Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 207 of 222
Found at i:65660770 original size:27 final size:26
Alignment explanation
Indices: 65660736--65660797 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
65660726 TTTAAAATAC
* * *
65660736 TTTTAAAATAATTTTTTTATTTTTTAT
1 TTTTAAAATAA-CTTTTTAATGTTTAT
65660763 TTTTAAAATAACTTTTTAATGTTTAT
1 TTTTAAAATAACTTTTTAATGTTTAT
*
65660789 TTTAAAAAT
1 TTTTAAAAT
65660798 GGGCCGGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTAAAATAACTTTTTAATGTTTAT
Found at i:65661828 original size:25 final size:25
Alignment explanation
Indices: 65661800--65661919 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
65661790 ACGAGTTATA
* * *
65661800 AACGGGAAGTTCCTCCGAGCTGAAT
1 AACGGGAAGCTCATCCGAGCTAAAT
*
65661825 AACGGGAAGCTCATGCGAGCTAAAT
1 AACGGGAAGCTCATCCGAGCTAAAT
* * * * **
65661850 AACAGGACGCTCGTACGAGCTGTAT
1 AACGGGAAGCTCATCCGAGCTAAAT
* * * *
65661875 AACAGAAAGCTCATGCGAGCTATAT
1 AACGGGAAGCTCATCCGAGCTAAAT
* *
65661900 AAC-AGAAGCTCATACGAGCT
1 AACGGGAAGCTCATCCGAGCT
65661920 GTGGTGTGTC
Statistics
Matches: 77, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
24 14 0.18
25 63 0.82
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (25 bp):
AACGGGAAGCTCATCCGAGCTAAAT
Found at i:65661877 original size:50 final size:49
Alignment explanation
Indices: 65661815--65661921 Score: 151
Period size: 50 Copynumber: 2.2 Consensus size: 49
65661805 GAAGTTCCTC
* * * * *
65661815 CGAGCTGAATAACGGGAAGCTCATGCGAGCTAAATAACAGGACGCTCGTA
1 CGAGCTGTATAACAGAAAGCTCATGCGAGCTAAATAACA-GAAGCTCATA
*
65661865 CGAGCTGTATAACAGAAAGCTCATGCGAGCTATATAACAGAAGCTCATA
1 CGAGCTGTATAACAGAAAGCTCATGCGAGCTAAATAACAGAAGCTCATA
65661914 CGAGCTGT
1 CGAGCTGT
65661922 GGTGTGTCCG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 16 0.31
50 35 0.69
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (49 bp):
CGAGCTGTATAACAGAAAGCTCATGCGAGCTAAATAACAGAAGCTCATA
Found at i:65663074 original size:6 final size:6
Alignment explanation
Indices: 65663063--65663087 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65663053 AGTAAAACAT
65663063 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
65663088 TTTTTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:65677661 original size:11 final size:10
Alignment explanation
Indices: 65677634--65677660 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
65677624 AAGAGGTTCC
65677634 TTTTTTTCTT
1 TTTTTTTCTT
65677644 TTTTTTTCTT
1 TTTTTTTCTT
65677654 TTTTTTT
1 TTTTTTT
65677661 TTCTGGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:65689532 original size:25 final size:25
Alignment explanation
Indices: 65689498--65689545 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
65689488 CCTGCGAAGC
65689498 CAAAAGAAAAAATAAAGAA-AGAATT
1 CAAAAGAAAAAA-AAAGAACAGAATT
*
65689523 CAAAAGAAAATAAAAGAACAGAA
1 CAAAAGAAAAAAAAAGAACAGAA
65689546 ATGAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.08
Consensus pattern (25 bp):
CAAAAGAAAAAAAAAGAACAGAATT
Found at i:65689552 original size:25 final size:26
Alignment explanation
Indices: 65689499--65689557 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
65689489 CTGCGAAGCC
*
65689499 AAAAGAAAAAATAAAGAAAGAATTC-
1 AAAAGAAAAAATAAAGAAAGAAATCA
* *
65689524 AAAAGAAAATA-AAAGAACAGAAATGA
1 AAAAGAAAAAATAAAGAA-AGAAATCA
65689550 AAAAGAAA
1 AAAAGAAA
65689558 CGAAAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 15 0.52
26 8 0.28
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (26 bp):
AAAAGAAAAAATAAAGAAAGAAATCA
Found at i:65689664 original size:18 final size:17
Alignment explanation
Indices: 65689632--65689665 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
65689622 GGCGTGAAAA
*
65689632 CAAAATTGGCTTAAATG
1 CAAAATTGCCTTAAATG
65689649 CAAAATTGACCTTAAAT
1 CAAAATTG-CCTTAAAT
65689666 TGTACTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (17 bp):
CAAAATTGCCTTAAATG
Found at i:65699591 original size:13 final size:13
Alignment explanation
Indices: 65699573--65699610 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
65699563 AGTTTTTCAT
65699573 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
65699586 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
65699599 TACTTTTGAAAA
1 TGCTTTTGAAAA
65699611 TTTTGAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:65702358 original size:41 final size:41
Alignment explanation
Indices: 65702277--65702469 Score: 280
Period size: 41 Copynumber: 4.7 Consensus size: 41
65702267 TTAATTTAAA
* *
65702277 CAGATTCACTGGCACTTAGCCTTGTTAGGCTTA-AAGCCTGATT
1 CAGA-TCACCGGCACTTAGCC-TGCTAGGCTTATAA-CCTGATT
*
65702320 CAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * *
65702361 TAGATCACCGGCACTTAGCCTGTTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
65702402 CAGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
65702443 CAGATCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
65702470 TTTTAAAACC
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
41 118 0.86
42 16 0.12
43 4 0.03
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:65705245 original size:72 final size:72
Alignment explanation
Indices: 65705065--65705254 Score: 204
Period size: 72 Copynumber: 2.6 Consensus size: 72
65705055 TCACCTGTGA
** * * *
65705065 ATAAATTTTATATCCAAAATCAAATATAAACAACTATTAATAAAACTAATTTAGTAAAAAAAAAA
1 ATAAATTCAATATCCAAAAACAAACATAAACAACTATTAATAAAACTAATTTAGCAAAAAAAAAA
* *
65705130 GTGGAGC
66 GTAGAAC
* * * * *
65705137 ATAAATTCAATATCTAAAGACCAAACATAAACAACTATTAATAAAACTAGA-TTA-CACATAAAT
1 ATAAATTCAATATCCAAA-AACAAACATAAACAACTATTAATAAAACTA-ATTTAGCAAAAAAAA
65705200 AAGTAGAAC
64 AAGTAGAAC
* * *
65705209 ATAAATTCAGTATCCAAAAACTAAACATAAATAACTATTGATAAAA
1 ATAAATTCAATATCCAAAAAC-AAACATAAACAACTATTAATAAAA
65705255 ACATACTTCG
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
71 2 0.02
72 65 0.66
73 31 0.31
74 1 0.01
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.26
Consensus pattern (72 bp):
ATAAATTCAATATCCAAAAACAAACATAAACAACTATTAATAAAACTAATTTAGCAAAAAAAAAA
GTAGAAC
Found at i:65706640 original size:15 final size:14
Alignment explanation
Indices: 65706620--65706651 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
65706610 ATTTGTAATA
65706620 AAATAAGCAGGCGAG
1 AAATAAGCAGGC-AG
65706635 AAATAAGCAGGCAG
1 AAATAAGCAGGCAG
65706649 AAA
1 AAA
65706652 ATTGTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.12, G:0.28, T:0.06
Consensus pattern (14 bp):
AAATAAGCAGGCAG
Found at i:65709097 original size:16 final size:16
Alignment explanation
Indices: 65709076--65709125 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
65709066 TGGTTCGCTA
65709076 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
*
65709092 TATTGGATTAGAGATG
1 TATTGGATTAGAGGTG
65709108 TATTGGATTAGAGGTG
1 TATTGGATTAGAGGTG
65709124 TA
1 TA
65709126 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TATTGGATTAGAGGTG
Found at i:65709172 original size:45 final size:44
Alignment explanation
Indices: 65709105--65709196 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 44
65709095 TGGATTAGAG
* * *
65709105 ATGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGA
* ***
65709150 ATGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGA
1 ATGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGA
65709194 ATG
1 ATG
65709197 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.36
Consensus pattern (44 bp):
ATGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGA
Found at i:65709379 original size:16 final size:16
Alignment explanation
Indices: 65709342--65709383 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65709332 TTAATCATAT
*
65709342 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
65709358 TT-AAATATATTATAA
1 TTAAAATATATTATAA
65709373 TTAAAATATAT
1 TTAAAATATAT
65709384 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:65709390 original size:14 final size:15
Alignment explanation
Indices: 65709351--65709392 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65709341 TTTAAACATA
*
65709351 ATTATTATTAAATAT
1 ATTATAATTAAATAT
65709366 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
65709380 A-TATAATTTAATA
1 ATTATAATTAAATA
65709393 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:65709501 original size:16 final size:16
Alignment explanation
Indices: 65709480--65709521 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
65709470 AATTAATATT
65709480 AAATATAT-TTTAATTA
1 AAATATATATTTAA-TA
65709496 AAATATATGATTTAATA
1 AAATATAT-ATTTAATA
*
65709513 AAATTTATA
1 AAATATATA
65709522 ATAATTATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 9 0.39
18 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AAATATATATTTAATA
Found at i:65709635 original size:91 final size:91
Alignment explanation
Indices: 65709533--65709791 Score: 482
Period size: 91 Copynumber: 2.8 Consensus size: 91
65709523 TAATTATACC
* * *
65709533 TAATAAATTTTCTTATATGAAATTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
65709598 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
65709624 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
65709689 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
65709715 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
65709780 GATATATAATTT
66 GATATATAATTT
65709792 ATACATTTAA
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 164 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:65715163 original size:17 final size:18
Alignment explanation
Indices: 65715131--65715165 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
65715121 AGAATTCATG
*
65715131 ATAATTATATATTTAATA
1 ATAATTATAGATTTAATA
65715149 ATAATTAT-GATTTAATA
1 ATAATTATAGATTTAATA
65715166 GAAGTTGTGA
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATAATTATAGATTTAATA
Found at i:65716015 original size:17 final size:18
Alignment explanation
Indices: 65715951--65716019 Score: 63
Period size: 17 Copynumber: 4.0 Consensus size: 18
65715941 GAAAGTTGTG
*
65715951 ATAATTATACATTTAAAA
1 ATAATTATACATTTAAAT
* *
65715969 ACAACTATA-ATTT-AAT
1 ATAATTATACATTTAAAT
* * *
65715985 AGAAGTACACATTTAAAT
1 ATAATTATACATTTAAAT
65716003 ATAATTATA-ATTTAAAT
1 ATAATTATACATTTAAAT
65716020 TGCAATTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 8 0.20
17 16 0.40
18 16 0.40
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTATACATTTAAAT
Found at i:65727022 original size:23 final size:22
Alignment explanation
Indices: 65726971--65727022 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
65726961 CCTCGTCTTT
*
65726971 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
65726993 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
65727016 TTCTTTT
1 TTCTTTT
65727023 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:65732742 original size:29 final size:30
Alignment explanation
Indices: 65732686--65732754 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
65732676 ATTATATCTA
**
65732686 AAAATAAAAAATAAAAAGATTACGTTTTTG
1 AAAATAAAAAATAAAAAGATTAAATTTTTG
65732716 AAAAT-AAAAATACAAAAG-TTAAA-TTTT-
1 AAAATAAAAAATA-AAAAGATTAAATTTTTG
*
65732743 AAATTAAAAAAT
1 AAAATAAAAAAT
65732755 TATGTAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.12
28 10 0.29
29 10 0.29
30 10 0.29
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (30 bp):
AAAATAAAAAATAAAAAGATTAAATTTTTG
Found at i:65738739 original size:21 final size:21
Alignment explanation
Indices: 65738713--65738754 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
65738703 TTTAGTTAAC
**
65738713 GGTTAAAGGATTAAAAAGTTT
1 GGTTAAAAAATTAAAAAGTTT
65738734 GGTTAAAAAATTAAAAAGTTT
1 GGTTAAAAAATTAAAAAGTTT
65738755 AACTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTTAAAAAATTAAAAAGTTT
Found at i:65744603 original size:14 final size:14
Alignment explanation
Indices: 65744584--65744613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65744574 CATTAGGGAA
65744584 TATAAATTTATATT
1 TATAAATTTATATT
*
65744598 TATAAATTTATGTT
1 TATAAATTTATATT
65744612 TA
1 TA
65744614 ATTAAGTTGA
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
TATAAATTTATATT
Found at i:65746102 original size:18 final size:17
Alignment explanation
Indices: 65746081--65746115 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
65746071 TTATTATTAA
*
65746081 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
65746099 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
65746116 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:65746255 original size:14 final size:14
Alignment explanation
Indices: 65746226--65746267 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
65746216 TTTAAACATA
*
65746226 ATTATTATTAAATAT
1 ATTATAATT-AATAT
65746241 ATTATAATTAATAT
1 ATTATAATTAATAT
65746255 A-TATAATTTAATA
1 ATTATAA-TTAATA
65746268 AAATTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATAATTAATAT
Found at i:65746257 original size:156 final size:157
Alignment explanation
Indices: 65745968--65746283 Score: 553
Period size: 156 Copynumber: 2.0 Consensus size: 157
65745958 TAGAATACCC
*
65745968 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * ** *
65746033 TTATCAGTAATAAATTTTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
65746098 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
65746124 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
65746189 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAATA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
65746254 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
65746281 TTA
1 TTA
65746284 ATATTCTTAT
Statistics
Matches: 151, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
156 144 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:65746354 original size:120 final size:121
Alignment explanation
Indices: 65746215--65746505 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 121
65746205 ATTTAATCAT
* *
65746215 ATTTAAACATAATTATTATTAAATATATTATAATTAATATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
65746280 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
65746337 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
65746400 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* * *
65746456 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
65746506 AATAATTTAA
Statistics
Matches: 161, Mismatches: 5, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
119 7 0.04
120 149 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:65746385 original size:14 final size:15
Alignment explanation
Indices: 65746336--65746387 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
65746326 GTAAAATATA
65746336 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
65746351 TATTAAATATATTAT
1 AATTAAATATATTAT
65746366 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
65746379 AATTTAATA
1 AATTAAATA
65746388 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:65746599 original size:24 final size:25
Alignment explanation
Indices: 65746553--65746600 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
65746543 TATGAATTTG
65746553 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
65746579 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
65746601 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:65746605 original size:92 final size:92
Alignment explanation
Indices: 65746519--65746737 Score: 248
Period size: 92 Copynumber: 2.4 Consensus size: 92
65746509 AATTTAAATT
* * * *
65746519 AATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATAT
1 AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATAT
65746582 AATTTAATAATTAATATTAAATTTCATAA
64 AATTTAATAATTAATATTAAATTTCATAA
* * * *
65746611 AATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
* *
65746676 TTTAAT-AGTGATA-TATAATTTCATAA
66 TTTAATAATTAATATTA-AATTTCATAA
* * *
65746702 AATTCTTAATAATAAAATGTTTTTTATATGAATTTA
1 AATTCATAATAAT-AAAT-TATATTATATGAATTTA
65746738 CTAAAATCAA
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
90 2 0.02
91 27 0.25
92 60 0.55
93 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
AATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
TTTAATAATTAATATTAAATTTCATAA
Found at i:65752863 original size:16 final size:15
Alignment explanation
Indices: 65752825--65752866 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
65752815 TCTAAAACAG
65752825 TAAAATTTTAATTTA
1 TAAAATTTTAATTTA
*
65752840 -AACCATTTATAATTTA
1 TAA-AATTT-TAATTTA
65752856 TAAAATTTTAA
1 TAAAATTTTAA
65752867 ATTAATAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.09
15 7 0.32
16 11 0.50
17 2 0.09
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTTAATTTA
Found at i:65759387 original size:27 final size:28
Alignment explanation
Indices: 65759352--65759413 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
65759342 TTTGAAGTTT
*
65759352 AAATATCTGACCCC-AAAT-TTAAAAAATA
1 AAAT-TCTGACCCCAAAATCGTAAAAAA-A
65759380 AAATTCTGACCCCAAAATCGTAAAAAAA
1 AAATTCTGACCCCAAAATCGTAAAAAAA
65759408 AAATTC
1 AAATTC
65759414 AAAGTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.29
28 15 0.48
29 7 0.23
ACGTcount: A:0.53, C:0.19, G:0.05, T:0.23
Consensus pattern (28 bp):
AAATTCTGACCCCAAAATCGTAAAAAAA
Found at i:65759404 original size:28 final size:27
Alignment explanation
Indices: 65759352--65759410 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
65759342 TTTGAAGTTT
* *
65759352 AAATATCTGACCCCAAATTTAAAAAATA
1 AAAT-TCTGACCCCAAATGTAAAAAAAA
65759380 AAATTCTGACCCCAAAATCGTAAAAAAAA
1 AAATTCTGACCCC-AAAT-GTAAAAAAAA
65759409 AA
1 AA
65759411 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 8 0.30
29 10 0.37
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.20
Consensus pattern (27 bp):
AAATTCTGACCCCAAATGTAAAAAAAA
Found at i:65773592 original size:41 final size:41
Alignment explanation
Indices: 65773535--65773691 Score: 199
Period size: 41 Copynumber: 3.8 Consensus size: 41
65773525 TTTTGTAAGT
65773535 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
65773576 TCAGGCTTTATGCCTAGCAGGC-TCAGTGCCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATA
* * * * * *
65773617 TCAGACCTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* * *
65773658 TCGGGCTTTGTGCCTAGTAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTG
65773692 TTTTATACAA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
40 2 0.02
41 94 0.97
42 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:65774501 original size:16 final size:16
Alignment explanation
Indices: 65774467--65774504 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
65774457 TTCGAAAATA
65774467 ATATGTGTATTAGATGT
1 ATATGTGTATTA-ATGT
65774484 ATATGATGTATT-ATGT
1 ATATG-TGTATTAATGT
65774500 ATATG
1 ATATG
65774505 CTGCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 5 0.25
18 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
ATATGTGTATTAATGT
Found at i:65774688 original size:24 final size:23
Alignment explanation
Indices: 65774604--65774710 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 23
65774594 GTTGTATATC
65774604 TATGCTGTTAAATTTTGGTGTAA
1 TATGCTGTTAAATTTTGGTGTAA
* *
65774627 -AGTGGTGTTAAA-TTTGGTATATA
1 TA-TGCTGTTAAATTTTGGTGTA-A
* * *
65774650 TATGTTGCCT--A-TTTGCTGTATA
1 TATGCTG-TTAAATTTTGGTGTA-A
65774672 TATGCTGTTAAATTTTGGTGTAA
1 TATGCTGTTAAATTTTGGTGTAA
*
65774695 AAGTGCTGTTAAATTT
1 TA-TGCTGTTAAATTT
65774711 GGTATGTATA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.02
22 25 0.38
23 17 0.26
24 23 0.35
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (23 bp):
TATGCTGTTAAATTTTGGTGTAA
Found at i:65774733 original size:69 final size:69
Alignment explanation
Indices: 65774529--65774763 Score: 292
Period size: 69 Copynumber: 3.4 Consensus size: 69
65774519 TATATATATA
* * * ** * * *
65774529 TATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAATTTGGTATATATATGCTGCCTAATT
1 TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATATATATGCTGCCTATTT
65774594 GTTG
66 GTTG
* *
65774598 TATATCTATGCTGTTAAATTTTGGTGT-AAAGTGGTGTTAAATTTGGTATATATATGTTGCCTAT
1 TATA--TATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATATATATGCTGCCTAT
*
65774662 TTGCTG
64 TTGTTG
* *
65774668 TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCTGCCCATTT
1 TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATATATATGCTGCCTATTT
*
65774733 GTTA
66 GTTG
* *
65774737 TATATAAGCTGTCCAAATTTTGGTGTA
1 TATATATGCTGT-TAAATTTTGGTGTA
65774764 TAAATGTTGT
Statistics
Matches: 144, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
68 21 0.15
69 52 0.36
70 52 0.36
71 19 0.13
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (69 bp):
TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATATATATGCTGCCTATTT
GTTG
Found at i:65774791 original size:139 final size:139
Alignment explanation
Indices: 65774529--65774779 Score: 308
Period size: 139 Copynumber: 1.8 Consensus size: 139
65774519 TATATATATA
* * * *
65774529 TATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAATTTGGTATATATATGCTGCCTAATT
1 TATATATACTGTTAAATTTTGGTGTAAAAATACTGCTAAATTTGGTATATATATGCTGCCCAATT
* * * * **
65774594 GTTGTATATCTATGCTGTTAAATTTTGGTGTAAAGTGGTGTTAAATTTGGTATATATATGTTGCC
66 GTTGTATATATAAGCTGTCAAATTTTGGTGTAAAATGGTGTTAAATTTAATATATATATGTTGCC
65774659 TATTTGCTG
131 TATTTGCTG
* * * * * *
65774668 TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCTGCCCATTT
1 TATATATACTGTTAAATTTTGGTGTAAAAATACTGCTAAATTTGGTATATATATGCTGCCCAATT
* *
65774733 G-T-TATATATAAGCTGTCCAAATTTTGGTGTATAAATGTTGTTTAATT
66 GTTGTATATATAAGCTGT-CAAATTTTGGTGTA-AAATGGTGTTAAATT
65774780 AATTTGGTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
137 12 0.13
138 14 0.15
139 68 0.72
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (139 bp):
TATATATACTGTTAAATTTTGGTGTAAAAATACTGCTAAATTTGGTATATATATGCTGCCCAATT
GTTGTATATATAAGCTGTCAAATTTTGGTGTAAAATGGTGTTAAATTTAATATATATATGTTGCC
TATTTGCTG
Found at i:65775642 original size:63 final size:63
Alignment explanation
Indices: 65775572--65775697 Score: 184
Period size: 61 Copynumber: 2.0 Consensus size: 63
65775562 TTTTATAAAC
* * * * *
65775572 ATGTATATACACATACTTTTATATTTTTTTTATATTTCATAA-TTCT-TATATACATATATAT
1 ATGTATATATACATACTTGTATATATTTTTTATATTTCATAATTTATATATATACATACATAT
*
65775633 ATGTATATATACATACTTGTATATATTTTTTATATTTTATAATTTATATATATACATACATAT
1 ATGTATATATACATACTTGTATATATTTTTTATATTTCATAATTTATATATATACATACATAT
65775696 AT
1 AT
65775698 CTTTTTACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 38 0.67
62 3 0.05
63 16 0.28
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (63 bp):
ATGTATATATACATACTTGTATATATTTTTTATATTTCATAATTTATATATATACATACATAT
Found at i:65775681 original size:39 final size:41
Alignment explanation
Indices: 65775638--65775718 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 41
65775628 TATATATGTA
* ** *
65775638 TATATACATACTTGTATATAT-TTTTTATA-TTTTATAATT
1 TATATACATACATACATATATCTTTTTACATTTTTATAATT
*
65775677 TATATATATACATACATATATCTTTTTACATTTTTATAATT
1 TATATACATACATACATATATCTTTTTACATTTTTATAATT
65775718 T
1 T
65775719 TATTCATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 17 0.49
40 7 0.20
41 11 0.31
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (41 bp):
TATATACATACATACATATATCTTTTTACATTTTTATAATT
Found at i:65775697 original size:41 final size:42
Alignment explanation
Indices: 65775636--65775718 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 42
65775626 TATATATATG
*
65775636 TATATATACATACTTGTATATAT-TTTTTATA-TTTTATAATTTA
1 TATATATACATAC---TATATATCTTTTTACATTTTTATAATTTA
65775679 TATATATACATAC-ATATATCTTTTTACATTTTTATAATTT
1 TATATATACATACTATATATCTTTTTACATTTTTATAATTT
65775719 TATTCATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 6 0.16
40 7 0.19
41 11 0.30
43 13 0.35
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (42 bp):
TATATATACATACTATATATCTTTTTACATTTTTATAATTTA
Found at i:65778484 original size:33 final size:35
Alignment explanation
Indices: 65778447--65778544 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
65778437 ATGGTTATAT
65778447 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
65778480 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
65778515 --AAATATTTAAAATTTATATTTCATATATTA
1 TTAAATATTTAAAATATA-ATTT-ATATATTA
65778545 AAATATTAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.15
35 12 0.23
36 3 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:65778534 original size:30 final size:30
Alignment explanation
Indices: 65778495--65778551 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
65778485 TTTTATAAAT
65778495 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
65778525 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
65778552 AACAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:65789200 original size:126 final size:126
Alignment explanation
Indices: 65788968--65789486 Score: 724
Period size: 126 Copynumber: 4.1 Consensus size: 126
65788958 GGCCAAACAT
* * *
65788968 GAACTACTGTAGAAAAATAGCGTCAACGTAGG-AGCTTTTTTCA-TCAATTTTGCTGATAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGT-GGAAGCTTTTTTCAGT-AATTTTGCTGACAGTGCA
* *
65789031 TCTTGCTTGAAGCGTTTTTGACACTATTTGTTCATAACCGTCTTCTCAAAATTATTTTTTCAG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
*
65789094 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCATTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * *
65789159 CTCCTTGAAGCGTTTTTGACACTATTTATTCAGAACTGTCTTCTCAAAATTATTTTTTTAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * *
65789220 GAACTACTGTAAAAAAAGAGCGTCCACAT-GAGAGCTTTTTTTAGTAATTTTGCTGACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGA-AGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
65789284 CCTGCTTGAAGAGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAGTTATTTTTTCAT
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * * * * *
65789346 GAACCACTTTAGAAAAAAAACGTCCACGTGGGAGCTTTTTCCAGTAATTTTGCTGATAGTGCAT-
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
65789410 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTT-AG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
65789470 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
65789487 AAATAAAATC
Statistics
Matches: 347, Mismatches: 42, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
124 16 0.05
125 57 0.16
126 272 0.78
127 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:65789603 original size:34 final size:32
Alignment explanation
Indices: 65789546--65789654 Score: 110
Period size: 34 Copynumber: 3.3 Consensus size: 32
65789536 CACAATATTA
* * * *
65789546 TTTTAAAAAAACTAAATCTTAATTTAATTAAAT
1 TTTTAAAAACACTAAACCCTAATTAAATT-AAT
*
65789579 TTCTTAAAAACACTAAACCCTAATTAAATTTAT
1 TT-TTAAAAACACTAAACCCTAATTAAATTAAT
* * *
65789612 TTATTTAAAACCCTTAAACCCTAATTGAATTAAT
1 TT-TTAAAAACAC-TAAACCCTAATTAAATTAAT
65789646 TTTTAAAAA
1 TTTTAAAAA
65789655 AGAATATTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 20 0.32
34 43 0.68
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (32 bp):
TTTTAAAAACACTAAACCCTAATTAAATTAAT
Found at i:65794951 original size:20 final size:20
Alignment explanation
Indices: 65794921--65794966 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
65794911 CTCCCCCACA
65794921 TATAT-AAAGCATGATCCAT
1 TATATGAAAGCATGATCCAT
65794940 TATATGAAAGCATGATCCAT
1 TATATGAAAGCATGATCCAT
65794960 TATATGA
1 TATATGA
65794967 CGATGACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
TATATGAAAGCATGATCCAT
Found at i:65797881 original size:19 final size:18
Alignment explanation
Indices: 65797803--65797883 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
65797793 AAAAGATTCT
65797803 ATTCAAGAAATTGTTT-G
1 ATTCAAGAAATTGTTTCG
*
65797820 AATCCAAGAAATTGTTTTCG
1 -ATTCAAGAAATTG-TTTCG
* * * *
65797840 ATTCAA-ACGAGTAGATTCT
1 ATTCAAGA--AATTGTTTCG
65797859 ATTCAAGAAATTGTTTTCG
1 ATTCAAGAAATTG-TTTCG
65797878 ATTCAA
1 ATTCAA
65797884 ACGAGTGTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
18 16 0.34
19 26 0.55
20 5 0.11
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
ATTCAAGAAATTGTTTCG
Found at i:65797892 original size:19 final size:19
Alignment explanation
Indices: 65797832--65797892 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
65797822 TCCAAGAAAT
65797832 TGTTTTCGATTCAAACGAG
1 TGTTTTCGATTCAAACGAG
* * * *
65797851 TAG-ATTCTATTCAAGA-AAT
1 T-GTTTTCGATTCAA-ACGAG
65797870 TGTTTTCGATTCAAACGAG
1 TGTTTTCGATTCAAACGAG
65797889 TGTT
1 TGTT
65797893 GAAGCTATGC
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
18 2 0.07
19 26 0.87
20 2 0.07
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTTTTCGATTCAAACGAG
Found at i:65803983 original size:88 final size:89
Alignment explanation
Indices: 65803833--65803999 Score: 291
Period size: 88 Copynumber: 1.9 Consensus size: 89
65803823 GCTTAATTCT
* *
65803833 TAAATAATTCATCATCTTTCTATGTGTTTCAAAACATAATTAGAACCTGCATGACTTCTAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
65803898 GATT-TCCCCCCCAAGTTCCTAAG
66 GATTCTCCCCCCCAAGTTCCTAAG
*
65803921 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACGTGCATGACTTATAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
65803986 GATTCCTCCCCCCC
66 GATT-CTCCCCCCC
65804000 CCCCCAAGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
88 66 0.89
90 8 0.11
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (89 bp):
TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
GATTCTCCCCCCCAAGTTCCTAAG
Found at i:65807999 original size:36 final size:36
Alignment explanation
Indices: 65807952--65808024 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
65807942 CTAGTATTTG
65807952 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
1 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
65807988 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
1 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
65808024 T
1 T
65808025 CTTTTCTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
Found at i:65808723 original size:19 final size:19
Alignment explanation
Indices: 65808699--65808739 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
65808689 TTAAGCTCCT
*
65808699 CATGTGCTTTTTTGAAATC
1 CATGTGCTCTTTTGAAATC
65808718 CATGTGCTCTTTTGAAATC
1 CATGTGCTCTTTTGAAATC
65808737 CAT
1 CAT
65808740 AAAGTATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (19 bp):
CATGTGCTCTTTTGAAATC
Found at i:65813192 original size:4 final size:4
Alignment explanation
Indices: 65813177--65813227 Score: 93
Period size: 4 Copynumber: 12.8 Consensus size: 4
65813167 AACATATACA
*
65813177 TATG TCTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
65813225 TAT
1 TAT
65813228 AAACTCCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:65814868 original size:18 final size:17
Alignment explanation
Indices: 65814845--65814889 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
65814835 AAGTTAAATT
65814845 ACTTTTTAAATGATTTTA
1 ACTTTTTAAATG-TTTTA
*
65814863 ACTTTTAAAATGTTTTA
1 ACTTTTTAAATGTTTTA
65814880 A-TTATTTAAA
1 ACTT-TTTAAA
65814890 ATTATATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (17 bp):
ACTTTTTAAATGTTTTA
Found at i:65814890 original size:18 final size:18
Alignment explanation
Indices: 65814845--65814891 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
65814835 AAGTTAAATT
*
65814845 ACTTTTTAAATGATTTTA
1 ACTTTTAAAATGATTTTA
65814863 ACTTTTAAAATG-TTTTA
1 ACTTTTAAAATGATTTTA
*
65814880 ATTATTTAAAAT
1 ACT-TTTAAAAT
65814892 TATATTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (18 bp):
ACTTTTAAAATGATTTTA
Found at i:65815357 original size:27 final size:29
Alignment explanation
Indices: 65815304--65815358 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
65815294 ATTTAGGATG
*
65815304 AAATCAAAATTTCATGTATAAAATTACAC
1 AAATCAAAATTTCACGTATAAAATTACAC
*
65815333 AAATCAAAA-TT-ACGTATACAATTACA
1 AAATCAAAATTTCACGTATAAAATTACA
65815359 TATTAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
29 9 0.38
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.29
Consensus pattern (29 bp):
AAATCAAAATTTCACGTATAAAATTACAC
Found at i:65818730 original size:6 final size:6
Alignment explanation
Indices: 65818719--65818752 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
65818709 GGCTGCTCTC
*
65818719 GTTCCT GTTCCT GTTCCT GTTCCT GTTCAT GTTC
1 GTTCCT GTTCCT GTTCCT GTTCCT GTTCCT GTTC
65818753 TTGCCTGTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.29, G:0.18, T:0.50
Consensus pattern (6 bp):
GTTCCT
Found at i:65820018 original size:21 final size:21
Alignment explanation
Indices: 65819994--65820036 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65819984 TAGTGTTGCA
*
65819994 ATAATAATT-ATTTAAATAAAT
1 ATAAT-ATTGATTTAAAAAAAT
*
65820015 ATAATTTTGATTTAAAAAAAT
1 ATAATATTGATTTAAAAAAAT
65820036 A
1 A
65820037 AAAAAATAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATAATATTGATTTAAAAAAAT
Found at i:65827175 original size:35 final size:34
Alignment explanation
Indices: 65827136--65827201 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
65827126 CAAACACCAA
*
65827136 AAAACATTTTCCAGTAAGTCATTTTACAGAAATGT
1 AAAACATTTTCCAG-AAATCATTTTACAGAAATGT
*
65827171 AAAACATTTTCCAGAAATCATTTTACGGAAA
1 AAAACATTTTCCAGAAATCATTTTACAGAAA
65827202 ACATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGAAATCATTTTACAGAAATGT
Found at i:65827194 original size:14 final size:14
Alignment explanation
Indices: 65827171--65827210 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65827161 ACAGAAATGT
*
65827171 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
65827185 AAATCATTTTACGG
1 AAAACATTTTACAG
65827199 AAAACATTTTAC
1 AAAACATTTTAC
65827211 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:65843444 original size:17 final size:17
Alignment explanation
Indices: 65843424--65843620 Score: 216
Period size: 17 Copynumber: 11.6 Consensus size: 17
65843414 GCATAACTCA
* *
65843424 CATATAAACATAGCTAG
1 CATATAAACACAACTAG
*
65843441 CATATAAACACAACTTG
1 CATATAAACACAACTAG
* * *
65843458 CATATAAACATAGCTCG
1 CATATAAACACAACTAG
*
65843475 CATATAAACACAACTCG
1 CATATAAACACAACTAG
* *
65843492 CATATAAACATAGCTAG
1 CATATAAACACAACTAG
*
65843509 CATATAAACACAACTTG
1 CATATAAACACAACTAG
* * *
65843526 CATATAAACATAGCTCG
1 CATATAAACACAACTAG
*
65843543 CATATAAACACAACTTG
1 CATATAAACACAACTAG
65843560 CATATAAACACAACTCA-
1 CATATAAACACAACT-AG
* * *
65843577 CATATAAACATAGCTCG
1 CATATAAACACAACTAG
65843594 CATATAAACACAACTAG
1 CATATAAACACAACTAG
*
65843611 CATAGAAACA
1 CATATAAACA
65843621 TAGCTTATTT
Statistics
Matches: 150, Mismatches: 28, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
17 150 1.00
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.21
Consensus pattern (17 bp):
CATATAAACACAACTAG
Found at i:65843467 original size:34 final size:34
Alignment explanation
Indices: 65843424--65843620 Score: 279
Period size: 34 Copynumber: 5.8 Consensus size: 34
65843414 GCATAACTCA
65843424 CATATAAACATAGCTAGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
* *
65843458 CATATAAACATAGCTCGCATATAAACACAACTCG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
65843492 CATATAAACATAGCTAGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
*
65843526 CATATAAACATAGCTCGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
* * * * *
65843560 CATATAAACACAACTCA-CATATAAACATAGCTCG
1 CATATAAACATAGCT-AGCATATAAACACAACTTG
* * *
65843594 CATATAAACACAACTAGCATAGAAACA
1 CATATAAACATAGCTAGCATATAAACA
65843621 TAGCTTATTT
Statistics
Matches: 149, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
33 1 0.01
34 148 0.99
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.21
Consensus pattern (34 bp):
CATATAAACATAGCTAGCATATAAACACAACTTG
Found at i:65843484 original size:51 final size:51
Alignment explanation
Indices: 65843415--65843652 Score: 296
Period size: 51 Copynumber: 4.7 Consensus size: 51
65843405 AGCCAGCTCG
* *
65843415 CATAACTCACATATAAACATAGCTAGCATATAAACACAACTTGCATATAAA
1 CATAACTCACATATAAACATAGCTCGCATATAAACACAACTAGCATATAAA
* * * * * *
65843466 CATAGCTCGCATATAAACACAACTCGCATATAAACATAGCTAGCATATAAA
1 CATAACTCACATATAAACATAGCTCGCATATAAACACAACTAGCATATAAA
* ** *
65843517 CACAACTTGCATATAAACATAGCTCGCATATAAACACAACTTGCATATAAA
1 CATAACTCACATATAAACATAGCTCGCATATAAACACAACTAGCATATAAA
* *
65843568 CACAACTCACATATAAACATAGCTCGCATATAAACACAACTAGCATAGAAA
1 CATAACTCACATATAAACATAGCTCGCATATAAACACAACTAGCATATAAA
* * ** * *
65843619 CATAGCTTATTTATAAACATAACTCACATATAAA
1 CATAACTCACATATAAACATAGCTCGCATATAAA
65843653 TATATATGTA
Statistics
Matches: 160, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 160 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (51 bp):
CATAACTCACATATAAACATAGCTCGCATATAAACACAACTAGCATATAAA
Found at i:65843650 original size:17 final size:17
Alignment explanation
Indices: 65843415--65843652 Score: 194
Period size: 17 Copynumber: 14.0 Consensus size: 17
65843405 AGCCAGCTCG
65843415 CATAACTCACATATAAA
1 CATAACTCACATATAAA
*
65843432 CATAGCT-AGCATATAAA
1 CATAACTCA-CATATAAA
* **
65843449 CACAACTTGCATATAAA
1 CATAACTCACATATAAA
* *
65843466 CATAGCTCGCATATAAA
1 CATAACTCACATATAAA
* *
65843483 CACAACTCGCATATAAA
1 CATAACTCACATATAAA
*
65843500 CATAGCT-AGCATATAAA
1 CATAACTCA-CATATAAA
* **
65843517 CACAACTTGCATATAAA
1 CATAACTCACATATAAA
* *
65843534 CATAGCTCGCATATAAA
1 CATAACTCACATATAAA
* **
65843551 CACAACTTGCATATAAA
1 CATAACTCACATATAAA
*
65843568 CACAACTCACATATAAA
1 CATAACTCACATATAAA
* *
65843585 CATAGCTCGCATATAAA
1 CATAACTCACATATAAA
* *
65843602 CACAACT-AGCATAGAAA
1 CATAACTCA-CATATAAA
* * **
65843619 CATAGCTTATTTATAAA
1 CATAACTCACATATAAA
65843636 CATAACTCACATATAAA
1 CATAACTCACATATAAA
65843653 TATATATGTA
Statistics
Matches: 176, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
16 1 0.01
17 174 0.99
18 1 0.01
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (17 bp):
CATAACTCACATATAAA
Found at i:65845878 original size:34 final size:34
Alignment explanation
Indices: 65845840--65845944 Score: 210
Period size: 34 Copynumber: 3.1 Consensus size: 34
65845830 TTATGATACC
65845840 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
1 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
65845874 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
1 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
65845908 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
1 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
65845942 ACT
1 ACT
65845945 TCTGTCATGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 71 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (34 bp):
ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
Found at i:65861173 original size:17 final size:17
Alignment explanation
Indices: 65861153--65861187 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65861143 TTATTTTAAT
*
65861153 TTTTATTTAATTTTTTA
1 TTTTATTTAATTGTTTA
*
65861170 TTTTCTTTAATTGTTTA
1 TTTTATTTAATTGTTTA
65861187 T
1 T
65861188 CAAAATGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTATTTAATTGTTTA
Found at i:65870104 original size:22 final size:22
Alignment explanation
Indices: 65870057--65870114 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
65870047 GAATTTATTT
**
65870057 ATATAAAATAAAAAAATTATGC
1 ATATAAAATAAAAAAATTATAA
*
65870079 ATATAAATTAAAAAATATT-TAA
1 ATATAAAATAAAAAA-ATTATAA
65870101 ATATTAAAATAAAA
1 ATA-TAAAATAAAA
65870115 TATTCAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAAATAAAAAAATTATAA
Found at i:65870320 original size:6 final size:7
Alignment explanation
Indices: 65870291--65870317 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65870281 GTATTAACTT
65870291 TAAAAAA
1 TAAAAAA
65870298 TAAAAAA
1 TAAAAAA
65870305 TAAAAAA
1 TAAAAAA
65870312 TAAAAA
1 TAAAAA
65870318 TAAGAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:65871440 original size:11 final size:11
Alignment explanation
Indices: 65871426--65871512 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
65871416 TCAATTATTT
65871426 TCTCAATTTCC
1 TCTCAATTTCC
* *
65871437 TCTCAAATTGC
1 TCTCAATTTCC
65871448 TCTCAATTTCC
1 TCTCAATTTCC
65871459 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
65871470 TCTCAAATT-C
1 TCTCAATTTCC
* **
65871480 -AT--ATTTAA
1 TCTCAATTTCC
*
65871488 TCTCAATTTGC
1 TCTCAATTTCC
65871499 TCTCAATTTCC
1 TCTCAATTTCC
65871510 TCT
1 TCT
65871513 TAAATTTCTC
Statistics
Matches: 57, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
7 3 0.05
9 2 0.04
10 6 0.11
11 40 0.70
12 6 0.11
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:65871451 original size:22 final size:22
Alignment explanation
Indices: 65871426--65871475 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
65871416 TCAATTATTT
65871426 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
65871448 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
65871470 TCTCAA
1 TCTCAA
65871476 ATTCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:65871536 original size:51 final size:51
Alignment explanation
Indices: 65871437--65871536 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
65871427 CTCAATTTCC
*
65871437 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATTCATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * * *
65871488 TCTCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTCCTTC-CAAATTTCTCTCAAATCCATATTT
65871537 TTAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:65871577 original size:10 final size:11
Alignment explanation
Indices: 65871556--65871581 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65871546 TTTAAAAAAA
65871556 TTTAAAATTTT
1 TTTAAAATTTT
65871567 TTTAAAATTTT
1 TTTAAAATTTT
65871578 TTTA
1 TTTA
65871582 GATCGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:65872695 original size:7 final size:7
Alignment explanation
Indices: 65872683--65872708 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65872673 TAGTCAATTG
65872683 GTATTTA
1 GTATTTA
65872690 GTATTTA
1 GTATTTA
65872697 GTATTTA
1 GTATTTA
65872704 GTATT
1 GTATT
65872709 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:65873753 original size:18 final size:18
Alignment explanation
Indices: 65873730--65873773 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
65873720 AACCCTAAAC
65873730 TAATTTATTAA-AAATTTA
1 TAATTTA-TAATAAATTTA
65873748 TAATTTATAATTAAATTTA
1 TAATTTATAA-TAAATTTA
65873767 TAATTTA
1 TAATTTA
65873774 ATTGACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.12
18 7 0.29
19 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTTATAATAAATTTA
Found at i:65873754 original size:7 final size:7
Alignment explanation
Indices: 65873742--65873773 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
65873732 ATTTATTAAA
65873742 AATTTAT
1 AATTTAT
65873749 AATTTAT
1 AATTTAT
65873756 AA-TTA-
1 AATTTAT
65873761 AATTTAT
1 AATTTAT
65873768 AATTTA
1 AATTTA
65873774 ATTGACAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 2 0.09
6 6 0.26
7 15 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:65873841 original size:12 final size:12
Alignment explanation
Indices: 65873826--65873851 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65873816 CCCTAATAAA
65873826 AACCCTAGCCCT
1 AACCCTAGCCCT
65873838 AACCCTAGCCCT
1 AACCCTAGCCCT
65873850 AA
1 AA
65873852 ACTTAAAAAC
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:0.31, C:0.46, G:0.08, T:0.15
Consensus pattern (12 bp):
AACCCTAGCCCT
Found at i:65873864 original size:27 final size:27
Alignment explanation
Indices: 65873834--65873888 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
65873824 AAAACCCTAG
*
65873834 CCCTAACCCTAGCCCTAAACTTAAAAA
1 CCCTAACCCTAACCCTAAACTTAAAAA
*
65873861 CCCTAACCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTAAACTTAAAAA
65873888 C
1 C
65873889 ACCAAAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.20
Consensus pattern (27 bp):
CCCTAACCCTAACCCTAAACTTAAAAA
Found at i:65873936 original size:61 final size:63
Alignment explanation
Indices: 65873871--65874005 Score: 193
Period size: 61 Copynumber: 2.1 Consensus size: 63
65873861 CCCTAACCCT
*
65873871 AACCCTTAACTTAAAAACACCAAAACCCTAA-TAAAACCCTAG-CCCTAACCCTTAACTTAAA
1 AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCCTAACCCTTAACTTAAA
*
65873932 AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCTTAGCCTTCACCCTAACCCTTAACTT
1 AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAG----C-CCCTAACCCTTAACTT
65873997 AAA
61 AAA
65874000 AACCCT
1 AACCCT
65874006 AACCCTAACC
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
61 31 0.48
62 9 0.14
68 25 0.38
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.20
Consensus pattern (63 bp):
AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCCTAACCCTTAACTTAAA
Found at i:65873937 original size:15 final size:15
Alignment explanation
Indices: 65873917--65873949 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
65873907 CCCTAGCCCT
65873917 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
65873932 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
65873947 AAC
1 AAC
65873950 ACCAAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:65874003 original size:33 final size:33
Alignment explanation
Indices: 65873980--65874050 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
65873970 CTTAGCCTTC
65873980 ACCCTAACCCTTAACTTAAAAACCCTAACCCTA
1 ACCCTAACCCTTAACTTAAAAACCCTAACCCTA
* *
65874013 ACCTTAACCCTTAACTTAAAAACACTAACCCTA
1 ACCCTAACCCTTAACTTAAAAACCCTAACCCTA
65874046 ACCCT
1 ACCCT
65874051 TAACTTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (33 bp):
ACCCTAACCCTTAACTTAAAAACCCTAACCCTA
Found at i:65874006 original size:21 final size:21
Alignment explanation
Indices: 65873980--65874019 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
65873970 CTTAGCCTTC
65873980 ACCCTAACCCTTAA-CTTAAAA
1 ACCCTAACCC-TAACCTTAAAA
65874001 ACCCTAACCCTAACCTTAA
1 ACCCTAACCCTAACCTTAA
65874020 CCCTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (21 bp):
ACCCTAACCCTAACCTTAAAA
Found at i:65874062 original size:113 final size:113
Alignment explanation
Indices: 65873932--65874218 Score: 448
Period size: 113 Copynumber: 2.5 Consensus size: 113
65873922 TTAACTTAAA
* * *
65873932 AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCTTAGCCTTCACCCTAACCCTTAACTT
1 AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCTAACCCTAACCCTTAACTT
65873997 AAAAACCCTAACCCTAACCTTAACCCTTAACTTAAAAACACTAACCCT
66 AAAAACCCTAACCCTAACCTTAACCCTTAACTTAAAAACACTAACCCT
* * *
65874045 AACCCTTAACTTGAAAACACCAAAACCTTAACAAAAACCCTAGCCCTAACCCTAACCTTTAACTT
1 AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCTAACCCTAACCCTTAACTT
*
65874110 AAAAACCCTAACCCTAACCTTAACCCTTAACTTAAAAACCCTAACCCT
66 AAAAACCCTAACCCTAACCTTAACCCTTAACTTAAAAACACTAACCCT
*
65874158 AACCCTTAACTTAAAAACACCAAAACTCTAATGCTAACAAAAACCCTAACCCTAACCCTAA
1 AACCCTTAACTTAAAAACACCAAAAC-C-----CTAACAAAAACCCTAGCCCTAACCCTAA
65874219 TCTGATATAA
Statistics
Matches: 158, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
113 131 0.83
114 1 0.01
119 26 0.16
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (113 bp):
AACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCTAACCCTAACCCTTAACTT
AAAAACCCTAACCCTAACCTTAACCCTTAACTTAAAAACACTAACCCT
Found at i:65874115 original size:33 final size:33
Alignment explanation
Indices: 65874070--65874163 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
65874060 AACACCAAAA
*
65874070 CCTTAAC--AAAAACCCTAGCCCTAACCCTAAC
1 CCTTAACTTAAAAACCCTAACCCTAACCCTAAC
* *
65874101 CTTTAACTTAAAAACCCTAACCCTAACCTTAAC
1 CCTTAACTTAAAAACCCTAACCCTAACCCTAAC
65874134 CCTTAACTTAAAAACCCTAACCCTAACCCT
1 CCTTAACTTAAAAACCCTAACCCTAACCCT
65874164 TAACTTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 6 0.11
33 50 0.89
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.22
Consensus pattern (33 bp):
CCTTAACTTAAAAACCCTAACCCTAACCCTAAC
Found at i:65874131 original size:21 final size:21
Alignment explanation
Indices: 65874092--65874132 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65874082 CCCTAGCCCT
*
65874092 AACCCTAACCTTTAACTTAAA
1 AACCCTAACCTCTAACTTAAA
65874113 AACCCTAACC-CTAACCTTAA
1 AACCCTAACCTCTAA-CTTAA
65874133 CCCTTAACTT
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:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCTAACCTCTAACTTAAA
Found at i:65874273 original size:35 final size:36
Alignment explanation
Indices: 65874233--65874395 Score: 98
Period size: 35 Copynumber: 4.4 Consensus size: 36
65874223 ATATAATTTG
65874233 ATAATTTTACTAACAATTAATACAATTA-ATAATTA
1 ATAATTTTACTAACAATTAATACAATTACATAATTA
* * * ** * * * *
65874268 ATAATTTGATTAACAAAATGTTAGATTTTACAAAATGTT
1 ATAATTTTACTAAC-AATTAATACA-ATTACATAAT-TA
* * ** * * *
65874307 TTGACTAGTACTAACAATTAATA-ATTTGATATAATTTG
1 AT-AATTTTACTAACAATTAATACAATT-ACATAA-TTA
*
65874345 ATAATTTTACTAACAATTAATACAATTA-ACAATTA
1 ATAATTTTACTAACAATTAATACAATTACATAATTA
65874380 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
65874396 AATGTTAGAT
Statistics
Matches: 92, Mismatches: 28, Indels: 16
0.68 0.21 0.12
Matches are distributed among these distances:
35 30 0.33
36 9 0.10
37 24 0.26
38 14 0.15
39 8 0.09
40 7 0.08
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (36 bp):
ATAATTTTACTAACAATTAATACAATTACATAATTA
Found at i:65874362 original size:112 final size:111
Alignment explanation
Indices: 65874216--65874453 Score: 386
Period size: 112 Copynumber: 2.1 Consensus size: 111
65874206 ACCCTAACCC
* * *
65874216 TAATCTGATATAATTTGATAATTTTACTAACAATTAATACAATTAATAATTAATAATTTGATTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* * *
65874281 CAAAATGTTAGATTTTACAAAATGTTTTGACTAGTACTAACAATTAA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTAGTACAAAAAAAT-A
*
65874328 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTTACTAA
1 TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
* *
65874393 CAAAATGTTAGATTTTACAAAATGTTTTGATTGGTACAAAAAAATA
66 CAAAATGTTAGATTTTACAAAATGTTTTGACTAGTACAAAAAAATA
65874439 TAATTTGATATAATT
1 TAATTTGATATAATT
65874454 GTAATAACAA
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 16 0.14
112 101 0.86
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (111 bp):
TAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAATTAATAATTTGACTAA
CAAAATGTTAGATTTTACAAAATGTTTTGACTAGTACAAAAAAATA
Found at i:65874474 original size:22 final size:23
Alignment explanation
Indices: 65874449--65874497 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
65874439 TAATTTGATA
* *
65874449 TAATTGTAATAACAAT-TAGTTT
1 TAATTGTAATAAAAATATAATTT
*
65874471 TAATTTTAATAAAAATATAATTT
1 TAATTGTAATAAAAATATAATTT
65874494 TAAT
1 TAAT
65874498 GGGCTCGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TAATTGTAATAAAAATATAATTT
Found at i:65876013 original size:29 final size:30
Alignment explanation
Indices: 65875963--65876030 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
65875953 AATTTATCGG
*
65875963 TTTATAATTTTTAAACAATTAAA-T-TAAATT
1 TTTATCATTTTTAAACAATTAAAGTGT-AA-T
65875993 TTTATCATTTTTAAA-AATTAAAGTGTAAT
1 TTTATCATTTTTAAACAATTAAAGTGTAAT
65876022 TTTATCATT
1 TTTATCATT
65876031 ACTAATTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
29 17 0.49
30 17 0.49
31 1 0.03
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.51
Consensus pattern (30 bp):
TTTATCATTTTTAAACAATTAAAGTGTAAT
Found at i:65882704 original size:13 final size:13
Alignment explanation
Indices: 65882686--65882710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65882676 TAAAAGTTTG
65882686 AGGGAAAGTAAAT
1 AGGGAAAGTAAAT
65882699 AGGGAAAGTAAA
1 AGGGAAAGTAAA
65882711 ATTTTGGAGG
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:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (13 bp):
AGGGAAAGTAAAT
Found at i:65882722 original size:32 final size:32
Alignment explanation
Indices: 65882676--65882756 Score: 128
Period size: 32 Copynumber: 2.6 Consensus size: 32
65882666 TTTTGGGGAA
*
65882676 TAAAAGTTT-GAGGGAAAGTAAATAGGGAAAG
1 TAAAATTTTGGAGGGAAAGTAAATAGGGAAAG
**
65882707 TAAAATTTTGGAGGGAAAGTAAATAGGGGGAG
1 TAAAATTTTGGAGGGAAAGTAAATAGGGAAAG
65882739 TAAAATTTTGGAGGGAAA
1 TAAAATTTTGGAGGGAAA
65882757 ATATTAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 8 0.17
32 38 0.83
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (32 bp):
TAAAATTTTGGAGGGAAAGTAAATAGGGAAAG
Found at i:65882723 original size:19 final size:19
Alignment explanation
Indices: 65882699--65882756 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
65882689 GAAAGTAAAT
65882699 AGGGAAAGTAAAATTTTGG
1 AGGGAAAGTAAAATTTTGG
*
65882718 AGGGAAAGT-AAA--TAGG
1 AGGGAAAGTAAAATTTTGG
65882734 -GGG--AGTAAAATTTTGG
1 AGGGAAAGTAAAATTTTGG
65882750 AGGGAAA
1 AGGGAAA
65882757 ATATTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 3 0.10
14 3 0.10
15 3 0.10
16 6 0.19
17 3 0.10
18 3 0.10
19 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (19 bp):
AGGGAAAGTAAAATTTTGG
Found at i:65883095 original size:9 final size:9
Alignment explanation
Indices: 65883081--65883108 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
65883071 TATAGTTTGA
65883081 TATTCGAAT
1 TATTCGAAT
65883090 TATTCGAAT
1 TATTCGAAT
65883099 TATTCGAAT
1 TATTCGAAT
65883108 T
1 T
65883109 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:65885316 original size:3 final size:3
Alignment explanation
Indices: 65885310--65885349 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
65885300 TATTAGACTT
65885310 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
65885350 GAAATGATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65890321 original size:20 final size:20
Alignment explanation
Indices: 65890296--65890336 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65890286 ATCCCACATC
65890296 TTTTTTAATATTATTGAGTT
1 TTTTTTAATATTATTGAGTT
65890316 TTTTTTAATATTATTGAGTT
1 TTTTTTAATATTATTGAGTT
65890336 T
1 T
65890337 GATTACTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTTTAATATTATTGAGTT
Found at i:65912419 original size:107 final size:107
Alignment explanation
Indices: 65912233--65912447 Score: 405
Period size: 107 Copynumber: 2.0 Consensus size: 107
65912223 AGGCTTCAGT
65912233 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTTCTCTAATAATTCCCTTAATATA
1 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTTCTCTAATAATTCCCTTAATATA
65912298 TAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
66 TAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
*
65912340 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTAT-TCTAATAATTCCCTTATTAT
1 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTT-TCTCTAATAATTCCCTTAATAT
65912404 ATAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
65 ATAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
65912447 A
1 A
65912448 AATTGAAGAA
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 105 0.99
108 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.36
Consensus pattern (107 bp):
ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTTCTCTAATAATTCCCTTAATATA
TAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
Found at i:65915031 original size:20 final size:20
Alignment explanation
Indices: 65915006--65915081 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
65914996 AATCTTTTGC
**
65915006 TGTTTGAATCGATTGTTTAT
1 TGTTTGAATCGATTCATTAT
65915026 TGTTTGAATCGATTCATTAT
1 TGTTTGAATCGATTCATTAT
** * *
65915046 TGTTTGAATTAATTCTTTGT
1 TGTTTGAATCGATTCATTAT
65915066 TGTTT-AACTCGATTCA
1 TGTTTGAA-TCGATTCA
65915082 AAACCCAACA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
19 2 0.04
20 44 0.96
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
TGTTTGAATCGATTCATTAT
Found at i:65915051 original size:40 final size:40
Alignment explanation
Indices: 65915006--65915081 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
65914996 AATCTTTTGC
* *
65915006 TGTTTGAATCGATTGTTTATTGTTTGAA-TCGATTCATTAT
1 TGTTTGAATCAATTCTTTATTGTTT-AACTCGATTCATTAT
* *
65915046 TGTTTGAATTAATTCTTTGTTGTTTAACTCGATTCA
1 TGTTTGAATCAATTCTTTATTGTTTAACTCGATTCA
65915082 AAACCCAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (40 bp):
TGTTTGAATCAATTCTTTATTGTTTAACTCGATTCATTAT
Found at i:65919126 original size:21 final size:20
Alignment explanation
Indices: 65919056--65919168 Score: 82
Period size: 20 Copynumber: 5.3 Consensus size: 20
65919046 TTGTAGCCAC
*
65919056 TTTGAATCGATTGTTTGTTG
1 TTTGAATCGATTTTTTGTTG
* *
65919076 TTTAAATCAATTCTTTGTTTCGTTG
1 TTTGAATCGA---TTT-TTT-GTTG
* *
65919101 ATTGACTCGATTCTTTTGTTG
1 TTTGAATCGATT-TTTTGTTG
*
65919122 TTTGAATCGATTTTTTATTG
1 TTTGAATCGATTTTTTGTTG
* ** *
65919142 TTTGAATTGATTCATTATTG
1 TTTGAATCGATTTTTTGTTG
65919162 TTTGAAT
1 TTTGAAT
65919169 AAATTCTTTG
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
20 39 0.53
21 14 0.19
22 5 0.07
23 3 0.04
24 3 0.04
25 10 0.14
ACGTcount: A:0.19, C:0.08, G:0.17, T:0.56
Consensus pattern (20 bp):
TTTGAATCGATTTTTTGTTG
Found at i:65919174 original size:20 final size:20
Alignment explanation
Indices: 65919136--65919174 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65919126 AATCGATTTT
**
65919136 TTATTGTTTGAATTGATTCA
1 TTATTGTTTGAATAAATTCA
65919156 TTATTGTTTGAATAAATTC
1 TTATTGTTTGAATAAATTC
65919175 TTTGTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.13, T:0.54
Consensus pattern (20 bp):
TTATTGTTTGAATAAATTCA
Found at i:65920518 original size:16 final size:16
Alignment explanation
Indices: 65920497--65920528 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
65920487 AACAAAGTGA
65920497 ATTCAACTCACTTTTT
1 ATTCAACTCACTTTTT
65920513 ATTCAACTCACTTTTT
1 ATTCAACTCACTTTTT
65920529 CATAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTCAACTCACTTTTT
Found at i:65923737 original size:21 final size:22
Alignment explanation
Indices: 65923711--65923757 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65923701 CTCTGCTCAA
*
65923711 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
65923732 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
65923754 ACTC
1 ACTC
65923758 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:65929016 original size:12 final size:12
Alignment explanation
Indices: 65928999--65929023 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65928989 GGTGTTCATT
65928999 CGGTTAACCGAC
1 CGGTTAACCGAC
65929011 CGGTTAACCGAC
1 CGGTTAACCGAC
65929023 C
1 C
65929024 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:65929168 original size:9 final size:9
Alignment explanation
Indices: 65929154--65929230 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
65929144 TTTGGTTAAA
65929154 AATTACCCG
1 AATTACCCG
65929163 AATTACCCG
1 AATTACCCG
*
65929172 AATTATCCG
1 AATTACCCG
*
65929181 AATTAACCG
1 AATTACCCG
*
65929190 AATTAACCG
1 AATTACCCG
65929199 AATTA-CCG
1 AATTACCCG
*
65929207 AAAAATACCCG
1 --AATTACCCG
65929218 AATTACCCG
1 AATTACCCG
65929227 AATT
1 AATT
65929231 TTTTTTATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
8 3 0.05
9 51 0.84
10 4 0.07
11 3 0.05
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:65929192 original size:27 final size:27
Alignment explanation
Indices: 65929153--65929230 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
65929143 TTTTGGTTAA
65929153 AAATTACCCGAATTACCCGAATTATCCG
1 AAATTACCCGAATTACCCGAATTA-CCG
* *
65929181 -AATTAACCGAATTAACCGAATTACCG
1 AAATTACCCGAATTACCCGAATTACCG
*
65929207 AAAAATACCCGAATTACCCGAATT
1 -AAATTACCCGAATTACCCGAATT
65929231 TTTTTTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 3 0.07
27 21 0.49
28 19 0.44
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (27 bp):
AAATTACCCGAATTACCCGAATTACCG
Found at i:65932924 original size:23 final size:23
Alignment explanation
Indices: 65932896--65932941 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65932886 CAATACTCAA
65932896 AACAAAACATCTTCCAATTGGAC
1 AACAAAACATCTTCCAATTGGAC
65932919 AACAAAACATCTTCCAATTGGAC
1 AACAAAACATCTTCCAATTGGAC
65932942 TTGATAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (23 bp):
AACAAAACATCTTCCAATTGGAC
Found at i:65937991 original size:20 final size:19
Alignment explanation
Indices: 65937958--65938029 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
65937948 CTCTCACAAC
65937958 AAAAATTACAAAATAATTAT
1 AAAAATT-CAAAATAATTAT
*
65937978 AAATAATTCAAAATAATTTT
1 AAA-AATTCAAAATAATTAT
* * *
65937998 AAAATTTTAAAATATTTAT
1 AAAAATTCAAAATAATTAT
65938017 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
65938030 ATTATATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.37
20 23 0.53
21 4 0.09
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTAT
Found at i:65938040 original size:25 final size:25
Alignment explanation
Indices: 65938012--65938061 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
65938002 TTTTAAAATA
* *
65938012 TTTATAAAAATTTCAAAAAT-TATAT
1 TTTA-AAAAAATTAAAAAATATATAT
65938037 TTTAAAAAAATTAAAAAATATATAT
1 TTTAAAAAAATTAAAAAATATATAT
65938062 AAAAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTAAAAAAATTAAAAAATATATAT
Found at i:65938052 original size:23 final size:25
Alignment explanation
Indices: 65938012--65938059 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
65938002 TTTTAAAATA
* *
65938012 TTTATAAAAATTTCAAAAATTATAT
1 TTTATAAAAAATTCAAAAAATATAT
65938037 TTTA-AAAAAATT-AAAAAATATAT
1 TTTATAAAAAATTCAAAAAATATAT
65938060 ATAAAAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 7 0.33
25 4 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTATAAAAAATTCAAAAAATATAT
Found at i:65938066 original size:23 final size:24
Alignment explanation
Indices: 65938017--65938066 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
65938007 AAATATTTAT
* * * *
65938017 AAAAATTTCAAAAATTATATTTTA
1 AAAAAATTCAAAAAATATATATAA
65938041 AAAAAATT-AAAAAATATATATAA
1 AAAAAATTCAAAAAATATATATAA
65938064 AAA
1 AAA
65938067 GTTAAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAAATTCAAAAAATATATATAA
Found at i:65944863 original size:11 final size:12
Alignment explanation
Indices: 65944849--65944885 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
65944839 TAGCAACTCA
65944849 ATTTT-ATAACT
1 ATTTTGATAACT
65944860 ATTTTGATAA-T
1 ATTTTGATAACT
*
65944871 ATTTTGATTACT
1 ATTTTGATAACT
65944883 ATT
1 ATT
65944886 ATTCCATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (12 bp):
ATTTTGATAACT
Found at i:65952082 original size:7 final size:8
Alignment explanation
Indices: 65952065--65952090 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
65952055 TCGCATTTCC
65952065 TTTTTATT
1 TTTTTATT
65952073 TTTTTATT
1 TTTTTATT
65952081 TTTTTATT
1 TTTTTATT
65952089 TT
1 TT
65952091 GTATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:65952930 original size:17 final size:16
Alignment explanation
Indices: 65952893--65952933 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
65952883 ATTACATAGG
65952893 TTTTATTTATTCATCT
1 TTTTATTTATTCATCT
65952909 TTTTATTTGATTC-TCT
1 TTTTATTT-ATTCATCT
65952925 TATTTATTT
1 T-TTTATTT
65952934 TAACCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTATTTATTCATCT
Found at i:65952989 original size:24 final size:27
Alignment explanation
Indices: 65952952--65953001 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
65952942 ATTATTGCAA
65952952 TATTGTTCAAGCA-TTT-AATATTTGT
1 TATTGTTCAAGCATTTTCAATATTTGT
*
65952977 TATT-TTCATGCATTTTCAATATTTG
1 TATTGTTCAAGCATTTTCAATATTTG
65953002 GATCTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 8 0.36
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (27 bp):
TATTGTTCAAGCATTTTCAATATTTGT
Found at i:65959827 original size:16 final size:16
Alignment explanation
Indices: 65959806--65959847 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
65959796 ATATTATCTG
65959806 GCTCGCCACTCCACTA
1 GCTCGCCACTCCACTA
* *
65959822 GCTCGCCACTCCTCTT
1 GCTCGCCACTCCACTA
65959838 GCTCGCCACT
1 GCTCGCCACT
65959848 TTCCCAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.50, G:0.14, T:0.24
Consensus pattern (16 bp):
GCTCGCCACTCCACTA
Found at i:65961760 original size:54 final size:54
Alignment explanation
Indices: 65961693--65962638 Score: 754
Period size: 54 Copynumber: 17.5 Consensus size: 54
65961683 CTCAATTTAC
* * * ***
65961693 TACTTACAGGATTTTTCGAATCTTGCAGTTTGCCGATTTAAGATTATAACCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * *
65961747 TACTTACAAGATTTTTCGAAACTTGCAACTCGTCAATTTAATATCACAACCTTG
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
*** * * * *
65961801 TACTTACAAGATTTTTCGAATCTTATGGCTCACTGATTTAAGATCACAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * * *
65961855 TACTTATAAGATTTTTTGAATGTTGTAGTTGGTCGATTTAAAATCGCAACCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* ** * *
65961909 TACTTACAAGATTTTTCGAATCTTGC-GACTCACTAATTTAATATCGCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAG-CTCGCCGATTTAAGATCGCAACCTTA
* * * * * * * ** *
65961963 TACTTACAGGATTTTTTGACTCTTGCAACTCACCGATTTTAGATCACATGCTTG
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * *
65962017 TACTTACACGATTTTTTGAATCTTAG-GGCTCGTCGATTTAAAATCGCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTT-GCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * **
65962071 TACTTACAAGATTTTTTGAATCTTGCGGCTCGCCGATTTAAGATTGCAGTCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* ** * * *
65962125 TACTTACAAGATTTTTCAAATCTTGTGGCTCGCCGATTTAATATTGCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
*** * * * * * *
65962179 TACTTACAAGATTTTTCGAATCTTATGGTTGGCCAATTTAGGATCTCAAACTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * *
65962233 TACTTACAAGATTTTTTGAATCTTGCAACTTGCCGATTTAAGATCACACCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * * *
65962287 TACTTATAGGATTTTTCAAATCTTGCAGTTTGTCGATTTAAGATTGCAACATTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
65962341 TACTTACAAGACTTTTT-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
1 TACTTACAAGA-TTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * *
65962395 TACTTATAAGA-TTTTCTGAATCTTACGGTTGGCCAATTTAATATCGCAACCTTA
1 TACTTACAAGATTTTTC-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * *
65962449 TACTTACAATA-TTTTCTAAATCTTGCGGCTCACCAATTTAAGATCGCAGCCTTA
1 TACTTACAAGATTTTTC-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
** * * * ** * * *
65962503 TACTTGTAGGA-TTTTCTGAATCTTGC-GATTTGCATATTTAAGACCACAATCTTA
1 TACTTACAAGATTTTTC-GAATCTTGCAG-CTCGCCGATTTAAGATCGCAACCTTA
* * *** * *
65962557 TACTTACAAGATTTTTTGAATCTTGCGGCTTATCGATTTAAGATCTCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* *
65962611 TACTTACAAGATTTCTAGAATCTTGCAG
1 TACTTACAAGATTTTTCGAATCTTGCAG
65962639 TTGCTGGTTT
Statistics
Matches: 712, Mismatches: 170, Indels: 20
0.79 0.19 0.02
Matches are distributed among these distances:
52 4 0.01
53 3 0.00
54 694 0.97
55 11 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (54 bp):
TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
Found at i:65961894 original size:108 final size:108
Alignment explanation
Indices: 65961693--65962653 Score: 843
Period size: 108 Copynumber: 8.9 Consensus size: 108
65961683 CTCAATTTAC
* * * ** *** *
65961693 TACTTACAGGATTTTTCGAATCTTGCAGTTTGCCGATTTAAGATTATAACCTTATACTTACAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * ** * * * * *
65961758 TTTTTCGAAACTTGCAACTCGTCAATTTAATATCACAACCTTG
66 TTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
** * * *
65961801 TACTTACAAGATTTTTCGAATCTTATGGCTCACTGATTTAAGATCACAGCCTTATACTTATAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * * * *
65961866 TTTTTTGAATGTTGTAGTTGGTCGATTTAAAATCGCAACCTTA
66 TTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
* ** * *
65961909 TACTTACAAGATTTTTCGAATCTTGCGACTCACTAATTTAATATCGCAGCCTTATACTTACAGGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
* ** * * * ** *
65961974 TTTTTTGACTCTTGCAACTCACCGATTTTAGATCACATGCTTG
66 TTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
* * ** *
65962017 TACTTACACGATTTTTTGAATCTTAG-GGCTCGTCGATTTAAAATCGCAGCCTTATACTTACAAG
1 TACTTACAAGATTTTTCGAATCTT-GCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAG
* * * **
65962081 ATTTTTTGAATCTTGCGGCTCGCCGATTTAAGATTGCAGTCTTA
65 ATTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
* * * * *
65962125 TACTTACAAGATTTTTCAAATCTTGTGGCTCGCCGATTTAATATTGCAGCCTTATACTTACAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
* *** * * * * *
65962190 TTTTTCGAATCTTATGGTTGGCCAATTTAGGATCTCAAACTTA
66 TTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
* ** ** * * * *
65962233 TACTTACAAGATTTTTTGAATCTTGCAACTTGCCGATTTAAGATCACACCCTTATACTTATAGGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
** * * * *
65962298 TTTTTCAAATCTTGCAGTTTGTCGATTTAAGATTGCAACATTA
66 TTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
* * * *
65962341 TACTTACAAGACTTTTT-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTATACTTATAAG
1 TACTTACAAGA-TTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAG
* * * * * *
65962405 ATTTTCTGAATCTTACGGTTGGCCAATTTAATATCGCAACCTTA
65 ATTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
* * * ** *
65962449 TACTTACAATA-TTTTCTAAATCTTGCGGCTCACCAATTTAAGATCGCAGCCTTATACTTGTAGG
1 TACTTACAAGATTTTTC-GAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAG
* * ** * * *
65962513 ATTTTCTGAATCTTGC-GATTTGCATATTTAAGACCACAATCTTA
65 ATTTTTTGAATCTTGCAG-TTCGCCGATTTAAGATCGCAACCTTA
* * * *
65962557 TACTTACAAGATTTTTTGAATCTTGCGGCTTATCGATTTAAGATCTCAGCCTTATACTTACAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * * *
65962622 TTTCTAGAATCTTGCAGTT-GCTGGTTTAAGAT
66 TTTTTTGAATCTTGCAGTTCGCCGATTTAAGAT
65962654 TACAATTTTC
Statistics
Matches: 691, Mismatches: 154, Indels: 17
0.80 0.18 0.02
Matches are distributed among these distances:
106 4 0.01
107 11 0.02
108 665 0.96
109 11 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (108 bp):
TACTTACAAGATTTTTCGAATCTTGCGGCTCACCGATTTAAGATCGCAGCCTTATACTTACAAGA
TTTTTTGAATCTTGCAGTTCGCCGATTTAAGATCGCAACCTTA
Found at i:65961969 original size:162 final size:161
Alignment explanation
Indices: 65961693--65962624 Score: 837
Period size: 162 Copynumber: 5.8 Consensus size: 161
65961683 CTCAATTTAC
* * * ***
65961693 TACTTACAGGATTTTTCGAATCTTGCAGTTTGCCGATTTAAGATTATAACCTTATACTTACAAGA
1 TACTTACAAGATTTTTTGAATCTTG-AGTTCGCCGATTTAAGATCGCAACCTTATACTTACAAGA
* * * * * * * *
65961758 TTTTTCGAAACTTGCAACTCGTCAATTTAATATCACAACCTTGTACTTACAAGATTTTTCGAATC
65 TTTTTCGAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCAAATC
** * *
65961823 TTATGGCTCACTGATTTAAGATCACAGCCTTA
130 TTGCGGCTCACCGATTTAAGATCGCAGCCTTA
* * * * *
65961855 TACTTATAAGATTTTTTGAATGTTGTAGTTGGTCGATTTAAAATCGCAACCTTATACTTACAAGA
1 TACTTACAAGATTTTTTGAATCTTG-AGTTCGCCGATTTAAGATCGCAACCTTATACTTACAAGA
* * * * ** *
65961920 TTTTTCGAATCTTGCGACTCACTAATTTAATATCGCAGCCTTATACTTACAGGATTTTTTGACTC
65 TTTTTCGAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCAAATC
** * * *
65961985 TTGCAACTCACCGATTTTAGATCACATG-CTTG
130 TTGCGGCTCACCGATTTAAGATCGCA-GCCTTA
* * * * * *
65962017 TACTTACACGATTTTTTGAATCTTAGGGCTCGTCGATTTAAAATCGCAGCCTTATACTTACAAGA
1 TACTTACAAGATTTTTTGAATCTT-GAGTTCGCCGATTTAAGATCGCAACCTTATACTTACAAGA
* * * * *
65962082 TTTTTTGAATCTTGCGGCTCGCCGATTTAAGATTGCAGTCTTATACTTACAAGATTTTTCAAATC
65 TTTTTCGAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCAAATC
* * * *
65962147 TTGTGGCTCGCCGATTTAATATTGCAGCCTTA
130 TTGCGGCTCACCGATTTAAGATCGCAGCCTTA
* * * * * *
65962179 TACTTACAAGATTTTTCGAATCTT-ATGGTTGGCCAATTTAGGATCTCAAACTTATACTTACAAG
1 TACTTACAAGATTTTTTGAATCTTGA--GTTCGCCGATTTAAGATCGCAACCTTATACTTACAAG
* * * * * * * *
65962243 ATTTTTTGAATCTTGCAACTTGCCGATTTAAGATCACACCCTTATACTTATAGGATTTTTCAAAT
64 ATTTTTCGAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCAAAT
* * *** * * *
65962308 CTTGCAGTTTGTCGATTTAAGATTGCAACATTA
129 CTTGCGGCTCACCGATTTAAGATCGCAGCCTTA
* * *
65962341 TACTTACAAGACTTTTTGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTATACTTATAAGA
1 TACTTACAAGATTTTTTGAATCTTG-AGTTCGCCGATTTAAGATCGCAACCTTATACTTACAAGA
* ** * * * *
65962406 -TTTTCTGAATCTTACGGTTGGCCAATTTAATATCGCAACCTTATACTTACAATA-TTTTCTAAA
65 TTTTTC-GAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTC-AAA
*
65962469 TCTTGCGGCTCACCAATTTAAGATCGCAGCCTTA
128 TCTTGCGGCTCACCGATTTAAGATCGCAGCCTTA
** * * * * ** * * *
65962503 TACTTGTAGGATTTTCTGAATCTTGCGATTTGCATATTTAAGACCACAATCTTATACTTACAAGA
1 TACTTACAAGATTTTTTGAATCTTGAG-TTCGCCGATTTAAGATCGCAACCTTATACTTACAAGA
* * *** * *
65962568 TTTTTTGAATCTTGCGGCTTATCGATTTAAGATCTCAGCCTTATACTTACAAGATTT
65 TTTTTCGAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTT
65962625 CTAGAATCTT
Statistics
Matches: 616, Mismatches: 142, Indels: 23
0.79 0.18 0.03
Matches are distributed among these distances:
161 11 0.02
162 596 0.97
163 8 0.01
164 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (161 bp):
TACTTACAAGATTTTTTGAATCTTGAGTTCGCCGATTTAAGATCGCAACCTTATACTTACAAGAT
TTTTCGAATCTTGCGACTCGCCAATTTAAGATCGCAGCCTTATACTTACAAGATTTTTCAAATCT
TGCGGCTCACCGATTTAAGATCGCAGCCTTA
Found at i:65962707 original size:94 final size:94
Alignment explanation
Indices: 65962594--65962781 Score: 270
Period size: 94 Copynumber: 2.0 Consensus size: 94
65962584 GCTTATCGAT
* * ***
65962594 TTAAGATCTCAGCCTTATACTTACAAGATTTCTAGAATCTTGCAGTTGCTGGTTTAAGATTACAA
1 TTAAGATCTCAGCCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTACAA
*
65962659 TTTTCTCATGCAATTGATTTCAACTTTAA
66 CTTTCTCATGCAATTGATTTCAACTTTAA
* *
65962688 TTAAGATC-CTAGTCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTGCA
1 TTAAGATCTC-AGCCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTACA
* *
65962752 ACTTTCTCATGCAGTTGATTTCAATTTTAA
65 ACTTTCTCATGCAATTGATTTCAACTTTAA
65962782 AGTAGCAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 82 0.99
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (94 bp):
TTAAGATCTCAGCCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTACAA
CTTTCTCATGCAATTGATTTCAACTTTAA
Found at i:65962903 original size:22 final size:23
Alignment explanation
Indices: 65962878--65962928 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
65962868 TTGTTCGCAT
*
65962878 TATTTT-ACAATACAGTTTGCAA
1 TATTTTCACAATACAGCTTGCAA
*
65962900 TATTTTCACAATACAGCTTGCAG
1 TATTTTCACAATACAGCTTGCAA
65962923 TATTTT
1 TATTTT
65962929 GTAGTACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (23 bp):
TATTTTCACAATACAGCTTGCAA
Found at i:65963502 original size:32 final size:31
Alignment explanation
Indices: 65963448--65963549 Score: 125
Period size: 32 Copynumber: 3.2 Consensus size: 31
65963438 TTTTTAGACG
*
65963448 TTGATTAGTA-TAATCCTTGAAAATATTGGGA
1 TTGATTAGTACAAATCCTTGAAAA-ATTGGGA
*
65963479 TTGATTAGTACAAATCCTGGAAAAAATTGGGA
1 TTGATTAGTACAAATCCTTG-AAAAATTGGGA
* * *
65963511 TTGATTAATACAAACCCTTGAAGAAATTAGGA
1 TTGATTAGTACAAATCCTTGAA-AAATTGGGA
65963543 TTGATTA
1 TTGATTA
65963550 AAAATTTAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
31 12 0.19
32 46 0.74
33 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (31 bp):
TTGATTAGTACAAATCCTTGAAAAATTGGGA
Done.