Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 215 of 259
Found at i:68156312 original size:29 final size:29
Alignment explanation
Indices: 68156280--68156353 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
68156270 CTATAATAAA
* *
68156280 TATTTTATTTTCATAATTAATTATTTTTT
1 TATTTTATTTTTATAATTAATTAATTTTT
68156309 TATTTTATTTTTATAATTAATTAATTTTT
1 TATTTTATTTTTATAATTAATTAATTTTT
* *
68156338 AATATTATTTTTATAA
1 TATTTTATTTTTATAA
68156354 AAATCACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTTTATTTTTATAATTAATTAATTTTT
Found at i:68156338 original size:17 final size:16
Alignment explanation
Indices: 68156284--68156353 Score: 71
Period size: 13 Copynumber: 4.8 Consensus size: 16
68156274 AATAAATATT
*
68156284 TTATTTTCATAATTAA
1 TTATTTTTATAATTAA
*
68156300 TTATTTTT-TTATT--
1 TTATTTTTATAATTAA
68156313 TTATTTTTATAATTAA
1 TTATTTTTATAATTAA
*
68156329 TTAATTTT-TAA-T-A
1 TTATTTTTATAATTAA
68156342 TTATTTTTATAA
1 TTATTTTTATAA
68156354 AAATCACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
13 16 0.36
14 8 0.18
15 7 0.16
16 14 0.31
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTTTTATAATTAA
Found at i:68156364 original size:29 final size:29
Alignment explanation
Indices: 68156284--68156364 Score: 74
Period size: 29 Copynumber: 2.8 Consensus size: 29
68156274 AATAAATATT
* * * * * *
68156284 TTATTTTCATAATTAATTATTTTTTTATT
1 TTATTTTTATAATAAATCAATTTTTAATA
* *
68156313 TTATTTTTATAATTAATTAATTTTTAATA
1 TTATTTTTATAATAAATCAATTTTTAATA
68156342 TTATTTTTATAA-AAATCACATTT
1 TTATTTTTATAATAAATCA-ATTT
68156365 ATTTTTTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.09
29 41 0.91
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATTTTTATAATAAATCAATTTTTAATA
Found at i:68164714 original size:14 final size:16
Alignment explanation
Indices: 68164684--68164715 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
68164674 TTGAGTTTAG
68164684 TATATATAGTAATTAA
1 TATATATAGTAATTAA
68164700 TATATATA-TAA-TAA
1 TATATATAGTAATTAA
68164714 TA
1 TA
68164716 GTAACAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 3 0.19
16 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TATATATAGTAATTAA
Found at i:68165990 original size:13 final size:14
Alignment explanation
Indices: 68165970--68166003 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
68165960 AATTATAGAG
68165970 CCAG-TTTATATTA
1 CCAGATTTATATTA
68165983 CCA-ATTTATATTA
1 CCAGATTTATATTA
68165996 CCAGATTT
1 CCAGATTT
68166004 CACCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (14 bp):
CCAGATTTATATTA
Found at i:68169463 original size:25 final size:25
Alignment explanation
Indices: 68169434--68169485 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
68169424 AAATGGAAAA
68169434 TCCCAGAAACGCTAGTTCAAAATTT
1 TCCCAGAAACGCTAGTTCAAAATTT
68169459 TCCCAGAAACGCTAGTTCAAAATTT
1 TCCCAGAAACGCTAGTTCAAAATTT
68169484 TC
1 TC
68169486 TTTTGTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (25 bp):
TCCCAGAAACGCTAGTTCAAAATTT
Found at i:68177031 original size:33 final size:32
Alignment explanation
Indices: 68176994--68177063 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 32
68176984 GTCAAGCTTT
* *
68176994 TTTTATTT-TTTTCATTTCTATTTGAATTTTAAA
1 TTTTATTTAATTTCATTTC-ATTT-AAATTTAAA
68177027 TTTTATTTACATTTCATTTCATTTAAATTTAAA
1 TTTTATTTA-ATTTCATTTCATTTAAATTTAAA
68177060 TTTT
1 TTTT
68177064 CTATTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 20 0.61
34 4 0.12
35 9 0.27
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (32 bp):
TTTTATTTAATTTCATTTCATTTAAATTTAAA
Found at i:68177168 original size:5 final size:5
Alignment explanation
Indices: 68177158--68177215 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
68177148 TTCATAATCA
* *
68177158 TCATT TCATT TCATT TCATAT TCATT ACAAATT ACATT TCATT TCATAT
1 TCATT TCATT TCATT TCAT-T TCATT TC--ATT TCATT TCATT TCAT-T
68177207 TCATAT TCA
1 TCAT-T TCA
68177216 AGTTATCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
5 27 0.57
6 15 0.32
7 5 0.11
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (5 bp):
TCATT
Found at i:68177403 original size:16 final size:16
Alignment explanation
Indices: 68177382--68177415 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
68177372 ACTTGAATAA
68177382 AAAAAATTCTTATTTC
1 AAAAAATTCTTATTTC
68177398 AAAAAATTCTTATTTC
1 AAAAAATTCTTATTTC
68177414 AA
1 AA
68177416 TTTTTTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAAATTCTTATTTC
Found at i:68180068 original size:18 final size:18
Alignment explanation
Indices: 68180045--68180079 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68180035 TTTGGTGTGA
*
68180045 TTTCCTGGTAATTCTTTC
1 TTTCCTGATAATTCTTTC
*
68180063 TTTCCTGATGATTCTTT
1 TTTCCTGATAATTCTTT
68180080 TCTCTTTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTCCTGATAATTCTTTC
Found at i:68185941 original size:30 final size:30
Alignment explanation
Indices: 68185907--68185965 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
68185897 CTTAACAAGC
*
68185907 AAATGCCTCTAAATTAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
*
68185937 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
68185966 CAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:68186023 original size:22 final size:22
Alignment explanation
Indices: 68185998--68186045 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
68185988 TATCCAAAGA
*
68185998 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAACAAC
* * *
68186020 ATAATAGTAAAATGGTAACAAC
1 ATAACAATAAAATAGTAACAAC
68186042 ATAA
1 ATAA
68186046 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAACAAC
Found at i:68188791 original size:17 final size:18
Alignment explanation
Indices: 68188766--68188800 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
68188756 GCTGAACCAA
68188766 TTTTCTATA-TTTTTAAT
1 TTTTCTATAGTTTTTAAT
*
68188783 TTTTTTATAGTTTTTAAT
1 TTTTCTATAGTTTTTAAT
68188801 AATTTATTAA
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:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTCTATAGTTTTTAAT
Found at i:68189549 original size:23 final size:24
Alignment explanation
Indices: 68189519--68189566 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
68189509 GAGGTGTATT
68189519 TTAAAATTTAAAAAATAAAA-AAA
1 TTAAAATTTAAAAAATAAAACAAA
68189542 TTAAAATTTAAAAAATAAAACAAA
1 TTAAAATTTAAAAAATAAAACAAA
68189566 T
1 T
68189567 GTTTTGAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
TTAAAATTTAAAAAATAAAACAAA
Found at i:68193258 original size:18 final size:19
Alignment explanation
Indices: 68193221--68193259 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
68193211 AAATCATATT
68193221 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
68193240 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
68193258 TA
1 TA
68193260 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:68193304 original size:24 final size:24
Alignment explanation
Indices: 68193277--68193330 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
68193267 TCTTTTTATC
*
68193277 ATTAATAACATTATGTAATATAAA
1 ATTAATAACATTATGTAATACAAA
68193301 ATTAATAACATTATGTAATACAAA
1 ATTAATAACATTATGTAATACAAA
*
68193325 GTTAAT
1 ATTAAT
68193331 CGTGGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTAATAACATTATGTAATACAAA
Found at i:68200892 original size:10 final size:10
Alignment explanation
Indices: 68200877--68200915 Score: 55
Period size: 9 Copynumber: 4.0 Consensus size: 10
68200867 AGCAAATAAC
68200877 TAAAAAATAT
1 TAAAAAATAT
68200887 T-AAAAATAT
1 TAAAAAATAT
68200896 TAAAAAATA-
1 TAAAAAATAT
68200905 TAAAACAATAT
1 TAAAA-AATAT
68200916 AATATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 14 0.54
10 12 0.46
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:68200901 original size:19 final size:20
Alignment explanation
Indices: 68200877--68200915 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
68200867 AGCAAATAAC
*
68200877 TAAAAAATATTAAA-AATAT
1 TAAAAAATATAAAACAATAT
68200896 TAAAAAATATAAAACAATAT
1 TAAAAAATATAAAACAATAT
68200916 AATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAATATAAAACAATAT
Found at i:68200916 original size:10 final size:9
Alignment explanation
Indices: 68200877--68200917 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
68200867 AGCAAATAAC
68200877 TAAAAAATA
1 TAAAAAATA
*
68200886 TTAAAAATA
1 TAAAAAATA
68200895 TTAAAAAATA
1 -TAAAAAATA
68200905 TAAAACAATA
1 TAAAA-AATA
68200915 TAA
1 TAA
68200918 TATTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAATA
Found at i:68202155 original size:33 final size:33
Alignment explanation
Indices: 68202113--68202184 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
68202103 ACAGACATAA
* *
68202113 AATCT-TCCGAACTAGTAATTAACTCTTGTGTC
1 AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
68202145 AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
1 AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
68202178 AATCTCT
1 AATCTCT
68202185 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 5 0.14
33 32 0.86
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (33 bp):
AATCTCTCCGAACTAGTAATGAACTCTCGTGTC
Found at i:68202956 original size:27 final size:27
Alignment explanation
Indices: 68202920--68202971 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
68202910 CACTTGACTG
*
68202920 TGTCATTTCATAG-TTCATTTCGCAGTT
1 TGTCACTTCA-AGATTCATTTCGCAGTT
*
68202947 TGTCACTTCACGATTCATTTCGCAG
1 TGTCACTTCAAGATTCATTTCGCAG
68202972 CTTATCACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (27 bp):
TGTCACTTCAAGATTCATTTCGCAGTT
Found at i:68202990 original size:27 final size:27
Alignment explanation
Indices: 68202932--68202991 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
68202922 TCATTTCATA
* *
68202932 GTTCATTTCGCAGTTTGTCACTTCACG
1 GTTCATTTCGCAGCTTATCACTTCACG
*
68202959 ATTCATTTCGCAGCTTATCACCTT-ACG
1 GTTCATTTCGCAGCTTATCA-CTTCACG
68202986 GTTCAT
1 GTTCAT
68202992 CATGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (27 bp):
GTTCATTTCGCAGCTTATCACTTCACG
Found at i:68208754 original size:18 final size:17
Alignment explanation
Indices: 68208699--68208756 Score: 63
Period size: 18 Copynumber: 3.6 Consensus size: 17
68208689 GTTAATGTAA
68208699 TTAATATAAATTATTATT
1 TTAATATAAATT-TTATT
68208717 TTAATA-AAA--TTA--
1 TTAATATAAATTTTATT
68208729 TTAATATAAATTTTATT
1 TTAATATAAATTTTATT
68208746 TTAAATATAAA
1 TT-AATATAAA
68208757 ATATAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.18
13 3 0.09
14 3 0.09
15 3 0.09
17 5 0.15
18 14 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATATAAATTTTATT
Found at i:68209694 original size:5 final size:5
Alignment explanation
Indices: 68209684--68209709 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
68209674 TAATTATATA
68209684 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
68209710 TTAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:68211084 original size:3 final size:3
Alignment explanation
Indices: 68211068--68211242 Score: 69
Period size: 3 Copynumber: 58.3 Consensus size: 3
68211058 ACGTTTAGAG
* ** * *
68211068 TAT TAT TACA TAT TAT TAT TAT TGC TAT TAC TCT TAT TATT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
** ** * *
68211115 TAT CGT TGC TAT T-T CTAT TAT TGT T-T T-T CTAT TAC TAT T-T ATAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT
* * * *
68211159 TAT TGT TGT CAT TAT TAT TAT TAT TAT TAT TAT CAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
68211206 T-T T-T CTGT TAT TGT TAT TAT TAGT CTA- TAT TAT TAT T
1 TAT TAT -TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT T
68211243 CCTATTAATG
Statistics
Matches: 130, Mismatches: 28, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
2 12 0.09
3 106 0.82
4 10 0.08
5 2 0.02
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68211105 original size:31 final size:31
Alignment explanation
Indices: 68211068--68211136 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
68211058 ACGTTTAGAG
*
68211068 TATTATTACATATTATTATTATTGCTATTAC
1 TATTATTACATATTATTATCATTGCTATTAC
* ** * *
68211099 TCTTATTATTTATTATTATCGTTGCTATTTC
1 TATTATTACATATTATTATCATTGCTATTAC
68211130 TATTATT
1 TATTATT
68211137 GTTTTTCTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.59
Consensus pattern (31 bp):
TATTATTACATATTATTATCATTGCTATTAC
Found at i:68211201 original size:20 final size:20
Alignment explanation
Indices: 68211174--68211242 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
68211164 TTGTCATTAT
68211174 TATTATTATTATTATTATCA
1 TATTATTATTATTATTATCA
*
68211194 TTTTATTATTATT-TT-TC-
1 TATTATTATTATTATTATCA
* *
68211211 TGTTATTGTTATTATTAGTCTA
1 TATTATTATTATTATTA-TC-A
68211233 TATTATTATT
1 TATTATTATT
68211243 CCTATTAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 11 0.28
18 4 0.10
19 2 0.05
20 14 0.36
22 8 0.21
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTATTATTATTATTATCA
Found at i:68211429 original size:4 final size:4
Alignment explanation
Indices: 68211422--68211461 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
68211412 TAATATTCAA
*
68211422 TATT TATT TGTT TATT TATT TATT TA-T TA-T TATT T-TT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
68211462 AGATTAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 9 0.28
4 23 0.72
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:68211569 original size:24 final size:25
Alignment explanation
Indices: 68211541--68211597 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
68211531 ATACTTTCAA
* *
68211541 ATTTTATATTATTTATTTTTATT-AT
1 ATTTTATAATA-TTATTGTTATTAAT
68211566 -TTTTACTAATATTATTGTTATTAAT
1 ATTTTA-TAATATTATTGTTATTAAT
68211591 ATTTTAT
1 ATTTTAT
68211598 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATAATATTATTGTTATTAAT
Found at i:68211578 original size:15 final size:15
Alignment explanation
Indices: 68211560--68211593 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
68211550 TATTTATTTT
*
68211560 TATTATTTTTACTAA
1 TATTATTGTTACTAA
*
68211575 TATTATTGTTATTAA
1 TATTATTGTTACTAA
68211590 TATT
1 TATT
68211594 TTATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTGTTACTAA
Found at i:68218086 original size:14 final size:14
Alignment explanation
Indices: 68218067--68218096 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68218057 TATCTTATAA
68218067 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
68218081 ATATGCGTTAATCT
1 ATATGCGTGAATCT
68218095 AT
1 AT
68218097 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:68227525 original size:3 final size:3
Alignment explanation
Indices: 68227517--68227555 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
68227507 AACCTTCACA
*
68227517 TAT TAT TAT TAT TAT TAT TAT TAT CTAA TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
68227556 ACCTATTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68227648 original size:18 final size:18
Alignment explanation
Indices: 68227625--68227683 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
68227615 ATATATATAC
*
68227625 TTTTTATATATAGTATTA
1 TTTTTATATATATTATTA
68227643 TTTTTATATATCATTA-TA
1 TTTTTATATAT-ATTATTA
68227661 TTTATTAT-TATACTTATTA
1 TTT-TTATATATA-TTATTA
68227680 TTTT
1 TTTT
68227684 CACTATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 1 0.03
18 23 0.64
19 12 0.33
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTTATATATATTATTA
Found at i:68227670 original size:3 final size:3
Alignment explanation
Indices: 68227638--68227729 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
68227628 TTATATATAG
* *
68227638 TAT TAT TTT TAT ATAT CAT TA- TATT TAT TAT TA- TACT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* * *
68227683 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT GTAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
68227729 T
1 T
68227730 TGGTATACAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
2 10 0.15
3 44 0.65
4 14 0.21
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:68227672 original size:12 final size:12
Alignment explanation
Indices: 68227570--68227681 Score: 51
Period size: 12 Copynumber: 9.3 Consensus size: 12
68227560 ATTTCACCGC
68227570 TATTATATTTAT
1 TATTATATTTAT
68227582 TATTA-A--TAT
1 TATTATATTTAT
*
68227591 TAGTATATATT-T
1 TATTATAT-TTAT
*
68227603 TATTATACGTGTA-
1 TATTATA--TTTAT
68227616 TATATATACTTT-T
1 TAT-TATA-TTTAT
68227629 TATATATAGTATTAT
1 TAT-TATA-T-TTAT
*
68227644 T-TT-TATATAT
1 TATTATATTTAT
*
68227654 CATTATATTTAT
1 TATTATATTTAT
*
68227666 TATTATACTTAT
1 TATTATATTTAT
68227678 TATT
1 TATT
68227682 TTCACTATTG
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
9 7 0.09
10 4 0.05
11 4 0.05
12 34 0.45
13 17 0.22
14 8 0.11
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:68229701 original size:3 final size:3
Alignment explanation
Indices: 68229685--68229866 Score: 76
Period size: 3 Copynumber: 60.3 Consensus size: 3
68229675 ACGTTTAGAG
* * * *
68229685 TAT TAT TACA TAT TAT TAT TAT TATT TAT TAT TAC TAT TAC TCT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
** ** * *
68229732 TATT TAT TAT TAT CGT TGC TAT T-T CTAT TAT TGT T-T T-T CTAT TAC
1 TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT
* * *
68229777 TAT T-T ATAT TAT TGT TGT CAT TAT TCAT TA- TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* *
68229822 T-T TAT TAT T-T T-T CTGT TAT TGT TAT TAT TAGT CTA- TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT
68229866 T
1 T
68229867 CCTATTAATG
Statistics
Matches: 138, Mismatches: 24, Indels: 34
0.70 0.12 0.17
Matches are distributed among these distances:
2 14 0.10
3 106 0.77
4 16 0.12
5 2 0.01
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:68229703 original size:13 final size:12
Alignment explanation
Indices: 68229685--68229743 Score: 55
Period size: 13 Copynumber: 4.7 Consensus size: 12
68229675 ACGTTTAGAG
68229685 TATTATTACATAT
1 TATTATTAC-TAT
*
68229698 TATTATTATTATT
1 TATTATTACTA-T
68229711 TATTATTACTAT
1 TATTATTACTAT
* * *
68229723 TACTCTTATTATT
1 TATTATTACTA-T
68229736 TATTATTA
1 TATTATTA
68229744 TCGTTGCTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 11 0.30
13 26 0.70
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:68229706 original size:16 final size:15
Alignment explanation
Indices: 68229685--68229740 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
68229675 ACGTTTAGAG
68229685 TATTATTACATATTAT
1 TATTATTAC-TATTAT
*
68229701 TATTATTATTTATTAT
1 TATTATTA-CTATTAT
* *
68229717 TACTATTACTCTTAT
1 TATTATTACTATTAT
68229732 TATTTATTA
1 TA-TTATTA
68229741 TTATCGTTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 7 0.21
16 26 0.79
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:68229997 original size:3 final size:3
Alignment explanation
Indices: 68229989--68230022 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
68229979 ACTCGCGTCG
*
68229989 TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
68230023 ACTATTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:68230004 original size:9 final size:9
Alignment explanation
Indices: 68229990--68230029 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
68229980 CTCGCGTCGT
68229990 TATTATTAC
1 TATTATTAC
*
68229999 TATTATTAT
1 TATTATTAC
*
68230008 TATTATTAT
1 TATTATTAC
68230017 TATTA-TAC
1 TATTATTAC
68230025 TATTA
1 TATTA
68230030 AACTGATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTATTAC
Found at i:68230196 original size:24 final size:25
Alignment explanation
Indices: 68230168--68230224 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
68230158 ATACTTTCAA
* *
68230168 ATTTTATATTATTTATTTTTATT-AT
1 ATTTTATAATA-TTATTGTTATTAAT
68230193 -TTTTACTAATATTATTGTTATTAAT
1 ATTTTA-TAATATTATTGTTATTAAT
68230218 ATTTTAT
1 ATTTTAT
68230225 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
ATTTTATAATATTATTGTTATTAAT
Found at i:68230205 original size:15 final size:15
Alignment explanation
Indices: 68230187--68230220 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
68230177 TATTTATTTT
*
68230187 TATTATTTTTACTAA
1 TATTATTGTTACTAA
*
68230202 TATTATTGTTATTAA
1 TATTATTGTTACTAA
68230217 TATT
1 TATT
68230221 TTATGTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTGTTACTAA
Found at i:68260297 original size:18 final size:18
Alignment explanation
Indices: 68260270--68260313 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
68260260 TCATTAACAA
*
68260270 TCAG-AACAGTTATTTAG
1 TCAGTAACAGTTAGTTAG
*
68260287 TCAGTAACAGTTAGTTAT
1 TCAGTAACAGTTAGTTAG
*
68260305 TCGGTAACA
1 TCAGTAACA
68260314 ATCAATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (18 bp):
TCAGTAACAGTTAGTTAG
Found at i:68260389 original size:18 final size:18
Alignment explanation
Indices: 68260363--68260549 Score: 98
Period size: 18 Copynumber: 10.4 Consensus size: 18
68260353 AATTGATCGG
*
68260363 TTATCCAGTAACAGTTAA
1 TTATTCAGTAACAGTTAA
* *
68260381 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTTA-A
*
68260399 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTTAA
*
68260416 GTTATTCAGTAACAG-TCA
1 -TTATTCAGTAACAGTTAA
* * * *
68260434 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTTAA
* *
68260453 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TTAA
* *
68260471 TTATTCAGTAATA-TTCAG
1 TTATTCAGTAACAGTT-AA
*
68260489 TTATTCAGTAATAGTCTAA
1 TTATTCAGTAACAGT-TAA
* * *
68260508 -TATCCAATAACAGTAAA
1 TTATTCAGTAACAGTTAA
* * *
68260525 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTTAA
68260543 TTATTCA
1 TTATTCA
68260550 ATAATAATAA
Statistics
Matches: 129, Mismatches: 28, Indels: 24
0.71 0.15 0.13
Matches are distributed among these distances:
17 19 0.15
18 93 0.72
19 16 0.12
20 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTTAA
Found at i:68260424 original size:36 final size:36
Alignment explanation
Indices: 68260368--68260565 Score: 129
Period size: 36 Copynumber: 5.5 Consensus size: 36
68260358 ATCGGTTATC
*
68260368 CAGTAACAGTTAA-TTATTCAGTAA-AATCAGATATT
1 CAGTAACAATTAAGTTATTCAGTAACAATCA-ATATT
* *
68260403 CAGTAACAATTAAGTTATTCAGTAACAGTCATTCATT
1 CAGTAACAATTAAGTTATTCAGTAACAATCAAT-ATT
* * **
68260440 CAGTGACAA-TCAGTTATTCAGTAATGATCAATTATT
1 CAGTAACAATTAAGTTATTCAGTAACAATCAA-TATT
* * * * *
68260476 CAGTAA-TATTCAGTTATTCAGTAATAGTCTAATATC
1 CAGTAACAATTAAGTTATTCAGTAACAATC-AATATT
* * * * * *
68260512 CAATAAC-AGTAAATTATCCGGTAACAGTCAATTATT
1 CAGTAACAATTAAGTTATTCAGTAACAATCAA-TATT
* *
68260548 CAATAATAA-TAAGTTATT
1 CAGTAACAATTAAGTTATT
68260566 TTATACCTTT
Statistics
Matches: 129, Mismatches: 25, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
35 15 0.12
36 95 0.74
37 19 0.15
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (36 bp):
CAGTAACAATTAAGTTATTCAGTAACAATCAATATT
Found at i:68260441 original size:54 final size:53
Alignment explanation
Indices: 68260362--68260499 Score: 152
Period size: 54 Copynumber: 2.5 Consensus size: 53
68260352 CAATTGATCG
* * *
68260362 GTTATCCAGTAACAGTTAATTATTCAGTAAAATCAGATATTCAGTAACAATTAA
1 GTTATTCAGTAACAG-TCATTATTCAGTAAAATCAGATATTCAGTAACAATCAA
* * **
68260416 GTTATTCAGTAACAGTCATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCATT-ATTCAGT-AAAATCAGATATTCAGTAACAATCAA
* *
68260471 -TTATTCAGTAATATTCAGTTATTCAGTAA
1 GTTATTCAGTAACAGTCA-TTATTCAGTAA
68260500 TAGTCTAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
53 5 0.07
54 43 0.61
55 23 0.32
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (53 bp):
GTTATTCAGTAACAGTCATTATTCAGTAAAATCAGATATTCAGTAACAATCAA
Found at i:68260740 original size:6 final size:6
Alignment explanation
Indices: 68260729--68260759 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
68260719 ACAAATCCGG
68260729 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
68260760 TTCAACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:68260791 original size:45 final size:45
Alignment explanation
Indices: 68260740--68260849 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
68260730 ACAGTAACAG
*
68260740 TAACAGTAACAGTAACAGTATTCAACACACAAAGTACTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTACCGAATCGA
* * *
68260785 TAACAGTAATAGTAACAGTATTCGACACACAAAGTACCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTACCGAATCGA
*
68260830 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
68260850 ACAATAACAG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTACCGAATCGA
Found at i:68260844 original size:12 final size:12
Alignment explanation
Indices: 68260827--68260861 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
68260817 AGTACCGAAT
68260827 CGGTAACAGTAA
1 CGGTAACAGTAA
68260839 CGGTAACAGTAA
1 CGGTAACAGTAA
**
68260851 CAATAACAGTA
1 CGGTAACAGTA
68260862 TTCGGCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:68263590 original size:26 final size:26
Alignment explanation
Indices: 68263536--68263593 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
68263526 CATGAAATTC
*
68263536 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCAAACCCA
* **
68263562 TTATCATGGAACATTTACCAAACTTA
1 TTATCATGAAACATTTACCAAACCCA
68263588 TTATCA
1 TTATCA
68263594 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCAAACCCA
Found at i:68267791 original size:25 final size:27
Alignment explanation
Indices: 68267754--68267806 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
68267744 TCAAACATGC
68267754 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
68267780 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
68267806 A
1 A
68267807 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:68269324 original size:26 final size:26
Alignment explanation
Indices: 68269288--68269371 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
68269278 CATGAAATTC
68269288 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
68269314 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
68269340 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
68269366 TTATCA
1 TTATCA
68269372 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:68269382 original size:10 final size:10
Alignment explanation
Indices: 68269367--68269391 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68269357 CCTAACCTAT
68269367 TATCAATTTG
1 TATCAATTTG
68269377 TATCAATTTG
1 TATCAATTTG
68269387 TATCA
1 TATCA
68269392 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:68271431 original size:31 final size:32
Alignment explanation
Indices: 68271363--68271424 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
68271353 CACACTTGTC
*
68271363 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
68271395 ATAATATAAT-TATTTAATTA-ATAAATATCT
1 ATAATATAATATATTT-ATTACATAAAAATCT
68271425 ACTAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:68274734 original size:6 final size:6
Alignment explanation
Indices: 68274725--68274771 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
68274715 AATAAAATTG
*
68274725 AAATGA AAATAA AAATAA AAATAAA AAATAAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAAT-AA AAAT-AA AAATAA AAATAA AAA
68274772 GATAAGAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 26 0.67
7 13 0.33
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:68274751 original size:7 final size:7
Alignment explanation
Indices: 68274730--68274776 Score: 64
Period size: 6 Copynumber: 7.0 Consensus size: 7
68274720 AATTGAAATG
68274730 AAAAT-A
1 AAAATAA
68274736 AAAAT-A
1 AAAATAA
68274742 AAAATAA
1 AAAATAA
68274749 AAAATAA
1 AAAATAA
68274756 AAAAT-A
1 AAAATAA
68274762 AAAATAA
1 AAAATAA
68274769 AAAGATAA
1 AAA-ATAA
68274777 GAGGATTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.45
7 17 0.45
8 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:68274753 original size:13 final size:13
Alignment explanation
Indices: 68274730--68274776 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
68274720 AATTGAAATG
68274730 AAAATAAAAAT-A
1 AAAATAAAAATAA
68274742 AAAATAAAAAATAA
1 AAAAT-AAAAATAA
68274756 AAAATAAAAATAA
1 AAAATAAAAATAA
68274769 AAAGATAA
1 AAA-ATAA
68274777 GAGGATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.16
13 17 0.53
14 10 0.31
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:68284734 original size:42 final size:42
Alignment explanation
Indices: 68284675--68284760 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
68284665 ACCTTGAGGG
68284675 TTTACAAAGGAAATTATACAAGAATTTAATTCTCATTCAGAA
1 TTTACAAAGGAAATTATACAAGAATTTAATTCTCATTCAGAA
68284717 TTTACAAAGGAAATTATACAAGAATTTAATTCTCATTCAGAA
1 TTTACAAAGGAAATTATACAAGAATTTAATTCTCATTCAGAA
68284759 TT
1 TT
68284761 CTTAATTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (42 bp):
TTTACAAAGGAAATTATACAAGAATTTAATTCTCATTCAGAA
Found at i:68285202 original size:8 final size:9
Alignment explanation
Indices: 68285189--68285228 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
68285179 ATTTTTTTGT
68285189 ATTTTTATA
1 ATTTTTATA
68285198 ATTTTTATA
1 ATTTTTATA
68285207 ATTTTTA-A
1 ATTTTTATA
68285215 ATTCTTTATA
1 ATT-TTTATA
68285225 ATTT
1 ATTT
68285229 ATTGTCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.14
9 21 0.72
10 4 0.14
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:68286867 original size:15 final size:15
Alignment explanation
Indices: 68286829--68286867 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
68286819 CAACAGAGGT
*
68286829 AGTACAACAGAACAA
1 AGTAAAACAGAACAA
*
68286844 AGCAAAACAGAACAA
1 AGTAAAACAGAACAA
*
68286859 AGTAGAACA
1 AGTAAAACA
68286868 ACACAATTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.18, G:0.15, T:0.05
Consensus pattern (15 bp):
AGTAAAACAGAACAA
Found at i:68287917 original size:42 final size:42
Alignment explanation
Indices: 68287838--68287918 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
68287828 GACACATGCC
* *
68287838 CATGTCCTTTCCCGTGTGGCTCACACGGCCTGAGCACACATT
1 CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACATT
* * *
68287880 CATGTCCTTGCCCGTGTGGCTCACGCGACTTGGGCACAC
1 CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACAC
68287919 GCCCATTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.15, C:0.36, G:0.25, T:0.25
Consensus pattern (42 bp):
CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACATT
Found at i:68290155 original size:13 final size:13
Alignment explanation
Indices: 68290139--68290194 Score: 67
Period size: 13 Copynumber: 4.0 Consensus size: 13
68290129 TGGAATCTAA
68290139 TTTATGCATTGAC
1 TTTATGCATTGAC
68290152 TTTATGCATTGAC
1 TTTATGCATTGAC
*
68290165 ATTATAGCACCATTGAC
1 TTTAT-G---CATTGAC
68290182 TTTATGCATTGAC
1 TTTATGCATTGAC
68290195 ATATGATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 24 0.65
14 1 0.03
16 1 0.03
17 11 0.30
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (13 bp):
TTTATGCATTGAC
Found at i:68300509 original size:13 final size:14
Alignment explanation
Indices: 68300480--68300509 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68300470 CTAACAATCA
*
68300480 TTTATTAATATTTT
1 TTTATAAATATTTT
68300494 TTTATAAATATTTT
1 TTTATAAATATTTT
68300508 TT
1 TT
68300510 CAACATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATAAATATTTT
Found at i:68304771 original size:137 final size:137
Alignment explanation
Indices: 68304613--68305005 Score: 768
Period size: 137 Copynumber: 2.9 Consensus size: 137
68304603 CAATGACATT
*
68304613 AATAATAATAATATAAATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
1 AATAATAATAATATATATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
68304678 GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAATACAATTGTAATACAAT
66 GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAATACAATTGTAATACAAT
68304743 AATATTA
131 AATATTA
68304750 AATAATAATAATATATATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
1 AATAATAATAATATATATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
68304815 GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAATACAATTGTAATACAAT
66 GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAATACAATTGTAATACAAT
68304880 AATATTA
131 AATATTA
68304887 AATAATAATAATATATATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
1 AATAATAATAATATATATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
*
68304952 GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAAAACAAT
66 GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAATACAAT
68305006 AATATTAAAT
Statistics
Matches: 254, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 254 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.22
Consensus pattern (137 bp):
AATAATAATAATATATATAAAAATACGGACAACAAAAAAAAATAGCAATAGCAATAATAATAATG
GAATGAAGGCAATAATAATAATAGCAAATGATATGCACGAAAATAAAATACAATTGTAATACAAT
AATATTA
Found at i:68307775 original size:93 final size:93
Alignment explanation
Indices: 68307668--68307838 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
68307658 GCCCCTAAGT
* *
68307668 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68307733 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
68307761 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68307826 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68307839 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:68307835 original size:46 final size:46
Alignment explanation
Indices: 68307663--68307835 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
68307653 AACCCGCCCC
* * *
68307663 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
68307709 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
68307757 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
68307802 TAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
68307836 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:68313425 original size:52 final size:48
Alignment explanation
Indices: 68313242--68313448 Score: 179
Period size: 47 Copynumber: 4.2 Consensus size: 48
68313232 TGCACATAGT
* * * * *
68313242 CACATATCACATACCGAGGCCATAGCCCA-ACCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATATCCCAGA-TATGGTCTTATACGGAAG
* * * * *
68313290 CACGTATCACA-CTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
* *
68313337 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
* * *
68313384 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATATCCCAGATATGGTCTTATACGG-AAG
*
68313437 CACATTTCACAT
1 CACATATCACAT
68313449 GTTGCCATGG
Statistics
Matches: 132, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
46 25 0.19
47 55 0.42
48 10 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACGGAAG
Found at i:68315139 original size:15 final size:15
Alignment explanation
Indices: 68315115--68315164 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
68315105 TCCAAGATAG
*
68315115 AGAAACCCAGAATAA
1 AGAAATCCAGAATAA
68315130 AGAAATCCAGAATAA
1 AGAAATCCAGAATAA
* *
68315145 AGAGATCCAGGATAA
1 AGAAATCCAGAATAA
68315160 AGAAA
1 AGAAA
68315165 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:68315173 original size:15 final size:15
Alignment explanation
Indices: 68315106--68315173 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
68315096 GACCGGAATT
*
68315106 CCAAGATAGAGAAAC
1 CCAAGATAAAGAAAC
*
68315121 CC-AGAATAAAGAAAT
1 CCAAG-ATAAAGAAAC
* *
68315136 CC-AGAATAAAGAGAT
1 CCAAG-ATAAAGAAAC
*
68315151 CCAGGATAAAGAAAC
1 CCAAGATAAAGAAAC
68315166 CCAAGATA
1 CCAAGATA
68315174 CGATACTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 2 0.05
15 41 0.93
16 1 0.02
ACGTcount: A:0.54, C:0.18, G:0.18, T:0.10
Consensus pattern (15 bp):
CCAAGATAAAGAAAC
Found at i:68316995 original size:14 final size:14
Alignment explanation
Indices: 68316976--68317005 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68316966 AATAAGATTA
68316976 AATTAATTAAACTT
1 AATTAATTAAACTT
*
68316990 AATTAATTAAAGTT
1 AATTAATTAAACTT
68317004 AA
1 AA
68317006 ACTAAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (14 bp):
AATTAATTAAACTT
Found at i:68319186 original size:15 final size:16
Alignment explanation
Indices: 68319159--68319198 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
68319149 TGGTATAATG
* *
68319159 TATTTATTCATATTTT
1 TATTTATTGATATTAT
68319175 TA-TTATTGATATTAT
1 TATTTATTGATATTAT
68319190 TATTTATTG
1 TATTTATTG
68319199 TCAAAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (16 bp):
TATTTATTGATATTAT
Found at i:68322354 original size:15 final size:15
Alignment explanation
Indices: 68322334--68322363 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68322324 CATGGTTGTA
68322334 TGGCCAAGTCGTGTG
1 TGGCCAAGTCGTGTG
68322349 TGGCCAAGTCGTGTG
1 TGGCCAAGTCGTGTG
68322364 GAGGGATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (15 bp):
TGGCCAAGTCGTGTG
Found at i:68323095 original size:17 final size:16
Alignment explanation
Indices: 68323073--68323118 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
68323063 GAAATTCTTT
68323073 AATAAAATCATAATAAA
1 AATAAAAT-ATAATAAA
*
68323090 AATAAAATAAAATAAA
1 AATAAAATATAATAAA
68323106 ATATAAAATATAA
1 A-ATAAAATATAA
68323119 GAAACCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAAATATAATAAA
Found at i:68324036 original size:68 final size:68
Alignment explanation
Indices: 68323927--68324063 Score: 265
Period size: 68 Copynumber: 2.0 Consensus size: 68
68323917 TTCATATGTG
68323927 TATAAAATGGTAAGTTTTAATGCTTTATAACATAAGTAAGATTTGTAATTGAATGAATTAGTAGG
1 TATAAAATGGTAAGTTTTAATGCTTTATAACATAAGTAAGATTTGTAATTGAATGAATTAGTAGG
68323992 TAT
66 TAT
*
68323995 TATAAAATGGTAAGTTTTAATGCTTTATAGCATAAGTAAGATTTGTAATTGAATGAATTAGTAGG
1 TATAAAATGGTAAGTTTTAATGCTTTATAACATAAGTAAGATTTGTAATTGAATGAATTAGTAGG
68324060 TAT
66 TAT
68324063 T
1 T
68324064 CCTCAACGAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (68 bp):
TATAAAATGGTAAGTTTTAATGCTTTATAACATAAGTAAGATTTGTAATTGAATGAATTAGTAGG
TAT
Found at i:68344432 original size:35 final size:36
Alignment explanation
Indices: 68344353--68344432 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 36
68344343 TGTGTTTATT
** *
68344353 TTTATTTA-TTTATAATATAAATTTTAATATTTATA
1 TTTATTTATTTTATAATATAAAAATTAATATATATA
* *
68344388 TTTGA-TTATTTTAT-ATCTAAAAATTAATATATATG
1 TTT-ATTTATTTTATAATATAAAAATTAATATATATA
68344423 TTTATTTATT
1 TTTATTTATT
68344433 ATGCATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
34 1 0.03
35 30 0.81
36 6 0.16
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (36 bp):
TTTATTTATTTTATAATATAAAAATTAATATATATA
Found at i:68348102 original size:42 final size:42
Alignment explanation
Indices: 68348036--68348163 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
68348026 CTTCGTTTTC
** * *
68348036 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
68348079 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* * *
68348120 TCGATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
68348162 TC
1 TC
68348164 ACATATCGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 70 0.96
43 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:68348191 original size:49 final size:47
Alignment explanation
Indices: 68348071--68348243 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 47
68348061 TTACACATCT
* *
68348071 TCACATAAT-GATGTCATAGCCCAGCTATGGTCTTACAC-AT---AT-
1 TCACAT-ATCGATGTCATATCCCAGATATGGTCTTACACAATCACATA
* * * * *
68348113 TCATATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATA
1 TCACATATCGATGTCATATCCCAGATATGGTCTTACAC--AATCACATA
*
68348162 TCACATATCGATGTCATATCCCAGATATGGTCTTATACAAT-AGCATA
1 TCACATATCGATGTCATATCCCAGATATGGTCTTACACAATCA-CATA
* * *
68348209 T-ATCACACCGATGTCATATGCCAGATATGGTCTTA
1 TCA-CATATCGATGTCATATCCCAGATATGGTCTTA
68348244 TACGGAAATC
Statistics
Matches: 109, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.29
45 2 0.02
46 2 0.02
47 37 0.34
48 2 0.02
49 32 0.29
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (47 bp):
TCACATATCGATGTCATATCCCAGATATGGTCTTACACAATCACATA
Found at i:68348300 original size:31 final size:31
Alignment explanation
Indices: 68348265--68348444 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
68348255 CTTGTCACTT
68348265 GTAGCCGAAGCTACCA-TTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTT-TTCACTGATCAG
* *
68348296 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68348327 GTAGCCAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68348358 GTAGCCGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68348389 GTAGCCGAAGCTATCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68348420 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
68348445 TGTCATTTGT
Statistics
Matches: 142, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 140 0.99
32 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:68348526 original size:50 final size:50
Alignment explanation
Indices: 68348420--68348595 Score: 262
Period size: 50 Copynumber: 3.5 Consensus size: 50
68348410 CACTGATCAG
* * *
68348420 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
*
68348471 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGGTAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * *
68348521 GTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGACCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* *
68348571 GTCGTCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
68348596 GGTTGCCATA
Statistics
Matches: 114, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 89 0.78
51 25 0.22
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:68350706 original size:26 final size:24
Alignment explanation
Indices: 68350647--68350706 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
68350637 TGAACGCATT
*
68350647 TATAACATACTAATATAATTTTTG
1 TATAACATACTAATATAATTTTTA
*
68350671 TCTAAGCATAGCTAATATAATTTATTA
1 TATAA-CATA-CTAATATAATTT-TTA
*
68350698 TATCACATA
1 TATAACATA
68350707 AAATTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 4 0.14
25 4 0.14
26 16 0.55
27 5 0.17
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (24 bp):
TATAACATACTAATATAATTTTTA
Found at i:68352534 original size:43 final size:41
Alignment explanation
Indices: 68352481--68352593 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 41
68352471 TCGAGATATG
* *
68352481 ATTACATGTAAGATCATGTTTGGGACATTGGCATTGTATTAA-A
1 ATTACGTGTAAGA-CATGTTTGGGACATTGGCATAG--TTAACA
*
68352524 ATTACGTGTAAGACCATGCTTGGGACATTGGCATAGTTAATCA
1 ATTACGTGTAAGA-CATGTTTGGGACATTGGCATAGTTAA-CA
*
68352567 ATTTCGTGTAAGACACTGTTTGGGACA
1 ATTACGTGTAAGACA-TGTTTGGGACA
68352594 ATGTCATCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 4 0.07
42 2 0.03
43 55 0.90
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (41 bp):
ATTACGTGTAAGACATGTTTGGGACATTGGCATAGTTAACA
Found at i:68363597 original size:26 final size:26
Alignment explanation
Indices: 68363565--68363646 Score: 119
Period size: 26 Copynumber: 3.2 Consensus size: 26
68363555 CTCCTGAGAA
68363565 CCATTAATCAGGAAGCTCACAAAGAG
1 CCATTAATCAGGAAGCTCACAAAGAG
*
68363591 CCATTAATCAGGAAGCTCATAAAGAG
1 CCATTAATCAGGAAGCTCACAAAGAG
* * * *
68363617 TCTTTAATCGGGAAGCTCACGAAGAG
1 CCATTAATCAGGAAGCTCACAAAGAG
68363643 CCAT
1 CCAT
68363647 ATATCGGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (26 bp):
CCATTAATCAGGAAGCTCACAAAGAG
Found at i:68363631 original size:52 final size:52
Alignment explanation
Indices: 68363568--68363666 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
68363558 CTGAGAACCA
68363568 TTAATCAGGAAGCTCACAAAGAGCCAT-TAATCAGGAA-GCTCATAAAGAGTCT
1 TTAATCAGGAAGCTCACAAAGAGCCATAT-ATC-GGAATGCTCATAAAGAGTCT
* *
68363620 TTAATCGGGAAGCTCACGAAGAGCCATATATCGGAATGCTCATAAAG
1 TTAATCAGGAAGCTCACAAAGAGCCATATATCGGAATGCTCATAAAG
68363667 GTGCGGTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 4 0.09
52 38 0.88
53 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (52 bp):
TTAATCAGGAAGCTCACAAAGAGCCATATATCGGAATGCTCATAAAGAGTCT
Found at i:68363652 original size:26 final size:25
Alignment explanation
Indices: 68363565--68363666 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 25
68363555 CTCCTGAGAA
68363565 CCATTAATCAGGAAGCTCACAAAGAG
1 CCATTAATC-GGAAGCTCACAAAGAG
*
68363591 CCATTAATCAGGAAGCTCATAAAGAG
1 CCATTAATC-GGAAGCTCACAAAGAG
* * *
68363617 TCTTTAATCGGGAAGCTCACGAAGAG
1 CCATTAATC-GGAAGCTCACAAAGAG
*
68363643 CCA-TATATCGGAATGCTCATAAAG
1 CCATTA-ATCGGAA-GCTCACAAAG
68363667 GTGCGGTGTG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 6 0.09
26 58 0.91
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (25 bp):
CCATTAATCGGAAGCTCACAAAGAG
Found at i:68367259 original size:2 final size:2
Alignment explanation
Indices: 68367252--68367396 Score: 220
Period size: 2 Copynumber: 72.5 Consensus size: 2
68367242 CTTTAACATT
68367252 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* **
68367294 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA TG
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* * *
68367336 CA CGA -A CA CA CG CA CA CA CG CA CA CA CG CA CA CA CA CA CA CA
1 CA C-A CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
68367378 CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA C
68367397 TCTCACTCTC
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.01
2 129 0.98
3 1 0.01
ACGTcount: A:0.47, C:0.48, G:0.03, T:0.01
Consensus pattern (2 bp):
CA
Found at i:68367409 original size:4 final size:4
Alignment explanation
Indices: 68367396--68368000 Score: 267
Period size: 4 Copynumber: 155.5 Consensus size: 4
68367386 CACACACACA
* * * * *
68367396 CTCT CACT CTCT CTCT CTCT CTCT CTGT CTCT CGCT CCCT CTCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * *
68367444 CTCT CCCT CTCT CTCT CCCT CCCT CCCT CTCT CTCT CTCT CTCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * *
68367492 CCCT CTCC CTCT CTCA CTCC CTC- CT-T C-CT -TCT CCCT CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * *
68367536 CT-T C-CT CTCT CTCT CCCT CCCT CTCC CTCT CCCG CTCT CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * *
68367582 CTCT CTCC CGCT CTTT CCCT CTCC CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
68367630 CTCT CTCT CCCT CTCT CTCA CTCT CTCC CTCC CTCC CTCC CTCT CACT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * * * * * * *
68367678 TTCC CTCT CTCT CCCT CTC- CTAT -TCT CCCT CACA CACA CACA CACA
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * * * *
68367724 CACA CACT CTCC CTCT CTCT CTCA CACA CTCT CTCT CCCT CCCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * * *
68367772 CCCT CTCT CTCT CCCT CTCT CTCA CTCC CCCT CCCT CCCT CCCT CTCA
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * *
68367820 CTCT CCCT CTCT CT-T C-CT CTCT CACT CTAC- CTCT CTCA CTCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT-CT CTCT CTCT CTCT CTCT
* * * * * *
68367866 CACT TTCC CTCT CTCT CTCT CCCT CTCT -TC- CGCT CTC- CCCAT -TCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTC-T CTCT
* * * * * *
68367911 -TCC CTC- CTCT CTCT CCCT CTCT CCCT CCCT CCCT CTCT CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * *
68367957 CTCC CTCC CTCC CTC- CT-T CCCT CTCT CTCT GTCT CTGT CTCT CT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CT
68368001 GTAGCACCCC
Statistics
Matches: 467, Mismatches: 114, Indels: 40
0.75 0.18 0.06
Matches are distributed among these distances:
3 33 0.07
4 433 0.93
5 1 0.00
ACGTcount: A:0.04, C:0.58, G:0.01, T:0.37
Consensus pattern (4 bp):
CTCT
Found at i:68367409 original size:10 final size:10
Alignment explanation
Indices: 68367396--68368000 Score: 267
Period size: 10 Copynumber: 62.2 Consensus size: 10
68367386 CACACACACA
*
68367396 CTCTCACTCT
1 CTCTCTCTCT
68367406 CTCTCTCTCT
1 CTCTCTCTCT
*
68367416 CTCTCTGTCT
1 CTCTCTCTCT
* *
68367426 CTCGCTCCCT
1 CTCTCTCTCT
*
68367436 CTCTCCCTCT
1 CTCTCTCTCT
*
68367446 CTCCCTCTCT
1 CTCTCTCTCT
* *
68367456 CTCTCCCTCC
1 CTCTCTCTCT
*
68367466 CTCCCTCTCT
1 CTCTCTCTCT
68367476 CTCTCTCTCT
1 CTCTCTCTCT
* *
68367486 CTCCCTCCCT
1 CTCTCTCTCT
*
68367496 CTCCCTCTCT
1 CTCTCTCTCT
* *
68367506 CACTCCCTC-
1 CTCTCTCTCT
68367515 CT-TC-CT-T
1 CTCTCTCTCT
* *
68367522 CTCCCTCTCC
1 CTCTCTCTCT
68367532 CTCTCT-TC-
1 CTCTCTCTCT
68367540 CTCTCTCTCT
1 CTCTCTCTCT
* *
68367550 CCCTCCCTCT
1 CTCTCTCTCT
* * *
68367560 CCCTCTCCCG
1 CTCTCTCTCT
*
68367570 CTCTCTCCCT
1 CTCTCTCTCT
*
68367580 CTCTCTCTCC
1 CTCTCTCTCT
* * *
68367590 CGCTCTTTCC
1 CTCTCTCTCT
*
68367600 CTCTCCCTCT
1 CTCTCTCTCT
68367610 CTCTCTCTCT
1 CTCTCTCTCT
68367620 CTCTCTCTCT
1 CTCTCTCTCT
*
68367630 CTCTCTCTCC
1 CTCTCTCTCT
*
68367640 CTCTCTCTCA
1 CTCTCTCTCT
*
68367650 CTCTCTCCCT
1 CTCTCTCTCT
* * *
68367660 CCCTCCCTCC
1 CTCTCTCTCT
* *
68367670 CTCTCACTTT
1 CTCTCTCTCT
*
68367680 CCCTCTCTCT
1 CTCTCTCTCT
*
68367690 CCCTCTC-CT
1 CTCTCTCTCT
* *
68367699 AT-TCTCCCT
1 CTCTCTCTCT
* * * * *
68367708 CACACACACA
1 CTCTCTCTCT
* * * * *
68367718 CACACACACA
1 CTCTCTCTCT
* *
68367728 CACTCTCCCT
1 CTCTCTCTCT
*
68367738 CTCTCTCTCA
1 CTCTCTCTCT
* *
68367748 CACACTCTCT
1 CTCTCTCTCT
* *
68367758 CTCCCTCCCT
1 CTCTCTCTCT
* *
68367768 CCCTCCCTCT
1 CTCTCTCTCT
*
68367778 CTCTCTCCCT
1 CTCTCTCTCT
*
68367788 CTCTCTCACT
1 CTCTCTCTCT
* * *
68367798 CCCCCTCCCT
1 CTCTCTCTCT
* *
68367808 CCCTCCCTCT
1 CTCTCTCTCT
* *
68367818 CACTCTCCCT
1 CTCTCTCTCT
68367828 CTCTCT-TC-
1 CTCTCTCTCT
*
68367836 CTCTCTCACT
1 CTCTCTCTCT
68367846 CTAC-CTCTCT
1 CT-CTCTCTCT
* *
68367856 CACTCTCCCT
1 CTCTCTCTCT
* * *
68367866 CACTTTCCCT
1 CTCTCTCTCT
68367876 CTCTCTCTCT
1 CTCTCTCTCT
*
68367886 CCCTCTCT-T
1 CTCTCTCTCT
*
68367895 C-CGCTCTC-
1 CTCTCTCTCT
*
68367903 CCCAT-TCT-T
1 CTC-TCTCTCT
*
68367912 CCCTC-CTCT
1 CTCTCTCTCT
*
68367921 CTCTCCCTCT
1 CTCTCTCTCT
* *
68367931 CTCCCTCCCT
1 CTCTCTCTCT
*
68367941 CCCTCTCTCT
1 CTCTCTCTCT
* *
68367951 CCCTCTCTCC
1 CTCTCTCTCT
* *
68367961 CTCCCTCCCT
1 CTCTCTCTCT
*
68367971 C-CT-TCCCT
1 CTCTCTCTCT
*
68367979 CTCTCTCTGT
1 CTCTCTCTCT
*
68367989 CTCTGTCTCT
1 CTCTCTCTCT
68367999 CT
1 CT
68368001 GTAGCACCCC
Statistics
Matches: 448, Mismatches: 126, Indels: 42
0.73 0.20 0.07
Matches are distributed among these distances:
7 4 0.01
8 34 0.08
9 31 0.07
10 378 0.84
11 1 0.00
ACGTcount: A:0.04, C:0.58, G:0.01, T:0.37
Consensus pattern (10 bp):
CTCTCTCTCT
Found at i:68367893 original size:12 final size:12
Alignment explanation
Indices: 68367396--68367986 Score: 339
Period size: 12 Copynumber: 47.7 Consensus size: 12
68367386 CACACACACA
* *
68367396 CTCTCACTCTCT
1 CTCTCTCTCCCT
*
68367408 CTCTCTCTCTCT
1 CTCTCTCTCCCT
* *
68367420 CTGTCTCTCGCT
1 CTCTCTCTCCCT
*
68367432 CCCTCTCTCCCT
1 CTCTCTCTCCCT
* *
68367444 CTCTCCCTCTCT
1 CTCTCTCTCCCT
*
68367456 CTCTCCCTCCCT
1 CTCTCTCTCCCT
* *
68367468 CCCTCTCTCTCT
1 CTCTCTCTCCCT
68367480 CTCTCTCTCCCT
1 CTCTCTCTCCCT
68367492 C-C-CTCTCCCT
1 CTCTCTCTCCCT
*
68367502 CTCTCACTCCCT
1 CTCTCTCTCCCT
68367514 C-CTTCCTTCTCCCT
1 CTC-T-C-TCTCCCT
*
68367528 CTCCCTCTCTTCCT
1 CT--CTCTCTCCCT
68367542 CTCTCTCTCCCT
1 CTCTCTCTCCCT
68367554 C-C-CTCTCCCT
1 CTCTCTCTCCCT
68367564 CTCCCGCTCTCTCCCT
1 CT----CTCTCTCCCT
*
68367580 CTCTCTCTCCCG
1 CTCTCTCTCCCT
68367592 CTCT-T-TCCCT
1 CTCTCTCTCCCT
*
68367602 CTC-C-CTCTCT
1 CTCTCTCTCCCT
*
68367612 CTCTCTCTCTCT
1 CTCTCTCTCCCT
*
68367624 CTCTCTCTCTCT
1 CTCTCTCTCCCT
* *
68367636 CTCCCTCTCTCT
1 CTCTCTCTCCCT
*
68367648 CACTCTCTCCCT
1 CTCTCTCTCCCT
* *
68367660 CCCTCCCTCCCT
1 CTCTCTCTCCCT
* *
68367672 CTCACTTTCCCT
1 CTCTCTCTCCCT
68367684 CTCTCTCCCTCTCCT
1 CTCTCT--CTC-CCT
* * *
68367699 ATTCTCCCTCACACA
1 -CTCTCTCTC-C-CT
* * * * * *
68367714 CACACACACACA
1 CTCTCTCTCCCT
* *
68367726 CACACTCTCCCT
1 CTCTCTCTCCCT
*
68367738 CTCTCTCTCACACA
1 CTCTCTCTC-C-CT
68367752 CTCTCTCTCCCT
1 CTCTCTCTCCCT
* *
68367764 CCCTCCCTCCCT
1 CTCTCTCTCCCT
68367776 CTCTCTCTCCCT
1 CTCTCTCTCCCT
68367788 CTCTCTCACTCCCCCT
1 CTCTCT--CT--CCCT
* *
68367804 CCCTCCCTCCCT
1 CTCTCTCTCCCT
*
68367816 CTCACTCTCCCT
1 CTCTCTCTCCCT
68367828 CTCTCT-TCCTCT
1 CTCTCTCTCC-CT
*
68367840 CTCACTCTACCTCT
1 CTCTCTCT-CC-CT
*
68367854 CTCACTCTCCCT
1 CTCTCTCTCCCT
*
68367866 CACT-T-TCCCT
1 CTCTCTCTCCCT
68367876 CTCTCTCTCTCC-
1 CTCTCTCTC-CCT
68367888 CTCTCT-TCCGCT
1 CTCTCTCTCC-CT
*
68367900 CTCCCCATTCTTCCCT
1 CT-CTC--TC-TCCCT
68367916 CCTCTCTCTCCCT
1 -CTCTCTCTCCCT
*
68367929 CTCTCCCTCCCT
1 CTCTCTCTCCCT
68367941 CCCTCTCTCTCCCT
1 --CTCTCTCTCCCT
*
68367955 CTCTCCCTCCCT
1 CTCTCTCTCCCT
*
68367967 CCCTC-CTTCCCT
1 CTCTCTC-TCCCT
68367979 CTCTCTCT
1 CTCTCTCT
68367987 GTCTCTGTCT
Statistics
Matches: 459, Mismatches: 73, Indels: 94
0.73 0.12 0.15
Matches are distributed among these distances:
10 41 0.09
11 15 0.03
12 282 0.61
13 16 0.03
14 65 0.14
15 7 0.02
16 27 0.06
17 6 0.01
ACGTcount: A:0.04, C:0.58, G:0.01, T:0.37
Consensus pattern (12 bp):
CTCTCTCTCCCT
Found at i:68370683 original size:26 final size:26
Alignment explanation
Indices: 68370648--68370755 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
68370638 TGAAATGCCC
*
68370648 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
68370674 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
68370700 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
68370726 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
68370752 ATCA
1 ATCA
68370756 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:68371105 original size:4 final size:4
Alignment explanation
Indices: 68371089--68371359 Score: 271
Period size: 4 Copynumber: 68.8 Consensus size: 4
68371079 GGACATTACA
* * * * * * *
68371089 CTCT CTGT CTCT CTCT CTCT CTCT CCCT CCCT CCCT CCCT CCCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * *
68371137 CTCT CTCC CTCT CCCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * *
68371185 CTCT CCCT CTCT CTCC CTCT CTCT C-CT -TCT CTCC CTCT CTCT CTCC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * *
68371231 CT-T C-CT CCCT CCCT CCCT CTCT TTCT CTCA CTCT CACT CTCC CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * *
68371277 CCCT CCCT CCCT CCCT CCCT CCCT CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
68371325 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTC
68371360 CAGTTTTACT
Statistics
Matches: 234, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
3 7 0.03
4 227 0.97
ACGTcount: A:0.01, C:0.58, G:0.00, T:0.41
Consensus pattern (4 bp):
CTCT
Found at i:68377353 original size:85 final size:87
Alignment explanation
Indices: 68377264--68377421 Score: 207
Period size: 87 Copynumber: 1.8 Consensus size: 87
68377254 TGAATTATAA
* * *
68377264 ATTTTTTAG-ATGTCAAAATATAAACTTTATCAT-T-TATTAATTTATGATTTCATTAT-TTTTG
1 ATTTTTTAGAAAGTCAAAATAT-AACTTTATCATATATATTAATTTATAATTTAATTATCTTTT-
*
68377325 AAGGGACTAAATAATTTTATTTTT
64 AAGAGACTAAATAATTTTATTTTT
* * *
68377349 ATTTTTTAGAAAGTTAAAGTATAATTTTATCATATATATTAATTTATAATTTAATTATCTTTTAA
1 ATTTTTTAGAAAGTCAAAATATAACTTTATCATATATATTAATTTATAATTTAATTATCTTTTAA
68377414 GAGACTAA
66 GAGACTAA
68377422 GGCTTCCTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
85 19 0.31
86 10 0.16
87 29 0.47
88 4 0.06
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (87 bp):
ATTTTTTAGAAAGTCAAAATATAACTTTATCATATATATTAATTTATAATTTAATTATCTTTTAA
GAGACTAAATAATTTTATTTTT
Found at i:68379145 original size:21 final size:21
Alignment explanation
Indices: 68379105--68379145 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68379095 AATACCACAT
*
68379105 AAAAATATTTATTATTTTTTA
1 AAAAATATTTATTATGTTTTA
68379126 AAAAATATTT-TTAGTGTTTT
1 AAAAATATTTATTA-TGTTTT
68379146 CTCTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AAAAATATTTATTATGTTTTA
Found at i:68382344 original size:3 final size:3
Alignment explanation
Indices: 68382336--68382363 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
68382326 GAAATCGTTG
68382336 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
68382364 AAATCCTTCA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:68382695 original size:21 final size:23
Alignment explanation
Indices: 68382671--68382714 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
68382661 GAATTAAATT
68382671 TTATTTTT-ATTTAAT-ATATAA
1 TTATTTTTAATTTAATGATATAA
*
68382692 TTATTTTTAATTTTATGATATAA
1 TTATTTTTAATTTAATGATATAA
68382715 AAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 6 0.30
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATTTTTAATTTAATGATATAA
Found at i:68382706 original size:23 final size:21
Alignment explanation
Indices: 68382671--68382714 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
68382661 GAATTAAATT
68382671 TTATTTTTATTTAAT-ATATAA
1 TTATTTTTATTT-ATGATATAA
68382692 TTATTTTTAATTTTATGATATAA
1 TTATTTTT-A-TTTATGATATAA
68382715 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTTATTTATGATATAA
Found at i:68384768 original size:18 final size:18
Alignment explanation
Indices: 68384708--68384801 Score: 68
Period size: 18 Copynumber: 5.1 Consensus size: 18
68384698 TTTAATATAC
68384708 AATATATAATAACAA-AAAA
1 AATATAT-ATAA-AATAAAA
* *
68384727 AAT-TATAAAAGAATAATA
1 AATATATATAA-AATAAAA
*
68384745 ATTATATATAAAATAAAA
1 AATATATATAAAATAAAA
**
68384763 AATATATTGATTTAA-AAAA
1 AATATA-T-ATAAAATAAAA
68384782 AATAATATATAAAATAAAA
1 AAT-ATATATAAAATAAAA
68384801 A
1 A
68384802 GTATGTAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
17 5 0.09
18 23 0.40
19 23 0.40
20 7 0.12
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (18 bp):
AATATATATAAAATAAAA
Found at i:68384990 original size:5 final size:5
Alignment explanation
Indices: 68384965--68385113 Score: 57
Period size: 5 Copynumber: 30.0 Consensus size: 5
68384955 ATTTTAAAAT
*
68384965 TATAA -ATAA TATAA TGAATAA TATAA -A-ACA TAAATA TATAA TAGATAA
1 TATAA TATAA TATAA T--ATAA TATAA TATA-A TATA-A TATAA T--ATAA
* * *
68385013 TATACGA TAT-A TATAA TAAAA AATAA TATAA TA-AG TA-ATA TATAA
1 TATA--A TATAA TATAA TATAA TATAA TATAA TATAA TATA-A TATAA
* * * * * *
68385058 TAAAA TA-AA AATAA -AAAA TATAA TA-AA TGTTA TATAA TAAAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
68385105 TATAA -ATAA
1 TATAA TATAA
68385114 ATAGGAAAAT
Statistics
Matches: 110, Mismatches: 18, Indels: 33
0.68 0.11 0.20
Matches are distributed among these distances:
3 1 0.01
4 27 0.25
5 62 0.56
6 6 0.05
7 14 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (5 bp):
TATAA
Found at i:68385007 original size:7 final size:7
Alignment explanation
Indices: 68384973--68385059 Score: 54
Period size: 7 Copynumber: 12.1 Consensus size: 7
68384963 ATTATAAATA
68384973 ATATAAT
1 ATATAAT
68384980 GA-ATAAT
1 -ATATAAT
* *
68384987 ATAAAAC
1 ATATAAT
68384994 ATA-AAT
1 ATATAAT
68385000 ATATAAT
1 ATATAAT
*
68385007 AGATAAT
1 ATATAAT
*
68385014 ATACGATAT
1 ATA-TA-AT
68385023 ATATAAT
1 ATATAAT
* *
68385030 AAAAAAT
1 ATATAAT
68385037 AATATAAT
1 -ATATAAT
68385045 A-AGTAAT
1 ATA-TAAT
68385052 ATATAAT
1 ATATAAT
68385059 A
1 A
68385060 AAATAAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
6 7 0.11
7 40 0.66
8 9 0.15
9 5 0.08
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (7 bp):
ATATAAT
Found at i:68385064 original size:12 final size:12
Alignment explanation
Indices: 68384968--68385103 Score: 71
Period size: 14 Copynumber: 10.6 Consensus size: 12
68384958 TTAAAATTAT
68384968 AAATAATATAATGA
1 AAAT-ATATAAT-A
* *
68384982 ATAATATAAAACA
1 A-AATATATAATA
68384995 TAAATATATAATA
1 -AAATATATAATA
**
68385008 GATAATATACGAT-
1 -A-AATATATAATA
*
68385021 ATATATAATAA-A
1 AAATAT-ATAATA
68385033 AAATAATATAATA
1 AAAT-ATATAATA
68385046 AGTAATATATAATA
1 A--AATATATAATA
*
68385060 AAATA-AAAATA
1 AAATATATAATA
*
68385071 AAAAATATAATA
1 AAATATATAATA
*
68385083 AATGTTATATAATA
1 AA--ATATATAATA
68385097 AAATATA
1 AAATATA
68385104 ATATAAATAA
Statistics
Matches: 93, Mismatches: 17, Indels: 26
0.68 0.12 0.19
Matches are distributed among these distances:
11 13 0.14
12 25 0.27
13 15 0.16
14 34 0.37
15 6 0.06
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
AAATATATAATA
Found at i:68385092 original size:37 final size:38
Alignment explanation
Indices: 68384966--68385136 Score: 129
Period size: 38 Copynumber: 4.5 Consensus size: 38
68384956 TTTTAAAATT
* *
68384966 ATAAAT-A-ATATAATGAATAATATAAAACATAAATATATA
1 ATAAATAATATATAAT-AA-AATATAAAATA-AAAAATATA
* ** *
68385005 ATAGATAATATACGAT-ATATATAATAA-AAAATAATATA
1 ATAAATAATATATAATAAAATATAA-AATAAAA-AATATA
*
68385043 ATAAGTAATATATAATAAAATA-AAAATAAAAAATATA
1 ATAAATAATATATAATAAAATATAAAATAAAAAATATA
** * **
68385080 ATAAATGTTATATAATAAAATATAATATAAATAAATAGG
1 ATAAATAATATATAATAAAATATAAAATAAA-AAATATA
*
68385119 A-AAATAATATATGATAAA
1 ATAAATAATATATAATAAA
68385137 TAAAATTTTT
Statistics
Matches: 105, Mismatches: 19, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
37 30 0.29
38 51 0.49
39 18 0.17
40 1 0.01
41 5 0.05
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (38 bp):
ATAAATAATATATAATAAAATATAAAATAAAAAATATA
Found at i:68385130 original size:23 final size:22
Alignment explanation
Indices: 68385096--68385138 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
68385086 GTTATATAAT
68385096 AAAATATAATATAAATAAATAGG
1 AAAATATAATAT-AATAAATAGG
*
68385119 AAAATA-ATATATGATAAATA
1 AAAATATA-ATATAATAAATA
68385139 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAAATATAATATAATAAATAGG
Found at i:68385184 original size:24 final size:24
Alignment explanation
Indices: 68385144--68385210 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
68385134 AAATAAAATT
68385144 TTTTTATATAA-ATATATAAATAGTA-
1 TTTTTA-ATAATA-ATATAAATA-TAG
**
68385169 TTTTTAATAATAATATATGTATAG
1 TTTTTAATAATAATATAAATATAG
68385193 TTTTTAA-AATAA-ATAAAT
1 TTTTTAATAATAATATAAAT
68385211 TATATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 18 0.50
25 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTTAATAATAATATAAATATAG
Found at i:68385192 original size:26 final size:23
Alignment explanation
Indices: 68385154--68385204 Score: 57
Period size: 26 Copynumber: 2.1 Consensus size: 23
68385144 TTTTTATATA
68385154 AATATATAAATAGTATTTTTAATAAT
1 AATATATAAATAG--TTTTTAA-AAT
**
68385180 AATATATGTATAGTTTTTAAAAT
1 AATATATAAATAGTTTTTAAAAT
68385203 AA
1 AA
68385205 ATAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 7 0.30
26 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
AATATATAAATAGTTTTTAAAAT
Found at i:68385214 original size:23 final size:22
Alignment explanation
Indices: 68385132--68385215 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 22
68385122 ATAATATATG
68385132 ATAAATAAAATT-T-TTTTATATAA
1 ATAAAT-AAATTATATTTT-TA-AA
*
68385155 ATATATAAA-TAGTATTTTTAATA
1 ATAAATAAATTA-TATTTTTAA-A
*
68385178 AT-AATATATGTATAGTTTTTAAA
1 ATAAATAAAT-TATA-TTTTTAAA
68385201 ATAAATAAATTATAT
1 ATAAATAAATTATAT
68385216 ATAAAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
21 1 0.02
22 9 0.18
23 20 0.41
24 19 0.39
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
ATAAATAAATTATATTTTTAAA
Found at i:68386601 original size:21 final size:21
Alignment explanation
Indices: 68386556--68386601 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 21
68386546 TTTTTATTGA
68386556 AAAAAAGTAAAAAAAAATTCCT
1 AAAAAAGTAAAAAAAAATT-CT
68386578 AAAAAA-TAAAATAATAAATT-T
1 AAAAAAGTAAAA-AA-AAATTCT
68386599 AAA
1 AAA
68386602 GGGTTGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AAAAAAGTAAAAAAAAATTCT
Found at i:68390813 original size:35 final size:35
Alignment explanation
Indices: 68390774--68390842 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
68390764 ACTTGCCTCT
68390774 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
68390809 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
68390843 TCACACACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.17, C:0.51, G:0.12, T:0.20
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:68391611 original size:3 final size:3
Alignment explanation
Indices: 68391590--68391645 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
68391580 GTTATTTTCA
* *
68391590 TAT TAT TAA TAT TAA TAT TAT TATT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
68391635 TAGT TAT TAT T
1 TA-T TAT TAT T
68391646 GTACATTAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68391617 original size:22 final size:22
Alignment explanation
Indices: 68391592--68391635 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
68391582 TATTTTCATA
68391592 TTATTAATATTAATATTATTAT
1 TTATTAATATTAATATTATTAT
* *
68391614 TTATTATTATTATTATTATTAT
1 TTATTAATATTAATATTATTAT
68391636 AGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTATTAATATTAATATTATTAT
Found at i:68391748 original size:3 final size:3
Alignment explanation
Indices: 68391740--68391778 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
68391730 CTTTTGTGTT
*
68391740 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68391779 ATGTTACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:68391938 original size:47 final size:47
Alignment explanation
Indices: 68391885--68391978 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
68391875 GTATTACATG
*
68391885 GTTATTATTATTATATTTATTAGTGTATGCCGCTTATCCCCGTATAT
1 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
68391932 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
1 GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
68391979 ATTTTTAGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (47 bp):
GTTATTATTATTATATTTATTAGTGTATGCCGCTTACCCCCGTATAT
Found at i:68392040 original size:22 final size:23
Alignment explanation
Indices: 68392012--68392066 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
68392002 AATTTTTTTA
68392012 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
68392034 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
68392058 -TA-ATATTAT
1 ATATATATTAT
68392067 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:68395500 original size:33 final size:33
Alignment explanation
Indices: 68395463--68395530 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
68395453 AAATTTAATA
*
68395463 ATACGATAATTAATATTATACTTATCACAAATT
1 ATACGATAACTAATATTATACTTATCACAAATT
* *
68395496 ATACGATAACTAATATTATATTTATCATAAATT
1 ATACGATAACTAATATTATACTTATCACAAATT
68395529 AT
1 AT
68395531 TACATTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (33 bp):
ATACGATAACTAATATTATACTTATCACAAATT
Found at i:68395515 original size:17 final size:17
Alignment explanation
Indices: 68395463--68395515 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
68395453 AAATTTAATA
*
68395463 ATACGATAATTAATATT
1 ATACGATAACTAATATT
* *
68395480 ATACTTATCAC-AA-ATT
1 ATAC-GATAACTAATATT
68395496 ATACGATAACTAATATT
1 ATACGATAACTAATATT
68395513 ATA
1 ATA
68395516 TTTATCATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 4 0.14
16 9 0.32
17 12 0.43
18 3 0.11
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (17 bp):
ATACGATAACTAATATT
Found at i:68398403 original size:19 final size:19
Alignment explanation
Indices: 68398379--68398418 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
68398369 CATACAAAGA
68398379 TATACAAAAGGATGTAAAC
1 TATACAAAAGGATGTAAAC
68398398 TATACAAAAGGATGTAAAC
1 TATACAAAAGGATGTAAAC
68398417 TA
1 TA
68398419 CTTTAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (19 bp):
TATACAAAAGGATGTAAAC
Found at i:68405446 original size:21 final size:21
Alignment explanation
Indices: 68405420--68405461 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68405410 CACACTTACC
*
68405420 AACAAA-ATCAAAACAAGAAAA
1 AACAAACACCAAAA-AAGAAAA
68405441 AACAAACACCAAAAAAGAAAA
1 AACAAACACCAAAAAAGAAAA
68405462 GATTCGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (21 bp):
AACAAACACCAAAAAAGAAAA
Found at i:68408211 original size:14 final size:14
Alignment explanation
Indices: 68408185--68408225 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
68408175 TTAAAAATTA
68408185 TTATAA-TATTTAAT
1 TTATAATTA-TTAAT
68408199 TTATAATTATTAA-
1 TTATAATTATTAAT
*
68408212 TTAAAATTATTAAT
1 TTATAATTATTAAT
68408226 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 10 0.42
15 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTATTAAT
Found at i:68408221 original size:13 final size:14
Alignment explanation
Indices: 68408203--68408232 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
68408193 TTTAATTTAT
68408203 AATTATTAAT-TAA
1 AATTATTAATATAA
68408216 AATTATTAATATAA
1 AATTATTAATATAA
68408230 AAT
1 AAT
68408233 AAAATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTAATATAA
Found at i:68410959 original size:17 final size:15
Alignment explanation
Indices: 68410911--68410959 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
68410901 TTTTAACTTT
*
68410911 TTTTACTTTTTAA-A
1 TTTTAATTTTTAAGA
*
68410925 TTTTCATTTTTAAGA
1 TTTTAATTTTTAAGA
68410940 TTTTAATTTCTTATAGA
1 TTTTAATTT-TTA-AGA
68410957 TTT
1 TTT
68410960 AACCCTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 11 0.38
15 9 0.31
16 3 0.10
17 6 0.21
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (15 bp):
TTTTAATTTTTAAGA
Found at i:68412664 original size:17 final size:19
Alignment explanation
Indices: 68412628--68412666 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
68412618 ACTAAATGTG
68412628 AATTAATAATTTAAAATTA
1 AATTAATAATTTAAAATTA
*
68412647 AATT-ATAA-TTATAATTA
1 AATTAATAATTTAAAATTA
68412664 AAT
1 AAT
68412667 ATTAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTAATAATTTAAAATTA
Found at i:68414981 original size:19 final size:19
Alignment explanation
Indices: 68414959--68415024 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
68414949 ATGTGGTTTT
68414959 GATATAATTGATATATATA
1 GATATAATTGATATATATA
** * *
68414978 GATATAATTTTTTTAATATTTT
1 GATATAA--TTGAT-ATATATA
*
68415000 GATATAATTGGTATATATA
1 GATATAATTGATATATATA
68415019 GATATA
1 GATATA
68415025 TTTTTTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 18 0.50
20 3 0.08
21 3 0.08
22 12 0.33
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GATATAATTGATATATATA
Done.