Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 288 of 325
Found at i:94096874 original size:9 final size:9
Alignment explanation
Indices: 94096826--94096857 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
94096816 TTAAATGCAT
94096826 ATTTTTAAA
1 ATTTTTAAA
94096835 ATTTTTAAA
1 ATTTTTAAA
94096844 ATTTTTAAA
1 ATTTTTAAA
94096853 ATTTT
1 ATTTT
94096858 AAATATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:94100083 original size:30 final size:30
Alignment explanation
Indices: 94100041--94100143 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
94100031 GGTTACTCTA
* *
94100041 GGTGAAATGAACTCGAACCACCTATGTCTG
1 GGTGATATGAACTCGAACCACCCATGTCTG
* * *
94100071 GTTGATATGAACTCGAAGCGCCCATGTCTG
1 GGTGATATGAACTCGAACCACCCATGTCTG
* ** *
94100101 GGTGATATGAACTTGAACCGTCCATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCTG
*
94100131 AGTGATATGAACT
1 GGTGATATGAACT
94100144 GCTCTGCGAC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (30 bp):
GGTGATATGAACTCGAACCACCCATGTCTG
Found at i:94102960 original size:14 final size:14
Alignment explanation
Indices: 94102941--94102967 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94102931 ATCTTTAAAA
94102941 ATAATTTAAAAATC
1 ATAATTTAAAAATC
94102955 ATAATTTAAAAAT
1 ATAATTTAAAAAT
94102968 TATATGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:94103100 original size:20 final size:20
Alignment explanation
Indices: 94103042--94103142 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 20
94103032 TTGAAAGGTC
* *
94103042 ATATTTTTAAAATTTT-TAA
1 ATATATTTAAAATTTTAAAA
*
94103061 ATAT-TTTATATAA-TTAAAAA
1 ATATATTTA-A-AATTTTAAAA
94103081 ATATATTTAAAATTTTAAAA
1 ATATATTTAAAATTTTAAAA
94103101 ATAATATTTAAAATTTTAAAA
1 AT-ATATTTAAAATTTTAAAA
94103122 ATAATATTTAAAA-TTTAAAA
1 AT-ATATTTAAAATTTTAAAA
94103142 A
1 A
94103143 AATAATTTCA
Statistics
Matches: 73, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.05
19 9 0.12
20 25 0.34
21 35 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATTTAAAATTTTAAAA
Found at i:94103129 original size:42 final size:40
Alignment explanation
Indices: 94103077--94103155 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 40
94103067 TATATAATTA
94103077 AAAAATATATTTAAAATTTTAAAAATAAT-ATTTAAAATTTT
1 AAAAATATATTTAAAA-TTTAAAAA-AATAATTTAAAATTTT
*
94103118 AAAAATAATATTTAAAATTTAAAAAAATAATTTCAAAT
1 AAAAAT-ATATTTAAAATTTAAAAAAATAATTTAAAAT
94103156 ATATATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 3 0.09
41 22 0.63
42 10 0.29
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (40 bp):
AAAAATATATTTAAAATTTAAAAAAATAATTTAAAATTTT
Found at i:94103150 original size:20 final size:21
Alignment explanation
Indices: 94103077--94103155 Score: 119
Period size: 21 Copynumber: 3.9 Consensus size: 21
94103067 TATATAATTA
94103077 AAAAAT-ATATTTAAAATTTT
1 AAAAATAATATTTAAAATTTT
94103097 AAAAATAATATTTAAAATTTT
1 AAAAATAATATTTAAAATTTT
94103118 AAAAATAATATTTAAAA-TTT
1 AAAAATAATATTTAAAATTTT
*
94103138 AAAAA-AATAATTTCAAAT
1 AAAAATAAT-ATTTAAAAT
94103156 ATATATTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
19 3 0.05
20 21 0.38
21 31 0.56
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTT
Found at i:94103150 original size:34 final size:34
Alignment explanation
Indices: 94103112--94103189 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
94103102 TAATATTTAA
94103112 AATTTTAAAAATAATATTT-AAAATTTAAAAAAAT
1 AATTTTAAAAAT-ATATTTAAAAATTTAAAAAAAT
* *
94103146 AATTTCAAATATATATTTAAAAAATTTAAAAAAAT
1 AATTTTAAAAATATATTT-AAAAATTTAAAAAAAT
*
94103181 -ATTATAAAA
1 AATTTTAAAA
94103190 CATTTCAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 6 0.16
34 16 0.43
35 15 0.41
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
AATTTTAAAAATATATTTAAAAATTTAAAAAAAT
Found at i:94105262 original size:9 final size:9
Alignment explanation
Indices: 94105248--94105282 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
94105238 TTGCTTTGAA
94105248 TTTTGGTAC
1 TTTTGGTAC
94105257 TTTTGGTAC
1 TTTTGGTAC
*
94105266 TTTTGATAC
1 TTTTGGTAC
94105275 TTTGTGGT
1 TTT-TGGT
94105283 TGTGTGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 20 0.87
10 3 0.13
ACGTcount: A:0.11, C:0.09, G:0.23, T:0.57
Consensus pattern (9 bp):
TTTTGGTAC
Found at i:94110113 original size:8 final size:7
Alignment explanation
Indices: 94110089--94110121 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
94110079 AAACTTTCAA
94110089 AAAATAT
1 AAAATAT
94110096 AAAATAT
1 AAAATAT
94110103 AAAATAT
1 AAAATAT
*
94110110 TAAA-AT
1 AAAATAT
94110116 AAAATA
1 AAAATA
94110122 AATATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATAT
Found at i:94111346 original size:20 final size:20
Alignment explanation
Indices: 94111319--94111384 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
94111309 AAAAATATAT
94111319 TAAA-TTTATTATTTTAACA
1 TAAATTTTATTATTTTAACA
* *
94111338 TAAATTTTAATATTTTTAATA
1 TAAATTTTATTA-TTTTAACA
*
94111359 TAATTTTAATAATTATTTTAACA
1 TAAATTT--T-ATTATTTTAACA
94111382 TAA
1 TAA
94111385 TTTAAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.11
20 6 0.16
21 13 0.35
23 11 0.30
24 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATTTTATTATTTTAACA
Found at i:94111385 original size:23 final size:22
Alignment explanation
Indices: 94111325--94111387 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
94111315 ATATTAAATT
94111325 TATTATTTTAACATAAATTTTAA
1 TATTATTTTAACAT-AATTTTAA
*
94111348 TA-T-TTTTAATATAATTTTAA
1 TATTATTTTAACATAATTTTAA
94111368 TAATTATTTTAACATAATTT
1 T-ATTATTTTAACATAATTT
94111388 AAAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
22 2 0.06
23 15 0.43
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTTTAACATAATTTTAA
Found at i:94126575 original size:37 final size:37
Alignment explanation
Indices: 94126525--94126624 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
94126515 CAAATCTTAT
*
94126525 CGTTATATTGAATGAAGCTCAATCGAGC-AACTCATAC
1 CGTTATACTGAATGAAGCTCAATCGAGCAAAC-CATAC
* * *
94126562 CGTTATACTGAATGGAGCTCAATTGAGCAAACCTTAC
1 CGTTATACTGAATGAAGCTCAATCGAGCAAACCATAC
* * *
94126599 TGTTATACTGAATGATGTTCAATCGA
1 CGTTATACTGAATGAAGCTCAATCGA
94126625 TAAAATTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 50 0.94
38 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (37 bp):
CGTTATACTGAATGAAGCTCAATCGAGCAAACCATAC
Found at i:94130179 original size:32 final size:32
Alignment explanation
Indices: 94130143--94130208 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
94130133 ATGTTGTTTC
94130143 TTCTTATTCAAGTAGAACTCTTGTGATTCTTT
1 TTCTTATTCAAGTAGAACTCTTGTGATTCTTT
*
94130175 TTCTTATTCAAGTAGAACTCTTGTGATTTTTT
1 TTCTTATTCAAGTAGAACTCTTGTGATTCTTT
94130207 TT
1 TT
94130209 TGTTATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (32 bp):
TTCTTATTCAAGTAGAACTCTTGTGATTCTTT
Found at i:94134041 original size:61 final size:61
Alignment explanation
Indices: 94133971--94134096 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 61
94133961 CCTAAATATG
* * * * *
94133971 AAAAATTCAACAAATTT-AGTCTTCAATATTTACAAAATTTTTCATTTTAGTTCAAATTCTA
1 AAAAATTCAACAAATTTGA-CCTTCAATATTTACAAAAATTTTCAATTTAATTCAAATCCTA
* *
94134032 AAAAATTCAATAAATTTGACCTTCAATATTTACAAAAATTTTCAATTTAATTCTAATCCTA
1 AAAAATTCAACAAATTTGACCTTCAATATTTACAAAAATTTTCAATTTAATTCAAATCCTA
94134093 AAAA
1 AAAA
94134097 TATCCAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 56 0.98
62 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (61 bp):
AAAAATTCAACAAATTTGACCTTCAATATTTACAAAAATTTTCAATTTAATTCAAATCCTA
Found at i:94136184 original size:28 final size:28
Alignment explanation
Indices: 94136152--94136243 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
94136142 ATGCGGTAAT
94136152 CCACTAGAATTAGATAAACGTGGTTGAG
1 CCACTAGAATTAGATAAACGTGGTTGAG
94136180 CCACTAGAATTAGATAAACGTGGTTGAG
1 CCACTAGAATTAGATAAACGTGGTTGAG
* * ** *
94136208 CCACCAGAATCAGATAAGTGTGGTTGAA
1 CCACTAGAATTAGATAAACGTGGTTGAG
94136236 CCACTAGA
1 CCACTAGA
94136244 TAAGGTAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (28 bp):
CCACTAGAATTAGATAAACGTGGTTGAG
Found at i:94145299 original size:32 final size:33
Alignment explanation
Indices: 94145250--94145327 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
94145240 TTGAAATATA
*
94145250 AAGATTGAATATTAAATTTGA-GAATAAGACAG
1 AAGATTGAAAATTAAATTTGATGAATAAGACAG
*
94145282 AAGATT-AAAATTGAAATTTGATGCATAAGA-AG
1 AAGATTGAAAATT-AAATTTGATGAATAAGACAG
*
94145314 TAAAATTGAAAATT
1 -AAGATTGAAAATT
94145328 TATGATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
31 5 0.13
32 16 0.41
33 12 0.31
34 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (33 bp):
AAGATTGAAAATTAAATTTGATGAATAAGACAG
Found at i:94146575 original size:26 final size:26
Alignment explanation
Indices: 94146540--94146590 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
94146530 GAATTATATA
*
94146540 TTTTAGAATTTAATAAATTTTTTTAT
1 TTTTAAAATTTAATAAATTTTTTTAT
** *
94146566 TTTTAAAATTTTTTTAATTTTTTTA
1 TTTTAAAATTTAATAAATTTTTTTA
94146591 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTAAAATTTAATAAATTTTTTTAT
Found at i:94146580 original size:20 final size:20
Alignment explanation
Indices: 94146554--94146603 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
94146544 AGAATTTAAT
94146554 AAATTTTTTT-A--TTTTTA
1 AAATTTTTTTAATTTTTTTA
94146571 AAATTTTTTTAATTTTTTTA
1 AAATTTTTTTAATTTTTTTA
* *
94146591 GAATTTTTATAAT
1 AAATTTTTTTAAT
94146604 ATTATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
20 17 0.61
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
AAATTTTTTTAATTTTTTTA
Found at i:94146586 original size:17 final size:17
Alignment explanation
Indices: 94146554--94146586 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94146544 AGAATTTAAT
*
94146554 AAATTTTTTTATTTTTA
1 AAATTTTTTTAATTTTA
94146571 AAATTTTTTTAATTTT
1 AAATTTTTTTAATTTT
94146587 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AAATTTTTTTAATTTTA
Found at i:94148103 original size:12 final size:12
Alignment explanation
Indices: 94148086--94148111 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94148076 AATTTAACAT
94148086 AAAATAAAATAA
1 AAAATAAAATAA
94148098 AAAATAAAATAA
1 AAAATAAAATAA
94148110 AA
1 AA
94148112 TAAGATTTTT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:94156265 original size:28 final size:27
Alignment explanation
Indices: 94156233--94156359 Score: 150
Period size: 28 Copynumber: 4.6 Consensus size: 27
94156223 ATTTGATACC
94156233 GAGCACTAAGTGTGCGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATCGGT-ATT
* * *
94156261 GAGCACTAAGTGTGC-AAGTTGGTTTT
1 GAGCACTAAGTGTGCGAAATCGGTATT
* * *
94156287 AAGCACTAAGTGTGC-AAATTGGATTTT
1 GAGCACTAAGTGTGCGAAATCGG-TATT
94156314 CGAGCACTAAGTGTGCGAAATCGGTTATT
1 -GAGCACTAAGTGTGCGAAATCGG-TATT
94156343 GAGCACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
94156360 GAAAATTTTT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
26 22 0.25
27 10 0.11
28 46 0.53
29 9 0.10
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATCGGTATT
Found at i:94156300 original size:54 final size:57
Alignment explanation
Indices: 94156234--94156359 Score: 163
Period size: 54 Copynumber: 2.3 Consensus size: 57
94156224 TTTGATACCG
* *
94156234 AGCACTAAGTGTGCGAAATCGG-TCATT-GAGCACTAAGTGTGC-AAGTTGGTT-TTA
1 AGCACTAAGTGTGCGAAATCGGAT-ATTCGAGCACTAAGTGTGCGAAATCGGTTATTA
* * *
94156288 AGCACTAAGTGTGC-AAATTGGATTTTCGAGCACTAAGTGTGCGAAATCGGTTATTG
1 AGCACTAAGTGTGCGAAATCGGATATTCGAGCACTAAGTGTGCGAAATCGGTTATTA
94156344 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
94156360 GAAAATTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
53 8 0.13
54 30 0.48
55 7 0.11
56 16 0.26
57 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAAATCGGATATTCGAGCACTAAGTGTGCGAAATCGGTTATTA
Found at i:94158573 original size:21 final size:20
Alignment explanation
Indices: 94158521--94158574 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
94158511 AATTTTGAAG
94158521 CACGAAATTTTTTTTTAAAA
1 CACGAAATTTTTTTTTAAAA
* *
94158541 AATGAAAGTTTTTTTTTAAAA
1 CACGAAA-TTTTTTTTTAAAA
94158562 CACGAGAATTTTT
1 CACGA-AATTTTT
94158575 AAACAAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 21 0.75
22 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.44
Consensus pattern (20 bp):
CACGAAATTTTTTTTTAAAA
Found at i:94158575 original size:17 final size:17
Alignment explanation
Indices: 94158553--94159020 Score: 222
Period size: 17 Copynumber: 26.8 Consensus size: 17
94158543 TGAAAGTTTT
*
94158553 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
94158570 TTTTT-AAACAAGAAAA
1 TTTTTAAAACACGAAAA
**
94158586 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* **
94158603 TTTTTACAACACGACATT
1 TTTTTAAAACACGA-AAA
* *
94158621 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
* * *
94158638 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAAAA
* **
94158655 TTTTTGAAACAC-AATT
1 TTTTTAAAACACGAAAA
**
94158671 TTTTTCTTAA-A--AAAA
1 TTTTT-AAAACACGAAAA
* *
94158686 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAAAA
94158701 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
94158718 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
***
94158735 TTTTTAGAAA-ACGATTT
1 TTTTTA-AAACACGAAAA
* *
94158752 TTTTTAAAATCACCG-GAG
1 TTTTTAAAA-CA-CGAAAA
94158770 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
94158788 TCTTTGAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
94158805 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
94158823 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
94158840 TTTTTTGAAAATAC-AAAGA
1 -TTTTT-AAAACACGAAA-A
** *
94158859 TTTTTTTTTAACACGGAAA
1 --TTTTTAAAACACGAAAA
* ***
94158878 TTTTTGAAACACGGTCATTT
1 TTTTTAAAACAC-G--AAAA
94158898 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* **
94158916 TTTTTGAAAGACATG-ATT
1 TTTTT-AAA-ACACGAAAA
* *
94158934 TTTTTGAAAATACGGAAA
1 TTTTT-AAAACACGAAAA
*
94158952 TTTATAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
94158969 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAAAA
* * *
94158990 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAAA
*
94159007 TTTTGAAAACACGA
1 TTTTTAAAACACGA
94159021 TTTTTCTTTA
Statistics
Matches: 339, Mismatches: 80, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
12 2 0.01
13 4 0.01
15 5 0.01
16 23 0.07
17 166 0.49
18 79 0.23
19 28 0.08
20 15 0.04
21 17 0.05
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:94158634 original size:35 final size:34
Alignment explanation
Indices: 94158552--94159000 Score: 141
Period size: 35 Copynumber: 12.9 Consensus size: 34
94158542 ATGAAAGTTT
* * *
94158552 TTTTTTAAAACACGAGAATTTTT-AAACAAGAAA
1 TTTTTTGAAACACGAAAATTTTTAAAACAAGACA
* *** * *
94158585 ATTTCAAAAACACGAAAATTTTTACAACACGACA
1 TTTTTTGAAACACGAAAATTTTTAAAACAAGACA
*
94158619 TTTTTTTGAAACACGAGAATTTTTAAAACAAGACA
1 -TTTTTTGAAACACGAAAATTTTTAAAACAAGACA
** *
94158654 TTTTTTGAAACAC-AATTTTTTTCTTAAA-AA-A-A
1 TTTTTTGAAACACGAA-AATTTT-TAAAACAAGACA
* * * * *
94158686 ---TTTAAAATACGAGAATTTTTAAAACACGAAA
1 TTTTTTGAAACACGAAAATTTTTAAAACAAGACA
* * * **
94158717 ATTTTTAAAACACGAAAATTTTTAGAAA-ACGATT
1 TTTTTTGAAACACGAAAATTTTTA-AAACAAGACA
* * * * *
94158751 TTTTTTAAAATCACCG-GAGTTTTTGAAAACACGAAA
1 TTTTTTGAAA-CA-CGAAAATTTTT-AAAACAAGACA
* * * *
94158787 ATCTTTGAAACACCG-AAATTTTTGAAAACACGAAA
1 TTTTTTGAAACA-CGAAAATTTTT-AAAACAAGACA
* *
94158822 ATTTTTGAAACACGAAAATTTTTTGAAAATACAAAGA-T
1 TTTTTTGAAACACGAAAA-TTTTT--AAA-AC-AAGACA
** * * * *
94158860 TTTTTTTTAACACGGAAATTTTTGAAACACGGTCA
1 TTTTTTGAAACACGAAAATTTTTAAAACA-AGACA
* *
94158895 TTTTTTTTGAAAACACGAAAATTTTTGAAAGACATGA-T
1 --TTTTTTG-AAACACGAAAATTTTT-AAA-ACAAGACA
* * * * *
94158933 TTTTTTGAAAATACGGAAATTTATAAAACACGAAAA
1 TTTTTTG-AAACACGAAAATTTTTAAAACAAG-ACA
* *
94158969 TTTTTTCTGAAAACAAGAAAATTTTTGAAACA
1 -TTTTT-TG-AAACACGAAAATTTTTAAAACA
94159001 CTAGAATTTT
Statistics
Matches: 316, Mismatches: 68, Indels: 59
0.71 0.15 0.13
Matches are distributed among these distances:
28 4 0.01
29 13 0.04
30 2 0.01
31 1 0.00
32 1 0.00
33 22 0.07
34 67 0.21
35 88 0.28
36 40 0.13
37 19 0.06
38 50 0.16
39 6 0.02
40 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (34 bp):
TTTTTTGAAACACGAAAATTTTTAAAACAAGACA
Found at i:94158920 original size:55 final size:54
Alignment explanation
Indices: 94158708--94158890 Score: 141
Period size: 53 Copynumber: 3.4 Consensus size: 54
94158698 GAATTTTTAA
* *
94158708 AACACGAAAATTTTTAAAACACGAAAATTTTTAG-AAA-AC---GATTTTTTTT
1 AACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAACACAAAGATTTTTTTT
* * * * ***
94158757 AAAATCACCG-GAGTTTTTGAAAACACGAAAA-TCTTTG-AAACACCGAA-ATTTTTGAA
1 --AA-CA-CGAAAATTTTTG-AAACACGAAAATTTTTTGAAAACA-CAAAGATTTTTTTT
*
94158813 AACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAATACAAAGATTTTTTTTT
1 AACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAACACAAAGA-TTTTTTTT
*
94158868 AACACGGAAATTTTTGAAACACG
1 AACACGAAAATTTTTGAAACACG
94158891 GTCATTTTTT
Statistics
Matches: 102, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
51 2 0.02
52 28 0.27
53 31 0.30
54 8 0.08
55 27 0.26
56 6 0.06
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (54 bp):
AACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAACACAAAGATTTTTTTT
Found at i:94158937 original size:38 final size:37
Alignment explanation
Indices: 94158718--94158998 Score: 135
Period size: 36 Copynumber: 7.7 Consensus size: 37
94158708 AACACGAAAA
94158718 TTTTT-AAAACACGAAAATTTTTAGAAAAC---GATTT
1 TTTTTGAAAACACGAAAATTTTT-GAAAACAATGATTT
* * * ***
94158752 TTTTT-AAAATCACCG-GAGTTTTTGAAAAC-ACGAAAA
1 TTTTTGAAAA-CA-CGAAAATTTTTGAAAACAATGATTT
* * ***
94158788 TCTTTG-AAACACCG-AAATTTTTGAAAAC-ACGAAAA
1 TTTTTGAAAACA-CGAAAATTTTTGAAAACAATGATTT
*
94158823 TTTTTG-AAACACGAAAATTTTTTGAAAATACAAAGATTT
1 TTTTTGAAAACACGAAAA-TTTTTG-AAA-ACAATGATTT
* * ** *
94158862 TTTTT--TAACACGGAAATTTTTGAAACACGGTCATTT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACAATGATTT
94158898 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGA-TT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACAATGATTT
* * * **
94158934 TTTTTGAAAATACGGAAATTTAT-AAAACACGAAAATTT
1 TTTTTGAAAACACGAAAATTTTTGAAAACA--ATGATTT
* *
94158972 TTTCTGAAAACAAGAAAATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
94158999 CACTAGAATT
Statistics
Matches: 195, Mismatches: 35, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
34 19 0.10
35 48 0.25
36 53 0.27
37 13 0.07
38 51 0.26
39 11 0.06
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (37 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACAATGATTT
Found at i:94158962 original size:74 final size:74
Alignment explanation
Indices: 94158794--94158998 Score: 213
Period size: 74 Copynumber: 2.8 Consensus size: 74
94158784 AAAATCTTTG
* * *
94158794 AAACACCGAAATTTTTGAAAACACGAAAA---TTTTTG-AAACACGAAAATTTTTTGAAAATACA
1 AAACACGGAAATTTAT-AAAACACGAAAATTTTTTTTGAAAACACGAAAA-TTTTTG-AAAGACA
*
94158855 AAGATTTTTTTT
63 AAGATTTTTTTA
* * * *** *
94158867 TAACACGGAAATTTTTGAAACACGGTCATTTTTTTTGAAAACACGAAAATTTTTGAAAGAC-ATG
1 AAACACGGAAATTTATAAAACACGAAAATTTTTTTTGAAAACACGAAAATTTTTGAAAGACAAAG
94158931 ATTTTTTTGA
66 ATTTTTTT-A
* * *
94158941 AAATACGGAAATTTATAAAACACGAAAATTTTTTCTGAAAACAAGAAAATTTTTGAAA
1 AAACACGGAAATTTATAAAACACGAAAATTTTTTTTGAAAACACGAAAATTTTTGAAA
94158999 CACTAGAATT
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
72 8 0.07
73 24 0.22
74 54 0.50
75 12 0.11
76 11 0.10
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (74 bp):
AAACACGGAAATTTATAAAACACGAAAATTTTTTTTGAAAACACGAAAATTTTTGAAAGACAAAG
ATTTTTTTA
Found at i:94159000 original size:38 final size:37
Alignment explanation
Indices: 94158689--94159010 Score: 203
Period size: 38 Copynumber: 8.9 Consensus size: 37
94158679 AAAAAAATTT
* * *
94158689 AAAATACGAGAATTTTTAAAACACGAAAA--TTTTT-
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTTTTG
*
94158723 AAAACACGAAAATTTTTAGAAA-ACG---ATTTTTTTT
1 AAAACACGAAAATTTTT-GAAACACGAAAATTTTTTTG
* * *
94158757 AAAATCACCG-GAGTTTTTGAAAACACGAAAA--TCTTTG
1 AAAA-CA-CGAAAATTTTTG-AAACACGAAAATTTTTTTG
94158794 -AAACACCG-AAATTTTTGAAAACACGAAAA--TTTTTG
1 AAAACA-CGAAAATTTTTG-AAACACGAAAATTTTTTTG
*
94158829 -AAACACGAAAATTTTTTGAAAATAC-AAAGATTTTTTT-
1 AAAACACGAAAA-TTTTTG-AAACACGAAA-ATTTTTTTG
** * ** *
94158866 TTAACACGGAAATTTTTGAAACACGGTCATTTTTTTTG
1 AAAACACGAAAATTTTTGAAACAC-GAAAATTTTTTTG
* **
94158904 AAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTG
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTTTTG
* * * *
94158940 AAAATACGGAAATTTATAAAACACGAAAATTTTTTCTG
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTTT-TG
* * *
94158978 AAAACAAGAAAATTTTTGAAACACTAGAATTTT
1 AAAACACGAAAATTTTTGAAACACGAAAATTTT
94159011 GAAAACACGA
Statistics
Matches: 227, Mismatches: 39, Indels: 40
0.74 0.13 0.13
Matches are distributed among these distances:
31 1 0.00
33 5 0.02
34 25 0.11
35 54 0.24
36 53 0.23
37 25 0.11
38 63 0.28
39 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (37 bp):
AAAACACGAAAATTTTTGAAACACGAAAATTTTTTTG
Found at i:94159621 original size:10 final size:11
Alignment explanation
Indices: 94159596--94159622 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94159586 TGTTTTTATT
94159596 TTTTTAATTAC
1 TTTTTAATTAC
94159607 TTTTTAATTAC
1 TTTTTAATTAC
94159618 TTTTT
1 TTTTT
94159623 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:94159632 original size:12 final size:12
Alignment explanation
Indices: 94159617--94159657 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
94159607 TTTTTAATTA
94159617 CTTTTTTTCTTT
1 CTTTTTTTCTTT
94159629 C--TTTTTCTTT
1 CTTTTTTTCTTT
94159639 CTTTTTTTCTTT
1 CTTTTTTTCTTT
94159651 CTTTTTT
1 CTTTTTT
94159658 CTTCTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.37
12 17 0.63
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
CTTTTTTTCTTT
Found at i:94159633 original size:10 final size:10
Alignment explanation
Indices: 94159620--94159656 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
94159610 TTAATTACTT
94159620 TTTTTCTTTC
1 TTTTTCTTTC
94159630 TTTTTCTTTC
1 TTTTTCTTTC
94159640 TTTTTTTCTTTC
1 --TTTTTCTTTC
94159652 TTTTT
1 TTTTT
94159657 TCTTCTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 15 0.60
12 10 0.40
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:94159633 original size:22 final size:22
Alignment explanation
Indices: 94159608--94159655 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
94159598 TTTAATTACT
94159608 TTTTAATTACTTTTTTTCTTTC
1 TTTTAATTACTTTTTTTCTTTC
** *
94159630 TTTTTCTTTCTTTTTTTCTTTC
1 TTTTAATTACTTTTTTTCTTTC
94159652 TTTT
1 TTTT
94159656 TTCTTCTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTAATTACTTTTTTTCTTTC
Found at i:94159670 original size:22 final size:22
Alignment explanation
Indices: 94159623--94159671 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
94159613 ATTACTTTTT
* *
94159623 TTCTTTCTTTTTCTTTCTTTTT
1 TTCTTTCTTTTTCTTTCTTCTC
94159645 TTCTTTCTTTTT-TCTTCTTCTC
1 TTCTTTCTTTTTCT-TTCTTCTC
94159667 TTCTT
1 TTCTT
94159672 CTTGTCTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (22 bp):
TTCTTTCTTTTTCTTTCTTCTC
Found at i:94160277 original size:30 final size:30
Alignment explanation
Indices: 94160222--94160338 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
94160212 TGTAATTTTT
* *
94160222 AGAAAATTT-AGGATTAAAATGAAATTTAA
1 AGAAAATTTAAGGGTCAAAATGAAATTTAA
* * *
94160251 TGAAAATTTAAGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAAGGGTCAAAATGAAATTTAA
*
94160281 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTTAAGGGTCAAAATGAAATTTAA
* * *
94160310 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTAAGGGTCAAAATGAAATTT
94160339 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.18
30 60 0.82
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (30 bp):
AGAAAATTTAAGGGTCAAAATGAAATTTAA
Found at i:94160360 original size:15 final size:16
Alignment explanation
Indices: 94160334--94160370 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
94160324 GTCAAAATGC
94160334 AATTTTTATTTTTTAA
1 AATTTTTATTTTTTAA
*
94160350 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTAA
94160365 AATTTT
1 AATTTT
94160371 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
AATTTTTATTTTTTAA
Found at i:94160744 original size:54 final size:54
Alignment explanation
Indices: 94160611--94161678 Score: 1803
Period size: 54 Copynumber: 20.0 Consensus size: 54
94160601 CACGTGAGCC
* *
94160611 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
* *
94160666 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94160720 AAGGCTCAACTCACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94160773 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94160827 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATT-A
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94160880 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94160934 AAGTCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94160988 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161042 AAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94161095 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161148 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94161202 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161256 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94161306 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG-AAAATAGAAATT-A
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94161358 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161412 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161466 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94161520 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94161570 AAGGCTCAACTCA-C-CTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161622 AAGTCTCAACTCACCTCTCGCAAT-TGAGTTGATTTTTGAAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATT-AA
94161677 AA
1 AA
94161679 TACCTCAACG
Statistics
Matches: 961, Mismatches: 33, Indels: 38
0.93 0.03 0.04
Matches are distributed among these distances:
48 29 0.03
49 8 0.01
50 56 0.06
51 1 0.00
52 55 0.06
53 230 0.24
54 531 0.55
55 41 0.04
56 10 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:94160810 original size:107 final size:108
Alignment explanation
Indices: 94160611--94161678 Score: 1803
Period size: 107 Copynumber: 10.0 Consensus size: 108
94160601 CACGTGAGCC
* *
94160611 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
* *
94160675 CTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
64 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94160720 AAGGCTCAACTCACCTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94160784 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94160827 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATT-AAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
94160891 CACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94160934 AAGTCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94160999 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161042 AAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94161106 CACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161148 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94161213 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161256 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
* *
94161317 CACCTCTCGCAATATGAGTTGGTTTTTG-AAAATAGAAATT-A
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94161358 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
94161423 CACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161466 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94161531 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG--A--AA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* * *
94161570 AAGGCTCAACTCA-C-CTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGTCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94161633 CACCTCTCGCAAT-TGAGTTGATTTTTGAAAAAACAGAAATTGAA
66 CACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATT-AA
94161677 AA
1 AA
94161679 TACCTCAACG
Statistics
Matches: 913, Mismatches: 29, Indels: 36
0.93 0.03 0.04
Matches are distributed among these distances:
101 14 0.02
102 113 0.12
103 12 0.01
104 57 0.06
106 68 0.07
107 351 0.38
108 261 0.29
109 37 0.04
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (108 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:94160878 original size:161 final size:162
Alignment explanation
Indices: 94160611--94161678 Score: 1798
Period size: 161 Copynumber: 6.7 Consensus size: 162
94160601 CACGTGAGCC
* *
94160611 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAGGCTCAA
*
94160675 CTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAAT-AGAAATTAAAAGGCTCAACTCACCTCTC
64 CTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAAAAGGCTCAACTCACCTCTC
94160739 GCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
128 GCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
94160773 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
94160838 CATCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATT-AAAGGCTCAACTCACCTCTCGCA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCA
*
94160902 ATATGAGTTGATTTTTGAAAAATAGAAATTAA
131 ATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
94160934 AAGTCTCAACTCACCTCCCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
94160999 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCA-CTCTCGCA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCA
*
94161063 ATATGAGTTGATTTTTGAAAATCAGAAATTAA
131 ATATGAGTTGATTTTTGAAAAACAGAAATTAA
94161095 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94161159 CACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AGAAATTAAAAGGCTCAACTCACCTCTCGC
66 CACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGC
94161223 AATATGAGTTGATTTTTGAAAAACAGAAATTAA
130 AATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161256 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
94161317 CACCTCTCGCAATATGAGTTGGTTTTTGAAAAT-AGAAATT-AAAGGCTCAACTCACCTCTCGCA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCA
94161380 ATATGAGTTGATTTTTGAAAAACAGAAATTAA
131 ATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
94161412 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
94161477 CACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCA
66 CACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCA
94161542 ATATGAGTTGATTTTTGAAAAACAG--A--AA
131 ATATGAGTTGATTTTTGAAAAACAGAAATTAA
* * *
94161570 AAGGCTCAACTCA-C-CTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAAAAGTCTCAACT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
*
94161633 CACCTCTCGCAAT-TGAGTTGATTTTTGAAAAAACAGAAATTGAAAA
66 CACCTCTCGCAATATGAGTTGATTTTTG-AAAATCAGAAATT-AAAA
94161679 TACCTCAACG
Statistics
Matches: 866, Mismatches: 25, Indels: 35
0.94 0.03 0.04
Matches are distributed among these distances:
155 14 0.02
156 170 0.20
157 17 0.02
158 56 0.06
160 155 0.18
161 337 0.39
162 106 0.12
163 11 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (162 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGAAAATCAGAAATTAAAAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:94161719 original size:49 final size:46
Alignment explanation
Indices: 94161641--94161734 Score: 127
Period size: 49 Copynumber: 2.0 Consensus size: 46
94161631 CTCACCTCTC
94161641 GCAATTGAGTTGATTTTTGAAAAAACAGAAATTGAAAATACCTCAACGT
1 GCAATTGAGTTGATTTTTG-AAAAACAGAAATTG--AATACCTCAACGT
*
94161690 GCAATATGAGTTGAATTTTTG-AAAGCAGAAATTGAATACCTCAAC
1 GCAAT-TGAGTTG-ATTTTTGAAAAACAGAAATTGAATACCTCAAC
94161735 ATGTCTTGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 11 0.26
49 17 0.40
50 7 0.17
51 7 0.17
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (46 bp):
GCAATTGAGTTGATTTTTGAAAAACAGAAATTGAATACCTCAACGT
Found at i:94162113 original size:67 final size:70
Alignment explanation
Indices: 94161690--94162352 Score: 860
Period size: 72 Copynumber: 9.5 Consensus size: 70
94161680 ACCTCAACGT
* *
94161690 GCAATATGAGTTGAATTTTTGAAAGCAGAAATTG-AA-TACCTCAACATGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAA-TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACT
*
94161753 CATTTCTC
64 CA-CTCTC
94161761 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
1 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTC
* *
94161826 ATTTCTT
65 A-CTCTC
* *
94161833 GCAATATGAGTTGAATTTTGAAAAGCA-AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 GCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACT
94161897 CACCTCTC
64 CA-CTCTC
94161905 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT-TGAGGCTCAACTCA
1 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCA
*
94161969 TTTCTC
66 -CTCTC
94161975 GCAATATGAGTTGAATTTTTGAAAACAGAAATTGAAATTACCTC-A-GTGTCCTGAGGCTCAACT
1 GCAATATGAGTTGAA-TTTTGAAAACAGAAATTGAAATTACCTCAACGTGT-CTGAGGCTCAACT
94162038 CA-TCTC
64 CACTCTC
94162044 GCAATATGAGTTG-ATTTTGAAAACA-AAATTGAAATTACCTC-ACGTGTCTGAGGCTCAACTCA
1 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCA
94162106 CTCTC
66 CTCTC
*
94162111 GCAATATGAGTTG-ATTTTGAAAACAAAAATTGAAATTACCTCAACGTGT-TGAGGCTCAACTCA
1 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCA
94162174 -TCTC
66 CTCTC
*
94162178 GCAATATGAGTTG-ATTTTG-AAACAGAAATTGAAAATTACCTC-ACGTGCCTGAGGCTCAACTC
1 GCAATATGAGTTGAATTTTGAAAACAGAAATTG-AAATTACCTCAACGTGTCTGAGGCTCAACTC
94162240 ACTCTC
65 ACTCTC
* * * * * *
94162246 GCAATATAAGTTGATTTTGAAAATTTGAAAACA-AAATTGAAAATACCTCAGCATGTGCCGAGGC
1 GC-A-AT-A--TGA-GTTG-AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT-CTGAGGC
94162310 TCAACTCAC-CTC
58 TCAACTCACTCTC
*
94162322 GCAATATGAGTTG-ATTTTGAAAACAAAAATT
1 GCAATATGAGTTGAATTTTGAAAACAGAAATT
94162353 AAAAGGCTTA
Statistics
Matches: 543, Mismatches: 23, Indels: 54
0.88 0.04 0.09
Matches are distributed among these distances:
66 48 0.09
67 91 0.17
68 48 0.09
69 33 0.06
70 56 0.10
71 65 0.12
72 142 0.26
73 6 0.01
74 5 0.01
75 10 0.02
76 19 0.03
77 20 0.04
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (70 bp):
GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCA
CTCTC
Found at i:94162317 original size:77 final size:75
Alignment explanation
Indices: 94162193--94162344 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 75
94162183 ATGAGTTGAT
94162193 TTTGAAACAGAAATTGAAAATTACCTCACGTGCCTGAGGCTCAACTCACTCTCGCAATATAAGTT
1 TTTGAAACAGAAATTGAAAATTACCTCACGTGCCTGAGGCTCAACTCAC-CTCGCAATATAAGTT
94162258 GATTTTGAAAA
65 GATTTTGAAAA
*
94162269 TTTGAAAACA-AAATTGAAAA-TACCTCAGCATGTGCC-GAGGCTCAACTCACCTCGCAATATGA
1 TTTG-AAACAGAAATTGAAAATTACCTCA-C--GTGCCTGAGGCTCAACTCACCTCGCAATATAA
94162331 GTTGATTTTGAAAA
62 GTTGATTTTGAAAA
94162345 CAAAAATTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
75 7 0.10
76 40 0.56
77 19 0.27
78 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (75 bp):
TTTGAAACAGAAATTGAAAATTACCTCACGTGCCTGAGGCTCAACTCACCTCGCAATATAAGTTG
ATTTTGAAAA
Found at i:94162400 original size:50 final size:50
Alignment explanation
Indices: 94162306--94162398 Score: 147
Period size: 51 Copynumber: 1.9 Consensus size: 50
94162296 GCATGTGCCG
94162306 AGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
*
94162356 AGGCTTAACTCACTCTCGCAATATGAGTT-A-TTT-AAAACAAAAA
1 AGGCTCAACTCAC-CTCGCAATATGAGTTGATTTTGAAAACAAAAA
94162399 AAAATACCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
48 10 0.24
49 3 0.07
50 13 0.32
51 15 0.37
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (50 bp):
AGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:94162401 original size:51 final size:50
Alignment explanation
Indices: 94162306--94162509 Score: 140
Period size: 52 Copynumber: 3.7 Consensus size: 50
94162296 GCATGTGCCG
** *
94162306 AGGCTCAACTCACCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCGCAATATGAGTTGATTTAAAAAAAAAAAATTAAA
* **
94162356 AGGCTTAACTCACTCTCGCAATATGAGTT-ATTTAAAACAAAAAAAAATACCTCAGCGTGCCTG
1 AGGCTCAACTCAC-CTCGCAATATGAGTTGATTT-AAA-AAAAAAAAAT---T-A-------AA
* *
94162419 AGGCTCAACTCACCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCGCAATATGAGTTGA--TTTAAAAAAAAAAAATTAAA
* **
94162471 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAA
1 AGGCTCAACTCA-C-CTCGCAATATGAGTTGATTTAAAA
94162510 CATAAACTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
50 16 0.13
51 16 0.13
52 26 0.22
53 1 0.01
54 15 0.12
55 1 0.01
56 1 0.01
59 1 0.01
60 1 0.01
62 15 0.12
63 22 0.18
64 2 0.02
65 3 0.03
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (50 bp):
AGGCTCAACTCACCTCGCAATATGAGTTGATTTAAAAAAAAAAAATTAAA
Found at i:94162613 original size:65 final size:67
Alignment explanation
Indices: 94162471--94162639 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 67
94162461 AAAAATTAAA
* * * * **
94162471 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAT--A-TAAAAATACCTCAACGTG
94162535 CCCCG
63 CCCCG
* *
94162540 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAA-AT-TAAAAATACCTCAACGTGTCT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATATAAAAATACCTCAACGTGCCC
*
94162603 TG
66 CG
94162605 AGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
94162640 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 23 0.26
65 30 0.33
69 28 0.31
70 9 0.10
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (67 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATATAAAAATACCTCAACGTGCCC
CG
Found at i:94174411 original size:17 final size:17
Alignment explanation
Indices: 94174391--94174858 Score: 222
Period size: 17 Copynumber: 26.8 Consensus size: 17
94174381 ATAAAAGTTT
*
94174391 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
*
94174408 TTTTT-AAACACGGAAA
1 TTTTTAAAACACGAAAA
**
94174424 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* **
94174441 TTTTTAAAACACTACATT
1 TTTTTAAAACACGA-AAA
* *
94174459 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
* **
94174476 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGA-AAA
* **
94174494 TTTTTGAAACAC-AATT
1 TTTTTAAAACACGAAAA
**
94174510 TTTTTCTTAA-A--AAAA
1 TTTTT-AAAACACGAAAA
* *
94174525 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAAAA
94174540 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
94174557 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
**
94174574 TTTTTAGAAA-ACG-ATT
1 TTTTTA-AAACACGAAAA
* *
94174590 TTTTTAAAATCACCG-GAG
1 TTTTTAAAA-CA-CGAAAA
94174608 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
94174626 TCTTTGAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
94174643 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
94174661 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
94174678 TTTTTTGAAAATACGAAGATT
1 -TTTTT-AAAACACGAA-A-A
** *
94174699 TTTTTTTAACACGGAAA
1 TTTTTAAAACACGAAAA
* ***
94174716 TTTTTGAAACACGGTCATTT
1 TTTTTAAAACAC-G--AAAA
94174736 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* **
94174754 TTTTTGAAAGACATG-ATT
1 TTTTT-AAA-ACACGAAAA
* *
94174772 TTTTTGAAAATACGGAAA
1 TTTTT-AAAACACGAAAA
*
94174790 TTTATAAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
94174807 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAAAA
* * *
94174828 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAAA
*
94174845 TTTTGAAAACACGA
1 TTTTTAAAACACGA
94174859 TTTTTCTTTA
Statistics
Matches: 339, Mismatches: 80, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
12 2 0.01
13 4 0.01
15 8 0.02
16 28 0.08
17 150 0.44
18 88 0.26
19 29 0.09
20 13 0.04
21 17 0.05
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.34
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:94174478 original size:35 final size:35
Alignment explanation
Indices: 94174430--94174838 Score: 143
Period size: 35 Copynumber: 11.6 Consensus size: 35
94174420 GAAATTTCAA
**
94174430 AAACACGAAAATTTTTAAAACACTACATTTTTTTG
1 AAACACGAAAATTTTTAAAACAAGACATTTTTTTG
*
94174465 AAACACGAGAATTTTTAAAACAAGACATTTTTTTG
1 AAACACGAAAATTTTTAAAACAAGACATTTTTTTG
** * *
94174500 AAACAC-AATTTTTTTCTTAAA-AA-A-A----TTTA
1 AAACACGAA-AATTTT-TAAAACAAGACATTTTTTTG
* * * ** *
94174529 AAATACGAGAATTTTTAAAACACGA-AAATTTTTA
1 AAACACGAAAATTTTTAAAACAAGACATTTTTTTG
* *
94174563 AAACACGAAAATTTTT-AGA-AA-ACGATTTTTTTA
1 AAACACGAAAATTTTTAAAACAAGAC-ATTTTTTTG
* * * ** *
94174596 AAATCACCG-GAGTTTTTGAAAACACGA-AAATCTTTG
1 AAA-CA-CGAAAATTTTT-AAAACAAGACATTTTTTTG
* **
94174632 AAACACCG-AAATTTTTGAAAACACGA-AAATTTTTG
1 AAACA-CGAAAATTTTT-AAAACAAGACATTTTTTTG
* * * *
94174667 AAACACGAAAATTTTTTGAAAATACGAAGATTTTTTTT
1 AAACACGAAAA-TTTTT-AAAACAAG-ACATTTTTTTG
* * * * *
94174705 TAACACGGAAATTTTTGAAACACGGTCATTTTTTTTG
1 AAACACGAAAATTTTTAAAACA-AGACA-TTTTTTTG
*
94174742 AAAACACGAAAATTTTTGAAAGACATG--ATTTTTTTG
1 -AAACACGAAAATTTTT-AAA-ACAAGACATTTTTTTG
* * * * *
94174778 AAAATACGGAAATTTATAAAACACGAAAATTTTTTCTG
1 -AAACACGAAAATTTTTAAAACAAG-ACATTTTTT-TG
* *
94174816 AAAACAAGAAAATTTTTGAAACA
1 -AAACACGAAAATTTTTAAAACA
94174839 CTAGAATTTT
Statistics
Matches: 288, Mismatches: 56, Indels: 57
0.72 0.14 0.14
Matches are distributed among these distances:
28 4 0.01
29 13 0.05
30 3 0.01
31 1 0.00
32 1 0.00
33 13 0.05
34 34 0.12
35 86 0.30
36 54 0.19
37 23 0.08
38 50 0.17
39 3 0.01
40 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (35 bp):
AAACACGAAAATTTTTAAAACAAGACATTTTTTTG
Found at i:94174736 original size:55 final size:56
Alignment explanation
Indices: 94174651--94174758 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 56
94174641 AATTTTTGAA
* *
94174651 AACACGAAAATTTTTGAAACACGAAAA-TTTTTTGAAAATACGAAGATTTTTTTTT
1 AACACGAAAATTTTTGAAACACGAAAATTTTTTTGAAAACACGAAAATTTTTTTTT
* ** *
94174706 AACACGGAAATTTTTGAAACACGGTCATTTTTTTTGAAAACACGAAAATTTTT
1 AACACGAAAATTTTTGAAACAC-GAAAATTTTTTTGAAAACACGAAAATTTTT
94174759 GAAAGACATG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 21 0.47
56 2 0.04
57 22 0.49
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (56 bp):
AACACGAAAATTTTTGAAACACGAAAATTTTTTTGAAAACACGAAAATTTTTTTTT
Found at i:94174800 original size:74 final size:74
Alignment explanation
Indices: 94174632--94174836 Score: 213
Period size: 74 Copynumber: 2.8 Consensus size: 74
94174622 AAAATCTTTG
* * *
94174632 AAACACCGAAATTTTTGAAAACACGAAAA---TTTTTG-AAACACGAAAATTTTTTGAAAATACG
1 AAACACGGAAATTTAT-AAAACACGAAAATTTTTTTTGAAAACACGAAAA-TTTTTG-AAAGACG
*
94174693 AAGATTTTTTTT
63 AAGATTTTTTTA
* * * *** *
94174705 TAACACGGAAATTTTTGAAACACGGTCATTTTTTTTGAAAACACGAAAATTTTTGAAAGAC-ATG
1 AAACACGGAAATTTATAAAACACGAAAATTTTTTTTGAAAACACGAAAATTTTTGAAAGACGAAG
94174769 ATTTTTTTGA
66 ATTTTTTT-A
* * *
94174779 AAATACGGAAATTTATAAAACACGAAAATTTTTTCTGAAAACAAGAAAATTTTTGAAA
1 AAACACGGAAATTTATAAAACACGAAAATTTTTTTTGAAAACACGAAAATTTTTGAAA
94174837 CACTAGAATT
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
72 8 0.07
73 24 0.22
74 54 0.50
75 12 0.11
76 11 0.10
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (74 bp):
AAACACGGAAATTTATAAAACACGAAAATTTTTTTTGAAAACACGAAAATTTTTGAAAGACGAAG
ATTTTTTTA
Found at i:94174838 original size:38 final size:37
Alignment explanation
Indices: 94174528--94174848 Score: 210
Period size: 38 Copynumber: 8.9 Consensus size: 37
94174518 AAAAAAATTT
* * *
94174528 AAAATACGAGAATTTTTAAAACACGAAAA--TTTTT-
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTTTTG
94174562 AAAACACGAAAATTTTTAGAAA-ACG---ATTTTTTT-
1 AAAACACGAAAATTTTT-GAAACACGAAAATTTTTTTG
* * *
94174595 AAAATCACCG-GAGTTTTTGAAAACACGAAAA--TCTTTG
1 AAAA-CA-CGAAAATTTTTG-AAACACGAAAATTTTTTTG
94174632 -AAACACCG-AAATTTTTGAAAACACGAAAA--TTTTTG
1 AAAACA-CGAAAATTTTTG-AAACACGAAAATTTTTTTG
* *
94174667 -AAACACGAAAATTTTTTGAAAATACGAAGATTTTTTT-
1 AAAACACGAAAA-TTTTTG-AAACACGAAAATTTTTTTG
** * ** *
94174704 TTAACACGGAAATTTTTGAAACACGGTCATTTTTTTTG
1 AAAACACGAAAATTTTTGAAACAC-GAAAATTTTTTTG
* **
94174742 AAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTG
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTTTTG
* * * *
94174778 AAAATACGGAAATTTATAAAACACGAAAATTTTTTCTG
1 AAAACACGAAAATTTTTGAAACACGAAAATTTTTT-TG
* * *
94174816 AAAACAAGAAAATTTTTGAAACACTAGAATTTT
1 AAAACACGAAAATTTTTGAAACACGAAAATTTT
94174849 GAAAACACGA
Statistics
Matches: 227, Mismatches: 40, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
31 1 0.00
33 10 0.04
34 31 0.14
35 45 0.20
36 55 0.24
37 22 0.10
38 63 0.28
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.34
Consensus pattern (37 bp):
AAAACACGAAAATTTTTGAAACACGAAAATTTTTTTG
Found at i:94175463 original size:10 final size:11
Alignment explanation
Indices: 94175438--94175464 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94175428 TGTTTTTATT
94175438 TTTTTAATTAC
1 TTTTTAATTAC
94175449 TTTTTAATTAC
1 TTTTTAATTAC
94175460 TTTTT
1 TTTTT
94175465 TTCTTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAC
Found at i:94175475 original size:10 final size:10
Alignment explanation
Indices: 94175462--94175515 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 10
94175452 TTAATTACTT
94175462 TTTTTCTTTC
1 TTTTTCTTTC
94175472 TTTTTCTTTC
1 TTTTTCTTTC
94175482 TCTTTT-TTTC
1 T-TTTTCTTTC
*
94175492 TTTCTTTTTTC
1 TTT-TTCTTTC
*
94175503 TTCTTCTCTTC
1 TTTTTCT-TTC
94175514 TT
1 TT
94175516 CTTGTCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 2 0.05
10 21 0.55
11 15 0.39
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:94175481 original size:14 final size:13
Alignment explanation
Indices: 94175460--94175512 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 13
94175450 TTTTAATTAC
94175460 TTTT-TTTCTTTCT
1 TTTTCTTTCTTT-T
94175473 TTTTCTTTCTCTTT
1 TTTTCTTTCT-TTT
94175487 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
94175500 TTCTTCTTCTCTT
1 TT-TTCTT-TCTT
94175513 CTTCTTGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:94176122 original size:30 final size:29
Alignment explanation
Indices: 94176082--94176183 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
94176072 ATTTAGGATT
94176082 AAAATGAAATTTAATAAAAGTTTAAGGGTC
1 AAAATGAAATTTAA-AAAAGTTTAAGGGTC
* *
94176112 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAA-AAAGTTTAAGGGTC
* *
94176142 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTA-AAAAAGTTTAAGGGTC
*
94176172 AAAATGCAATTT
1 AAAATGAAATTT
94176184 TTATTTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
29 1 0.02
30 61 0.97
31 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (29 bp):
AAAATGAAATTTAAAAAAGTTTAAGGGTC
Found at i:94176206 original size:14 final size:15
Alignment explanation
Indices: 94176182--94176214 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
94176172 AAAATGCAAT
*
94176182 TTTTATTTTTTTAAA
1 TTTTATTTTTTGAAA
94176197 TTTT-TTTTTTGAAA
1 TTTTATTTTTTGAAA
94176211 TTTT
1 TTTT
94176215 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTTGAAA
Found at i:94179055 original size:8 final size:8
Alignment explanation
Indices: 94179042--94179079 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
94179032 CTTTGCCTAC
94179042 TTATTTTT
1 TTATTTTT
*
94179050 TTA-TTTG
1 TTATTTTT
94179057 TTATTTTT
1 TTATTTTT
*
94179065 TTATTTTA
1 TTATTTTT
94179073 TTATTTT
1 TTATTTT
94179080 CGGTACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (8 bp):
TTATTTTT
Found at i:94179079 original size:15 final size:15
Alignment explanation
Indices: 94179042--94179079 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
94179032 CTTTGCCTAC
*
94179042 TTATTTTTTTATTTG
1 TTATTTTTTTATTTA
94179057 TTATTTTTTTATTTTA
1 TTATTTTTTTA-TTTA
94179073 TTATTTT
1 TTATTTT
94179080 CGGTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
TTATTTTTTTATTTA
Found at i:94194360 original size:11 final size:12
Alignment explanation
Indices: 94194322--94194359 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
94194312 AAAATAGGGC
94194322 TTTAGCGGCGTT
1 TTTAGCGGCGTT
94194334 TTTAGCGGCGTT
1 TTTAGCGGCGTT
94194346 TTTAGCGGCGTT
1 TTTAGCGGCGTT
94194358 TT
1 TT
94194360 ATCAAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.45
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:94194458 original size:41 final size:38
Alignment explanation
Indices: 94194383--94194632 Score: 149
Period size: 41 Copynumber: 6.1 Consensus size: 38
94194373 GCAAAAATTG
* *
94194383 TAAAACACAGAGCAATAGCGGCGTCTTACGAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGC-TTTTA-GTAAAACGCCGC
* *
94194424 TAAAAACAGAGCAATAGCGGCATTTTAGTAAAAAACACCAC
1 TAAAAACAGAGCAATAGCGGC-TTTTAGT--AAAACGCCGC
* *
94194465 TAAAAACAGAGCATTAGCGGTGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGC-G-GCTTTTAGTAAAACGCCGC
* * * *
94194505 TAAAGACCCGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCAATAGC-G-GCTTTTAGTAAAACGCCGC
* * * ** *
94194546 TAAAGACCCGAGCATTCCCGGCGCTTTTGGTAAAACGCCGC
1 TAAA-AACAGAGCAATAGC-G-GCTTTTAGTAAAACGCCGC
* * * * * *
94194587 TAAAGACCCGAGCATTAGCGGCGCTTTCAGTAAAACACCAC
1 TAAA-AACAGAGCAATAGC-G-GCTTTTAGTAAAACGCCGC
94194628 TAAAA
1 TAAAA
94194633 GTCATATAAC
Statistics
Matches: 184, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 33 0.18
41 141 0.77
42 7 0.04
43 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (38 bp):
TAAAAACAGAGCAATAGCGGCTTTTAGTAAAACGCCGC
Found at i:94195590 original size:78 final size:80
Alignment explanation
Indices: 94195487--94195665 Score: 245
Period size: 79 Copynumber: 2.2 Consensus size: 80
94195477 CTGGCGTTTA
*
94195487 TTTAAAAAACGCCGCAAAAACATAGCAG-TTAACAAAAACGGCGTCGTTTTAATTGGATATTTAG
1 TTTAAAAAACGCCAC-AAAACATAGCAGTTTAACAAAAACGGCGTCGTTTTAATTGGATATTTAG
*
94195551 GAGAGTAGCGGCATTT
65 GAGAGTACCGGCATTT
** *
94195567 TTTAAAAAA-GCCACAAAACATAGCAGTTTAATGAAAACGGCGTCGTTTTAATTGGATTTTTAGG
1 TTTAAAAAACGCCACAAAACATAGCAGTTTAACAAAAACGGCGTCGTTTTAATTGGATATTTAGG
* *
94195631 GGAGTACCGGCGTTT
66 AGAGTACCGGCATTT
**
94195646 TAAAAAAAAACGCCACAAAA
1 T-TTAAAAAACGCCACAAAA
94195666 AGAAAAAAAG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 12 0.14
79 51 0.59
80 15 0.17
81 9 0.10
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (80 bp):
TTTAAAAAACGCCACAAAACATAGCAGTTTAACAAAAACGGCGTCGTTTTAATTGGATATTTAGG
AGAGTACCGGCATTT
Found at i:94195711 original size:82 final size:81
Alignment explanation
Indices: 94195523--94195752 Score: 225
Period size: 79 Copynumber: 2.9 Consensus size: 81
94195513 AGTTAACAAA
* * * * * **
94195523 AACGGCGTCGTTTTAATTGGATATTTAGGAGAGTAGCGGCATTTTTTAAAAAA-GCCAC-AAAAC
1 AACGGCGTCGTTTTAATTGAAGATTTAGGGGAGTACCGGCGTTTTAAAAAAAACGCCACAAAAAC
* ** * * *
94195586 -ATAGCAGTTTAATGAA
66 AAAAAAAGTATAACG-T
* **
94195602 AACGGCGTCGTTTTAATTGGATTTTTAGGGGAGTACCGGCGTTTTAAAAAAAAACGCCACAAAAA
1 AACGGCGTCGTTTTAATTGAAGATTTAGGGGAGTACCGGCGTTTT-AAAAAAAACGCCACAAAAA
*
94195667 GAAAAAAAGTATAACGT
65 CAAAAAAAGTATAACGT
* * *
94195684 AACGGCGTCGTTTT-ATATGAAGATTTAGGGGATTAGCGGCGTTTTAAAAAAAACGCCGCAAAAA
1 AACGGCGTCGTTTTAAT-TGAAGATTTAGGGGAGTACCGGCGTTTTAAAAAAAACGCCACAAAAA
94195748 CAAAA
65 CAAAA
94195753 TACTTTAAAG
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 41 0.33
80 6 0.05
81 29 0.23
82 41 0.33
83 9 0.07
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (81 bp):
AACGGCGTCGTTTTAATTGAAGATTTAGGGGAGTACCGGCGTTTTAAAAAAAACGCCACAAAAAC
AAAAAAAGTATAACGT
Found at i:94195784 original size:82 final size:82
Alignment explanation
Indices: 94195602--94195784 Score: 210
Period size: 82 Copynumber: 2.2 Consensus size: 82
94195592 GTTTAATGAA
* **
94195602 AACGGCGTCGTTTTA-ATTGGATTTTTAGGGGAGTACCGGCGTTTTAAAAAAAAACGCCACAAAA
1 AACGGCGTCGTTTTATA-TGAAGATTTAGGGGAGTACCGGCGTTTTAAAAAAAAACGCCACAAAA
* *
94195666 AGAAAAAAAGTATAACGT
65 AGAAAAAAACTATAAAGT
* * *
94195684 AACGGCGTCGTTTTATATGAAGATTTAGGGGATTAGCGGCGTTTT-AAAAAAAACGCCGCAAAAA
1 AACGGCGTCGTTTTATATGAAGATTTAGGGGAGTACCGGCGTTTTAAAAAAAAACGCCACAAAAA
* * *
94195748 -CAAAATACTTTAAAGT
66 GAAAAAAACTATAAAGT
*
94195764 AAACGTCGTCGTTTTCATATG
1 -AACGGCGTCGTTTT-ATATG
94195785 TATGGGTTTG
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
80 11 0.13
81 31 0.36
82 43 0.50
83 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (82 bp):
AACGGCGTCGTTTTATATGAAGATTTAGGGGAGTACCGGCGTTTTAAAAAAAAACGCCACAAAAA
GAAAAAAACTATAAAGT
Found at i:94199887 original size:3 final size:3
Alignment explanation
Indices: 94199879--94199903 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
94199869 ATTTAATTAC
94199879 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
94199904 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:94202254 original size:19 final size:20
Alignment explanation
Indices: 94202212--94202255 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
94202202 CCATATTAAC
** *
94202212 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
94202232 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
94202251 ACAGT
1 ACAGT
94202256 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:94203043 original size:3 final size:3
Alignment explanation
Indices: 94203035--94203059 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
94203025 ATTTAATTAC
94203035 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
94203060 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:94208814 original size:16 final size:16
Alignment explanation
Indices: 94208793--94208826 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
94208783 CTATATATGC
*
94208793 AAAATATAAAAGACAT
1 AAAATACAAAAGACAT
94208809 AAAATACAAAAGACAT
1 AAAATACAAAAGACAT
94208825 AA
1 AA
94208827 TAATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAATACAAAAGACAT
Found at i:94211074 original size:2 final size:2
Alignment explanation
Indices: 94211069--94211093 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94211059 TATACATATA
94211069 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
94211094 AAAACATATA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:94211431 original size:2 final size:2
Alignment explanation
Indices: 94211424--94211449 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94211414 AATTCATTCG
94211424 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94211450 GAAGTCACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94237986 original size:13 final size:13
Alignment explanation
Indices: 94237968--94237993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94237958 GCGTTGAGGC
94237968 CCTGGGACATGTT
1 CCTGGGACATGTT
94237981 CCTGGGACATGTT
1 CCTGGGACATGTT
94237994 GGAGGGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
CCTGGGACATGTT
Found at i:94240761 original size:20 final size:20
Alignment explanation
Indices: 94240736--94240788 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
94240726 TATTTTGTCA
94240736 AAAGTATAGATACT-TGGTGC
1 AAAGTATAGATACTCT-GTGC
*
94240756 AAAGTATCGATACTCTGTGC
1 AAAGTATAGATACTCTGTGC
94240776 AAAGTATAGATAC
1 AAAGTATAGATAC
94240789 CTTGACCTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
AAAGTATAGATACTCTGTGC
Found at i:94242736 original size:17 final size:17
Alignment explanation
Indices: 94242714--94242751 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
94242704 AACCCAACAG
*
94242714 ATATAGACAT-ACAAATT
1 ATATAGAAATCACAAA-T
94242731 ATATAGAAATCACAAAT
1 ATATAGAAATCACAAAT
94242748 ATAT
1 ATAT
94242752 TCAGATTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (17 bp):
ATATAGAAATCACAAAT
Found at i:94244571 original size:30 final size:30
Alignment explanation
Indices: 94244536--94244593 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
94244526 TAGGCACTTC
*
94244536 CACACGGGT-GATCCACACGCTCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
94244566 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
94244594 CATGGCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:94263622 original size:39 final size:39
Alignment explanation
Indices: 94263568--94263647 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
94263558 ATTTACAAAC
94263568 CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
1 CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
*
94263607 CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
1 CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
94263646 CC
1 CC
94263648 TTCGACCTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (39 bp):
CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
Found at i:94270382 original size:5 final size:5
Alignment explanation
Indices: 94270356--94270413 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
94270346 ATGTGTTAAA
* *
94270356 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATTAT ATATT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATA-T-T ATATT ATATT
94270405 ATATT ATAT
1 ATATT ATAT
94270414 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 32 0.71
6 9 0.20
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:94270392 original size:10 final size:9
Alignment explanation
Indices: 94270357--94270414 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
94270347 TGTGTTAAAA
94270357 TATATATAT
1 TATATATAT
*
94270366 TAAAT-TAT
1 TATATATAT
94270374 TAT-TATAT
1 TATATATAT
94270382 TATAGTATA-
1 TATA-TATAT
94270391 T-TATATAT
1 TATATATAT
94270399 TATATTATAT
1 TATA-TATAT
94270409 TATATA
1 TATATA
94270415 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:94270399 original size:17 final size:17
Alignment explanation
Indices: 94270359--94270414 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
94270349 TGTTAAAATA
94270359 TATATATTA-AAT-TAT
1 TATATATTATAATATAT
*
94270374 TATTATATTATAGTATAT
1 TA-TATATTATAATATAT
*
94270392 TATATATTATATTATAT
1 TATATATTATAATATAT
94270409 TATATA
1 TATATA
94270415 AATAAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
15 2 0.06
16 7 0.19
17 22 0.61
18 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATATTATAATATAT
Found at i:94271751 original size:18 final size:19
Alignment explanation
Indices: 94271730--94271768 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
94271720 ATATATAGAT
94271730 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
94271748 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
94271767 AT
1 AT
94271769 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:94272118 original size:39 final size:39
Alignment explanation
Indices: 94272008--94272142 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
94271998 GACCTCGAGT
* * * *
94272008 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
94272049 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
94272087 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
94272126 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
94272143 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:94272286 original size:18 final size:19
Alignment explanation
Indices: 94272265--94272305 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
94272255 AATGAAATGA
94272265 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
94272283 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
94272302 GAAA
1 GAAA
94272306 ACATGAACCA
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:94276796 original size:5 final size:5
Alignment explanation
Indices: 94276770--94276832 Score: 63
Period size: 5 Copynumber: 11.8 Consensus size: 5
94276760 ATGTGTTAAA
* * *
94276770 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATAGT ATATT ATATTAT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATATT ATA-T-T
94276819 ATATT ATATT ATAT
1 ATATT ATATT ATAT
94276833 AAATAAGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
5 36 0.72
6 10 0.20
7 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:94276823 original size:12 final size:13
Alignment explanation
Indices: 94276785--94276833 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
94276775 TATATTAAAT
*
94276785 TATTATTATATTA
1 TATTAGTATATTA
94276798 TAGTATAGTATATTA
1 TA-T-TAGTATATTA
94276813 TATTA-TATATTA
1 TATTAGTATATTA
94276825 TATTA-TATA
1 TATTAGTATA
94276834 AATAAGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 16 0.48
13 4 0.12
14 2 0.06
15 11 0.33
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (13 bp):
TATTAGTATATTA
Found at i:94278170 original size:18 final size:19
Alignment explanation
Indices: 94278147--94278185 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
94278137 ATATATAGAT
94278147 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
94278165 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
94278184 AT
1 AT
94278186 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:94278536 original size:39 final size:39
Alignment explanation
Indices: 94278426--94278560 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
94278416 GACCTCGAGT
* * * *
94278426 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
94278467 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
94278505 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
94278544 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
94278561 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:94278706 original size:18 final size:19
Alignment explanation
Indices: 94278683--94278723 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
94278673 AATGAAATGA
94278683 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
94278701 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
94278720 GAAA
1 GAAA
94278724 ACATGAACCA
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:94293874 original size:21 final size:21
Alignment explanation
Indices: 94293850--94293889 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
94293840 AAAAAACAAG
94293850 AAAATAGCAACAAAATAGTAA
1 AAAATAGCAACAAAATAGTAA
* *
94293871 AAAATAGCTAGAAAATAGT
1 AAAATAGCAACAAAATAGT
94293890 TTTTTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.17
Consensus pattern (21 bp):
AAAATAGCAACAAAATAGTAA
Found at i:94298172 original size:27 final size:28
Alignment explanation
Indices: 94298096--94298176 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
94298086 GGAATTGAGT
*
94298096 TGAATCAAGTATAACACACATAAAGCAC
1 TGAATCAAATATAACACACATAAAGCAC
* *
94298124 TGAATCAAATATAATACACATAAAGCAT
1 TGAATCAAATATAACACACATAAAGCAC
* * *
94298152 TGGATC-CATATAACACGCATAAAGC
1 TGAATCAAATATAACACACATAAAGC
94298177 GTTAGATCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 16 0.35
28 30 0.65
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (28 bp):
TGAATCAAATATAACACACATAAAGCAC
Found at i:94298184 original size:27 final size:27
Alignment explanation
Indices: 94298105--94298184 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
94298095 TTGAATCAAG
* *
94298105 TATAACACACATAAAGCACT-GAATCAAA
1 TATAACACACATAAAGCATTAG-ATC-CA
* *
94298133 TATAATACACATAAAGCATTGGATCCA
1 TATAACACACATAAAGCATTAGATCCA
* *
94298160 TATAACACGCATAAAGCGTTAGATC
1 TATAACACACATAAAGCATTAGATC
94298185 TCCCTCCTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.50
28 21 0.48
29 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (27 bp):
TATAACACACATAAAGCATTAGATCCA
Found at i:94301288 original size:15 final size:17
Alignment explanation
Indices: 94301268--94301307 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
94301258 CAAATATAAA
94301268 AAAATTATT-ATAA-TT
1 AAAATTATTCATAATTT
94301283 AAAATT-TTCATAATTT
1 AAAATTATTCATAATTT
94301299 AAAATTATT
1 AAAATTATT
94301308 TAAATCTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 8 0.36
17 2 0.09
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTATTCATAATTT
Found at i:94306650 original size:13 final size:14
Alignment explanation
Indices: 94306632--94306661 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
94306622 GGCTACATTG
94306632 TTTC-TTTCTTTTT
1 TTTCTTTTCTTTTT
94306645 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTT
94306659 TTT
1 TTT
94306662 ATGGTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTCTTTTCTTTTT
Found at i:94310849 original size:10 final size:10
Alignment explanation
Indices: 94310834--94310861 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
94310824 TAAATACATT
94310834 TAATTAAAGA
1 TAATTAAAGA
94310844 TAATTAAAGA
1 TAATTAAAGA
94310854 TAATTAAA
1 TAATTAAA
94310862 ATTAAATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:94310910 original size:15 final size:15
Alignment explanation
Indices: 94310890--94310919 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94310880 ATAATCCTAA
*
94310890 TAATTATCTTAATAT
1 TAATTATCCTAATAT
94310905 TAATTATCCTAATAT
1 TAATTATCCTAATAT
94310920 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:94312332 original size:41 final size:41
Alignment explanation
Indices: 94312287--94312371 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
94312277 TTAAAACACA
94312287 TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
1 TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
*
94312328 TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
1 TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
94312369 TAG
1 TAG
94312372 AGGAACTCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (41 bp):
TAGTCCTCGATATGGAATAAATAAAATAGGAGAAAAAGGTG
Found at i:94312587 original size:22 final size:22
Alignment explanation
Indices: 94312544--94312585 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
94312534 TATCTGAATA
94312544 AAATAAAATAATAAGATAAAAT
1 AAATAAAATAATAAGATAAAAT
94312566 AAATAAAAATAA-AA-ATAAAA
1 AAAT-AAAATAATAAGATAAAA
94312586 ATTGGGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAATAATAAGATAAAAT
Found at i:94320193 original size:30 final size:30
Alignment explanation
Indices: 94320101--94320170 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
94320091 GGTGAATTAA
94320101 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
94320131 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
94320161 GTTGCTCACA
1 GTTGCTCACA
94320171 TAACCTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:94320750 original size:21 final size:19
Alignment explanation
Indices: 94320714--94320754 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
94320704 TTTTACTTTG
*
94320714 ATATTAAATCATGCAATTA
1 ATATTAAATCAAGCAATTA
94320733 ATATATAAATACAAGCAATTA
1 ATAT-TAAAT-CAAGCAATTA
94320754 A
1 A
94320755 ATTTATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (19 bp):
ATATTAAATCAAGCAATTA
Found at i:94329509 original size:34 final size:33
Alignment explanation
Indices: 94329469--94329559 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 33
94329459 ATAAAATAAA
*
94329469 AATTTTAAATTAATATTATTTCTTCTAATTAGAT
1 AATTTTAAATTAATATTATTTATTCTAATTA-AT
* ** *
94329503 AATTTTAAAATAATATAATATTTATTCTTTTTATT
1 AATTTTAAATTAATAT--TATTTATTCTAATTAAT
*
94329538 AATTATAAATTAAGTATTATTT
1 AATTTTAAATTAA-TATTATTT
94329560 TATACTTAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
34 20 0.43
35 12 0.26
36 15 0.32
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (33 bp):
AATTTTAAATTAATATTATTTATTCTAATTAAT
Found at i:94334507 original size:25 final size:27
Alignment explanation
Indices: 94334461--94334523 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
94334451 AGCAATTTAA
94334461 TTTTTTTCTT-TTATGTTCTTTCA-AC
1 TTTTTTTCTTCTTATGTTCTTTCATAC
* * *
94334486 TTTTTTTCTTCTT-TTTTTTTTCATGC
1 TTTTTTTCTTCTTATGTTCTTTCATAC
*
94334512 TTTTTTGCTTCT
1 TTTTTTTCTTCT
94334524 CCCTTTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 18 0.56
26 14 0.44
ACGTcount: A:0.06, C:0.16, G:0.05, T:0.73
Consensus pattern (27 bp):
TTTTTTTCTTCTTATGTTCTTTCATAC
Found at i:94342255 original size:26 final size:24
Alignment explanation
Indices: 94342225--94342273 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 24
94342215 AAATAAAAAT
94342225 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAATATAA-AAA-CAAATATA
94342251 TTTAAAAATATAAAAACAAATAT
1 TTTAAAAATATAAAAACAAATAT
94342274 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAATATAAAAACAAATATA
Found at i:94342291 original size:19 final size:21
Alignment explanation
Indices: 94342221--94342286 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 21
94342211 CATTAAATAA
*
94342221 AAATTTTAAAAATATAATAAATC
1 AAATATTAAAAATATAA-AAA-C
94342244 AAATATATTTAAAAATATAAAAAC
1 -AA-ATA-TTAAAAATATAAAAAC
94342268 AAATATTAAAAA-ATAAAAA
1 AAATATTAAAAATATAAAAA
94342287 TAATACTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
20 7 0.18
21 7 0.18
22 3 0.08
23 2 0.05
24 3 0.08
25 5 0.13
26 12 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATATTAAAAATATAAAAAC
Found at i:94342296 original size:19 final size:21
Alignment explanation
Indices: 94342253--94342296 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
94342243 CAAATATATT
*
94342253 TAAAAATATAAAAACAAATAT
1 TAAAAATATAAAAACAAATAC
*
94342274 TAAAAA-ATAAAAA-TAATAC
1 TAAAAATATAAAAACAAATAC
94342293 TAAA
1 TAAA
94342297 GCAATTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 7 0.33
21 6 0.29
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAATATAAAAACAAATAC
Found at i:94346697 original size:19 final size:19
Alignment explanation
Indices: 94346652--94346698 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
94346642 AGTAAAGTTT
* *
94346652 ATATTAAAATCCTTGAAGG
1 ATATTAAAATCCTAGAAGA
*
94346671 AT-TTAAAATGCTAGAAGA
1 ATATTAAAATCCTAGAAGA
94346689 ATATTAAAAT
1 ATATTAAAAT
94346699 TCTCGGGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (19 bp):
ATATTAAAATCCTAGAAGA
Found at i:94379812 original size:40 final size:40
Alignment explanation
Indices: 94379767--94379958 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 40
94379757 ATAACCACAA
* *
94379767 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
94379807 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
94379847 GCACAAATT-CCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
94379887 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
94379927 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
94379959 CATTCAAATG
Statistics
Matches: 138, Mismatches: 11, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
39 4 0.03
40 127 0.92
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:94379851 original size:80 final size:80
Alignment explanation
Indices: 94379738--94379957 Score: 232
Period size: 80 Copynumber: 2.8 Consensus size: 80
94379728 ACCCAAGTTT
* * * * * * * *
94379738 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAG
*
94379801 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
94379817 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATT-CCTTCGGGTCTTAGCCCGGATAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAA
* *
94379880 ATCACTAGCATAAATGC
64 AGCACTAGCACAAATGC
* * *
94379897 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATA
94379958 TCATTCAAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
79 15 0.13
80 89 0.77
81 11 0.10
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:94385012 original size:28 final size:29
Alignment explanation
Indices: 94384981--94385035 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
94384971 CCTATTCAGT
*
94384981 AACAATA-CAGTATGGGCCTTAGCCCTTA
1 AACAATAGCAGTATGGGCCTAAGCCCTTA
*
94385009 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAATAGCAGTATGGGCCTAAGCCCT
94385036 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (29 bp):
AACAATAGCAGTATGGGCCTAAGCCCTTA
Found at i:94385130 original size:30 final size:29
Alignment explanation
Indices: 94385049--94385131 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 29
94385039 TCAGTCTCGA
*
94385049 CATATACTGGTCTGAAGCCTTTTCATAAAT
1 CATATACTGG-CCGAAGCCTTTTCATAAAT
*
94385079 CATATAACTGGGCCAAAGCCTTTTCATAAAT
1 CATAT-ACT-GGCCGAAGCCTTTTCATAAAT
94385110 CATATCACTGGCCGAAGCCTTT
1 CATAT-ACTGGCCGAAGCCTTT
94385132 ACTATAAGCG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 17 0.36
31 28 0.60
32 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (29 bp):
CATATACTGGCCGAAGCCTTTTCATAAAT
Found at i:94385329 original size:25 final size:25
Alignment explanation
Indices: 94385292--94385361 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
94385282 CTCTTTTAAT
*
94385292 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
94385317 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
94385342 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
94385362 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:94385829 original size:17 final size:17
Alignment explanation
Indices: 94385807--94385849 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
94385797 TTTACCCAAA
94385807 TGGGCCCGAAAGCCCAT
1 TGGGCCCGAAAGCCCAT
*
94385824 TGGGCCTGAAAGCCCAT
1 TGGGCCCGAAAGCCCAT
94385841 TGGGCCCGA
1 TGGGCCCGA
94385850 TTCCAGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (17 bp):
TGGGCCCGAAAGCCCAT
Found at i:94386327 original size:27 final size:27
Alignment explanation
Indices: 94386297--94386376 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
94386287 GTAAATCTAC
94386297 AAACCAAGGGTATTTCAGTAATTTTGT-
1 AAACCAAGGGTATTTCAGTAATTTT-TA
*
94386324 AAACCAATGGTATTTCTA-TAATTTTTA
1 AAACCAAGGGTATTTC-AGTAATTTTTA
* *
94386351 GAAAGTCAAGGGTATTTCTGTAATTT
1 -AAA-CCAAGGGTATTTCAGTAATTT
94386377 CATAAATTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 22 0.50
28 4 0.09
29 17 0.39
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTTA
Found at i:94386400 original size:27 final size:27
Alignment explanation
Indices: 94386360--94386483 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
94386350 AGAAAGTCAA
* *
94386360 GGGTATTTCT-GTAATTTCATAAATTAG
1 GGGTATTT-TGGTAATTTCACAAACTAG
* *
94386387 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTCACAAACTAG
* *
94386413 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTCACAAACTAG
* *
94386441 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACTAG
94386468 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
94386484 CTACCCTATA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.04
27 78 0.95
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACTAG
Found at i:94386502 original size:54 final size:54
Alignment explanation
Indices: 94386359--94386483 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
94386349 TAGAAAGTCA
* * * *
94386359 AGGGTATTTCTGTAATTTCATAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAATAG
* *
94386413 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAA-TAG
*
94386468 -GGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
94386484 CTACCCTATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
54 61 0.97
55 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAATAG
Found at i:94421214 original size:24 final size:23
Alignment explanation
Indices: 94421187--94421237 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
94421177 TAATGAAATT
*
94421187 TAAAGTGTAAAATTTTAAAA-AAAA
1 TAAAGGGTAAAA--TTAAAATAAAA
*
94421211 TAAAGGGTCAAATTAAAATAAAA
1 TAAAGGGTAAAATTAAAATAAAA
94421234 TAAA
1 TAAA
94421238 ATAAACAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (23 bp):
TAAAGGGTAAAATTAAAATAAAA
Found at i:94422505 original size:16 final size:17
Alignment explanation
Indices: 94422475--94422513 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
94422465 TTTATAAATC
94422475 TAAATATTATTATGTTA
1 TAAATATTATTATGTTA
94422492 TAAATATT-TTATGTTA
1 TAAATATTATTATGTTA
*
94422508 CAAATA
1 TAAATA
94422514 GGCGAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TAAATATTATTATGTTA
Found at i:94425126 original size:15 final size:15
Alignment explanation
Indices: 94425106--94425138 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
94425096 GCATTTTCAT
94425106 ACAACCAAAACATCC
1 ACAACCAAAACATCC
*
94425121 ACAACCAAGACATCC
1 ACAACCAAAACATCC
94425136 ACA
1 ACA
94425139 CATCATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.39, G:0.03, T:0.06
Consensus pattern (15 bp):
ACAACCAAAACATCC
Found at i:94431546 original size:47 final size:47
Alignment explanation
Indices: 94431483--94431703 Score: 424
Period size: 47 Copynumber: 4.7 Consensus size: 47
94431473 ATGATAGTAT
94431483 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94431530 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
94431577 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94431624 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
94431671 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
94431704 CCCGAAGGGC
Statistics
Matches: 171, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
47 167 0.98
48 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:94431877 original size:37 final size:37
Alignment explanation
Indices: 94431821--94431899 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
94431811 CCGAGCTCTA
* * *
94431821 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
94431858 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
94431895 AAGAC
1 AAGAC
94431900 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:94443412 original size:30 final size:29
Alignment explanation
Indices: 94443362--94443422 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
94443352 TTTGCAATTT
*
94443362 CATTTTATTTTAATATAATTTGGCCCTAA
1 CATTTTATTTTAATATAATTTAGCCCTAA
* *
94443391 CATTTTGATTTT-ATTTCAATTTAGTCCTAA
1 CATTTT-ATTTTAATAT-AATTTAGCCCTAA
94443421 CA
1 CA
94443423 GCTCCTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.49
Consensus pattern (29 bp):
CATTTTATTTTAATATAATTTAGCCCTAA
Found at i:94443696 original size:5 final size:5
Alignment explanation
Indices: 94443678--94443814 Score: 80
Period size: 5 Copynumber: 29.0 Consensus size: 5
94443668 TATTTTCAAG
* *
94443678 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
94443723 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * *
94443771 ATATAT TATAT TATAT TATTT TATAT TTTAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
94443815 CTTATTACAT
Statistics
Matches: 101, Mismatches: 18, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
3 3 0.03
4 23 0.23
5 66 0.65
6 7 0.07
7 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:94443701 original size:52 final size:51
Alignment explanation
Indices: 94443643--94443755 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 51
94443633 ATATAAAAAT
* *
94443643 TTATTTATT-TGTATATTATTTTTGTTATTTTCAAGTA-TATT-TATATATTATA
1 TTATTTATTATATATATTA-TTTT-ATATTTT-AA-TATTATTATATATATTATA
*
94443695 TTATTTATTAATATATATTATTTTATATTTTTATATTATTATATATATTATA
1 TTATTTATT-ATATATATTATTTTATATTTTAATATTATTATATATATTATA
94443747 TTATCTTAT
1 TTAT-TTAT
94443756 GTTTTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 2 0.04
51 5 0.09
52 30 0.57
53 8 0.15
54 8 0.15
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (51 bp):
TTATTTATTATATATATTATTTTATATTTTAATATTATTATATATATTATA
Found at i:94443703 original size:32 final size:31
Alignment explanation
Indices: 94443648--94443814 Score: 105
Period size: 32 Copynumber: 5.7 Consensus size: 31
94443638 AAAATTTATT
* * *
94443648 TATTTGTATATTAT-TTTTGTTATTTTCAAGTA
1 TATTTATATATTATATTATATTATTTT-AA-TA
94443680 TATTTATATATTATATTAT-TTA--TTAATA
1 TATTTATATATTATATTATATTATTTTAATA
*
94443708 TATATTAT-T-TTATATT-T-TTATATT-AT-
1 TAT-TTATATATTATATTATATTATTTTAATA
*
94443734 TA--TATATATTATATTATCTTATGTTTTAATA
1 TATTTATATATTATATTATATTA--TTTTAATA
*
94443765 TACATTATATATTATATTATATTATTTT-ATA
1 TA-TTTATATATTATATTATATTATTTTAATA
94443796 T-TTTATCATA-TAT-TTATAT
1 TATTTAT-ATATTATATTATAT
94443815 CTTATTACAT
Statistics
Matches: 114, Mismatches: 5, Indels: 36
0.74 0.03 0.23
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 7 0.06
26 7 0.06
27 12 0.11
28 14 0.12
29 16 0.14
30 7 0.06
31 6 0.05
32 20 0.18
33 3 0.03
34 18 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (31 bp):
TATTTATATATTATATTATATTATTTTAATA
Found at i:94443721 original size:10 final size:10
Alignment explanation
Indices: 94443642--94443797 Score: 81
Period size: 10 Copynumber: 14.8 Consensus size: 10
94443632 CATATAAAAA
94443642 TTTAT-TTAT
1 TTTATATTAT
94443651 TTGTATATTAT
1 TT-TATATTAT
*
94443662 TTT-TGTTAT
1 TTTATATTAT
94443671 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
94443683 TTATATATTAT
1 TT-TATATTAT
*
94443694 ATTAT-TTAT
1 TTTATATTAT
94443703 TAATATATATTAT
1 T--T-TATATTAT
94443716 TTTATA-T-T
1 TTTATATTAT
94443724 TTTATATTAT
1 TTTATATTAT
94443734 TATATATATTAT
1 T-T-TATATTAT
* *
94443746 ATTATCTTATGT
1 TTTATATTA--T
*
94443758 TTTAATATACAT
1 TTT-ATAT-TAT
*
94443770 TATATATTAT
1 TTTATATTAT
*
94443780 ATTATATTAT
1 TTTATATTAT
94443790 TTTATATT
1 TTTATATT
94443798 TTATCATATA
Statistics
Matches: 113, Mismatches: 14, Indels: 39
0.68 0.08 0.23
Matches are distributed among these distances:
8 7 0.06
9 16 0.14
10 36 0.32
11 19 0.17
12 24 0.21
13 10 0.09
14 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTATATTAT
Done.