Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 277 of 292
Found at i:79792834 original size:23 final size:23
Alignment explanation
Indices: 79792790--79792834 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
79792780 TTAAAATAAT
* *
79792790 AAAATTACATTTTTATTATTATA
1 AAAATTACAATTTAATTATTATA
*
79792813 AAAATTACAATTTAATTTTTAT
1 AAAATTACAATTTAATTATTAT
79792835 CTTCTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAATTACAATTTAATTATTATA
Found at i:79797559 original size:44 final size:44
Alignment explanation
Indices: 79797492--79797582 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
79797482 ATGAAGTTTT
79797492 TAATATATGTATATATATATGAAAACATTTTCACCTGAAAGCTG
1 TAATATATGTATATATATATGAAAACATTTTCACCTGAAAGCTG
* *
79797536 TAATATATGTATATATATGTGAAAACATTTTCACGTGAAAGCTG
1 TAATATATGTATATATATATGAAAACATTTTCACCTGAAAGCTG
79797580 TAA
1 TAA
79797583 AAAGTGATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (44 bp):
TAATATATGTATATATATATGAAAACATTTTCACCTGAAAGCTG
Found at i:79806033 original size:24 final size:25
Alignment explanation
Indices: 79806000--79806066 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
79805990 AAAGTTGATC
*
79806000 ATATAAAAAATTTAATAAA-A-TAAA
1 ATATATAAAA-TTAATAAATATTAAA
*
79806024 ATATATAAAATTATTAAATATTAAA
1 ATATATAAAATTAATAAATATTAAA
* *
79806049 ATAATATAATATAAATAA
1 AT-ATATAAAATTAATAA
79806067 TTTTTTAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 7 0.20
24 10 0.29
25 6 0.17
26 12 0.34
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATATAAAATTAATAAATATTAAA
Found at i:79806044 original size:15 final size:15
Alignment explanation
Indices: 79806014--79806067 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
79806004 AAAAAATTTA
*
79806014 ATAAAATAAAAT-AT
1 ATAAAATAATATAAT
*
79806028 ATAAAATTAT-TAAAT
1 ATAAAATAATAT-AAT
79806043 ATTAAAATAATATAAT
1 A-TAAAATAATATAAT
79806059 AT-AAATAAT
1 ATAAAATAAT
79806068 TTTTTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 1 0.03
14 15 0.45
15 4 0.12
16 12 0.36
17 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAAAATAATATAAT
Found at i:79806264 original size:29 final size:30
Alignment explanation
Indices: 79806204--79806266 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
79806194 ATAAAAATAT
* *** *
79806204 AAAATTATTTTTTATCTTTATTTTAAGGAA
1 AAAATTATTTTCTATCTTTATACGAAGAAA
79806234 AAAATTATTTTCTATCTTTA-ACGAAGAAA
1 AAAATTATTTTCTATCTTTATACGAAGAAA
79806263 AAAA
1 AAAA
79806267 CTAAATTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (30 bp):
AAAATTATTTTCTATCTTTATACGAAGAAA
Found at i:79809152 original size:61 final size:60
Alignment explanation
Indices: 79809087--79809218 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 60
79809077 TAATTTTTTT
* * ** * * **
79809087 TTGAAATTTTTAGAATTAGAACTAAATTGATAAATTTTGTAAATATTGAGGGTTAAATTTA
1 TTGAAATTTTTAAAATTAGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAA-TTA
*
79809148 TTGAAATTTTTAAAATTTGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAATTA
1 TTGAAATTTTTAAAATTAGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAATTA
*
79809208 TTGAATTTTTT
1 TTGAAATTTTT
79809219 TATGTTTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 13 0.21
61 48 0.79
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (60 bp):
TTGAAATTTTTAAAATTAGAACAAAAACGACAAATTTTGTAAATAATGAGGACTAAATTA
Found at i:79812589 original size:26 final size:26
Alignment explanation
Indices: 79812560--79812669 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
79812550 TGATACAAAT
79812560 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
79812586 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79812612 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
79812638 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79812664 TGATAA
1 TGATAA
79812670 GAATTCATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79814423 original size:21 final size:21
Alignment explanation
Indices: 79814397--79814444 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
79814387 ATTCCCCACA
79814397 TGGAGTGTA-TGGCTGGTAGGG
1 TGGAGTGTAGTGGCTGGT-GGG
*
79814418 TGGAGTGTAGTGGTTGGTGGG
1 TGGAGTGTAGTGGCTGGTGGG
*
79814439 TTGAGT
1 TGGAGT
79814445 AGTCTCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.12, C:0.02, G:0.52, T:0.33
Consensus pattern (21 bp):
TGGAGTGTAGTGGCTGGTGGG
Found at i:79815846 original size:12 final size:12
Alignment explanation
Indices: 79815829--79815859 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
79815819 ACTCGGGGAA
79815829 GAGGCCGTGGTC
1 GAGGCCGTGGTC
79815841 GAGGCCGTGGTC
1 GAGGCCGTGGTC
79815853 GAGGCCG
1 GAGGCCG
79815860 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:79820772 original size:25 final size:26
Alignment explanation
Indices: 79820730--79820837 Score: 166
Period size: 25 Copynumber: 4.2 Consensus size: 26
79820720 TGATACAAAT
79820730 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
79820756 TGATAAT-GATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79820781 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79820807 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79820832 TGATAA
1 TGATAA
79820838 GAATTCATGT
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
25 47 0.62
26 29 0.38
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79820785 original size:51 final size:51
Alignment explanation
Indices: 79820730--79820837 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
79820720 TGATACAAAT
79820730 TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATATTCCA
* * * *
79820781 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATATTCCA
79820832 TGATAA
1 TGATAA
79820838 GAATTCATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATATTCCA
Found at i:79824354 original size:31 final size:32
Alignment explanation
Indices: 79824288--79824360 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
79824278 TAAAAAAATC
* *
79824288 AATTTGACTCTGTTTCAAAAAGTTAATGGTCA
1 AATTTGACTCTGTTTCAAAAAGTTAAAGCTCA
* *
79824320 AATTTGACTCT-TTTTAAAAGGTTAAAGACT-A
1 AATTTGACTCTGTTTCAAAAAGTTAAAG-CTCA
*
79824351 AATTTAACTC
1 AATTTGACTC
79824361 GATTGTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
AATTTGACTCTGTTTCAAAAAGTTAAAGCTCA
Found at i:79827858 original size:27 final size:26
Alignment explanation
Indices: 79827802--79827855 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
79827792 AGATTACTTG
* *
79827802 AATTTAATTACTCGTGATAAATTATTT
1 AATTTAATAACTCGTGATAAATGA-TT
79827829 AATTTAAATAACTCGTGATAAAGTGAT
1 AATTT-AATAACTCGTGATAAA-TGAT
79827856 AATATTTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 16 0.70
29 2 0.09
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (26 bp):
AATTTAATAACTCGTGATAAATGATT
Found at i:79830830 original size:5 final size:5
Alignment explanation
Indices: 79830814--79830844 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
79830804 TTGGGAAACA
*
79830814 AAAAT AACAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
79830845 TTTTGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:79832264 original size:23 final size:24
Alignment explanation
Indices: 79832228--79832277 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
79832218 TATTTATCCC
79832228 ATTTTGAATGAAAA-AT-ACATATA
1 ATTTTGAATGAAAAGATCA-ATATA
* *
79832251 ATTTTGTATTAAAAGATCAATATA
1 ATTTTGAATGAAAAGATCAATATA
79832275 ATT
1 ATT
79832278 ATTTTAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 12 0.52
24 10 0.43
25 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
ATTTTGAATGAAAAGATCAATATA
Found at i:79836058 original size:2 final size:2
Alignment explanation
Indices: 79836051--79836090 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
79836041 TTATTGTCAT
79836051 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79836091 AAAGAAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79836109 original size:13 final size:13
Alignment explanation
Indices: 79836091--79836118 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
79836081 TATATATATA
79836091 AAAGAAACAAAAG
1 AAAGAAACAAAAG
79836104 AAAGAAACAAAAG
1 AAAGAAACAAAAG
79836117 AA
1 AA
79836119 TAAAAAGAGG
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:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:79837125 original size:15 final size:15
Alignment explanation
Indices: 79837102--79837151 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
79837092 TTTATTGAAT
79837102 TTATATTGATTAAAA
1 TTATATTGATTAAAA
* * *
79837117 TTATTTTGATTGAAT
1 TTATATTGATTAAAA
*
79837132 TTATATTGATT-GAA
1 TTATATTGATTAAAA
79837146 TTATAT
1 TTATAT
79837152 AATATATATG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (15 bp):
TTATATTGATTAAAA
Found at i:79837553 original size:23 final size:23
Alignment explanation
Indices: 79837523--79837609 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
79837513 GCTTTATCGA
* *
79837523 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
79837546 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
79837567 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* * *
79837589 T-AGACACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
79837610 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 34 0.63
22 2 0.04
23 18 0.33
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:79837570 original size:21 final size:22
Alignment explanation
Indices: 79837535--79837586 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
79837525 AGGCACTTTA
79837535 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
79837558 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
79837579 TGTGTCGT
1 TGTGTCGT
79837587 TTTAGACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.69
23 9 0.31
ACGTcount: A:0.12, C:0.25, G:0.29, T:0.35
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:79844832 original size:21 final size:22
Alignment explanation
Indices: 79844803--79844849 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
79844793 AGTTGTAAAT
*
79844803 TGAATACTAATTGGCAGACCTA
1 TGAATACTAATTCGCAGACCTA
*
79844825 TGAA-ACTAATTCGTAGACCTA
1 TGAATACTAATTCGCAGACCTA
79844846 TGAA
1 TGAA
79844850 CCTATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (22 bp):
TGAATACTAATTCGCAGACCTA
Found at i:79845124 original size:6 final size:6
Alignment explanation
Indices: 79845113--79845138 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
79845103 TATGACGAAT
79845113 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
79845139 AATGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:79846634 original size:31 final size:32
Alignment explanation
Indices: 79846568--79846640 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
79846558 TAAAAAAATC
* *
79846568 AATTTGACTCTGTTTCAAAAAGTTAATGGTCA
1 AATTTGACTCTGTTTCAAAAAGTTAAAGCTCA
* *
79846600 AATTTGACTCT-TTTTAAAAGGTTAAAGACT-A
1 AATTTGACTCTGTTTCAAAAAGTTAAAG-CTCA
*
79846631 AATTTAACTC
1 AATTTGACTC
79846641 GATTGTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
AATTTGACTCTGTTTCAAAAAGTTAAAGCTCA
Found at i:79856408 original size:2 final size:2
Alignment explanation
Indices: 79856401--79856446 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
79856391 CAAATTTAAC
79856401 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79856443 TA TA
1 TA TA
79856447 GCATACCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79864336 original size:19 final size:19
Alignment explanation
Indices: 79864302--79864338 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79864292 TAATTAGAGT
*
79864302 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAATTTAGC
*
79864321 TTAATTAAGAGTATTTAG
1 TTAATTAAGAGAATTTAG
79864339 GAAAATGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTAATTAAGAGAATTTAGC
Found at i:79864581 original size:19 final size:19
Alignment explanation
Indices: 79864559--79864597 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
79864549 TTTTAAATAG
*
79864559 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
79864578 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
79864597 A
1 A
79864598 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:79865048 original size:15 final size:15
Alignment explanation
Indices: 79865000--79865049 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
79864990 TTTATCAAAT
79865000 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
79865015 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
79865030 TTATATTGATTGAAA
1 TTATATTGATTGAAA
79865045 TTATA
1 TTATA
79865050 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:79865709 original size:18 final size:19
Alignment explanation
Indices: 79865688--79865728 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
79865678 AATGAAATGA
79865688 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
79865706 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
79865725 GAAA
1 GAAA
79865729 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:79869678 original size:30 final size:30
Alignment explanation
Indices: 79869644--79869712 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
79869634 CTAGCCTTTG
*
79869644 CCACCACCAATTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
79869674 CCACCACCAACTCCACTAGCCGCACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
79869704 CCACCACCA
1 CCACCACCA
79869713 CTTGTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.26, C:0.51, G:0.07, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:79870284 original size:27 final size:26
Alignment explanation
Indices: 79870254--79870406 Score: 89
Period size: 25 Copynumber: 5.7 Consensus size: 26
79870244 ATTCTAAATT
* *
79870254 CTATATTACGTATATATATTTTCTATA
1 CTATATTATGTATATATATTTT-AATA
* *
79870281 CTATTTTATGTATATAT-CTTTAATA
1 CTATATTATGTATATATATTTTAATA
* * * *
79870306 CTATATTATTTATATATATATATATTTT
1 CTATATTATGTATATATAT-TTTA-ATA
* *
79870334 CTACATGTTATCTTATGTATATATTTT-A-A
1 CT--ATATTAT-GTA--TATATATTTTAATA
* *
79870363 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTTAATA
*
79870388 CTATATTATGTACATATAT
1 CTATATTATGTATATATAT
79870407 AAATATTATG
Statistics
Matches: 96, Mismatches: 19, Indels: 23
0.70 0.14 0.17
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 34 0.35
26 6 0.06
27 24 0.25
28 3 0.03
29 2 0.02
30 6 0.06
31 3 0.03
32 2 0.02
33 7 0.07
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (26 bp):
CTATATTATGTATATATATTTTAATA
Found at i:79870294 original size:25 final size:25
Alignment explanation
Indices: 79870187--79870322 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
79870177 CCTTTTTTGT
* *
79870187 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCTTTAATACTA
* *
79870210 TATTATATATATATTCTTT--TAATA
1 TATTATGTATATA-TCTTTAATACTA
** * *
79870234 TATTGGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCTTTAATACTA
* * *
79870257 TATTACGTATATATATTTTCTATACTA
1 TATTATGTATATAT-CTTT-AATACTA
*
79870284 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCTTTAATACTA
*
79870309 TATTATTTATATAT
1 TATTATGTATATAT
79870323 ATATATATTT
Statistics
Matches: 84, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 19 0.23
24 19 0.23
25 20 0.24
26 6 0.07
27 17 0.20
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.56
Consensus pattern (25 bp):
TATTATGTATATATCTTTAATACTA
Found at i:79870624 original size:37 final size:35
Alignment explanation
Indices: 79870559--79870628 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
79870549 TTATATATAG
79870559 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
79870596 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
79870629 TTTAATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:79873905 original size:26 final size:26
Alignment explanation
Indices: 79873869--79873952 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
79873859 CATGTAATTC
79873869 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
79873895 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
79873921 TTATCATGGAACATTTACCCAACCTA
1 TTATCATGAAACATTTACCTAACCCA
79873947 TTATCA
1 TTATCA
79873953 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:79879713 original size:26 final size:26
Alignment explanation
Indices: 79879675--79879782 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
79879665 ACATGAATTC
79879675 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
79879701 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
79879727 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
79879752 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
79879777 TTATCA
1 TTATCA
79879783 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
24 13 0.17
25 18 0.24
26 45 0.59
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:79879782 original size:50 final size:52
Alignment explanation
Indices: 79879675--79879782 Score: 202
Period size: 50 Copynumber: 2.1 Consensus size: 52
79879665 ACATGAATTC
79879675 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
79879727 TTATCATGAAACATTTACCTAA-CCATTATCAT-GAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
79879777 TTATCA
1 TTATCA
79879783 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 24 0.43
51 10 0.18
52 22 0.39
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:79885383 original size:13 final size:13
Alignment explanation
Indices: 79885365--79885396 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79885355 TAACAGAGGG
79885365 AAGAGACCAACGA
1 AAGAGACCAACGA
79885378 AAGAGACCAACGA
1 AAGAGACCAACGA
79885391 AAGAGA
1 AAGAGA
79885397 AGTATACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.19, G:0.25, T:0.00
Consensus pattern (13 bp):
AAGAGACCAACGA
Found at i:79889129 original size:1 final size:1
Alignment explanation
Indices: 79889123--79889147 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
79889113 TAACCAACCC
79889123 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
79889148 CCTAATCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:79889351 original size:22 final size:24
Alignment explanation
Indices: 79889325--79889373 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
79889315 TATTTTGGAG
79889325 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
79889347 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
79889371 AGA
1 AGA
79889374 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:79889365 original size:24 final size:24
Alignment explanation
Indices: 79889333--79889383 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
79889323 AGAGAAGAAA
79889333 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
79889357 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
79889381 TTT
1 TTT
79889384 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:79889382 original size:21 final size:22
Alignment explanation
Indices: 79889325--79889383 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
79889315 TATTTTGGAG
*
79889325 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
79889347 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGA--TTTTTTGAGATTCA
* *
79889371 AGAGGGGATTTTT
1 AGAAGAGATTTTT
79889384 CTTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:79889869 original size:3 final size:3
Alignment explanation
Indices: 79889861--79889892 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
79889851 TGCATTTTAA
79889861 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
79889893 GTGTATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:79889994 original size:3 final size:3
Alignment explanation
Indices: 79889986--79890018 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
79889976 TGTATTTCTA
79889986 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
79890019 ATGGTAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:79890144 original size:16 final size:15
Alignment explanation
Indices: 79890113--79890155 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
79890103 CCTTCATTCC
*
79890113 ATTATTATTATTACT
1 ATTATTATTTTTACT
79890128 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
79890144 ATCATTATTTTT
1 ATTATTATTTTT
79890156 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:79890276 original size:16 final size:16
Alignment explanation
Indices: 79890255--79890286 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
79890245 CTATTGTTAC
79890255 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
79890271 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
79890287 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:79890328 original size:11 final size:13
Alignment explanation
Indices: 79890298--79890329 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
79890288 TTATTATAAT
79890298 TTATTATTGTTAC
1 TTATTATTGTTAC
79890311 TTATTATT-TTAC
1 TTATTATTGTTAC
79890323 -TATTATT
1 TTATTATT
79890330 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Found at i:79890547 original size:3 final size:3
Alignment explanation
Indices: 79890286--79890528 Score: 83
Period size: 3 Copynumber: 81.3 Consensus size: 3
79890276 TTCTCATCAC
* * *
79890286 TAT TAT TAT AATT TAT TAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
79890332 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * *
79890377 CAT CAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * *
79890423 CAC TACT T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
** * * * * *
79890468 CGT CA- TAT TGT TAC TAT TAC TAT TA- TAT TAT TA- TGT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
79890512 CTTT TAC TAT TAT TAT T
1 -TAT TAT TAT TAT TAT T
79890529 GTTGTATTTT
Statistics
Matches: 175, Mismatches: 46, Indels: 38
0.68 0.18 0.15
Matches are distributed among these distances:
2 16 0.09
3 140 0.80
4 19 0.11
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:79890560 original size:22 final size:22
Alignment explanation
Indices: 79890496--79890568 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
79890486 ACTATTATAT
79890496 TATTA-TGTTATTATATCTTTTAC
1 TATTATTGTTATTATAT-TTTT-C
* * *
79890519 TATTATTATTGTTGTATTTTTC
1 TATTATTGTTATTATATTTTTC
*
79890541 TATTATTGTTATTATATTTTCC
1 TATTATTGTTATTATATTTTTC
79890563 T-TTATT
1 TATTATT
79890569 TTTGTATTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 5 0.12
22 20 0.48
23 9 0.21
24 8 0.19
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTATTGTTATTATATTTTTC
Found at i:79900373 original size:30 final size:30
Alignment explanation
Indices: 79900337--79900397 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
79900327 TTTGAAAAAT
79900337 AGAAATT-AAAAGACTCAACTCAACTCTCGC
1 AGAAATTAAAAAG-CTCAACTCAACTCTCGC
*
79900367 AGAAATTAAAAAGCTCAACTCACCTCTCGC
1 AGAAATTAAAAAGCTCAACTCAACTCTCGC
79900397 A
1 A
79900398 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAATTAAAAAGCTCAACTCAACTCTCGC
Found at i:79900672 original size:253 final size:248
Alignment explanation
Indices: 79900168--79900908 Score: 822
Period size: 253 Copynumber: 3.0 Consensus size: 248
79900158 AACAGACATT
*
79900168 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * ** * ** *
79900233 TTGATTTTTTGAAACT-TAACTTGAAAAGTAGATTTTGAAAATACCTCGATATGTGACTGGAGGT
66 TTGATTTTTTGAAAATAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
* *
79900297 TCAACTCATCTCTCGCAATATGAGTTGA--TTTTTGAAAAATAGAAATT-AAAAGACTCAACTCA
131 TCAACTCA-CTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAA-AAT-ACCTC-
* * * * * ****
79900359 ACTCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA
192 AGTGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTG
* * * *
79900421 AAAAATAGAAATTTAAAATAGCTCAGTACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
79900486 TTGA-TTTTTGAAAATAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
66 TTGATTTTTTGAAAATAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
* *
79900550 TCAACTCACATCTCGCAATGTGAGTTGATTTTTTTTGAAAAATATAAATTGAAAAAATACCTCAG
131 TCAACTCAC-TCTCGCAATATGAGTTGA-TTTTTTTGAAAAATAGAAATTGAAAAAATACCTCAG
79900615 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCTTTTG
194 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-TTTTG
* *
79900671 AAAGACAGAAATTGAAAACAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
** ** * ** * * *
79900736 TCAATTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAG
66 TTGA-TTTTTTGAAA-ATAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAG
* * * * *
79900801 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTG-ACAACAGAAATTG--AAATTACCTC-
129 GCTCAACTC-ACTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAATACCTCA
* * *
79900862 G-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
193 GTGTGTGAT-CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
79900909 GAAAAAGTAG
Statistics
Matches: 422, Mismatches: 53, Indels: 32
0.83 0.10 0.06
Matches are distributed among these distances:
246 1 0.00
247 41 0.10
248 1 0.00
249 47 0.11
250 64 0.15
251 11 0.03
252 29 0.07
253 196 0.46
254 4 0.01
255 4 0.01
256 20 0.05
257 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (248 bp):
AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGAAAATAGAAATTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGC
TCAACTCACTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAAAATACCTCAGTG
TGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTG
Found at i:79900892 original size:74 final size:75
Alignment explanation
Indices: 79900769--79900908 Score: 228
Period size: 74 Copynumber: 1.9 Consensus size: 75
79900759 TTGAAAAACG
* *
79900769 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCGGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTT
79900834 TTTTGACAACA
65 TTTTGACAACA
* *
79900845 GAAATTGAAATTACCTCGGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTT
79900909 GAAAAAGTAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 37 0.62
76 23 0.38
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTT
TTTGACAACA
Found at i:79901023 original size:123 final size:127
Alignment explanation
Indices: 79900836--79901150 Score: 435
Period size: 123 Copynumber: 2.5 Consensus size: 127
79900826 GTTGATTTTT
* * *
79900836 TTGAC-AACAGAAATTGAAATTACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
79900900 GCTGATTTTGAAAAAGTAGAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAG-TCAAT-
66 GCTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGTTCAATC
* * * * *
79900960 TT-A-AAATATAAATTAAAAATGCCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
79901023 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
66 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTCAATC
* * * **
79901085 TTGACAAACAGAAATTGAGATTACCTCATTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
79901150 G
66 G
79901151 TTGAAATTAA
Statistics
Matches: 164, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
122 2 0.01
123 103 0.63
124 5 0.03
125 2 0.01
126 1 0.01
127 51 0.31
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (127 bp):
TTGACAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTCAATC
Found at i:79901204 original size:72 final size:73
Alignment explanation
Indices: 79901054--79901248 Score: 227
Period size: 72 Copynumber: 2.7 Consensus size: 73
79901044 ATTAAAAGGT
* ** * * * * ** *
79901054 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATTGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
79901119 CCTGAGGC
66 CCCGAGGC
79901127 TCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTG
79901190 CCCCGAGGC
65 CCCCGAGGC
* * *
79901199 TCAACTCACCTCTAGCAATATGAGTTGAT-TTTGAAAAATAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAA
79901249 GGCTTAACTC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
71 7 0.07
72 67 0.64
73 31 0.30
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
CCCGAGGC
Found at i:79901209 original size:199 final size:187
Alignment explanation
Indices: 79900927--79901417 Score: 583
Period size: 199 Copynumber: 2.6 Consensus size: 187
79900917 AGAAATTAAA
* * * * * *
79900927 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAAATATAAATTAAAAATGCCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAACAAAAATTAAAAATACCTCAGCGT
* *
79900990 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGG-T
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-TAAAAATTAAAAGGCT
* * ** *
79901054 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATTGTGT
130 T-AACCCACCTCTCGCAATATGAG-TCAAT-TT-A-AAAC-GAAA---A-A-TACCTCAGCGTGC
*
79901119 CCTG
184 CCCG
*
79901123 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAA-ACAAAAATTAAAAATACCTCAGCG
*
79901188 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCT
65 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCT
* *
79901253 TAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATACCTCAGCGTGCCCCG
130 TAACCCACCTCTCGCAATATGAGTCAATTTAAAACGAAAAATACCTCAGCGTGCCCCG
* * ** * * *
79901311 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTGAAAACAACAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAACAAAAATTAAAAATACCTCAGCGT
* ** *
79901376 GTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
79901418 CCTTGAAAGC
Statistics
Matches: 260, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
187 59 0.23
188 48 0.18
189 1 0.00
190 1 0.00
193 3 0.01
194 4 0.02
195 1 0.00
196 29 0.11
197 4 0.02
198 41 0.16
199 69 0.27
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (187 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCTT
AACCCACCTCTCGCAATATGAGTCAATTTAAAACGAAAAATACCTCAGCGTGCCCCG
Found at i:79912226 original size:35 final size:35
Alignment explanation
Indices: 79912199--79912364 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
79912189 CATGGCAAAG
*
79912199 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
* *
79912234 TGTGAATTGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
79912269 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
79912309 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
79912344 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
79912365 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.01
35 77 0.69
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:79912289 original size:40 final size:40
Alignment explanation
Indices: 79912210--79912326 Score: 122
Period size: 40 Copynumber: 3.0 Consensus size: 40
79912200 GTGAAATGTA
*
79912210 GGTATGGTATCATCCATACTGAGTTGTG-AAT-T--GTA-
1 GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
* *
79912245 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
**
79912285 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTAT--AATCCATACTGAGTTGTGAAATGTAGGTAT
79912325 GG
1 GG
79912327 CATTTCCCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
35 26 0.38
36 3 0.04
37 1 0.01
38 3 0.04
39 3 0.04
40 33 0.48
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (40 bp):
GGTATGGTATAATCCATACTGAGTTGTGAAATGTAGGTAT
Found at i:79912322 original size:75 final size:75
Alignment explanation
Indices: 79912199--79912369 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
79912189 CATGGCAAAG
** * *
79912199 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAATTGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
79912258 CCATACTGAGC
65 CCATACCGAGC
79912269 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
79912334 CATACCGAGT
66 CATACCGAGC
**
79912344 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
79912370 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:79919272 original size:19 final size:19
Alignment explanation
Indices: 79919231--79919270 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
79919221 TTGTAGGTGG
79919231 AAATTTATTTATCTAAATA
1 AAATTTATTTATCTAAATA
79919250 AAATTTATATT-T-TAAATA
1 AAATTTAT-TTATCTAAATA
79919268 AAA
1 AAA
79919271 ATATTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.45
19 9 0.45
20 2 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATTTATTTATCTAAATA
Found at i:79928179 original size:25 final size:25
Alignment explanation
Indices: 79928147--79928203 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
79928137 AAAAAAAAAC
79928147 AAAA-AAAATTCA-CATAAAATATAT
1 AAAATAAAATTCATCATAAAA-ATAT
* **
79928171 AAAATAAAATTTATGTTAAAAATAT
1 AAAATAAAATTCATCATAAAAATAT
79928196 AAAATAAA
1 AAAATAAA
79928204 TAGAATATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.14
25 19 0.68
26 5 0.18
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (25 bp):
AAAATAAAATTCATCATAAAAATAT
Found at i:79933871 original size:2 final size:2
Alignment explanation
Indices: 79933864--79933888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79933854 TCCTCAATGT
79933864 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
79933889 TCAATAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79934695 original size:16 final size:16
Alignment explanation
Indices: 79934656--79934697 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
79934646 ATAGTAAAAA
*
79934656 TATAATTTTATTATTTT
1 TATAAGTTT-TTATTTT
*
79934673 AAT-AGTTTTTATTTT
1 TATAAGTTTTTATTTT
79934688 TATAAGTTTT
1 TATAAGTTTT
79934698 AAAGGATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.43
16 10 0.48
17 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TATAAGTTTTTATTTT
Found at i:79937834 original size:13 final size:13
Alignment explanation
Indices: 79937816--79937840 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79937806 GATCGATTCT
79937816 TTCAAATCTATAG
1 TTCAAATCTATAG
79937829 TTCAAATCTATA
1 TTCAAATCTATA
79937841 TTTTTTTTCC
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
TTCAAATCTATAG
Found at i:79940093 original size:2 final size:2
Alignment explanation
Indices: 79940086--79940126 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
79940076 TCTTGTTGTT
79940086 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
79940127 GTTAAAATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:79944767 original size:22 final size:21
Alignment explanation
Indices: 79944741--79944784 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
79944731 TCAAAGAAAG
79944741 AGAAAAAAAGATACCAGAAAAA
1 AGAAAAAAA-ATACCAGAAAAA
* * *
79944763 AGAAACAAATTACCAGTAAAA
1 AGAAAAAAAATACCAGAAAAA
79944784 A
1 A
79944785 TAAATGAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.09
Consensus pattern (21 bp):
AGAAAAAAAATACCAGAAAAA
Found at i:79952559 original size:30 final size:30
Alignment explanation
Indices: 79952525--79952593 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
79952515 CTATTTTTAT
*
79952525 TTCAGATCCTCCTTTATTTCTTTTTCCATA
1 TTCAGATCCCCCTTTATTTCTTTTTCCATA
79952555 TTCAGATCCCCCTTTATTTCTTTTTCCATA
1 TTCAGATCCCCCTTTATTTCTTTTTCCATA
79952585 TTCAGATCC
1 TTCAGATCC
79952594 AAGTCCCAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.17, C:0.29, G:0.04, T:0.49
Consensus pattern (30 bp):
TTCAGATCCCCCTTTATTTCTTTTTCCATA
Found at i:79952929 original size:70 final size:69
Alignment explanation
Indices: 79952814--79952952 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 69
79952804 TTTACAATCT
* *
79952814 TTCAAAAATATCCTATTGGAATAATGAAAGATTAATCTTTATTCCCTTTAACAAACACCGTCGAT
1 TTCAAAAATATCCTATTAGAATAATGAAAGATTAATCTTTATTCCCTTTAACAAACA-CATCGAT
79952879 AATGA
65 AATGA
*
79952884 TTCAAAAATATCCTATTAGAATAATGAAAGATTAATCTTTGTTCCCTTTAACAAACACATCGATA
1 TTCAAAAATATCCTATTAGAATAATGAAAGATTAATCTTTATTCCCTTTAACAAACACATCGATA
79952949 ATGA
66 ATGA
79952953 ACATAACAAG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
69 11 0.17
70 55 0.83
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (69 bp):
TTCAAAAATATCCTATTAGAATAATGAAAGATTAATCTTTATTCCCTTTAACAAACACATCGATA
ATGA
Found at i:79962231 original size:8 final size:8
Alignment explanation
Indices: 79962214--79962244 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
79962204 TAGTTCTTTT
*
79962214 CTCGCTCG
1 CTCGCCCG
79962222 CTCGCCCG
1 CTCGCCCG
79962230 CTCGCCCG
1 CTCGCCCG
79962238 CTCGCCC
1 CTCGCCC
79962245 TTTTTCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.61, G:0.23, T:0.16
Consensus pattern (8 bp):
CTCGCCCG
Found at i:79962314 original size:8 final size:7
Alignment explanation
Indices: 79962304--79962335 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
79962294 TCAGAAAACA
79962304 AAAAAAT
1 AAAAAAT
79962311 AAAAAAT
1 AAAAAAT
79962318 AAAAAAT
1 AAAAAAT
79962325 -AAAAAT
1 AAAAAAT
79962331 AAAAA
1 AAAAA
79962336 CCAATCTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:79962321 original size:14 final size:13
Alignment explanation
Indices: 79962304--79962335 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
79962294 TCAGAAAACA
79962304 AAAAAATAAAAAAT
1 AAAAAAT-AAAAAT
79962318 AAAAAATAAAAAT
1 AAAAAATAAAAAT
79962331 AAAAA
1 AAAAA
79962336 CCAATCTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:79973509 original size:3 final size:3
Alignment explanation
Indices: 79973501--79973545 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
79973491 TTTAGTGTGC
*
79973501 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
79973546 CCCAAGCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:79975209 original size:6 final size:6
Alignment explanation
Indices: 79975198--79975252 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
79975188 AGGATTAGAA
* * * * *
79975198 TTTGAT TTTGAT TTCGAT TTAGAT TTCGAT TTAGAT TTCGAT TTTGAT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
79975246 TTT-AT TT
1 TTTGAT TT
79975253 GTTATTAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (6 bp):
TTTGAT
Found at i:79975222 original size:12 final size:12
Alignment explanation
Indices: 79975192--79975247 Score: 78
Period size: 12 Copynumber: 4.7 Consensus size: 12
79975182 TAATCTAGGA
79975192 TTAGAATTT-GAT
1 TTAG-ATTTCGAT
*
79975204 TTTGATTTCGAT
1 TTAGATTTCGAT
79975216 TTAGATTTCGAT
1 TTAGATTTCGAT
79975228 TTAGATTTCGAT
1 TTAGATTTCGAT
*
79975240 TTTGATTT
1 TTAGATTT
79975248 TATTTGTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
11 4 0.10
12 36 0.90
ACGTcount: A:0.23, C:0.05, G:0.16, T:0.55
Consensus pattern (12 bp):
TTAGATTTCGAT
Found at i:79975435 original size:16 final size:16
Alignment explanation
Indices: 79975410--79975446 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
79975400 ACTGATCTTT
79975410 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
* *
79975426 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCTGCC
79975442 ATTGT
1 ATTGT
79975447 ATGAATGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:79975436 original size:64 final size:64
Alignment explanation
Indices: 79975364--79975688 Score: 453
Period size: 62 Copynumber: 5.2 Consensus size: 64
79975354 GATTTTGATG
* * * *
79975364 TGTTTGTATCTGCCATTCTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * * *
79975428 TGTTTGTATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* *
79975492 TGTTTGTATCTGCCATT-TATGAATGTCATTATCAAATTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * * *
79975555 TATTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTATATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
* * * *
79975617 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGTCAT
1 TGTTTGTATCTGCCATTATATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
79975679 TGTTTGTATC
1 TGTTTGTATC
79975689 CAGGCTCCTA
Statistics
Matches: 245, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
62 105 0.43
63 61 0.25
64 79 0.32
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTATATGAATGACATTATCAAACTGATGTTTATTGTGTATATCTGCCAT
Found at i:79975490 original size:34 final size:34
Alignment explanation
Indices: 79975388--79975492 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 34
79975378 ATTCTATGAA
*
79975388 TGCCATTATCAAACTGATCTTTATTGTGTGTATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
* * * *
79975422 TGCCATTGT----TTGTATCTGTCA-T-TGTATGA-A
1 TGCCATTATCAAACTG-ATCT-TTATTGTGTAT-ATC
79975452 TGCCATTATCAAACTGATCTTTATTGTGTATATC
1 TGCCATTATCAAACTGATCTTTATTGTGTATATC
79975486 TGCCATT
1 TGCCATT
79975493 GTTTGTATCT
Statistics
Matches: 52, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
30 14 0.27
31 6 0.12
32 4 0.08
33 6 0.12
34 22 0.42
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (34 bp):
TGCCATTATCAAACTGATCTTTATTGTGTATATC
Found at i:79975982 original size:15 final size:15
Alignment explanation
Indices: 79975962--79976005 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
79975952 GAAGAAAACA
79975962 TGTCTGGTAGTGATG
1 TGTCTGGTAGTGATG
*
79975977 TGTCTGGTAGTGAAG
1 TGTCTGGTAGTGATG
79975992 TGTCTGGTAGTGAT
1 TGTCTGGTAGTGAT
79976006 AGTGATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.16, C:0.07, G:0.39, T:0.39
Consensus pattern (15 bp):
TGTCTGGTAGTGATG
Found at i:79977706 original size:42 final size:43
Alignment explanation
Indices: 79977646--79977823 Score: 213
Period size: 43 Copynumber: 4.2 Consensus size: 43
79977636 TTGTTGATCA
* * * *
79977646 CATGCAGTGATTATTGGAAAGCTATTGAGT-TCTTTTAATATG
1 CATGCAATGATTATTGGAAAGCTGTTGACTATTTTTTAATATG
* *
79977688 TATGCAATGATTATTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGATTATTGGAAAGCTGTTGACTATTTTTTAATATG
*
79977731 CATGCAATGA-TAGTTGGAAATCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTA-TTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
79977774 CATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTATTGGAAAGCTGTTGACTATTTTTTAATATG
*
79977814 CATGCGATGA
1 CATGCAATGA
79977824 GTTTTTTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.24
42 27 0.23
43 62 0.52
44 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (43 bp):
CATGCAATGATTATTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:79978509 original size:21 final size:21
Alignment explanation
Indices: 79978485--79978533 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
79978475 TGTCCGAACC
*
79978485 CAGCAAGAGGCTACCCCAAGT
1 CAGCAAGAGGCTACCCCAACT
* *
79978506 CAGCAAGAGGGTACTCCAACT
1 CAGCAAGAGGCTACCCCAACT
*
79978527 CAACAAG
1 CAGCAAG
79978534 GTGCCCCAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.31, G:0.22, T:0.10
Consensus pattern (21 bp):
CAGCAAGAGGCTACCCCAACT
Found at i:79979053 original size:56 final size:56
Alignment explanation
Indices: 79978962--79979073 Score: 181
Period size: 56 Copynumber: 2.0 Consensus size: 56
79978952 TTATCATATT
* *
79978962 ATTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
*
79979018 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
79979074 GCAATTTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 49 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:79979650 original size:3 final size:3
Alignment explanation
Indices: 79979631--79979684 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
79979621 CCATTTTTTC
* * *
79979631 TCT TCT CCT TTT TCT TCT TC- TCT TCCT GCT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT
79979675 TCT TCT TCT T
1 TCT TCT TCT T
79979685 TTCCAAACCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 4 0.10
3 36 0.86
4 2 0.05
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:79979678 original size:12 final size:11
Alignment explanation
Indices: 79979628--79979684 Score: 64
Period size: 12 Copynumber: 5.2 Consensus size: 11
79979618 TATCCATTTT
*
79979628 TTCTCTTCTCC
1 TTCTCTTCTTC
79979639 TT-T-TTCTTC
1 TTCTCTTCTTC
*
79979648 TTCTCTTCCTGC
1 TTCTCTT-CTTC
79979660 TTCTCTTCTTC
1 TTCTCTTCTTC
79979671 TTCTTCTTCTTC
1 TTC-TCTTCTTC
79979683 TT
1 TT
79979685 TTCCAAACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 7 0.18
10 2 0.05
11 10 0.26
12 20 0.51
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (11 bp):
TTCTCTTCTTC
Found at i:79979678 original size:32 final size:32
Alignment explanation
Indices: 79979628--79979688 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
79979618 TATCCATTTT
*
79979628 TTCTCTTCTCCTTTTTCTTCTTCTCTTCCTGC
1 TTCTCTTCTCCTTCTTCTTCTTCTCTTCCTGC
* *
79979660 TTCTCTTCTTCTTCTTCTTCTTCTTTTCC
1 TTCTCTTCTCCTTCTTCTTCTTCTCTTCC
79979689 AAACCCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.02, T:0.62
Consensus pattern (32 bp):
TTCTCTTCTCCTTCTTCTTCTTCTCTTCCTGC
Found at i:79982326 original size:52 final size:51
Alignment explanation
Indices: 79982249--79982350 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 51
79982239 CTTCTCCTTA
* * * *
79982249 CTTATCTTACATCACTTGTTTTGAAACACACAACATT-TTGCAAAGCTAAAGC
1 CTTATCCTACATCACTCGTTTTGAAACA-A-AAAATTGCTGCAAAGCTAAAGC
79982301 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
1 CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAG
79982351 TATCCATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
50 5 0.11
51 14 0.31
52 26 0.58
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (51 bp):
CTTATCCTACATCACTCGTTTTGAAACAAAAAATTGCTGCAAAGCTAAAGC
Found at i:79984616 original size:13 final size:13
Alignment explanation
Indices: 79984598--79984658 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
79984588 CTTAAATTTT
79984598 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
79984611 TCAAAAGTACTTT
1 TCAAAAGCACTTC
* *
79984624 TCCACAGCACTTC
1 TCAAAAGCACTTC
*
79984637 TCAAAAGCACTTT
1 TCAAAAGCACTTC
79984650 TCAAAAGCA
1 TCAAAAGCA
79984659 TTACCAAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:79984658 original size:26 final size:26
Alignment explanation
Indices: 79984595--79984658 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
79984585 ACACTTAAAT
*
79984595 TTTTCAAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
* *
79984621 TTTTCCACAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCACTTCTCAAAAGCAC
79984647 TTTTCAAAAGCA
1 TTTTCAAAAGCA
79984659 TTACCAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.30
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAGCAC
Found at i:79991688 original size:16 final size:18
Alignment explanation
Indices: 79991651--79991690 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
79991641 GAATACTTAT
*
79991651 TAAAATAAAATATAGTAG
1 TAAAATAAAATATAGAAG
79991669 TAAAATAAAATA-A-AAG
1 TAAAATAAAATATAGAAG
79991685 TAAAAT
1 TAAAAT
79991691 TCATATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 12 0.57
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (18 bp):
TAAAATAAAATATAGAAG
Found at i:80000475 original size:6 final size:6
Alignment explanation
Indices: 80000464--80000503 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
80000454 AAAGATGGTT
*
80000464 GTGGGG GTGGGG CT-GGG GTGGGG GTGGGG GTGGGG GTGGG
1 GTGGGG GTGGGG GTGGGG GTGGGG GTGGGG GTGGGG GTGGG
80000504 AGAGTAGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.00, C:0.03, G:0.80, T:0.17
Consensus pattern (6 bp):
GTGGGG
Found at i:80000486 original size:17 final size:18
Alignment explanation
Indices: 80000464--80000503 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
80000454 AAAGATGGTT
80000464 GTGGGGGTGGGGCT-GGG
1 GTGGGGGTGGGGCTGGGG
*
80000481 GTGGGGGTGGGGGTGGGG
1 GTGGGGGTGGGGCTGGGG
80000499 GTGGG
1 GTGGG
80000504 AGAGTAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.00, C:0.03, G:0.80, T:0.17
Consensus pattern (18 bp):
GTGGGGGTGGGGCTGGGG
Found at i:80000487 original size:12 final size:11
Alignment explanation
Indices: 80000467--80000503 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
80000457 GATGGTTGTG
*
80000467 GGGGTGGGGCT
1 GGGGTGGGGGT
80000478 GGGGTGGGGGT
1 GGGGTGGGGGT
80000489 GGGGGTGGGGGT
1 -GGGGTGGGGGT
80000501 GGG
1 GGG
80000504 AGAGTAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.00, C:0.03, G:0.81, T:0.16
Consensus pattern (11 bp):
GGGGTGGGGGT
Found at i:80002648 original size:14 final size:15
Alignment explanation
Indices: 80002622--80002650 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
80002612 GATTTAGCAC
80002622 TTGAAGTAAACGGGA
1 TTGAAGTAAACGGGA
80002637 TTGAAG-AAACGGGA
1 TTGAAGTAAACGGGA
80002651 GGACGTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.17
Consensus pattern (15 bp):
TTGAAGTAAACGGGA
Found at i:80008863 original size:44 final size:44
Alignment explanation
Indices: 80008801--80008895 Score: 181
Period size: 44 Copynumber: 2.1 Consensus size: 44
80008791 AAGAGAGAGA
80008801 AAAACAAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
1 AAAAC-AACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
80008846 AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
1 AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
80008890 AAAACA
1 AAAACA
80008896 TACTCTTACA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 45 0.90
45 5 0.10
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.19
Consensus pattern (44 bp):
AAAACAACACTCAACAAAATTACATCTGCAATTAGATCGATAAG
Found at i:80012863 original size:21 final size:21
Alignment explanation
Indices: 80012839--80012880 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
80012829 GTTACCCTTG
*
80012839 ATTATAAGTTTTAATAATTTT
1 ATTATAAGTTCTAATAATTTT
* *
80012860 ATTATAGGTTCTAATTATTTT
1 ATTATAAGTTCTAATAATTTT
80012881 TTTTGACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
ATTATAAGTTCTAATAATTTT
Found at i:80013997 original size:16 final size:17
Alignment explanation
Indices: 80013976--80014018 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
80013966 TTGAGACAAG
80013976 AATAAATTT-TTAATTA
1 AATAAATTTATTAATTA
80013992 AATAAATTTAATTAATTA
1 AATAAATTT-ATTAATTA
80014010 AA-AAATTTA
1 AATAAATTTA
80014019 AATTAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAAATTTATTAATTA
Found at i:80014008 original size:18 final size:18
Alignment explanation
Indices: 80013976--80014026 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
80013966 TTGAGACAAG
80013976 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
80013992 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
80014010 AA-AAATTTAAATTAATT
1 AATAAATTT-AATTAATT
80014027 TGAAAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 17 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:80017626 original size:27 final size:28
Alignment explanation
Indices: 80017590--80017649 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
80017580 TACTTTTATT
*
80017590 TGTTTCAAA-TTATATTTTAATCACTTG
1 TGTTTCAAAGTTATATTTTAATCACTTA
* *
80017617 TGTTTGAAATGTTATATTTTAGTCACTTA
1 TGTTTCAAA-GTTATATTTTAATCACTTA
80017646 TGTT
1 TGTT
80017650 ATTATTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
29 20 0.71
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (28 bp):
TGTTTCAAAGTTATATTTTAATCACTTA
Found at i:80023640 original size:88 final size:88
Alignment explanation
Indices: 80023458--80023655 Score: 222
Period size: 88 Copynumber: 2.2 Consensus size: 88
80023448 CTAATATACC
* *
80023458 ATCAATATACCAG-TTCCATAAACATAAGCCATCAAATTAAAGACATTTTTTCCATCATGATCAA
1 ATCAATATACCAGTTTCCATAAACACAAGCCATCAAATTAAAGACA--TTTTCCATCATGACCAA
* * *
80023522 ATATTCAATTTACACCTAATATGCG
64 ATATTCAATATACAACAAATATGCG
* * * *
80023547 ATCAATATACCAGTTTCCCATAAACACAAGCCATTC-AATTCAAGACA-TTTCTATTATGGCCAA
1 ATCAATATACCAGTTT-CCATAAACACAAGCCA-TCAAATTAAAGACATTTTCCATCATGACCAA
*
80023610 ATATTCAATATACAACAAATATGCT
64 ATATTCAATATACAACAAATATGCG
* *
80023635 ATCAATAAACCAATTTTCCAT
1 ATCAATATACC-AGTTTCCAT
80023656 TTTTATCATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
88 47 0.51
89 17 0.18
90 2 0.02
91 25 0.27
92 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (88 bp):
ATCAATATACCAGTTTCCATAAACACAAGCCATCAAATTAAAGACATTTTCCATCATGACCAAAT
ATTCAATATACAACAAATATGCG
Found at i:80025866 original size:23 final size:23
Alignment explanation
Indices: 80025818--80025866 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
80025808 AACCTCTCTA
* * *
80025818 TTTTTATTTTTAAGATTTTAATT
1 TTTTTATTTTTAACATTTCAAAT
*
80025841 TTTTTATTTTTCACATTTCAAAT
1 TTTTTATTTTTAACATTTCAAAT
80025864 TTT
1 TTT
80025867 AGATCCAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTATTTTTAACATTTCAAAT
Found at i:80027381 original size:69 final size:69
Alignment explanation
Indices: 80027302--80027440 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
80027292 TAATCTGTAC
80027302 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
1 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
80027367 ATAT
66 ATAT
80027371 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
1 ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
80027436 ATAT
66 ATAT
80027440 A
1 A
80027441 CCCTTTTTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (69 bp):
ATTGTTTTTTCTTTTAAATTAATAGAAAGTAGCTCTTTTATTTACTTTATGCAATTCAATAAATA
ATAT
Found at i:80036693 original size:66 final size:66
Alignment explanation
Indices: 80036587--80036965 Score: 607
Period size: 66 Copynumber: 5.7 Consensus size: 66
80036577 CAGGTTGACC
* *
80036587 TTGAGGAATCAAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTACAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
80036652 T
66 T
* * *
80036653 TTGAGGAATCCAAGAAAA-AGGAAAGTGCAAGGTTTGAATCTATTTTGCAAAAGAAGGAACTTGA
1 TTGAGGAATCCAA-AAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGA
80036717 GT
65 GT
* *
80036719 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
80036784 T
66 T
* * * *
80036785 TTGAGGAATCCAAGAAACAGGAAAGTGAAAGGTTTGAATCTACTTTCCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
80036850 T
66 T
* **
80036851 TTGAGGAATCCAAAAACCAGGAAAGTGCAAGGTTTGAATCTACTACGCAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
80036916 T
66 T
*
80036917 TTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCA
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCA
80036966 CAGAAAGGAA
Statistics
Matches: 288, Mismatches: 23, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
65 4 0.01
66 280 0.97
67 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (66 bp):
TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
T
Found at i:80037109 original size:66 final size:66
Alignment explanation
Indices: 80037018--80037164 Score: 249
Period size: 66 Copynumber: 2.2 Consensus size: 66
80037008 GAAACTACAG
*
80037018 CTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
1 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
80037083 A
66 A
* * * *
80037084 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACAAGAAGGA
1 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
80037149 A
66 A
80037150 CTTGAGTTTCAGGAA
1 CTTGAGTTTCAGGAA
80037165 CTGCAAGTTG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (66 bp):
CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
A
Found at i:80037134 original size:174 final size:174
Alignment explanation
Indices: 80036841--80037206 Score: 500
Period size: 174 Copynumber: 2.1 Consensus size: 174
80036831 CCACAAGATG
* * * *** * *
80036841 CAACTTGAGTTTGAGGAATCCAAAAACCAGGAAAGTGCAAGGTTTGAATCTACTACGCAAAAGAT
1 CAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAAGAA
* **
80036906 GCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCAC-AGA
66 GCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACAAG-
* *
80036970 AAGGAACTTCAGTTTCAGCAACTGCAATTTGAGTTGCAGAAACTA
130 AAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAAATA
* ** *
80037015 CAGCTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAA
1 CAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAAGAA
* *
80037080 GGAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACAAGA
66 GCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACAAGA
* * * *
80037145 AGGAACTTGAGTTTCAGGAACTGCAAGTTGAGTTTCAGAAAATG
131 AGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAAATA
*
80037189 CAACTTGAGCTTGAGGAA
1 CAACTTGAGTTTGAGGAA
80037207 ACAAAAGAGT
Statistics
Matches: 166, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
174 164 0.99
175 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (174 bp):
CAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAAGAA
GCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACAAGA
AGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAAATA
Found at i:80037177 original size:21 final size:21
Alignment explanation
Indices: 80037148--80037207 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
80037138 TACAAGAAGG
*
80037148 AACTTGAGTTTCAGGAACTGC
1 AACTTGAGTTTCAGGAAATGC
* *
80037169 AAGTTGAGTTTCAGAAAATGC
1 AACTTGAGTTTCAGGAAATGC
* *
80037190 AACTTGAGCTTGAGGAAA
1 AACTTGAGTTTCAGGAAA
80037208 CAAAAGAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (21 bp):
AACTTGAGTTTCAGGAAATGC
Found at i:80037989 original size:33 final size:33
Alignment explanation
Indices: 80037941--80038069 Score: 222
Period size: 33 Copynumber: 3.9 Consensus size: 33
80037931 CAGGAGATCC
* * *
80037941 CCGTTGTTGACGATGAATCAATGAATAAACCTA
1 CCGTTATTGAAGATGAATCAATGAATAAACATA
80037974 CCGTTATTGAAGATGAATCAATGAATAAACATA
1 CCGTTATTGAAGATGAATCAATGAATAAACATA
80038007 CCGTTATTGAAGATGAATCAATGAATAAACATA
1 CCGTTATTGAAGATGAATCAATGAATAAACATA
*
80038040 CCGTTATTGATGATGAATCAATGAATAAAC
1 CCGTTATTGAAGATGAATCAATGAATAAAC
80038070 TTACTCCTGA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (33 bp):
CCGTTATTGAAGATGAATCAATGAATAAACATA
Found at i:80038644 original size:347 final size:347
Alignment explanation
Indices: 80038009--80038858 Score: 1468
Period size: 347 Copynumber: 2.4 Consensus size: 347
80037999 TAAACATACC
* *
80038009 GTTATTGAAGATGAATCAATGAATAAACATACCGTTATTGATGATGAATCAATGAATAAACTTAC
1 GTTATTGAA-ATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTAC
* *
80038074 TCCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCAAATACTATCTCAGGTTTG
65 TGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
*
80038139 ACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
130 ACTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
* * *
80038204 CACAGCAGCAGGCCATGCTGAGTTCACTGAGTACTACCATTTCAGAGGTGACATCTGCAGTAAGA
195 CACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGA
*
80038269 TATATCTCAACATTCTTTCCTTTTA-TTTTATTGAGTAGAATTATTCTTTCCTTATCTCAACAAG
260 TATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAG
80038333 TTCCTGTGGTTCAGGAGATCCCT
325 TTCCTGTGGTTCAGGAGATCCCT
*
80038356 GTTATTGAGAATGAATCAATGAATAAACCTACCGTTAATGACGATGAATCAATGAATAAACTTAC
1 GTTATTGA-AATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTAC
*
80038421 TGCTGAAAAAGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
65 TGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
80038486 ACTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
130 ACTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAAC
*
80038551 CACAGCAGCTGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGA
195 CACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGA
*
80038616 TATATCTCAACATTGTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAG
260 TATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAG
80038681 TTCCTGTGGTTCAGGAGATCCCT
325 TTCCTGTGGTTCAGGAGATCCCT
* * * *
80038704 GTTATTGACAATGAATCAATGAATAAACCTACCGTTATTGACGATGGATCAATAAATAGACTTAT
1 GTTATTGA-AATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTAC
* * * * *
80038769 TGCTGAAAATGAGCAGCTGAAGGTATTGTTAGATATTTTTTGCTTCGAATACTATCTTAGTTTTG
65 TGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTG
80038834 ACTAAAGGCTTTCTTGATGTCATTT
130 ACTAAAGGCTTTCTTGATGTCATTT
80038859 TTAAACTTGG
Statistics
Matches: 476, Mismatches: 25, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
347 271 0.57
348 205 0.43
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (347 bp):
GTTATTGAAATGAATCAATGAATAAACCTACCGTTATTGACGATGAATCAATGAATAAACTTACT
GCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTGCTTCGAATACTATCTCAGGTTTGA
CTAAAGGCTTTCTTGATGTCATTTGAAAAAAAGATTTTGGACATGGGAGCTGAGGACCAGAAACC
ACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGTCAGAGGTGACATCTGCAGTAAGAT
ATATCTCAACATTCTTTCCTTTTATTTTTATTGAGTAGAATAATTCTTTCCTTATCTCAACAAGT
TCCTGTGGTTCAGGAGATCCCT
Found at i:80046242 original size:14 final size:14
Alignment explanation
Indices: 80046225--80046261 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
80046215 ATATTTACAA
*
80046225 TATTATCTATTATG
1 TATTATATATTATG
80046239 TATTATATATTATG
1 TATTATATATTATG
80046253 TATT-TATAT
1 TATTATATAT
80046262 AATTTTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (14 bp):
TATTATATATTATG
Found at i:80047595 original size:69 final size:69
Alignment explanation
Indices: 80047484--80047619 Score: 272
Period size: 69 Copynumber: 2.0 Consensus size: 69
80047474 ACCTACAGAG
80047484 AAATTAATATACTATTAGAGTTAGTCAGATGATATAAGCTCTATTATCCAGAAAGCATTTCAGTG
1 AAATTAATATACTATTAGAGTTAGTCAGATGATATAAGCTCTATTATCCAGAAAGCATTTCAGTG
80047549 CTGA
66 CTGA
80047553 AAATTAATATACTATTAGAGTTAGTCAGATGATATAAGCTCTATTATCCAGAAAGCATTTCAGTG
1 AAATTAATATACTATTAGAGTTAGTCAGATGATATAAGCTCTATTATCCAGAAAGCATTTCAGTG
80047618 CT
66 CT
80047620 CCATTTTCAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (69 bp):
AAATTAATATACTATTAGAGTTAGTCAGATGATATAAGCTCTATTATCCAGAAAGCATTTCAGTG
CTGA
Found at i:80050543 original size:2 final size:2
Alignment explanation
Indices: 80050536--80050577 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
80050526 TATAAATATA
80050536 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
80050578 TTAAATAAAA
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80051825 original size:21 final size:21
Alignment explanation
Indices: 80051801--80051843 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
80051791 TACACCACAC
80051801 AAACGCACCTAGACTAACCAT
1 AAACGCACCTAGACTAACCAT
80051822 AAACGCACCTAGACTAACCAT
1 AAACGCACCTAGACTAACCAT
80051843 A
1 A
80051844 TGATATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.33, G:0.09, T:0.14
Consensus pattern (21 bp):
AAACGCACCTAGACTAACCAT
Found at i:80058041 original size:13 final size:13
Alignment explanation
Indices: 80058023--80058091 Score: 94
Period size: 13 Copynumber: 5.6 Consensus size: 13
80058013 CCAACAACTT
80058023 CACTAAACCACTC
1 CACTAAACCACTC
80058036 CACTAAACCACTC
1 CACTAAACCACTC
80058049 CACTAAACCAC-C
1 CACTAAACCACTC
80058061 C-C--AACCAC-C
1 CACTAAACCACTC
80058070 CTACTAAACCACTC
1 C-ACTAAACCACTC
80058084 CACTAAAC
1 CACTAAAC
80058092 TACCGCAACC
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.16
11 2 0.04
12 2 0.04
13 37 0.73
14 2 0.04
ACGTcount: A:0.39, C:0.48, G:0.00, T:0.13
Consensus pattern (13 bp):
CACTAAACCACTC
Found at i:80058067 original size:35 final size:35
Alignment explanation
Indices: 80058028--80058109 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 35
80058018 AACTTCACTA
80058028 AACCACTCCACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
* *
80058063 AACCAC-CCTACTAAACCACTCCACTAAACTACCGC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
80058098 AACCACTCCACT
1 AACCACTCCACT
80058110 TGCCTACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 2 0.05
35 39 0.91
36 2 0.05
ACGTcount: A:0.37, C:0.49, G:0.01, T:0.13
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:80058068 original size:22 final size:22
Alignment explanation
Indices: 80058006--80058081 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
80057996 AAACCACTCC
* * *
80058006 AACCACTCCAACAACTTCACTA
1 AACCACCCCAACCACTCCACTA
80058028 AACCACTCCACTAAACCACTCCACTA
1 AACCAC-CC-C--AACCACTCCACTA
80058054 AACCACCCCAACCAC-CCTACTA
1 AACCACCCCAACCACTCC-ACTA
80058076 AACCAC
1 AACCAC
80058082 TCCACTAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.04
22 22 0.48
23 1 0.02
24 2 0.04
25 2 0.04
26 17 0.37
ACGTcount: A:0.39, C:0.47, G:0.00, T:0.13
Consensus pattern (22 bp):
AACCACCCCAACCACTCCACTA
Found at i:80058516 original size:3 final size:3
Alignment explanation
Indices: 80058505--80058584 Score: 53
Period size: 3 Copynumber: 26.3 Consensus size: 3
80058495 TTATTTTTTT
* *
80058505 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
80058548 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
80058585 AATATGCCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
2 7 0.11
3 46 0.74
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:80058521 original size:9 final size:9
Alignment explanation
Indices: 80058493--80058577 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 9
80058483 GAGAGCTTTG
80058493 TTTTATT-T
1 TTTTATTAT
80058501 TTTT-TTA-
1 TTTTATTAT
80058508 TTTTATTATT
1 TTTTATTA-T
80058518 TTTACTATTAT
1 TTT--TATTAT
*
80058529 TTATATTAT
1 TTTTATTAT
*
80058538 TATTATTAT
1 TTTTATTAT
*
80058547 TTCTCATGTAT
1 TT-TTAT-TAT
*
80058558 ATATTATTAT
1 -TTTTATTAT
*
80058568 TTATATTAT
1 TTTTATTAT
80058577 T
1 T
80058578 ATATTATAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
7 6 0.10
8 7 0.12
9 22 0.37
10 9 0.15
11 9 0.15
12 6 0.10
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTATTAT
Found at i:80058540 original size:27 final size:27
Alignment explanation
Indices: 80058506--80058585 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
80058496 TATTTTTTTT
80058506 TATT-TTATTATTTTTACTATTATTTA
1 TATTATTATTATTTTTACTATTATTTA
* *
80058532 TATTATTATTATTATTT-C--TCATGTA
1 TATTATTATTATT-TTTACTATTATTTA
* *
80058557 TA-TATTATTATTTATATTATTATATTA
1 TATTATTATTATTTTTACTATTAT-TTA
80058584 TA
1 TA
80058586 ATATGCCCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
23 2 0.05
24 10 0.24
25 7 0.17
26 7 0.17
27 13 0.31
28 3 0.07
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (27 bp):
TATTATTATTATTTTTACTATTATTTA
Found at i:80058562 original size:21 final size:18
Alignment explanation
Indices: 80058509--80058584 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
80058499 TTTTTTTTAT
* *
80058509 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
80058528 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
80058546 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
80058567 TTTATATTATTA-TATTA
1 TTTATATTATTATTATTA
80058584 T
1 T
80058585 AATATGCCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.12
18 18 0.36
19 9 0.18
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:80059803 original size:21 final size:21
Alignment explanation
Indices: 80059751--80059792 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
80059741 TTAAAAATTC
80059751 GTTAGGAAATTTTAATGTTTG
1 GTTAGGAAATTTTAATGTTTG
80059772 GTTAGGAAATTTTAATGTTTG
1 GTTAGGAAATTTTAATGTTTG
80059793 TGTAGTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (21 bp):
GTTAGGAAATTTTAATGTTTG
Found at i:80064317 original size:19 final size:19
Alignment explanation
Indices: 80064295--80064341 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
80064285 CTTCCTTTCT
80064295 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
80064314 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
80064333 TTTGCATTA
1 TTTGCATTA
80064342 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:80065058 original size:10 final size:10
Alignment explanation
Indices: 80065040--80065082 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
80065030 TTTGTGAATG
80065040 TTTTAGTTAT
1 TTTTAGTTAT
*
80065050 TTTTTGTTA-
1 TTTTAGTTAT
80065059 TTTTAGTTAT
1 TTTTAGTTAT
80065069 TTTTAGTTAT
1 TTTTAGTTAT
80065079 TTTT
1 TTTT
80065083 TGTTCCATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTAGTTAT
Found at i:80065064 original size:19 final size:19
Alignment explanation
Indices: 80065040--80065081 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
80065030 TTTGTGAATG
*
80065040 TTTTAGTTATTTTTTGTTA
1 TTTTAGTTATTTTTAGTTA
80065059 TTTTAGTTATTTTTAGTTA
1 TTTTAGTTATTTTTAGTTA
80065078 TTTT
1 TTTT
80065082 TTGTTCCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTAGTTATTTTTAGTTA
Found at i:80065305 original size:32 final size:32
Alignment explanation
Indices: 80065269--80065332 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
80065259 TGTATGCATT
80065269 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
80065301 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
80065333 CGGTAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:80066844 original size:26 final size:26
Alignment explanation
Indices: 80066814--80066866 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
80066804 TTTATAGTTT
80066814 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
80066840 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
80066866 T
1 T
80066867 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Done.