Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 238 of 253
Found at i:77204783 original size:14 final size:14
Alignment explanation
Indices: 77204764--77204790 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77204754 AAGATTTTTA
77204764 TTTTTATTTTTATT
1 TTTTTATTTTTATT
77204778 TTTTTATTTTTAT
1 TTTTTATTTTTAT
77204791 GAATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:77204799 original size:20 final size:20
Alignment explanation
Indices: 77204758--77204799 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
77204748 TGAACCAAGA
**
77204758 TTTTTATTTTTATTTTTATT
1 TTTTTATTTTTATAATTATT
77204778 TTTTTATTTTTATGAATT-TT
1 TTTTTATTTTTAT-AATTATT
77204798 TT
1 TT
77204800 AATAATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTATAATTATT
Found at i:77209901 original size:10 final size:10
Alignment explanation
Indices: 77209886--77209923 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
77209876 TTTTCTATAT
*
77209886 ATTTAACTTA
1 ATTTAAATTA
77209896 ATTTAAATTA
1 ATTTAAATTA
*
77209906 AATTAAATTA
1 ATTTAAATTA
77209916 A-TTAAATT
1 ATTTAAATT
77209924 TATATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTAAATTA
Found at i:77218007 original size:30 final size:30
Alignment explanation
Indices: 77217973--77218032 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
77217963 TATTTTATTA
77217973 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
77218003 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
77218033 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:77218097 original size:23 final size:22
Alignment explanation
Indices: 77218064--77218116 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
77218054 TAGTCTACAT
77218064 ATTTTTT-AAA-ATTTATTTTCA
1 ATTTTTTAAAATATTTATTTT-A
77218085 ATTTTTTGGAAAATATTTATTTTA
1 ATTTTTT--AAAATATTTATTTTA
*
77218109 TTTTTTTA
1 ATTTTTTA
77218117 GTATTTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 1 0.04
24 10 0.37
25 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTTTTAAAATATTTATTTTA
Found at i:77226514 original size:15 final size:15
Alignment explanation
Indices: 77226488--77226526 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
77226478 CTAGATATAC
77226488 AAAAAAA-AAAAAA-
1 AAAAAAAGAAAAAAG
*
77226501 AAAGAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
77226516 AAAAAAAGAAA
1 AAAAAAAGAAA
77226527 CTCGTCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 6 0.27
14 6 0.27
15 10 0.45
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:77226514 original size:19 final size:19
Alignment explanation
Indices: 77226490--77226526 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
77226480 AGATATACAA
77226490 AAAAAAAAAAAAAAGAAAG
1 AAAAAAAAAAAAAAGAAAG
*
77226509 AAAAAAGAAAAAAAGAAA
1 AAAAAAAAAAAAAAGAAA
77226527 CTCGTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAAAGAAAG
Found at i:77227527 original size:63 final size:63
Alignment explanation
Indices: 77227428--77227553 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
77227418 TGTGGTTTAA
77227428 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
1 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
77227491 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
1 GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
77227554 TGTAGCAGGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (63 bp):
GTCTGATAAGTTGCGAGGCCAATGGTGCTTGGTTGATGTGGGCACTATAGAAATGGTTCTTTG
Found at i:77227546 original size:31 final size:31
Alignment explanation
Indices: 77227448--77227547 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
77227438 TTGCGAGGCC
77227448 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1 AATGGTGCTTGGTTGATGTGGGCACTATAGA
* * * * *
77227479 AATGGTTCTTTGGTCTGATAAGT-TG--CGA-GGCC
1 AATGGTGC-TTGGT-TGAT--GTGGGCACTATAG-A
77227511 AATGGTGCTTGGTTGATGTGGGCACTATAGA
1 AATGGTGCTTGGTTGATGTGGGCACTATAGA
77227542 AATGGT
1 AATGGT
77227548 TCTTTGTGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 18
0.64 0.13 0.23
Matches are distributed among these distances:
28 2 0.04
29 1 0.02
30 4 0.08
31 21 0.42
32 15 0.30
33 4 0.08
34 1 0.02
35 2 0.04
ACGTcount: A:0.22, C:0.11, G:0.34, T:0.33
Consensus pattern (31 bp):
AATGGTGCTTGGTTGATGTGGGCACTATAGA
Found at i:77231776 original size:14 final size:15
Alignment explanation
Indices: 77231743--77231781 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
77231733 TTTCCTTCAT
77231743 TAAGTTTTTATTACA
1 TAAGTTTTTATTACA
* *
77231758 CAAGTTTTTCTTA-A
1 TAAGTTTTTATTACA
77231772 TAAGTTTTTA
1 TAAGTTTTTA
77231782 ATTTCGTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (15 bp):
TAAGTTTTTATTACA
Found at i:77233945 original size:28 final size:27
Alignment explanation
Indices: 77233902--77233958 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
77233892 AATCATGTTA
* *
77233902 TATATAGTATTGTTATCACTATTATTTT
1 TATATAGTATTATTATCA-TATTATATT
* *
77233930 TATATATTATTATTATTATATTATATT
1 TATATAGTATTATTATCATATTATATT
77233957 TA
1 TA
77233959 GCTATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 10 0.40
28 15 0.60
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TATATAGTATTATTATCATATTATATT
Found at i:77234213 original size:23 final size:23
Alignment explanation
Indices: 77234118--77234220 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 23
77234108 ACGTATATAT
* *
77234118 TGTATATATTATATA-AATATTA
1 TGTATATATTTTATATTATATTA
77234140 TGTATATATTTT-TAATGT-TATTA
1 TGTATATATTTTAT-AT-TATATTA
77234163 GTTGTATAT-TTCTTATATTAT-TTCA
1 --TGTATATATT-TTATATTATATT-A
*
77234188 TGTATATATTTTATATTATCTTA
1 TGTATATATTTTATATTATATTA
*
77234211 TGTACATATT
1 TGTATATATT
77234221 CTGAAATACT
Statistics
Matches: 67, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
21 1 0.01
22 12 0.18
23 31 0.46
24 9 0.13
25 13 0.19
26 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (23 bp):
TGTATATATTTTATATTATATTA
Found at i:77234363 original size:17 final size:19
Alignment explanation
Indices: 77234341--77234376 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
77234331 TTTACTATAC
77234341 GTGTATATA-TA-TATTTT
1 GTGTATATAGTATTATTTT
77234358 GTGTATATAGTATTATTTT
1 GTGTATATAGTATTATTTT
77234377 CGTATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (19 bp):
GTGTATATAGTATTATTTT
Found at i:77234383 original size:18 final size:17
Alignment explanation
Indices: 77234343--77234393 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
77234333 TACTATACGT
*
77234343 GTATATATATATTTTGT
1 GTATATATATATTTTGC
77234360 GTATATAGTATTATTTT-C
1 GTATATA-TA-TATTTTGC
77234378 GTATATCATTATATTT
1 GTATAT-A-TATATTT
77234394 ATCATTATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 7 0.24
18 13 0.45
19 9 0.31
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (17 bp):
GTATATATATATTTTGC
Found at i:77246993 original size:2 final size:2
Alignment explanation
Indices: 77246986--77247027 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
77246976 TAAACAATAA
77246986 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
77247028 ATGTCCAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:77248390 original size:6 final size:6
Alignment explanation
Indices: 77248379--77248411 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
77248369 TTTTATTGTG
77248379 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAA
77248412 AAATATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:77249988 original size:15 final size:16
Alignment explanation
Indices: 77249968--77249997 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77249958 ATAATTTTAG
77249968 TTTTTCA-TTTTTATT
1 TTTTTCACTTTTTATT
77249983 TTTTTCACTTTTTAT
1 TTTTTCACTTTTTAT
77249998 AAATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCACTTTTTATT
Found at i:77250823 original size:13 final size:13
Alignment explanation
Indices: 77250807--77250831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77250797 TTTTAATTTT
77250807 TTATTTATTAAAA
1 TTATTTATTAAAA
77250820 TTATTTATTAAA
1 TTATTTATTAAA
77250832 TTCAAGTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTTATTAAAA
Found at i:77251446 original size:19 final size:18
Alignment explanation
Indices: 77251419--77251455 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
77251409 AATATATATA
77251419 TTTTTAACCCAAACTTTT
1 TTTTTAACCCAAACTTTT
*
77251437 TTTTTGAACCCCAACTTTT
1 TTTTT-AACCCAAACTTTT
77251456 GTAAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTTTAACCCAAACTTTT
Found at i:77252779 original size:29 final size:29
Alignment explanation
Indices: 77252697--77252778 Score: 101
Period size: 31 Copynumber: 2.7 Consensus size: 29
77252687 AAATCTCAAA
* * *
77252697 TCTATACATGAACTTTGGTCTAATGTTCAAT
1 TCTATACATGAACTTTGAT-T-TTGTGCAAT
77252728 TCTATACATGAACTTTGATTTTGTGCAAT
1 TCTATACATGAACTTTGATTTTGTGCAAT
*
77252757 TTTATACATGAAACTTTGATTT
1 TCTATACATG-AACTTTGATTT
77252779 GATCCAATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 16 0.35
30 12 0.26
31 18 0.39
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (29 bp):
TCTATACATGAACTTTGATTTTGTGCAAT
Found at i:77252787 original size:30 final size:29
Alignment explanation
Indices: 77252697--77252789 Score: 98
Period size: 29 Copynumber: 3.1 Consensus size: 29
77252687 AAATCTCAAA
* * *
77252697 TCTATACATGAACTTTGGTCTAATGTTCAAT
1 TCTATACATGAACTTTGAT-T-TTGTCCAAT
*
77252728 TCTATACATGAACTTTGATTTTGTGCAAT
1 TCTATACATGAACTTTGATTTTGTCCAAT
*
77252757 TTTATACATGAAACTTTGA-TTTGATCCAAT
1 TCTATACATG-AACTTTGATTTTG-TCCAAT
77252787 TCT
1 TCT
77252790 CACAAATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
29 20 0.37
30 16 0.30
31 18 0.33
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (29 bp):
TCTATACATGAACTTTGATTTTGTCCAAT
Found at i:77259806 original size:21 final size:23
Alignment explanation
Indices: 77259766--77259807 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
77259756 GGTTATTAGA
77259766 ATTTTACAAATTAAAAAATATTT
1 ATTTTACAAATTAAAAAATATTT
*
77259789 ATTTTA-AAA-TAAATAATAT
1 ATTTTACAAATTAAAAAATAT
77259808 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTACAAATTAAAAAATATTT
Found at i:77270997 original size:30 final size:29
Alignment explanation
Indices: 77270963--77271091 Score: 108
Period size: 30 Copynumber: 4.4 Consensus size: 29
77270953 AAAATTTTAA
77270963 ATTAATAATAATAAAATTATATTTTAATAT
1 ATTAA-AATAATAAAATTATATTTTAATAT
77270993 ATTAAAATAATAAAAATT-TAATTTTAATAT
1 ATTAAAATAAT-AAAATTAT-ATTTTAATAT
* * * *
77271023 TTTAAATTTTATAAAA--ATA--TAAAT-T
1 ATTAAA-ATAATAAAATTATATTTTAATAT
*
77271048 ATTAAAATAATAAAATTATATTTTTAGTAT
1 ATTAAAATAATAAAATTATA-TTTTAATAT
*
77271078 AATAAAATATATAA
1 ATTAAAATA-ATAA
77271092 TTTAATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
24 7 0.09
25 6 0.08
26 7 0.09
28 1 0.01
29 11 0.14
30 39 0.50
31 7 0.09
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (29 bp):
ATTAAAATAATAAAATTATATTTTAATAT
Found at i:77271047 original size:17 final size:18
Alignment explanation
Indices: 77271025--77271066 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
77271015 TTTAATATTT
77271025 TAAATT-TTATAAA-AATA
1 TAAATTATTA-AAATAATA
77271042 TAAATTATTAAAATAATA
1 TAAATTATTAAAATAATA
77271060 -AAATTAT
1 TAAATTAT
77271067 ATTTTTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATTAAAATAATA
Found at i:77271095 original size:22 final size:22
Alignment explanation
Indices: 77271054--77271095 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
77271044 AATTATTAAA
*
77271054 ATAATAAAATTATATTTTTAGT
1 ATAATAAAATTATATATTTAGT
77271076 ATAATAAAA-TATATAATTTA
1 ATAATAAAATTATAT-ATTTA
77271096 ATTCCGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAATAAAATTATATATTTAGT
Found at i:77272863 original size:14 final size:14
Alignment explanation
Indices: 77272844--77272877 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
77272834 TTTCTCCTCC
*
77272844 TTTGCCCCTAGTTT
1 TTTGCCCATAGTTT
77272858 TTTGCCCATAGTTT
1 TTTGCCCATAGTTT
77272872 TTTGCC
1 TTTGCC
77272878 TGAAAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.09, C:0.26, G:0.15, T:0.50
Consensus pattern (14 bp):
TTTGCCCATAGTTT
Found at i:77274756 original size:21 final size:22
Alignment explanation
Indices: 77274727--77274771 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
77274717 TTGTCATAAT
*
77274727 ATATATATTTGTTATATATGCA
1 ATATATATTTGTTATATATACA
*
77274749 ATAT-TATTTGTTATGTATACA
1 ATATATATTTGTTATATATACA
77274770 AT
1 AT
77274772 TATCTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (22 bp):
ATATATATTTGTTATATATACA
Found at i:77275204 original size:21 final size:20
Alignment explanation
Indices: 77275180--77275236 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
77275170 TTCAATATCG
*
77275180 TATTTTTACATATCATGTATA
1 TATTTTTACATATCATAT-TA
* *
77275201 TATTTCTA-ATATTATATTA
1 TATTTTTACATATCATATTA
*
77275220 TATTTTT-CATATTATAT
1 TATTTTTACATATCATAT
77275237 CATGTACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 17 0.55
20 7 0.23
21 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTACATATCATATTA
Found at i:77275223 original size:19 final size:19
Alignment explanation
Indices: 77275199--77275236 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77275189 ATATCATGTA
77275199 TATATTTCTAATATTATAT
1 TATATTTCTAATATTATAT
* *
77275218 TATATTTTTCATATTATAT
1 TATATTTCTAATATTATAT
77275237 CATGTACATA
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:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTTCTAATATTATAT
Found at i:77287477 original size:70 final size:71
Alignment explanation
Indices: 77287199--77287551 Score: 341
Period size: 74 Copynumber: 4.9 Consensus size: 71
77287189 TTTGGTTACT
* * * * ** *
77287199 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTTA
1 CTGAGGTATTTTTAATTTATG-TTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
77287264 GGTCACACG
65 GG--ACACG
* * ** **
77287273 CTGAGGTATTTTTAGTTTATGTTTCAAAAAAAATGACTCATATTGCGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAATTTATGTTTCCAAAATCA--ACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
77287338 AGGTCACG
64 AGGACACG
* *
77287346 CTGAGGTATTTTTAATTCT-TGTTGTTTCAGAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC
1 CTGAGGTATTTTTAATT-TATG-T-TTCCA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
77287410 TCAAGACACG
62 TCAGGACACG
* * * *
77287420 TTGAGGTAATTTCAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
77287484 GGCACG
66 GACACG
* ** ** * * *
77287490 CTGAGGTATTTTTAGTTTATGTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
77287552 TTTAATTTCT
Statistics
Matches: 230, Mismatches: 41, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
70 57 0.25
71 37 0.16
73 33 0.14
74 69 0.30
75 30 0.13
76 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACG
Found at i:77287499 original size:144 final size:145
Alignment explanation
Indices: 77287199--77287513 Score: 375
Period size: 144 Copynumber: 2.2 Consensus size: 145
77287189 TTTGGTTACT
* *
77287199 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTTA
1 CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
* * * *
77287264 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAAAATGACTCATATTGCGAGAGGTGAG
66 AG-CACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAAAA-GACTCATATTGCGAGAGGTGAG
*
77287329 TCAAGCCTCAGGTCACG
129 TCAAGCCTCAGGGCACG
* * * * **
77287346 CTGAGGTATTTTTAATTCTTGTTGTTTCAGAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATTCATG-T-TTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCT
* * **
77287411 CAAG-ACACGTTGAGGTAATTTCAATTTATG-TTCCAAAATCA-ACTCATATTGCGAGAGGTGAG
64 CAAGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAAAAGACTCATATTGCGAGAGGTGAG
** *
77287473 TTGAGCCTCGGGGCACG
129 TCAAGCCTCAGGGCACG
* *
77287490 CTGAGGTATTTTTAGTTTATGTTT
1 CTGAGGTATTTTTAATTCATGTTT
77287514 AGAAAATTGA
Statistics
Matches: 143, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
142 2 0.01
143 1 0.01
144 52 0.36
146 8 0.06
147 41 0.29
148 1 0.01
149 38 0.27
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (145 bp):
CTGAGGTATTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCA
AGCACACGCTGAGGTAATTTCAATTTATGTTTCAAAAAAAAGACTCATATTGCGAGAGGTGAGTC
AAGCCTCAGGGCACG
Found at i:77287706 original size:210 final size:211
Alignment explanation
Indices: 77287444--77287902 Score: 857
Period size: 210 Copynumber: 2.2 Consensus size: 211
77287434 ATTTATGTTC
*
77287444 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTA
77287509 TGTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAA
66 TGTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAA
77287574 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTATTT
131 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTATTT
77287639 TTCAAATTCCGTTCGT
196 TTCAAATTCCGTTCGT
*
77287655 CAAAATCAACTCATATTG-GAGAGGTGAGTTGAGTCTCGGGGCACACTGAGGTATTTTTAGTTTA
1 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTA
77287719 TGTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAA
66 TGTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAA
* *
77287784 TCAACTCATATTGCTAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTT
131 TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTATTT
77287849 TTCAAATTCCGTTCGT
196 TTCAAATTCCGTTCGT
* *
77287865 CAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTC
1 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
77287903 AGGTCACATG
Statistics
Matches: 240, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
210 206 0.86
211 34 0.14
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (211 bp):
CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTA
TGTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAA
TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTATTT
TTCAAATTCCGTTCGT
Found at i:77287731 original size:85 final size:86
Alignment explanation
Indices: 77287570--77287731 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 86
77287560 CTGTTTTTCA
* * *
77287570 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAATTTAT
***
77287635 ATTTTTCAAATTCCGTTCGTC
66 ATTTAGAAAATTCCGTTCGTC
* * * * *
77287656 AAAATCAACTCATATTG-GAGAGGTGAGTTGAGTCTCGGGGCACACTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAATTTAT
*
77287720 GTTTAGAAAATT
66 ATTTAGAAAATT
77287732 GACTCATCTT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
85 47 0.73
86 17 0.27
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (86 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGGCACACTGAGGTATTTTCAATTTAT
ATTTAGAAAATTCCGTTCGTC
Found at i:77287942 original size:14 final size:14
Alignment explanation
Indices: 77287923--77287949 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77287913 TCGAGGTATT
77287923 TTCAAATTCTGTTA
1 TTCAAATTCTGTTA
77287937 TTCAAATTCTGTT
1 TTCAAATTCTGTT
77287950 TTTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTA
Found at i:77288241 original size:313 final size:312
Alignment explanation
Indices: 77287656--77288337 Score: 1238
Period size: 313 Copynumber: 2.2 Consensus size: 312
77287646 TCCGTTCGTC
* *
77287656 AAAATCAACTCATATTGGAGAGGTGAGTTGAGTCTCGGGGCACACTGAGGTATTTTTAGTTTATG
1 AAAACCAACTCATATTGGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTATG
77287721 TTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATC
66 TTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATC
* *
77287786 AACTCATATTGCTAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTT
131 AACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTATGTTTTT
77287851 CAAATTCCGTTCGTCAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGTCACATGTCG
196 CAAATTCCGTTCGTCAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGTCACATGTCG
*
77287916 AGGTATTTTCAAATTCTGTTATTCAAATTCTGTTTTTAATTTTTACTTTCCT
261 AGGTATTTTCAAATTCTGTTATTCAAATTCTATTTTTAATTTTTACTTTCCT
77287968 AAAACCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTAT
1 AAAACCAACTCATATTG-GAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTAT
* * *
77288033 GTTTAGAAAATTGACTCATCTTGTGAAAGGTGAGTTAATCCTTTTAATTTCTGTTTTTTAAAAAT
65 GTTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAAT
77288098 CAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTATGTTTT
130 CAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTATGTTTT
*
77288163 TCAAATTCCGTTCGTCAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGTCACATGTC
195 TCAAATTCCGTTCGTCAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGTCACATGTC
77288228 GAGGTATTTTCAAATTCTGTTATTCAAATTCTATTTTTAATTTTTACTTTCCT
260 GAGGTATTTTCAAATTCTGTTATTCAAATTCTATTTTTAATTTTTACTTTCCT
** *
77288281 AAAACCAACTCATATTGCGAGAGGTGAGTCAAGCCTCGGGGCACGCTGAGGTATTTT
1 AAAACCAACTCATATTG-GAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTT
77288338 CAATTTCTGC
Statistics
Matches: 356, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
312 16 0.04
313 340 0.96
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (312 bp):
AAAACCAACTCATATTGGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGTTTATG
TTTAGAAAATTGACTCATCTTGCGAAAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAATC
AACTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTATGTTTTT
CAAATTCCGTTCGTCAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCAGGTCACATGTCG
AGGTATTTTCAAATTCTGTTATTCAAATTCTATTTTTAATTTTTACTTTCCT
Found at i:77288353 original size:14 final size:14
Alignment explanation
Indices: 77288334--77288368 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
77288324 CGCTGAGGTA
* *
77288334 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
77288348 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
77288362 TTTTCAA
1 TTTTCAA
77288369 AAAAATCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:77288441 original size:13 final size:13
Alignment explanation
Indices: 77288423--77288456 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
77288413 CGCTGAGGTA
*
77288423 TTTTCAATTTCTG
1 TTTTCAATTTATG
77288436 TTTTCAATTTATG
1 TTTTCAATTTATG
77288449 TTGTTCAA
1 TT-TTCAA
77288457 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:77289039 original size:45 final size:45
Alignment explanation
Indices: 77288988--77289090 Score: 188
Period size: 45 Copynumber: 2.3 Consensus size: 45
77288978 GCAATAGAAG
77288988 AGCAGATTGAAGCTATAGATCTTATCTTTCTGAAGCTACAAGTGA
1 AGCAGATTGAAGCTATAGATCTTATCTTTCTGAAGCTACAAGTGA
*
77289033 AGCAGATTGAAGCTGTAGATCTTATCTTTCTGAAGCTACAAGTGA
1 AGCAGATTGAAGCTATAGATCTTATCTTTCTGAAGCTACAAGTGA
*
77289078 AGCAGATCGAAGC
1 AGCAGATTGAAGC
77289091 CCCAAAATCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
AGCAGATTGAAGCTATAGATCTTATCTTTCTGAAGCTACAAGTGA
Found at i:77289909 original size:21 final size:22
Alignment explanation
Indices: 77289880--77289924 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
77289870 TTGTCATAAT
*
77289880 ATATATATTTGTTATATATGCA
1 ATATATATTTGTTATATATACA
*
77289902 ATAT-TATTTGTTATGTATACA
1 ATATATATTTGTTATATATACA
77289923 AT
1 AT
77289925 TATCTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (22 bp):
ATATATATTTGTTATATATACA
Found at i:77290357 original size:21 final size:20
Alignment explanation
Indices: 77290333--77290389 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
77290323 TTCAATATCG
*
77290333 TATTTTTACATATCATGTATA
1 TATTTTTACATATCATAT-TA
* *
77290354 TATTTCTA-ATATTATATTA
1 TATTTTTACATATCATATTA
*
77290373 TATTTTT-CATATTATAT
1 TATTTTTACATATCATAT
77290390 CATGTACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 17 0.55
20 7 0.23
21 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTACATATCATATTA
Found at i:77290376 original size:19 final size:19
Alignment explanation
Indices: 77290352--77290389 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77290342 ATATCATGTA
77290352 TATATTTCTAATATTATAT
1 TATATTTCTAATATTATAT
* *
77290371 TATATTTTTCATATTATAT
1 TATATTTCTAATATTATAT
77290390 CATGTACATA
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:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTTCTAATATTATAT
Found at i:77292365 original size:3 final size:3
Alignment explanation
Indices: 77292357--77292387 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
77292347 ATAGATTTAA
77292357 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
77292388 TAAATAACTA
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):
AAT
Found at i:77292402 original size:12 final size:12
Alignment explanation
Indices: 77292357--77292406 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
77292347 ATAGATTTAA
77292357 AATAATA-ATAAT
1 AATAATATA-AAT
77292369 AATAATA-ATAAT
1 AATAATATA-AAT
77292381 AATAATATAAAT
1 AATAATATAAAT
77292393 AACTAA-ATAAAT
1 AA-TAATATAAAT
77292405 AA
1 AA
77292407 ATCCAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 32 0.89
13 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:77293568 original size:10 final size:10
Alignment explanation
Indices: 77293550--77293593 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
77293540 ATTATTTTGG
77293550 TTTTGTTTTA
1 TTTTGTTTTA
*
77293560 TTTTTTTTTA
1 TTTTGTTTTA
*
77293570 TTTAGTTTT-
1 TTTTGTTTTA
77293579 TTTTGTTTTA
1 TTTTGTTTTA
77293589 TTTTG
1 TTTTG
77293594 GTGTAAGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (10 bp):
TTTTGTTTTA
Found at i:77293573 original size:14 final size:14
Alignment explanation
Indices: 77293550--77293592 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
77293540 ATTATTTTGG
77293550 TTTTGTTTTATTTT
1 TTTTGTTTTATTTT
77293564 TTTT-TATTTAGTTTT
1 TTTTGT-TTTA-TTTT
77293579 TTTTGTTTTATTTT
1 TTTTGTTTTATTTT
77293593 GGTGTAAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.04
14 12 0.46
15 12 0.46
16 1 0.04
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (14 bp):
TTTTGTTTTATTTT
Found at i:77293582 original size:19 final size:20
Alignment explanation
Indices: 77293554--77293591 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
77293544 TTTTGGTTTT
*
77293554 GTTTTATTTTTTTTTATTTA
1 GTTTTATTTTGTTTTATTTA
77293574 GTTTT-TTTTGTTTTATTT
1 GTTTTATTTTGTTTTATTT
77293592 TGGTGTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (20 bp):
GTTTTATTTTGTTTTATTTA
Found at i:77296420 original size:4 final size:4
Alignment explanation
Indices: 77296411--77296443 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
77296401 GCTGGTAAAA
77296411 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
77296444 AGTGGTTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:77297791 original size:18 final size:18
Alignment explanation
Indices: 77297768--77297820 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
77297758 TGCATGCATC
*
77297768 ATGCATGCTCTTTGTTTG
1 ATGCATGCTCCTTGTTTG
*
77297786 ATGCATGCTCCGTGTTTG
1 ATGCATGCTCCTTGTTTG
77297804 ATGCATGCTCCTTGTTT
1 ATGCATGCTCCTTGTTT
77297821 CTTACAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (18 bp):
ATGCATGCTCCTTGTTTG
Found at i:77298878 original size:22 final size:20
Alignment explanation
Indices: 77298853--77298892 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
77298843 TTTAGAATTT
77298853 ATTTTAATTAATTTTGATATGA
1 ATTTT-ATTAATTTT-ATATGA
*
77298875 ATTTTGTTAATTTTATAT
1 ATTTTATTAATTTTATAT
77298893 TTTATTAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTATTAATTTTATATGA
Found at i:77300126 original size:30 final size:30
Alignment explanation
Indices: 77300068--77300126 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
77300058 AAGTTATTTT
*
77300068 CTTGTTAAGAGTTAATTGCTGGATTATTCA
1 CTTGTTAAGAGTTAATTGCGGGATTATTCA
*
77300098 CTTGTTAAGGGTTAATTGACGGGA-TATTC
1 CTTGTTAAGAGTTAATTG-CGGGATTATTC
77300127 CCACAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.25, C:0.10, G:0.24, T:0.41
Consensus pattern (30 bp):
CTTGTTAAGAGTTAATTGCGGGATTATTCA
Found at i:77301328 original size:22 final size:22
Alignment explanation
Indices: 77301287--77301328 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
77301277 ACATAATATT
* * *
77301287 AATATTTTTAATTTTTAATTAA
1 AATATTTTAAAATTTAAATTAA
77301309 AATATTTTAAAATTTAAATT
1 AATATTTTAAAATTTAAATT
77301329 GTAGTTTGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTTTAAAATTTAAATTAA
Found at i:77302928 original size:16 final size:16
Alignment explanation
Indices: 77302897--77302935 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
77302887 TGTTGTTTAG
*
77302897 TAGAATAACTCATGTT
1 TAGAACAACTCATGTT
* *
77302913 TGGAACAACTCGTGTT
1 TAGAACAACTCATGTT
77302929 TAGAACA
1 TAGAACA
77302936 CTCTTTGTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (16 bp):
TAGAACAACTCATGTT
Found at i:77304600 original size:14 final size:14
Alignment explanation
Indices: 77304581--77304610 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77304571 ATATTCAAAC
77304581 AATAACAATAAAAT
1 AATAACAATAAAAT
*
77304595 AATAACAATATAAT
1 AATAACAATAAAAT
77304609 AA
1 AA
77304611 CGAGTGGTAG
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:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:77311117 original size:13 final size:13
Alignment explanation
Indices: 77311099--77311126 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77311089 TTATCGGTTC
77311099 AAAATCTAAGATG
1 AAAATCTAAGATG
77311112 AAAATCTAAGATG
1 AAAATCTAAGATG
77311125 AA
1 AA
77311127 CACCCTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAATCTAAGATG
Found at i:77319113 original size:22 final size:22
Alignment explanation
Indices: 77319070--77319113 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
77319060 AATATTAATA
* *
77319070 TATATATTTTTAATTGATATTT
1 TATATATTTTTAAATGAAATTT
77319092 TATATATTTTATAAAT-AAATTT
1 TATATATTTT-TAAATGAAATTT
77319114 AAATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATATATTTTTAAATGAAATTT
Found at i:77320504 original size:21 final size:21
Alignment explanation
Indices: 77320466--77320505 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
77320456 CCGCTGGTTT
* * *
77320466 TTTAATAATTATACAAAATTA
1 TTTAAAAATTACAAAAAATTA
77320487 TTTAAAAATTACAAAAAAT
1 TTTAAAAATTACAAAAAAT
77320506 ATTAACATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAAATTACAAAAAATTA
Found at i:77320533 original size:10 final size:10
Alignment explanation
Indices: 77320467--77320533 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
77320457 CGCTGGTTTT
*
77320467 TTAATAATTA
1 TTAAAAATTA
77320477 -TACAAAATTA
1 TTA-AAAATTA
77320487 TTTAAAAATTA
1 -TTAAAAATTA
* *
77320498 -CAAAAAATA
1 TTAAAAATTA
*
77320507 TT-AACATTA
1 TTAAAAATTA
77320516 TTTAAAAATTA
1 -TTAAAAATTA
77320527 TTAAAAA
1 TTAAAAA
77320534 GAATATATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
9 14 0.32
10 15 0.34
11 13 0.30
12 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:77320708 original size:20 final size:20
Alignment explanation
Indices: 77320683--77320724 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
77320673 TATATATTTG
*
77320683 AATTAT-AAGAAATTGTAAAA
1 AATTATCAAG-AATTATAAAA
77320703 AATTATCAAGAATTATAAAA
1 AATTATCAAGAATTATAAAA
77320723 AA
1 AA
77320725 AAAGAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AATTATCAAGAATTATAAAA
Found at i:77327653 original size:27 final size:27
Alignment explanation
Indices: 77327621--77327676 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
77327611 AATGTTTATA
77327621 AACATAAGGTTCATCTACATTTTGCTC
1 AACATAAGGTTCATCTACATTTTGCTC
*
77327648 AACATAAGGTTCATCTACGTTTTGCTC
1 AACATAAGGTTCATCTACATTTTGCTC
77327675 AA
1 AA
77327677 ATCCAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (27 bp):
AACATAAGGTTCATCTACATTTTGCTC
Found at i:77330239 original size:39 final size:39
Alignment explanation
Indices: 77330182--77330506 Score: 481
Period size: 39 Copynumber: 8.3 Consensus size: 39
77330172 CGGGATTTTA
* * * *
77330182 AGCCCGAATATAATACCAGCAC-AAAGCCTACGGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TT
*
77330221 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
77330260 AGCCCGGATATAACACCAGCACGAGTGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
77330299 GGCCCGGATATAACACCAGCACAAATGCTTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
77330338 AGCCCGGATATAACACCAGCACGAATGCCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * * *
77330377 AGCCCGGAAATAACACCAGCACAAATGCCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
77330416 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
77330455 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
77330494 AACCCGGATATAA
1 AGCCCGGATATAA
77330507 TTCTCCATTA
Statistics
Matches: 262, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 251 0.96
40 11 0.04
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:77340319 original size:20 final size:19
Alignment explanation
Indices: 77340290--77340340 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
77340280 TTTATATCTT
77340290 TTTTAGAATTTTAAA-ATTTA
1 TTTT-GAATTTTAAATA-TTA
*
77340310 TTTTGAAATTTTGAATATTA
1 TTTTG-AATTTTAAATATTA
77340330 TTTTGAATTTT
1 TTTTGAATTTT
77340341 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 20 0.71
21 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTTTGAATTTTAAATATTA
Found at i:77348763 original size:7 final size:7
Alignment explanation
Indices: 77348728--77348773 Score: 67
Period size: 7 Copynumber: 6.4 Consensus size: 7
77348718 TAATATTTAA
77348728 TAAATTT
1 TAAATTT
77348735 TAATATTT
1 TAA-ATTT
77348743 T-AATTT
1 TAAATTT
77348749 TAAAATTT
1 T-AAATTT
77348757 TAAATTT
1 TAAATTT
77348764 TAAATTT
1 TAAATTT
77348771 TAA
1 TAA
77348774 CGTCTACTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
6 5 0.14
7 20 0.56
8 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:77362547 original size:20 final size:21
Alignment explanation
Indices: 77362522--77362562 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
77362512 GAACATAACC
*
77362522 TTAAAA-ATTTTAAAATTTAA
1 TTAAAATAATTTAAAATTTAA
*
77362542 TTAAAATAATTTAAAGTTTAA
1 TTAAAATAATTTAAAATTTAA
77362563 AGATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAAATAATTTAAAATTTAA
Found at i:77362874 original size:17 final size:17
Alignment explanation
Indices: 77362817--77362876 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
77362807 CAATAATAAA
*
77362817 ATATTTTTTGAAAAATAT
1 ATATTTTTTGTAAAAT-T
* * *
77362835 ATTTTTTTTGTTTAGA-T
1 ATATTTTTTG-TAAAATT
*
77362852 AAATTTTTTGTAAAATT
1 ATATTTTTTGTAAAATT
77362869 ATATTTTT
1 ATATTTTT
77362877 AAAAATAAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
16 3 0.10
17 17 0.55
18 9 0.29
19 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (17 bp):
ATATTTTTTGTAAAATT
Found at i:77363556 original size:17 final size:18
Alignment explanation
Indices: 77363524--77363561 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
77363514 TTTCTAATTC
77363524 AATAAAAATAATTTACCA
1 AATAAAAATAATTTACCA
*
77363542 AATAAAAGTAA-TTACCA
1 AATAAAAATAATTTACCA
77363559 AAT
1 AAT
77363562 GTTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAAAAATAATTTACCA
Found at i:77363768 original size:29 final size:29
Alignment explanation
Indices: 77363735--77363793 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
77363725 AAAAAATTTG
*
77363735 AATTACAATTATAAGT-AATACATT-CAAAT
1 AATTACAATCATAA-TAAATA-ATTACAAAT
*
77363764 AATTATAATCATAATAAATAATTACAAAT
1 AATTACAATCATAATAAATAATTACAAAT
77363793 A
1 A
77363794 CACAACACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (29 bp):
AATTACAATCATAATAAATAATTACAAAT
Found at i:77372667 original size:30 final size:30
Alignment explanation
Indices: 77372633--77372700 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
77372623 ATATTAAAAA
77372633 ATTAAAT-TTAAATTGATAAAAAAATTACTG
1 ATTAAATGTTAAATT-ATAAAAAAATTACTG
* * * *
77372663 ATTAAAATGTTTAATTTTAAAAAATTTAGTG
1 ATT-AAATGTTAAATTATAAAAAAATTACTG
77372694 ATTAAAT
1 ATTAAAT
77372701 AAAAAGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.22
31 19 0.59
32 6 0.19
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (30 bp):
ATTAAATGTTAAATTATAAAAAAATTACTG
Found at i:77374377 original size:13 final size:13
Alignment explanation
Indices: 77374359--77374383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77374349 CAAATAAAAA
77374359 ACATTAAAAAATC
1 ACATTAAAAAATC
77374372 ACATTAAAAAAT
1 ACATTAAAAAAT
77374384 ACGAAGGAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
ACATTAAAAAATC
Found at i:77374468 original size:22 final size:21
Alignment explanation
Indices: 77374424--77374469 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
77374414 AAAGAATGAA
**
77374424 AAAAATAAAAAGAAAAATTTT
1 AAAAATAAAAAGAAAAAAATT
*
77374445 AAAAATATAAAGGAAAAAAATT
1 AAAAATA-AAAAGAAAAAAATT
77374467 AAA
1 AAA
77374470 TTATTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAATAAAAAGAAAAAAATT
Found at i:77398901 original size:46 final size:47
Alignment explanation
Indices: 77398795--77398916 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
77398785 TGTCTTCGAC
** * *
77398795 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
77398845 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
77398891 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
77398917 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:77402780 original size:25 final size:26
Alignment explanation
Indices: 77402743--77402792 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
77402733 ATATTATTTT
*
77402743 TTTTTGTTTTTTTAAATAAAATATTA
1 TTTTTGTTATTTTAAATAAAATATTA
* *
77402769 TTTTT-TTATTTTTATTAAAATATT
1 TTTTTGTTATTTTAAATAAAATATT
77402793 TAAATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTGTTATTTTAAATAAAATATTA
Found at i:77402790 original size:30 final size:30
Alignment explanation
Indices: 77402733--77402790 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
77402723 TGATTATTTT
* *
77402733 ATATTATTTTTTTTTGTTTTTTTAAATAAA
1 ATATTATTTTTTTTTGTTTATTAAAATAAA
77402763 ATATTATTTTTTTATT-TTTATTAAAATA
1 ATATTATTTTTTT-TTGTTTATTAAAATA
77402791 TTTAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (30 bp):
ATATTATTTTTTTTTGTTTATTAAAATAAA
Found at i:77403130 original size:26 final size:30
Alignment explanation
Indices: 77403101--77403164 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
77403091 CGAAAGAGAT
77403101 AAAAAAAAAG-AGAA-AA-AAGAAG-AAGA
1 AAAAAAAAAGAAGAAGAATAAGAAGAAAGA
*
77403127 AAAAAAGAAGAAGAAGAATAAGAAGAAAGA
1 AAAAAAAAAGAAGAAGAATAAGAAGAAAGA
*
77403157 AAGAAAAA
1 AAAAAAAA
77403165 GATAATGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 9 0.29
27 4 0.13
28 2 0.06
29 6 0.19
30 10 0.32
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (30 bp):
AAAAAAAAAGAAGAAGAATAAGAAGAAAGA
Found at i:77403139 original size:17 final size:16
Alignment explanation
Indices: 77403113--77403144 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
77403103 AAAAAAAGAG
77403113 AAAAAAGAAGAAGAAA
1 AAAAAAGAAGAAGAAA
77403129 AAAAGAAGAAGAAGAA
1 AAAA-AAGAAGAAGAA
77403145 TAAGAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAGAAGAAA
Found at i:77403143 original size:23 final size:23
Alignment explanation
Indices: 77403103--77403164 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 23
77403093 AAAGAGATAA
77403103 AAAAAAAGAGAAAAAAGAAGAAG
1 AAAAAAAGAGAAAAAAGAAGAAG
*
77403126 AAAAAAAGAAGAAGAAGAATAAGAAG
1 AAAAAAAG-AGAA-AA-AAGAAGAAG
*
77403152 AAAGAAAGA-AAAA
1 AAAAAAAGAGAAAA
77403165 GATAATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 10 0.29
24 6 0.18
25 3 0.09
26 15 0.44
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAGAAAAAAGAAGAAG
Found at i:77403166 original size:23 final size:23
Alignment explanation
Indices: 77403103--77403166 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
77403093 AAAGAGATAA
77403103 AAAAAAAG-AGAAAAAAGAAGAAG
1 AAAAAAAGAAG-AAAAAGAAGAAG
* *
77403126 AAAAAAAGAAGAAGAAGAATAAG
1 AAAAAAAGAAGAAAAAGAAGAAG
*
77403149 -AAGAAAGAAAGAAAAAGA
1 AAAAAAAG-AAGAAAAAGA
77403167 TAATGTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 6 0.17
23 27 0.77
24 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAAGAAGAAG
Found at i:77403389 original size:60 final size:60
Alignment explanation
Indices: 77403322--77403440 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
77403312 TTATTTTTTA
* * *
77403322 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTAAAAAATT-TTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTT-AAAAATTATTGTGTTTG
*
77403382 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTATTGTGTTT
77403441 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAAATTAGGATTAAGTTAAAAATTATTGTGTTTG
Found at i:77412597 original size:15 final size:15
Alignment explanation
Indices: 77412574--77412608 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
77412564 AAGCAGTTAC
*
77412574 ATCGCCGACTCCGGG
1 ATCGGCGACTCCGGG
*
77412589 ATCGGCGACTCGGGG
1 ATCGGCGACTCCGGG
77412604 ATCGG
1 ATCGG
77412609 TCGGTCGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.31, G:0.40, T:0.14
Consensus pattern (15 bp):
ATCGGCGACTCCGGG
Found at i:77417717 original size:14 final size:15
Alignment explanation
Indices: 77417693--77417721 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77417683 TTAACAGAAA
77417693 GTATCAAAAACTAAT
1 GTATCAAAAACTAAT
77417708 GTAT-AAAAACTAAT
1 GTATCAAAAACTAAT
77417722 TTACCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
GTATCAAAAACTAAT
Found at i:77418100 original size:28 final size:28
Alignment explanation
Indices: 77418047--77418101 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
77418037 AATTTTCATC
* *
77418047 AAATAAAGAAAGTGAGAATTATATTAAA
1 AAATAAAGAAAGTGAGAATCAAATTAAA
* *
77418075 AAATAAAGAAGGTGGGAATCAAATTAA
1 AAATAAAGAAAGTGAGAATCAAATTAA
77418102 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.18, T:0.22
Consensus pattern (28 bp):
AAATAAAGAAAGTGAGAATCAAATTAAA
Found at i:77419411 original size:22 final size:22
Alignment explanation
Indices: 77419383--77419425 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
77419373 AACGAAATAC
*
77419383 TTTCACTCTATGAACCTGCCAT
1 TTTCACTCTATGAACATGCCAT
77419405 TTTCACTCTATGAACATGCCA
1 TTTCACTCTATGAACATGCCA
77419426 ATGACATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (22 bp):
TTTCACTCTATGAACATGCCAT
Found at i:77421829 original size:3 final size:3
Alignment explanation
Indices: 77421809--77421861 Score: 88
Period size: 3 Copynumber: 17.0 Consensus size: 3
77421799 AAGAAGTTAT
77421809 TCA TGCA TCA TGCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA T-CA TCA T-CA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
77421856 TCA TCA
1 TCA TCA
77421862 CCACCAACTC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.32, C:0.32, G:0.04, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:77424404 original size:12 final size:11
Alignment explanation
Indices: 77424385--77424415 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
77424375 TTATTATTAC
77424385 TGTTTTTTTAT
1 TGTTTTTTTAT
77424396 TGCTTTTTTTAT
1 TG-TTTTTTTAT
77424408 TGTTTTTT
1 TGTTTTTT
77424416 CATTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.06, C:0.03, G:0.10, T:0.81
Consensus pattern (11 bp):
TGTTTTTTTAT
Found at i:77424797 original size:20 final size:20
Alignment explanation
Indices: 77424772--77424816 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
77424762 TATATAAAAC
*
77424772 ATATTTTATTAAATAAAATA
1 ATATTTTAATAAATAAAATA
* *
77424792 ATA-TTTAATAAATAGAATT
1 ATATTTTAATAAATAAAATA
77424811 ATATTT
1 ATATTT
77424817 CTAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATTTTAATAAATAAAATA
Found at i:77428070 original size:26 final size:26
Alignment explanation
Indices: 77428041--77428148 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
77428031 TAGTACAAAT
77428041 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
77428067 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77428093 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77428119 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77428145 TGAT
1 TGAT
77428149 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77429665 original size:26 final size:26
Alignment explanation
Indices: 77429636--77429688 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
77429626 TTTACAGTTT
*
77429636 TACCTCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
77429662 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
77429688 T
1 T
77429689 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:77433222 original size:29 final size:29
Alignment explanation
Indices: 77433188--77433244 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
77433178 TTTTAATCCT
77433188 TTTTAAAT-TTTATATATATAATTTATTTA
1 TTTTAAATATTT-TATATATAATTTATTTA
*
77433217 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
77433245 TTACTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:77433302 original size:22 final size:21
Alignment explanation
Indices: 77433276--77433413 Score: 65
Period size: 22 Copynumber: 6.2 Consensus size: 21
77433266 TATGTAAAAA
77433276 ATTATATATATTATTTTTATGT
1 ATTATATATATTATTTTTAT-T
*
77433298 ATTATTTATTATATTATTTATATT
1 ATTA--TA-TATATTATTTTTATT
*
77433322 -TTATTTATATATTATATCATT-TT
1 ATTA--TATATATTAT-T-TTTATT
*
77433345 ATTATATATATTATTCATTA-T
1 ATTATATATATTATT-TTTATT
77433366 ATTAT-T-T-TTA-TTTTATT
1 ATTATATATATTATTTTTATT
*
77433383 ATATATTACTTTATTATTATTTATTT
1 AT-TA-TA-TATATTATT-TTTA-TT
77433409 ATTAT
1 ATTAT
77433414 TATGTATAAT
Statistics
Matches: 95, Mismatches: 4, Indels: 32
0.73 0.03 0.24
Matches are distributed among these distances:
16 3 0.03
17 4 0.04
18 5 0.05
19 2 0.02
20 1 0.01
21 12 0.13
22 23 0.24
23 13 0.14
24 9 0.09
25 19 0.20
26 4 0.04
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTATATATATTATTTTTATT
Found at i:77433303 original size:3 final size:3
Alignment explanation
Indices: 77433284--77433416 Score: 77
Period size: 3 Copynumber: 44.0 Consensus size: 3
77433274 AAATTATATA
*
77433284 TAT TAT TTT TAT GTAT TATT TAT TA- TAT TAT T-T ATAT T-T TATT TAT
1 TAT TAT TAT TAT -TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TA-T TAT
* *
77433330 ATAT TA- TAT CAT T-T TAT TA- TAT ATAT TAT TCAT TA- TAT TAT TTT
1 -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT TAT TAT TAT TAT
*
77433374 TAT T-T TAT TAT ATAT TAC T-T TAT TAT TATT TATT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT
77433417 GTATAATTTT
Statistics
Matches: 104, Mismatches: 8, Indels: 36
0.70 0.05 0.24
Matches are distributed among these distances:
2 16 0.15
3 59 0.57
4 29 0.28
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:77433308 original size:29 final size:29
Alignment explanation
Indices: 77433276--77433413 Score: 99
Period size: 29 Copynumber: 4.7 Consensus size: 29
77433266 TATGTAAAAA
*
77433276 ATTATATATATTATTTTTATGTATTATTT
1 ATTATATATATTATTTTTATATATTATTT
* *
77433305 ATTATAT-TATTTATATTT-TAT-TTATAT
1 ATTATATATA-TTATTTTTATATATTATTT
* * *
77433332 ATTATATCATTTTA-TTATATATATTATTC
1 ATTATAT-ATATTATTTTTATATATTATTT
*
77433361 ATTATATTATTTTTATTTTATTATATATTACTTT
1 ATTATA-TA-TATTA-TTT-TTATATATTA-TTT
77433395 ATTAT-TAT-TTATTTATTAT
1 ATTATATATATTATTT-TTAT
77433414 TATGTATAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
27 14 0.16
28 10 0.11
29 34 0.39
30 9 0.10
31 1 0.01
32 4 0.05
33 9 0.10
34 7 0.08
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (29 bp):
ATTATATATATTATTTTTATATATTATTT
Found at i:77433403 original size:56 final size:56
Alignment explanation
Indices: 77433276--77433414 Score: 178
Period size: 56 Copynumber: 2.5 Consensus size: 56
77433266 TATGTAAAAA
* *
77433276 ATTATATATATTATT-TTTATGTATTATTTATTATATTATTTATATTTTATTTATAT
1 ATTATAT-TATTATTATTTATATATTATTCATTATATTATTTATATTTTATTTATAT
* *
77433332 ATTATATCATT-TTATTATATATATTATTCATTATATTATTTTTATTTTA-TTATAT
1 ATTATATTATTATTATT-TATATATTATTCATTATATTATTTATATTTTATTTATAT
*
77433387 ATTACT-TTATTATTATTTATTTATTATT
1 ATTA-TATTATTATTATTTATATATTATT
77433415 ATGTATAATT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
54 2 0.03
55 29 0.40
56 42 0.58
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (56 bp):
ATTATATTATTATTATTTATATATTATTCATTATATTATTTATATTTTATTTATAT
Found at i:77435097 original size:19 final size:19
Alignment explanation
Indices: 77435047--77435118 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
77435037 AATTACAAAA
*
77435047 AAAAATTTAAAATAATTTT
1 AAAAATTCAAAATAATTTT
77435066 CAAAAACTT-AAAATAATTTT
1 -AAAAA-TTCAAAATAATTTT
*
77435086 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
77435105 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
77435119 TTATATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.13
19 16 0.35
20 22 0.48
21 2 0.04
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:77435125 original size:20 final size:19
Alignment explanation
Indices: 77435047--77435123 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
77435037 AATTACAAAA
*
77435047 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
77435066 CAAAAACTT-AAAATAATTT-T
1 -AAAAA-TTCAAAAT-ATTTAT
*
77435086 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
77435105 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
77435123 A
1 A
77435124 TATATTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
18 13 0.25
19 20 0.39
20 16 0.31
21 2 0.04
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:77440624 original size:24 final size:24
Alignment explanation
Indices: 77440597--77440672 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
77440587 TTAATTTAAT
77440597 TTAATCTTATAGATAAATATTTTA
1 TTAATCTTATAGATAAATATTTTA
* ***
77440621 TTAAT-TTAATA-TTAAATATAACA
1 TTAATCTT-ATAGATAAATATTTTA
*
77440644 TTTATCTTATAGATAAATATTTTA
1 TTAATCTTATAGATAAATATTTTA
77440668 TTAAT
1 TTAAT
77440673 TTAATATTAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (24 bp):
TTAATCTTATAGATAAATATTTTA
Found at i:77440637 original size:23 final size:23
Alignment explanation
Indices: 77440610--77440683 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
77440600 ATCTTATAGA
77440610 TAAATATTTTATTAATTTAATAT
1 TAAATATTTTATTAATTTAATAT
*** * *
77440633 TAAATATAACATTTATCTT-ATAGA
1 TAAATATTTTATTAAT-TTAATA-T
77440657 TAAATATTTTATTAATTTAATAT
1 TAAATATTTTATTAATTTAATAT
77440680 TAAA
1 TAAA
77440684 ATAATCATTT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
23 21 0.55
24 17 0.45
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (23 bp):
TAAATATTTTATTAATTTAATAT
Found at i:77440641 original size:29 final size:30
Alignment explanation
Indices: 77440582--77440641 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
77440572 TGTTATATTT
* *
77440582 AATATTTAATTTAATTTAATCTTATAGATA
1 AATATTTAATTTAATTTAATATTAAAGATA
* *
77440612 AATATTTTA-TTAATTTAATATTAAATATA
1 AATATTTAATTTAATTTAATATTAAAGATA
77440641 A
1 A
77440642 CATTTATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
AATATTTAATTTAATTTAATATTAAAGATA
Found at i:77440656 original size:47 final size:47
Alignment explanation
Indices: 77440595--77440693 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
77440585 ATTTAATTTA
77440595 ATTTAATCTTATAGATAAATATTTTATTAATTTAATATTAAATATAA-C
1 ATTT-ATCTTATAGATAAATATTTTATTAATTTAATATTAAA-ATAATC
77440643 ATTTATCTTATAGATAAATATTTTATTAATTTAATATTAAAATAATC
1 ATTTATCTTATAGATAAATATTTTATTAATTTAATATTAAAATAATC
77440690 ATTT
1 ATTT
77440694 TAATATTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
46 4 0.08
47 42 0.84
48 4 0.08
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (47 bp):
ATTTATCTTATAGATAAATATTTTATTAATTTAATATTAAAATAATC
Found at i:77440685 original size:24 final size:24
Alignment explanation
Indices: 77440611--77440686 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
77440601 TCTTATAGAT
77440611 AAATATTTTATTAATTTAATATT-
1 AAATATTTTATTAATTTAATATTA
*** * *
77440634 AAATATAACATTTATCTT-ATA-GA
1 AAATATTTTATTAAT-TTAATATTA
77440657 TAAATATTTTATTAATTTAATATTA
1 -AAATATTTTATTAATTTAATATTA
77440682 AAATA
1 AAATA
77440687 ATCATTTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 9
0.67 0.18 0.16
Matches are distributed among these distances:
23 16 0.42
24 21 0.55
25 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (24 bp):
AAATATTTTATTAATTTAATATTA
Found at i:77457481 original size:18 final size:19
Alignment explanation
Indices: 77457434--77457481 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
77457424 CCCAAAAAGT
77457434 ATATATTAT-TTTTAAAATA
1 ATAT-TTATATTTTAAAATA
*
77457453 ATATCTATATTTTAAAATA
1 ATATTTATATTTTAAAATA
77457472 AT-TTTATATT
1 ATATTTATATT
77457482 AAAATTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATATTTTAAAATA
Found at i:77457483 original size:16 final size:19
Alignment explanation
Indices: 77457445--77457486 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 19
77457435 TATATTATTT
*
77457445 TTAAAATAATATCTATATT
1 TTAAAATAATATCTATATA
77457464 TTAAAATAAT-T-T-TATA
1 TTAAAATAATATCTATATA
77457480 TTAAAAT
1 TTAAAAT
77457487 TTGAAACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 1 0.05
18 1 0.05
19 10 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAAAATAATATCTATATA
Found at i:77464428 original size:15 final size:15
Alignment explanation
Indices: 77464408--77464440 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
77464398 ACCAATCAAT
77464408 ATTTATTTTAAA-TAA
1 ATTTA-TTTAAATTAA
77464423 ATTTATTTAAATTAA
1 ATTTATTTAAATTAA
77464438 ATT
1 ATT
77464441 AAAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTATTTAAATTAA
Found at i:77465338 original size:12 final size:12
Alignment explanation
Indices: 77465321--77465346 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77465311 GGCGCCACCA
77465321 CTTTTCTGCCTT
1 CTTTTCTGCCTT
77465333 CTTTTCTGCCTT
1 CTTTTCTGCCTT
77465345 CT
1 CT
77465347 GACACCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.35, G:0.08, T:0.58
Consensus pattern (12 bp):
CTTTTCTGCCTT
Found at i:77465393 original size:26 final size:26
Alignment explanation
Indices: 77465354--77465414 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
77465344 TCTGACACCT
*
77465354 TTTTGTTTTCTTTTCATATTTC-T-TTTG
1 TTTT-TTTTCTTTT-AT-TTTCATATTTC
77465381 TTTTTTTTCTTTTATTTTCATATTTC
1 TTTTTTTTCTTTTATTTTCATATTTC
77465407 TTTTTTTT
1 TTTTTTTT
77465415 TACTTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 20 0.65
27 4 0.13
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (26 bp):
TTTTTTTTCTTTTATTTTCATATTTC
Found at i:77465424 original size:30 final size:31
Alignment explanation
Indices: 77465359--77465428 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
77465349 CACCTTTTTG
* *
77465359 TTTTCTTTTCATATTTCTTTTGTTTTTTTTC
1 TTTTATTTTCATATTTCTTTTGTTTTTCTTC
77465390 TTTTATTTTCATATTTCTTTT-TTTTTACTT-
1 TTTTATTTTCATATTTCTTTTGTTTTT-CTTC
77465420 TTTTATTTT
1 TTTTATTTT
77465429 GTTCCTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 14 0.39
31 22 0.61
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTTATTTTCATATTTCTTTTGTTTTTCTTC
Found at i:77465426 original size:22 final size:21
Alignment explanation
Indices: 77465376--77465428 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
77465366 TTCATATTTC
*
77465376 TTTTGTTTTTTTTCTTTTATT
1 TTTTATTTTTTTTCTTTTATT
*
77465397 TTCATATTTCTTTTT-TTTTACTT
1 TT-TTATTT-TTTTTCTTTTA-TT
77465420 TTTTATTTT
1 TTTTATTTT
77465429 GTTCCTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.12
22 14 0.54
23 9 0.35
ACGTcount: A:0.09, C:0.08, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTATTTTTTTTCTTTTATT
Found at i:77465702 original size:37 final size:34
Alignment explanation
Indices: 77465560--77465702 Score: 119
Period size: 37 Copynumber: 4.0 Consensus size: 34
77465550 TTTATAATAC
*
77465560 TTTTTTAAAATTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAA-TATTATTTTTAAAATTAA
* * * *
77465594 TTTTTT-TAACTTTAGATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTTA-ATAT-TATTTTTAAAATTAA
* * *
77465629 TTTTTTATATATTTTAAAAATGTATTTTTCAAATTAA
1 TTTTTTA-AAATTTT-AATAT-TATTTTTAAAATTAA
77465666 TTTTTTAAAATTTTACATATTAATTTTTAAATATTAA
1 TTTTTTAAAATTTTA-ATATT-ATTTTTAAA-ATTAA
77465703 CCATATTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
33 9 0.11
34 17 0.20
35 9 0.11
36 17 0.20
37 32 0.38
38 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (34 bp):
TTTTTTAAAATTTTAATATTATTTTTAAAATTAA
Found at i:77465911 original size:20 final size:20
Alignment explanation
Indices: 77465839--77465913 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 20
77465829 CTGGTGGAGC
77465839 CATTTCAAATATTAAACATA
1 CATTTCAAATATTAAACATA
*
77465859 CGTTTCAAATTGTATGTAAA-ATTA
1 CATTTCAAA---TAT-TAAACA-TA
*
77465883 -A--TAAAATATTAAACATA
1 CATTTCAAATATTAAACATA
77465900 CATTTCAAATATTA
1 CATTTCAAATATTA
77465914 TAAAACTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
17 6 0.14
18 5 0.12
20 17 0.40
21 4 0.10
23 4 0.10
24 6 0.14
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (20 bp):
CATTTCAAATATTAAACATA
Found at i:77465977 original size:37 final size:35
Alignment explanation
Indices: 77465930--77466039 Score: 116
Period size: 34 Copynumber: 3.1 Consensus size: 35
77465920 TAATAATTTC
* *
77465930 AAAACTAATTTGAAAAATATATATTTAAAATTTATAA
1 AAAAATAATTTCAAAAATATATATTTAAAA-TT-TAA
* * *
77465967 AAAAATAATTTCACAAATATATATCT-AAAGTTAA
1 AAAAATAATTTCAAAAATATATATTTAAAATTTAA
* *
77466001 AAAAATAATTTTAAAAATA-ATAATTAAAATTGTAA
1 AAAAATAATTTCAAAAATATATATTTAAAATT-TAA
77466036 AAAA
1 AAAA
77466040 TTGTAAAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
33 4 0.07
34 24 0.39
35 8 0.13
36 3 0.05
37 22 0.36
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.34
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATATATTTAAAATTTAA
Found at i:77466269 original size:21 final size:20
Alignment explanation
Indices: 77466240--77466287 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
77466230 CAAACTTTTC
77466240 AAAAA-TTAAAAAAAAAGTTA
1 AAAAATTTAAAAAAAAA-TTA
*
77466260 AAAAATTTAAAAAGAAATTA
1 AAAAATTTAAAAAAAAATTA
77466280 AAGAAATT
1 AA-AAATT
77466288 GTATTTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATTTAAAAAAAAATTA
Found at i:77466358 original size:14 final size:14
Alignment explanation
Indices: 77466339--77466365 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77466329 AAAAATATGG
77466339 TTAATATTTAAAAA
1 TTAATATTTAAAAA
77466353 TTAATATTTAAAA
1 TTAATATTTAAAA
77466366 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:77466380 original size:37 final size:35
Alignment explanation
Indices: 77466339--77466480 Score: 135
Period size: 37 Copynumber: 4.0 Consensus size: 35
77466329 AAAAATATGG
77466339 TTAATATTTAAAAATTAATATTTAAAATTTTAAAAAA
1 TTAAT-TTTAAAAA-TAATATTTAAAATTTTAAAAAA
* * *
77466376 TTAATTTGAAAAATACATTTTTAAAATATATAAAAAA
1 TTAATTTTAAAAATA-ATATTTAAAAT-TTTAAAAAA
* * * *
77466413 TTAATTTCACAAAT-ATATATATAAA-GTTAAAAAA
1 TTAATTTTAAAAATAATATTTA-AAATTTTAAAAAA
* * *
77466447 ATATTTTTAAAAATAATAATTAAAATTTTAAAAA
1 TTAATTTTAAAAATAATATTTAAAATTTTAAAAA
77466481 GGTATTATAA
Statistics
Matches: 84, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
34 20 0.24
35 19 0.23
36 20 0.24
37 25 0.30
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (35 bp):
TTAATTTTAAAAATAATATTTAAAATTTTAAAAAA
Found at i:77466552 original size:17 final size:16
Alignment explanation
Indices: 77466530--77466618 Score: 54
Period size: 17 Copynumber: 5.1 Consensus size: 16
77466520 TAAAGTTAAT
77466530 AATAAAAAATAAAACAA
1 AATAAAAAATAAAA-AA
*
77466547 AATAAACAAAATGAAATAAG
1 AAT-AA-AAAAT-AAA-AAA
*
77466567 AA-AAAAAACAAAAAA
1 AATAAAAAATAAAAAA
* *
77466582 GTATAAAAAATAAAAGA
1 -AATAAAAAATAAAAAA
*
77466599 AATATGAAAATAAAAGAA
1 AATA-AAAAATAAAA-AA
77466617 AA
1 AA
77466619 AAACAAAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
15 2 0.04
16 7 0.13
17 27 0.49
18 7 0.13
19 5 0.09
20 6 0.11
21 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (16 bp):
AATAAAAAATAAAAAA
Found at i:77466627 original size:30 final size:30
Alignment explanation
Indices: 77466576--77466643 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
77466566 GAAAAAAAAC
*
77466576 AAAAAAGTATAAAAAATAAAAGAAATATGAAA
1 AAAAAAG-A-AAAAAACAAAAGAAATATGAAA
*
77466608 ATAAAAGAAAAAAACAAAAGAAATATGAAA
1 AAAAAAGAAAAAAACAAAAGAAATATGAAA
77466638 AAAAAA
1 AAAAAA
77466644 ATCAGAAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 26 0.79
31 1 0.03
32 6 0.18
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (30 bp):
AAAAAAGAAAAAAACAAAAGAAATATGAAA
Found at i:77466643 original size:17 final size:17
Alignment explanation
Indices: 77466554--77466643 Score: 62
Period size: 19 Copynumber: 5.3 Consensus size: 17
77466544 CAAAATAAAC
* *
77466554 AAAATGAAATAAGAAAAA
1 AAAAAGAAATATG-AAAA
* *
77466572 AAACAAAAAAGTATAAAAA
1 AAA-AAGAAA-TATGAAAA
77466591 ATAAAAGAAATATGAAAA
1 A-AAAAGAAATATGAAAA
*
77466609 TAAAAG-AA-A--AAAA
1 AAAAAGAAATATGAAAA
*
77466622 CAAAAGAAATATGAAAA
1 AAAAAGAAATATGAAAA
77466639 AAAAA
1 AAAAA
77466644 ATCAGAAGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
13 9 0.16
14 2 0.04
15 2 0.04
16 2 0.04
17 13 0.23
18 10 0.18
19 14 0.25
20 4 0.07
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAAAGAAATATGAAAA
Found at i:77466643 original size:22 final size:23
Alignment explanation
Indices: 77466536--77466644 Score: 86
Period size: 23 Copynumber: 4.7 Consensus size: 23
77466526 TAATAATAAA
77466536 AAATA-AAACAAAATAAACAAAATG
1 AAATATAAA-AAAA-AAACAAAATG
*
77466560 AAATA-AGAAAAAAAACAAAA--
1 AAATATAAAAAAAAAACAAAATG
* *
77466580 AAGTATAAAAAATAAAAGAAATATG
1 AAATATAAAAAA-AAAACAAA-ATG
77466605 AAA-ATAAAAGAAAAAAACAAAA-G
1 AAATAT-AAA-AAAAAAACAAAATG
77466628 AAATATGAAAAAAAAAA
1 AAATAT-AAAAAAAAAA
77466645 TCAGAAGACA
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
20 4 0.06
21 5 0.07
22 15 0.21
23 16 0.23
24 15 0.21
25 12 0.17
26 3 0.04
ACGTcount: A:0.78, C:0.04, G:0.07, T:0.11
Consensus pattern (23 bp):
AAATATAAAAAAAAAACAAAATG
Found at i:77466832 original size:47 final size:47
Alignment explanation
Indices: 77466778--77466871 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
77466768 CATTCAACAT
*
77466778 GGCTCCACTAAAAAATAACTTTTTAACAACCCTTGCTGACGTGGCAC
1 GGCTCCACTAAAAAATAACTTTTTAACAACCCTTACTGACGTGGCAC
77466825 GGCTCCACTAAAAAATAACTTTTTAACAACCCTTACTGACGTGGCAC
1 GGCTCCACTAAAAAATAACTTTTTAACAACCCTTACTGACGTGGCAC
77466872 TGTAATGACG
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:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (47 bp):
GGCTCCACTAAAAAATAACTTTTTAACAACCCTTACTGACGTGGCAC
Found at i:77469152 original size:13 final size:13
Alignment explanation
Indices: 77469134--77469161 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
77469124 ATGTTTTTCC
77469134 CATGAACTATAAA
1 CATGAACTATAAA
77469147 CATGAACTATAAA
1 CATGAACTATAAA
77469160 CA
1 CA
77469162 AAATAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (13 bp):
CATGAACTATAAA
Found at i:77469318 original size:20 final size:20
Alignment explanation
Indices: 77469265--77469326 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
77469255 CATCATTATT
77469265 CAAGTTTCTATGGAATATCA
1 CAAGTTTCTATGGAATATCA
* *
77469285 CAA----ATAT-TAATATCA
1 CAAGTTTCTATGGAATATCA
77469300 CAAGTTTCTATGGAATATCA
1 CAAGTTTCTATGGAATATCA
77469320 CAAGTTT
1 CAAGTTT
77469327 TTTGGGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
15 10 0.30
16 3 0.09
19 3 0.09
20 17 0.52
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
CAAGTTTCTATGGAATATCA
Found at i:77472053 original size:18 final size:18
Alignment explanation
Indices: 77472032--77472096 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
77472022 CTCGAAAAGT
77472032 TAAAAAAATGTAATCAAA
1 TAAAAAAATGTAATCAAA
* *
77472050 TAAAATAATG-CATACAAA
1 TAAAAAAATGTAAT-CAAA
77472068 CTAAAAAAATGTAATCAAA
1 -TAAAAAAATGTAATCAAA
*
77472087 TAAAACAATG
1 TAAAAAAATG
77472097 CATACAAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 22 0.56
19 13 0.33
20 2 0.05
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.22
Consensus pattern (18 bp):
TAAAAAAATGTAATCAAA
Found at i:77472073 original size:37 final size:37
Alignment explanation
Indices: 77472032--77472105 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
77472022 CTCGAAAAGT
*
77472032 TAAAAAAATGTAATCAAATAAAATAATGCATACAAAC
1 TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
77472069 TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
1 TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
77472106 AATTAATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (37 bp):
TAAAAAAATGTAATCAAATAAAACAATGCATACAAAC
Done.