015070 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1015015 AAAATTGTAA
1015025 AAAATTATAAATATT
1 AAAATTATAAATATT
1015040 AAAATTA-AAAT-TAT
1 AAAATTATAAATAT-T
*
1015054 AAATTTATTAAATATT
1 AAAATTA-TAAATATT
1015070 A
1 A
1015071 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 7 0.27
16 6 0.23
17 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:1015081 original size:24 final size:23
Alignment explanation
Indices: 1015025--1015070 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 23
1015015 AAAATTGTAA
1015025 AAAATTATAAA--TATTAAAATT
1 AAAATTATAAATTTATTAAAATT
1015046 AAAATTATAAATTTATTAAATATT
1 AAAATTATAAATTTATTAAA-ATT
1015070 A
1 A
1015071 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTATAAATTTATTAAAATT
Found at i:1015590 original size:13 final size:13
Alignment explanation
Indices: 1015572--1015601 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1015562 TTTTTACAAA
1015572 TCTTTCTTCTTTT
1 TCTTTCTTCTTTT
*
1015585 TCTTTCTTTTTTT
1 TCTTTCTTCTTTT
1015598 TCTT
1 TCTT
1015602 CCCTCCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TCTTTCTTCTTTT
Found at i:1019507 original size:94 final size:96
Alignment explanation
Indices: 1019335--1019640 Score: 309
Period size: 94 Copynumber: 3.2 Consensus size: 96
1019325 TTATGCCAAA
* * * * *
1019335 TCATTGTTATAATACAGAATTTAGACAT-ATACATATGCATTTACATAT-TGT-TATGTA-GATT
1 TCATTGTTATACTATAGAATTTATACATCATACA-ATGCATGTACAGATATGTATATGTATGA-T
*
1019396 TATTTTTTTAAAGCACAACTAGATGCCAAAATGT
64 TA-TTTTTTAAAGCACAACTAGATGCCAAAATGC
1019430 TCATTGTT-TACTATAGAATTTATACATCATA-AATGCATGTACAGATATGTATATGTATGATTA
1 TCATTGTTATACTATAGAATTTATACATCATACAATGCATGTACAGATATGTATATGTATGATTA
1019493 TTTTTTAAAGCACAA-TAGATGCC-AAATGC
66 TTTTTTAAAGCACAACTAGATGCCAAAATGC
* * * * *
1019522 TCATTGTTATACAATAAGAATTT-TATCATC-TATAAT-TA-GTATAG--AT-TATATGATATTT
1 TCATTGTTATACTAT-AGAATTTATA-CATCATACAATGCATGTACAGATATGTATATG-TA-TG
1019580 ATTATTTTTTAAAGCACAACTAGATGCCAAAATGC
62 ATTATTTTTTAAAGCACAACTAGATGCCAAAATGC
1019615 TCATTTGTTATAACTAATAAGAATTT
1 TCA-TTGTTAT-ACT-AT-AGAATTT
1019641 TGTACGAATG
Statistics
Matches: 185, Mismatches: 11, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
89 6 0.03
90 4 0.02
91 20 0.11
92 26 0.14
93 39 0.21
94 56 0.30
95 22 0.12
96 12 0.06
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (96 bp):
TCATTGTTATACTATAGAATTTATACATCATACAATGCATGTACAGATATGTATATGTATGATTA
TTTTTTAAAGCACAACTAGATGCCAAAATGC
Found at i:1021172 original size:19 final size:19
Alignment explanation
Indices: 1021148--1021185 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1021138 ATCAATGATA
*
1021148 ATTTATTAAAATTTTTATC
1 ATTTATTAAAATCTTTATC
1021167 ATTTATTAAAATCTTTATC
1 ATTTATTAAAATCTTTATC
1021186 GAAAGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTAAAATCTTTATC
Found at i:1028971 original size:52 final size:52
Alignment explanation
Indices: 1028909--1029013 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
1028899 ACCTTGACGT
*
1028909 AATTACACACCGAATATGTTACCATACGGTCTGTGACGGTATAGTAGGTATA
1 AATTACACACCGAATATGTTACCATACGATCTGTGACGGTATAGTAGGTATA
1028961 AATTACACACCGAATATGTTACCATACGATCTGTGACGGTATAGTAGGTATA
1 AATTACACACCGAATATGTTACCATACGATCTGTGACGGTATAGTAGGTATA
1029013 A
1 A
1029014 CCATATGGTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (52 bp):
AATTACACACCGAATATGTTACCATACGATCTGTGACGGTATAGTAGGTATA
Found at i:1029524 original size:28 final size:30
Alignment explanation
Indices: 1029483--1029540 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
1029473 TGGCCATATT
*
1029483 CTGAACAAGCTA-TTTTAAAA-TAAAAAAA
1 CTGAAAAAGCTATTTTTAAAATTAAAAAAA
*
1029511 CTGAAAAAGTTATTTTTAAAATTAAAAAAA
1 CTGAAAAAGCTATTTTTAAAATTAAAAAAA
1029541 AAATCCAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 10 0.38
29 8 0.31
30 8 0.31
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (30 bp):
CTGAAAAAGCTATTTTTAAAATTAAAAAAA
Found at i:1033616 original size:2 final size:2
Alignment explanation
Indices: 1033609--1033633 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1033599 ATAACAAAAT
1033609 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 T
1033634 TGTAAGAGAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1034907 original size:276 final size:278
Alignment explanation
Indices: 1034387--1034945 Score: 867
Period size: 276 Copynumber: 2.0 Consensus size: 278
1034377 CTTAAATAAC
*
1034387 AAAACAATCATTACAATAATATAAAAACAAAATCAAATACTACTAAAACTATATTTCTAGAAGAT
1 AAAACAATCATTACAATAATATAAAAACAAAATCAAATACTACTAAAACTATATTTCTACAAGAT
** *
1034452 ATAATAGAAATAATAACAGTCATGGAAACTTAACGAGCATGAGATCAACGATAATTTCTTAAAAC
66 ATAATAGAAATAATAACAGTCATAAAAACTTAACGAGCATGAGATCAACGATAATTTCCTAAAAC
1034517 CTTCATAGAAACAAAGTGATGTAATAAAACGATAGTCAAATAACTTTAATAATTTTAATCTACAT
131 CTTCATAGAAACAAAGTGATGTAATAAAACGATAGTCAAATAACTTTAATAATTTTAATCTACAT
1034582 AGCTACAGTTCAAAGAAACGGAGAAAACAATAATCTCAACCTTTTGCATGATTCTGTA-AAAAGG
196 AGCTACAGTTCAAAGAAACGGAGAAAACAATAATCTCAACCTTTTGCATGATTCTGTATAAAAGG
* *
1034646 CAACGTAAATATACATTG
261 CAACGTAAACATACATGG
* * ** * *
1034664 AAAACAATTATTACAATGATAT-AAGGCAAAATCAAATAC-AGCTCAAATTATATTTCTACAAGA
1 AAAACAATCATTACAATAATATAAAAACAAAATCAAATACTA-CTAAAACTATATTTCTACAAGA
* * *
1034727 TATAATGGAAATAATAAC-GATCATAAAAACTTATCGAGCCTGAGATCAACGATAATTTCCTAAA
65 TATAATAGAAATAATAACAG-TCATAAAAACTTAACGAGCATGAGATCAACGATAATTTCCTAAA
* * *
1034791 ATCTTCATAGAAACAAAGTGATGTAGTAATACGATAGTCAAATAACTTTAATAATTTTAATCTAC
129 ACCTTCATAGAAACAAAGTGATGTAATAAAACGATAGTCAAATAACTTTAATAATTTTAATCTAC
* *
1034856 GTAGCTACAGTTCAAAGAAACGGA-AACAACAATAATTTCAACCTTTTGCATGATTCTGTATAAA
194 ATAGCTACAGTTCAAAGAAACGGAGAA-AACAATAATCTCAACCTTTTGCATGATTCTGTATAAA
*
1034920 AGGCAATGTAAACATACATGG
258 AGGCAACGTAAACATACATGG
1034941 AAAAC
1 AAAAC
1034946 CAACAAACTA
Statistics
Matches: 257, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
275 4 0.02
276 207 0.81
277 46 0.18
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (278 bp):
AAAACAATCATTACAATAATATAAAAACAAAATCAAATACTACTAAAACTATATTTCTACAAGAT
ATAATAGAAATAATAACAGTCATAAAAACTTAACGAGCATGAGATCAACGATAATTTCCTAAAAC
CTTCATAGAAACAAAGTGATGTAATAAAACGATAGTCAAATAACTTTAATAATTTTAATCTACAT
AGCTACAGTTCAAAGAAACGGAGAAAACAATAATCTCAACCTTTTGCATGATTCTGTATAAAAGG
CAACGTAAACATACATGG
Found at i:1037058 original size:2 final size:2
Alignment explanation
Indices: 1037041--1037074 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1037031 ATGGAGCCTA
* *
1037041 AT AT GT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1037075 TTATGAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1048270 original size:104 final size:104
Alignment explanation
Indices: 1048033--1048342 Score: 513
Period size: 104 Copynumber: 3.0 Consensus size: 104
1048023 ACTCTTTCAC
1048033 CAGTTTCCGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTAAAAAAA-CGTT
1 CAGTTTCCGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTAAAAAAATC-TT
1048097 CTCCATAAAACAAGAT----ACAAGGCAAAACACAAAAGT
65 CTCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
* *
1048133 CAGTTTCCGATTTAGTACTAGTACTGGTCAACCGCCTTCTACACCCAACTGTTAAAAAAATCCTC
1 CAGTTTCCGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTAAAAAAATCTTC
*
1048198 CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
66 TCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
* * * *
1048237 CAGTTTCTGATTTAGTACTAGTACCAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATGTTC
1 CAGTTTCCGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTAAAAAAATCTTC
1048302 TCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
66 TCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
1048341 CA
1 CA
1048343 AAAAAGCTAA
Statistics
Matches: 195, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
100 75 0.38
101 1 0.01
104 119 0.61
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (104 bp):
CAGTTTCCGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTAAAAAAATCTTC
TCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
Found at i:1052913 original size:23 final size:22
Alignment explanation
Indices: 1052870--1052921 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
1052860 AACACAACAA
1052870 TAAA-TAATGAAAAAAGTATTTTT
1 TAAATTAATGAAAAAAGTA--TTT
1052893 TAAATTAAT-AAAAAA-TAATTT
1 TAAATTAATGAAAAAAGT-ATTT
1052914 TAAATTAA
1 TAAATTAA
1052922 ATCAATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 11 0.41
22 1 0.04
23 11 0.41
24 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAATTAATGAAAAAAGTATTT
Found at i:1054049 original size:13 final size:13
Alignment explanation
Indices: 1054033--1054058 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1054023 TTTTTAAAAA
1054033 TATTTATTAATTT
1 TATTTATTAATTT
1054046 TATTTATTAATTT
1 TATTTATTAATTT
1054059 CAACTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTATTAATTT
Found at i:1060119 original size:13 final size:13
Alignment explanation
Indices: 1060101--1060133 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1060091 ATCAGTTGAA
1060101 AAGTTCCCTTTGC
1 AAGTTCCCTTTGC
1060114 AAGTTCCCTTTGC
1 AAGTTCCCTTTGC
1060127 AAGTTCC
1 AAGTTCC
1060134 TACATCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.36
Consensus pattern (13 bp):
AAGTTCCCTTTGC
Found at i:1066976 original size:13 final size:13
Alignment explanation
Indices: 1066958--1066993 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1066948 ACTTTATTAT
*
1066958 AAAAAGGTTAAAG
1 AAAAAGGTAAAAG
1066971 AAAAAGGTAAAAG
1 AAAAAGGTAAAAG
*
1066984 AAAAAAGTAA
1 AAAAAGGTAA
1066994 GAAAAATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (13 bp):
AAAAAGGTAAAAG
Found at i:1070423 original size:14 final size:14
Alignment explanation
Indices: 1070404--1070431 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1070394 AAGCTCCTAC
1070404 TTCCCATCTAATGA
1 TTCCCATCTAATGA
1070418 TTCCCATCTAATGA
1 TTCCCATCTAATGA
1070432 CTTAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TTCCCATCTAATGA
Found at i:1077273 original size:2 final size:2
Alignment explanation
Indices: 1077266--1077292 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1077256 ATCACTATTA
1077266 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1077293 AAAGACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1084641 original size:5 final size:5
Alignment explanation
Indices: 1084626--1084658 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1084616 TAAATTTAAC
1084626 CAAAA -AAAA CAAAA CAAAA CAAAA CAAAA CAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
1084659 TTTACAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:1084916 original size:104 final size:104
Alignment explanation
Indices: 1084796--1085109 Score: 583
Period size: 104 Copynumber: 3.0 Consensus size: 104
1084786 ACTCTTTCAC
* *
1084796 CAGTTTCCGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTAAAAAAATCTTC
1 CAGTTTCTGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATCTTC
1084861 CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
66 CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
1084900 CAGTTTCTGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATCTTC
1 CAGTTTCTGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATCTTC
1084965 CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
66 CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
* *
1085004 TAGTTTCTGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATGTTC
1 CAGTTTCTGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATCTTC
*
1085069 TCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
66 CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
1085108 CA
1 CA
1085110 AAAAAGCTAA
Statistics
Matches: 204, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 204 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.23
Consensus pattern (104 bp):
CAGTTTCTGATTTAGTACTAGTACTAGTCAACCGCCTTCTACACCCAACTGTTGAAAAAATCTTC
CCCATAAAACAAGATACACACAAGGCAAAACACAAAAGT
Found at i:1089680 original size:22 final size:22
Alignment explanation
Indices: 1089646--1089696 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
1089636 AACATAACAA
1089646 TAAA-TAATGAAAAAAATATTTT
1 TAAATTAATG-AAAAAATATTTT
1089668 TAAATTAAT-AAAAAATATTTT
1 TAAATTAATGAAAAAATATTTT
1089689 TAAATTAA
1 TAAATTAA
1089697 ATCAATAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 20 0.71
22 4 0.14
23 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAATTAATGAAAAAATATTTT
Done.