Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 34 of 186
Found at i:10235280 original size:16 final size:16
Alignment explanation
Indices: 10235259--10235299 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
10235249 TAATAATAAA
10235259 ATATTATAGGCCCAAT
1 ATATTATAGGCCCAAT
*
10235275 ATATTAGATAGGTCCAAT
1 ATATT--ATAGGCCCAAT
10235293 ATATTAT
1 ATATTAT
10235300 GTAAGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
18 15 0.68
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (16 bp):
ATATTATAGGCCCAAT
Found at i:10235291 original size:18 final size:18
Alignment explanation
Indices: 10235264--10235298 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10235254 ATAAAATATT
10235264 ATAGGCCCAATATATTAG
1 ATAGGCCCAATATATTAG
*
10235282 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
10235299 TGTAAGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:10235307 original size:18 final size:18
Alignment explanation
Indices: 10235270--10235314 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10235260 TATTATAGGC
*
10235270 CCAATATATTAGATAGGT
1 CCAATATATTAGATAAGT
10235288 CCAATATATTATG-TAAGT
1 CCAATATATTA-GATAAGT
*
10235306 CCAAAATAT
1 CCAATATAT
10235315 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (18 bp):
CCAATATATTAGATAAGT
Found at i:10235852 original size:15 final size:15
Alignment explanation
Indices: 10235819--10235862 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
10235809 AATGTATTAT
10235819 TTGTTATTTGTTATTTG
1 TTGTT-TTTGTT-TTTG
10235836 TTGTTTTTGTTTTTG
1 TTGTTTTTGTTTTTG
*
10235851 TTTTTTTTGTTT
1 TTGTTTTTGTTT
10235863 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.58
16 6 0.23
17 5 0.19
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.80
Consensus pattern (15 bp):
TTGTTTTTGTTTTTG
Found at i:10237575 original size:89 final size:90
Alignment explanation
Indices: 10237418--10237584 Score: 266
Period size: 90 Copynumber: 1.9 Consensus size: 90
10237408 TTTTCTTTTG
* *
10237418 CACTCAATTGAGTACTTGAACTTTTAAAATGCATAAAAAAGACCCTCAAACTTCTTCAAAAAAAG
1 CACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTCTTCAAAAAAAG
10237483 TAATTAAG-CCCTTGCTTTTTCTCC
66 TAATTAAGTCCCTTGCTTTTTCTCC
* * *
10237507 CACTCAATTGGGTACTTGGAACTTTCAAAATGCATAAAAAAGACCTTCAAAATTTTTC-AAAAAA
1 CACTCAATTGAGTACTT-GAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTCTTCAAAAAAA
10237571 GTAATTAAGTCCCT
65 GTAATTAAGTCCCT
10237585 GCTCATATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 31 0.44
90 40 0.56
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (90 bp):
CACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTCTTCAAAAAAAG
TAATTAAGTCCCTTGCTTTTTCTCC
Found at i:10237925 original size:19 final size:19
Alignment explanation
Indices: 10237903--10237955 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
10237893 TTCTTATGCC
*
10237903 TTTATAAAATTTTACAATT
1 TTTATAAATTTTTACAATT
* **
10237922 TTTATATATTTTTTTAATT
1 TTTATAAATTTTTACAATT
10237941 TTTAATAAATTTTTA
1 TTT-ATAAATTTTTA
10237956 ATATATGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTTACAATT
Found at i:10244147 original size:30 final size:30
Alignment explanation
Indices: 10244095--10244153 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
10244085 AATTTTTAAA
**
10244095 ATTTCGGACATCTTAATATCTACTAGTAGT
1 ATTTCGGACATCCCAATATCTACTAGTAGT
* * *
10244125 ATTTTGGACATCCCAATGTCTACTGGTAG
1 ATTTCGGACATCCCAATATCTACTAGTAG
10244154 CATAGAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTTCGGACATCCCAATATCTACTAGTAGT
Found at i:10247261 original size:42 final size:42
Alignment explanation
Indices: 10247144--10247298 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
10247134 TACCATACCA
* * *
10247144 ATGCCATATCCCAGATATGGTCTTACATGGGAG-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAAGTCTCATATCG
* * * *
10247186 ATGCCAATAGCTCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * * *
10247229 ATGACATATCCTAGATATGGTCTTACACGAAGTCTTATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
10247271 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
10247299 ATAGTCTTAG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 64 0.67
43 31 0.33
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:10251627 original size:91 final size:91
Alignment explanation
Indices: 10251467--10251643 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 91
10251457 TCAAAATATC
* *
10251467 AAAAATGTAACTTTACAGCAATTAAATAATATGAAAACACTTTCTAAAATATCCATTTAAGATTA
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATATCCATTTAAGATTA
* *
10251532 CATCAATCAAACACATCCAAACAGTA
66 CATCAACCAAAAACATCCAAACAGTA
* * *
10251558 AAAAATGTAACTTTACAGCAAATAAATAATGTGAAAACACTTTCCAAAATCTCCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATATCCATTTAAGATTA
10251623 CATCAACCAAAAACATCCAAA
66 CATCAACCAAAAACATCCAAA
10251644 TAACAGAAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (91 bp):
AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATATCCATTTAAGATTA
CATCAACCAAAAACATCCAAACAGTA
Found at i:10264052 original size:25 final size:25
Alignment explanation
Indices: 10264019--10264068 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10264009 AAAAAGACCT
10264019 AAAAAATTCTACTTTATTTAATTCA
1 AAAAAATTCTACTTTATTTAATTCA
10264044 AAAAAATTCTACTTTATTTAATTCA
1 AAAAAATTCTACTTTATTTAATTCA
10264069 GGTTACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAAATTCTACTTTATTTAATTCA
Found at i:10265458 original size:20 final size:20
Alignment explanation
Indices: 10265433--10265472 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10265423 AGAAAAAGAT
*
10265433 GACAAATTTTGTCCGTCTTC
1 GACAAATTTTGTCCATCTTC
*
10265453 GACAAATTTTTTCCATCTTC
1 GACAAATTTTGTCCATCTTC
10265473 AACTTTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
GACAAATTTTGTCCATCTTC
Found at i:10266554 original size:22 final size:21
Alignment explanation
Indices: 10266528--10266591 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
10266518 TCTATTAATC
10266528 GATTAGCACTTCGATGCTCTCT
1 GATTAGCACTTCGATGC-CTCT
*
10266550 GATTAGCACTTTGATGCCT-T
1 GATTAGCACTTCGATGCCTCT
* * *
10266570 TATTTGCAGTTCGATGCCTCT
1 GATTAGCACTTCGATGCCTCT
10266591 G
1 G
10266592 TACAACACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 16 0.46
21 3 0.09
22 16 0.46
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (21 bp):
GATTAGCACTTCGATGCCTCT
Found at i:10268018 original size:16 final size:16
Alignment explanation
Indices: 10267989--10268058 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
10267979 TTTGGTTCGC
*
10267989 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
10268005 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
10268021 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
10268037 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
10268053 TGTAAT
1 TGTAAT
10268059 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:10268103 original size:45 final size:44
Alignment explanation
Indices: 10268037--10268127 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
10268027 GGATTAGAGG
* *
10268037 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
10268082 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
10268126 TG
1 TG
10268128 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:10268307 original size:16 final size:17
Alignment explanation
Indices: 10268270--10268307 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10268260 ATTTAATCAT
10268270 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
10268287 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
10268302 ATTTAA
1 ATTTAA
10268308 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:10268343 original size:22 final size:21
Alignment explanation
Indices: 10268253--10268539 Score: 92
Period size: 22 Copynumber: 14.0 Consensus size: 21
10268243 ATTATCAATA
* *
10268253 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
10268273 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
10268294 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
10268315 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
10268337 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
10268354 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
10268378 ATTAAATATAATTTAATAAAA--
1 A-T-AATATAATTTAATAAAATT
10268399 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
10268419 CTTA-AT-A-TTAA-AATATT
1 ATAATATAATTTAATAAAATT
* * * *
10268436 CTTATATGAATTTACTAAAATC
1 ATAATAT-AATTTAATAAAATT
*
10268458 ATAATAT-ATAATACTATAAAA-T
1 ATAATATAAT-TTA--ATAAAATT
* ** **
10268480 ATAATCTAAAATAATTATTATT
1 ATAATATAATTTAA-TAAAATT
*
10268502 A-AATATAATTTAATATAA--
1 ATAATATAATTTAATAAAATT
10268520 AT-ATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
10268540 CTTAGTATTA
Statistics
Matches: 197, Mismatches: 38, Indels: 64
0.66 0.13 0.21
Matches are distributed among these distances:
17 16 0.08
18 45 0.23
19 2 0.01
20 21 0.11
21 38 0.19
22 49 0.25
23 9 0.05
24 7 0.04
26 10 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:10268377 original size:13 final size:12
Alignment explanation
Indices: 10268353--10268393 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
10268343 TATAATAGTA
10268353 TAAAATATAATT
1 TAAAATATAATT
10268365 TAAAATAATAATT
1 TAAAAT-ATAATT
*
10268378 ATTAAATATAATT
1 -TAAAATATAATT
10268391 TAA
1 TAA
10268394 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:10268402 original size:18 final size:18
Alignment explanation
Indices: 10268381--10268416 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10268371 AATAATTATT
10268381 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
10268399 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
10268417 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATAATTTAATAAAA
Found at i:10268527 original size:18 final size:17
Alignment explanation
Indices: 10268504--10268538 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
10268494 TTATTATTAA
10268504 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
10268522 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10268539 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10268597 original size:61 final size:60
Alignment explanation
Indices: 10268308--10268599 Score: 192
Period size: 59 Copynumber: 4.8 Consensus size: 60
10268298 TATAATTTAA
* * *
10268308 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * * *
10268365 TAAAATAATAATTATTA-AATATAATTTAATAAAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* *
10268427 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
10268487 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
10268548 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
10268600 ATAATCTAAA
Statistics
Matches: 174, Mismatches: 40, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
57 1 0.01
58 7 0.04
59 56 0.32
60 26 0.15
61 48 0.28
62 35 0.20
63 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:10268636 original size:121 final size:120
Alignment explanation
Indices: 10268308--10268615 Score: 528
Period size: 121 Copynumber: 2.6 Consensus size: 120
10268298 TATAATTTAA
* * *
10268308 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
10268372 ATAATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
10268427 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* * *
10268492 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
*
10268548 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
10268613 ATT
66 ATT
10268616 GATTTTGTGG
Statistics
Matches: 179, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 1 0.01
120 69 0.39
121 109 0.61
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (120 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:10270116 original size:13 final size:13
Alignment explanation
Indices: 10270100--10270129 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10270090 TAGACCAAGC
10270100 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
10270113 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
10270126 TTTT
1 TTTT
10270130 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:10276076 original size:18 final size:18
Alignment explanation
Indices: 10276045--10276080 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10276035 CGGTGATGAA
10276045 ATTTGTATTTTTTATTTT
1 ATTTGTATTTTTTATTTT
10276063 ATTT-TATTTATTTATTTT
1 ATTTGTATTT-TTTATTTT
10276081 TGTTTTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
ATTTGTATTTTTTATTTT
Found at i:10277198 original size:25 final size:26
Alignment explanation
Indices: 10277170--10277225 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
10277160 TTTTGAAATT
* *
10277170 TATTTTTATATCATATTAT-TTTAAC
1 TATTTTTATATAATATTATGTTTAAA
*
10277195 TA--TTTATATAATATTTTGTTTAAA
1 TATTTTTATATAATATTATGTTTAAA
10277219 TATTTTT
1 TATTTTT
10277226 TGTGTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 2 0.08
26 3 0.12
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTTTATATAATATTATGTTTAAA
Found at i:10277208 original size:23 final size:24
Alignment explanation
Indices: 10277174--10277223 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
10277164 GAAATTTATT
* *
10277174 TTTATATCATATTAT-TTTAACTA
1 TTTATATAATATTATGTTTAAATA
*
10277197 TTTATATAATATTTTGTTTAAATA
1 TTTATATAATATTATGTTTAAATA
10277221 TTT
1 TTT
10277224 TTTGTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATATAATATTATGTTTAAATA
Found at i:10281825 original size:7 final size:7
Alignment explanation
Indices: 10281806--10281835 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10281796 TAGCCAAAGC
10281806 TATCTCA
1 TATCTCA
10281813 -ATCTCA
1 TATCTCA
10281819 TATCTCA
1 TATCTCA
10281826 TATCTCA
1 TATCTCA
10281833 TAT
1 TAT
10281836 AATGCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (7 bp):
TATCTCA
Found at i:10285239 original size:23 final size:23
Alignment explanation
Indices: 10285213--10285257 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10285203 TCCATACTTA
*
10285213 ATTTTAAAAAATATATTAAATAG
1 ATTTTAAAAAATAAATTAAATAG
* *
10285236 ATTTTATAAATTAAATTAAATA
1 ATTTTAAAAAATAAATTAAATA
10285258 CTTAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTTAAAAAATAAATTAAATAG
Found at i:10300627 original size:24 final size:26
Alignment explanation
Indices: 10300576--10300627 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
10300566 ATCGATAGAA
**
10300576 ATTATAAGTTGAGAATAATTTATTTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
10300603 ATTATAAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
10300627 A
1 A
10300628 GGACAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:10309730 original size:17 final size:17
Alignment explanation
Indices: 10309656--10309743 Score: 70
Period size: 17 Copynumber: 4.8 Consensus size: 17
10309646 CAAAAACAAA
10309656 TATATAAAAAATTCAAAAT
1 TATA-AAAAAATT-AAAAT
*
10309675 TAT-AAAAATTTAGAAAAT
1 TATAAAAAAATT--AAAAT
*
10309693 TATAACAAAAGAAATATAAAT
1 TAT-A-AAAA-AATTA-AAAT
*
10309714 TCTAAAAAAATTAAAAT
1 TATAAAAAAATTAAAAT
10309731 TATAAAAAAATTA
1 TATAAAAAAATTA
10309744 GCTAAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
17 23 0.41
18 12 0.21
19 7 0.12
20 2 0.04
21 10 0.18
22 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (17 bp):
TATAAAAAAATTAAAAT
Found at i:10311020 original size:15 final size:14
Alignment explanation
Indices: 10310952--10311053 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 14
10310942 TTATTCCTAT
10310952 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
10310966 TATTTATATTTAT-
1 TATTTTTATTTATC
* *
10310979 T-TTGTTATTCTAATAA
1 TATTTTTATT-T-AT-C
*
10310995 TATTATTATTTATC
1 TATTTTTATTTATC
10311009 TACTTTTTATTTATC
1 TA-TTTTTATTTATC
* *
10311024 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
10311039 TATTATTATATTTAT
1 TATT-TT-TATTTAT
10311054 ATTTATTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
12 6 0.09
13 4 0.06
14 22 0.32
15 20 0.29
16 3 0.04
17 13 0.19
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:10311059 original size:15 final size:15
Alignment explanation
Indices: 10311027--10311072 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
10311017 ATTTATCTAT
*
10311027 TTATATTTCTACTATTA
1 TTATATTTATA-T-TTA
10311044 TTATATTTATATTTA
1 TTATATTTATATTTA
*
10311059 TTATATTTTTATTT
1 TTATATTTATATTT
10311073 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:10311065 original size:23 final size:22
Alignment explanation
Indices: 10311024--10311121 Score: 69
Period size: 23 Copynumber: 4.4 Consensus size: 22
10311014 TTTATTTATC
*
10311024 TATTTATATTT-CTACTATTATT
1 TATTTATATTTATTACTATT-TT
10311046 ATATTTATATTTATTA-TATTTT
1 -TATTTATATTTATTACTATTTT
* * *
10311068 TATTTCTATTTATATACTAATAT
1 TATTTATATTTAT-TACTATTTT
*
10311091 TATTT-TCA-TTATTACTTTTTT
1 TATTTAT-ATTTATTACTATTTT
*
10311112 TCTTATATAT
1 TATT-TATAT
10311122 GTTTTTTACT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
21 21 0.35
22 11 0.18
23 26 0.43
24 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTATATTTATTACTATTTT
Found at i:10311209 original size:24 final size:26
Alignment explanation
Indices: 10311153--10311202 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
10311143 CATTCTATTT
*
10311153 ATTTATTTGTTTATTTATTTATTTTAC
1 ATTT-TTTGTTTATTTATCTATTTTAC
10311180 ATTTTTTG-TTA-TTATCTATTTTA
1 ATTTTTTGTTTATTTATCTATTTTA
10311203 GCTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 4 0.18
27 4 0.18
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (26 bp):
ATTTTTTGTTTATTTATCTATTTTAC
Found at i:10318531 original size:133 final size:132
Alignment explanation
Indices: 10318218--10318647 Score: 594
Period size: 133 Copynumber: 3.2 Consensus size: 132
10318208 AAATGGCGAG
* * *
10318218 TCTTATCTCCATTTATCAGCTATTGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * * ** * * * *
10318283 AGAGAGTAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAG-TAGGCTAA-CAGGCTAAAAATTA
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAGGTAGCAAGG--AAGCAGACTAAAAATTA
10318346 TAGA
129 TAGA
* * *
10318350 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
*
10318415 AGAGAGTAGGTTGATGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTAT
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCT-AGGTAGCAAGGAAGCAGACTAAAAATTAT
10318480 AGA
130 AGA
* **
10318483 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * * * *
10318548 AGAGAGCAGGCTAAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTAC
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCT-AGGTAGCAAGGAAGCAGACTAAAAATTAT
10318613 AGA
130 AGA
10318616 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
10318648 CGATAATGGC
Statistics
Matches: 267, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
132 90 0.34
133 174 0.65
134 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAGGTAGCAAGGAAGCAGACTAAAAATTATA
GA
Found at i:10318645 original size:45 final size:44
Alignment explanation
Indices: 10318596--10318871 Score: 186
Period size: 45 Copynumber: 6.2 Consensus size: 44
10318586 GTAGCAAGGA
*
10318596 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGA-TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* **
10318641 AGCAGATCGATAATGGCA-AGTCTTATCTCCATGTATCAGCTATGG
1 AGCAGAT-GAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
*** *** * *
10318686 AGCAGATTTTAGCCACCAG-TCTTATCTCTC-TGAAGT-AGC-AAGAG
1 AGCAGATGAAAATTA-CAGATCTTATCTC-CATGTA-TCAGCTATG-G
* * * * * *
10318730 AGCAGGTTGAAAAATGCAGGTCTTATTTCCATGTATCAGCTATAG
1 AGCA-GATGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* * *
10318775 AGTAGACTGAGAATTATAGATCTTATCTCCATGTATCAGCTATGG
1 AGCAGA-TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* ** *
10318820 AGTAGATCGAAAATGGC-GAGTCCTATCTCCATGTATCAGCTATGG
1 AGCAGAT-GAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
10318865 AGCAGAT
1 AGCAGAT
10318872 TTTAGCCACC
Statistics
Matches: 177, Mismatches: 39, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 33 0.19
45 141 0.80
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AGCAGATGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
Found at i:10318741 original size:134 final size:134
Alignment explanation
Indices: 10318569--10318826 Score: 312
Period size: 134 Copynumber: 1.9 Consensus size: 134
10318559 TAAAGATACA
* *
10318569 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAATACAGATCTTATCTCCATGTATCA
* *
10318634 GCTATGGAGCAGA-TCGATAATGGCA-AG-TCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
66 GCTATAGAGCAGACT-GAGAAT--CATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
10318696 AGCCACC
128 AGCCACC
** * * *
10318703 AGTCTTATC-TCTCTGAA-GTAGCAA-GAGAGCAGGTTGAAAAATGCAGGTCTTATTTCCATGTA
1 AGTCTTATCTTC-CT-AAGGTAGCAAGGA-AGCAGACTGAAAAATACAGATCTTATCTCCATGTA
* * *
10318765 TCAGCTATAGAGTAGACTGAGAATTATAGATCTTATCTCCATGTATCAGCTATGGAGTAGAT
63 TCAGCTATAGAGCAGACTGAGAATCATAGATCTTATCTCCATGTATCAGCTATGGAGCAGAT
10318827 CGAAAATGGC
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
132 1 0.01
133 6 0.06
134 96 0.91
135 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (134 bp):
AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAATACAGATCTTATCTCCATGTATCA
GCTATAGAGCAGACTGAGAATCATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
CACC
Found at i:10318853 original size:179 final size:179
Alignment explanation
Indices: 10318486--10318976 Score: 654
Period size: 179 Copynumber: 2.7 Consensus size: 179
10318476 TTATAGATCT
* * *
10318486 TATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGA
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
* * * * * * *
10318551 GAGCAGGCTAAAGATACAAGTCTTATCTTCCTAAG-GT-AGC-A-AGGAAGCAGACTGAAAATTA
66 GAGCAGGTTAAAAATGCAGGTCTTATCTTCC-ATGTATCAGCTATA-G-AGTAGACTGAAAATTA
* * *
10318612 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGATAATGGCAAGTCT
128 CAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
**
10318664 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAAGTAGCAAGA
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
* *
10318729 GAGCAGGTTGAAAAATGCAGGTCTTAT-TTCCATGTATCAGCTATAGAGTAGACTGAGAATTATA
66 GAGCAGGTT-AAAAATGCAGGTCTTATCTTCCATGTATCAGCTATAGAGTAGACTGAAAATTACA
* *
10318793 GATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGCGAGTCC
130 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
*
10318843 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT-AAGGTAGCAGG
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAA-GTAGCAAG
* * * * *
10318907 AGAGCAGGTTCAAAATTGCAGGTCTTATCTT-CATATATCGGCTATGGAGTAGACTGAAAAATAC
65 AGAGCAGGTT-AAAAATGCAGGTCTTATCTTCCATGTATCAGCTATAGAGTAGACTGAAAATTAC
10318971 AGATCT
129 AGATCT
10318977 CCCCTAAACA
Statistics
Matches: 276, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
177 2 0.01
178 75 0.27
179 194 0.70
180 4 0.01
181 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (179 bp):
TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
GAGCAGGTTAAAAATGCAGGTCTTATCTTCCATGTATCAGCTATAGAGTAGACTGAAAATTACAG
ATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
Found at i:10318922 original size:89 final size:88
Alignment explanation
Indices: 10318652--10318955 Score: 253
Period size: 89 Copynumber: 3.4 Consensus size: 88
10318642 GCAGATCGAT
* *
10318652 AATGGCAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCT
1 AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCTCT
* *
10318717 GAAGTAGCAAGAGAGCAGGTTGAAA
66 -AAGTAGCAGGAGAGCAGGTT-CAA
* * * * * * **
10318742 AAT-GCAGGTCTTATTTCCATGTATCAGCTATAGAGTAGA-CTGAG-AATTATAGATCTTATCTC
1 AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCA--CCA-ATCTTATCTC
* * * * *
10318804 -C-ATGTATCAGCTATGGAGTA-GATCGAA
63 TCTAAGTAGCAG-GA--GAGCAGGTTC-AA
* *
10318831 AATGGC-GAGTCCTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTC
1 AATGGCAG-GTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCTC
10318895 TAAGGTAGCAGGAGAGCAGGTTCAA
65 TAA-GTAGCAGGAGAGCAGGTTCAA
* * * *
10318920 AATTGCAGGTCTTATCTTCATATATCGGCTATGGAG
1 AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAG
10318956 TAGACTGAAA
Statistics
Matches: 161, Mismatches: 37, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
87 7 0.04
88 4 0.02
89 86 0.53
90 52 0.32
91 5 0.03
92 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (88 bp):
AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCTCT
AAGTAGCAGGAGAGCAGGTTCAA
Found at i:10319197 original size:88 final size:88
Alignment explanation
Indices: 10318973--10319512 Score: 711
Period size: 88 Copynumber: 6.2 Consensus size: 88
10318963 AAAAATACAG
* * * *
10318973 ATCTCCCCTAAACAATAGTGGAGCAGATCGAAGACAGTAAACCTTAACCCCCTAAGCAGTAGGGT
1 ATCT-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
10319038 AACAGGCTGGAAAA-TA-A-A---T
65 AACAGGCT-GAAAATTACAGATCTT
* * *
10319057 ATCTCTCCTAAACAGTAGTGGAGCAGATCGAAGACAGCGAGCTTTAACCCCCTAAGCAGTAGGGT
1 ATCTC-CCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
10319122 AACAGGCTGAAAATTACAGATCTT
65 AACAGGCTGAAAATTACAGATCTT
* * ** *
10319146 ATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAAGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
*
10319211 ACAGGCTGAAAATTACAGACCTT
66 ACAGGCTGAAAATTACAGATCTT
** * * *
10319234 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAACTCTCTAAGCAATAGGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
*
10319299 ACAGGCTAAAAATTACAGATCTT
66 ACAGGCTGAAAATTACAGATCTT
* * *
10319322 ATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACAGTGAGCTTTAACCCCCTAAGCAGTAGGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
10319387 ACAGGCTGAAAATTACAGATCTT
66 ACAGGCTGAAAATTACAGATCTT
* * * * *
10319410 ATCTCCCTAAGCAGTAGTGGAGCAGATCTAGGACGGTGAGCCTTATCCCCCTAAGCAGT-TGG-A
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
* *
10319473 AGCAGACTG-AAATTACAAATCTT
66 A-CAGGCTGAAAATTACAGATCTT
*
10319496 ATCTCCCTAAGTAGTAG
1 ATCTCCCTAAGCAGTAG
10319513 GGAAACAAGC
Statistics
Matches: 406, Mismatches: 42, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
83 6 0.01
84 68 0.17
85 1 0.00
86 32 0.08
87 8 0.02
88 285 0.70
89 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
ACAGGCTGAAAATTACAGATCTT
Found at i:10319535 original size:130 final size:131
Alignment explanation
Indices: 10319106--10319644 Score: 389
Period size: 132 Copynumber: 4.1 Consensus size: 131
10319096 AGCTTTAACC
* * * *
10319106 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAG
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* * * * * * * * * * *
10319171 ATTGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTGAAAATTACAGACCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTATGG-AGCAGACTAAAAATTACAAATCTTAT
10319236 CT
130 CT
* * * * * * * *
10319238 CCCTAAGCAGTAGTGG-AGC-AGATCGAAGATGGT-GAG-CCTTAACTCTCTAAGCAATAG-GGT
1 CCCTAAGCAGTAG-GGAAACAAGCT-GAAAAT--TACAGATCTTATCTCCCTAAGCAGTAGCGG-
* * * ** * * * * * * * *
10319298 AACAG-GCTAAAA-ATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACAGT-G
61 AGCAGATCGAAAACGGTA-AG-CCTTATCCCCCTAAGCAGTA-TGGAGCAGA-CTAA-AAATTAC
** * *
10319360 AGCT-TTAACC
121 AAATCTTATCT
* * *
10319370 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* ** * *
10319435 ATCTAGGACGGTGAGCCTTATCCCCCTAAGCAGT-TGGAAGCAGACT-GAAATTACAAATCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTATGG-AGCAGACTAAAAATTACAAATCTTAT
10319498 CT
130 CT
*
10319500 CCCTAAGTAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* * * * * *
10319565 ATCGAAAATGGTAAGCCTTATCTCCCTGAGTAGTAGTGGAGCAGGCTAAAAATTACAGATCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTA-TGGAGCAGACTAAAAATTACAAATCTTAT
10319630 CT
130 CT
10319632 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
10319645 TGGGGCAGAT
Statistics
Matches: 304, Mismatches: 80, Indels: 46
0.71 0.19 0.11
Matches are distributed among these distances:
128 3 0.01
129 2 0.01
130 97 0.32
131 25 0.08
132 152 0.50
133 20 0.07
134 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (131 bp):
CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTATGGAGCAGACTAAAAATTACAAATCTTATC
T
Found at i:10319664 original size:44 final size:44
Alignment explanation
Indices: 10319106--10319664 Score: 334
Period size: 44 Copynumber: 12.8 Consensus size: 44
10319096 AGCTTTAACC
* *
10319106 CCCTAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * * * * * *
10319150 CCCTAAGCAGTAGTGGAGTAGATTGAAGATGGT-GAG-CCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAAT--TACAGATCTTATCT
* * * *
10319194 CCCTAAGCAGTAAG-GTAACAGGCTGAAAATTACAGACCTTATCT
1 CCCTAAGCAGT-AGTGGAGCAGACTGAAAATTACAGATCTTATCT
* * * *
10319238 CCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGT-GAG-CCTTAACT
1 CCCTAAGCAGTAGTGGAGCAGACT-GAAAAT--TACAGATCTTATCT
* * * * *
10319282 CTCTAAGCAATAG-GGTAACAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * * * * * *
10319326 CCCTAAGTAGTAGTGGAGTAGA-TCGAAGACAGT-GAGCT-TTAACC
1 CCCTAAGCAGTAGTGGAGCAGACT-GAA-A-ATTACAGATCTTATCT
* *
10319370 CCCTAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* *** * * *
10319414 CCCTAAGCAGTAGTGGAGCAGATCTAGGACGGT-GAG-CCTTATCC
1 CCCTAAGCAGTAGTGGAGCAGA-CT-GAAAATTACAGATCTTATCT
*
10319458 CCCTAAGCAGT--TGGAAGCAGACTG-AAATTACAAATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* *
10319500 CCCTAAGTAGTAG-GGAAACA-AGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGA-CTGAAAATTACAGATCTTATCT
* *
10319544 CCCTAAGCAGTAGCGGAGCAGA-TCGAAAATGGTA-AG-CCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGACT-GAAAAT--TACAGATCTTATCT
* * * *
10319588 CCCTGAGTAGTAGTGGAGCAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAATTACAGATCTTATCT
* * *
10319632 CCCTAAGCAGTAGTGGGGCAGATTGAAGATTAC
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAATTAC
10319665 CAAATTTTAT
Statistics
Matches: 386, Mismatches: 89, Indels: 80
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 28 0.07
43 34 0.09
44 283 0.73
45 28 0.07
46 9 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGACTGAAAATTACAGATCTTATCT
Found at i:10320707 original size:15 final size:15
Alignment explanation
Indices: 10320687--10320753 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
10320677 TTCTAATACT
10320687 ATTATTATTTATCTA
1 ATTATTATTTATCTA
10320702 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
10320717 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
10320731 ATTATTATATT-TCTA
1 ATTATTAT-TTATCTA
*
10320746 TTTATTAT
1 ATTATTAT
10320754 ATTTTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.25
15 31 0.70
16 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:10320717 original size:29 final size:29
Alignment explanation
Indices: 10320685--10320753 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 29
10320675 TATTCTAATA
10320685 CTATTATTATTTAT-CTAATTATTAT-TTAT
1 CTATTATTATTTATACT-ATTATTATATT-T
*
10320714 CTATT-TATATTTCTACTATTATTATATTT
1 CTATTAT-TATTTATACTATTATTATATTT
10320743 CTATTTATTAT
1 CTA-TTATTAT
10320754 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
28 1 0.03
29 23 0.68
30 9 0.26
31 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (29 bp):
CTATTATTATTTATACTATTATTATATTT
Found at i:10320754 original size:15 final size:15
Alignment explanation
Indices: 10320718--10320763 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
10320708 ATTTATCTAT
10320718 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
10320735 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
10320750 TTATATTTTTATTT
1 TTATATTTCTATTT
10320764 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:10322986 original size:15 final size:16
Alignment explanation
Indices: 10322961--10322995 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10322951 TACAGATAGA
10322961 TTTATATTTTTATAAT
1 TTTATATTTTTATAAT
*
10322977 TTTATA-TTTTATTAT
1 TTTATATTTTTATAAT
10322992 TTTA
1 TTTA
10322996 CAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATTTTTATAAT
Found at i:10332730 original size:17 final size:16
Alignment explanation
Indices: 10332689--10332731 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10332679 GGATTTTGGT
*
10332689 AAATTATAT-TTAGTC
1 AAATTATATATGAGTC
*
10332704 AAATTTTATATGAGTC
1 AAATTATATATGAGTC
10332720 AAATTCATATAT
1 AAATT-ATATAT
10332732 ATTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 8 0.35
16 10 0.43
17 5 0.22
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (16 bp):
AAATTATATATGAGTC
Found at i:10336571 original size:37 final size:39
Alignment explanation
Indices: 10336511--10336597 Score: 133
Period size: 37 Copynumber: 2.3 Consensus size: 39
10336501 TAAAAAATAT
10336511 TTATATTAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTA-CATAAATATAATAAATATTTTA
*
10336551 TTATATTAAAAACAC-A-ATAAATATAATGAATATTTTA
1 TTATATTAAAAACACTACATAAATATAATAAATATTTTA
*
10336588 TTGTATTAAA
1 TTATATTAAA
10336598 CGTAATTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 29 0.64
39 1 0.02
40 15 0.33
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (39 bp):
TTATATTAAAAACACTACATAAATATAATAAATATTTTA
Found at i:10338682 original size:23 final size:22
Alignment explanation
Indices: 10338639--10338690 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
10338629 TAATACGTTG
* *
10338639 TTTTATTTATTATCTATTTTAGA
1 TTTTATATATTATCTAATTTA-A
*
10338662 TTTTATATATTATTTAATTTAA
1 TTTTATATATTATCTAATTTAA
10338684 -TTTATAT
1 TTTTATAT
10338691 CACATGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 18 0.69
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTATATATTATCTAATTTAA
Found at i:10339176 original size:13 final size:13
Alignment explanation
Indices: 10339158--10339200 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
10339148 TCTTTTTACC
*
10339158 ATTTACTATTATT
1 ATTTACTATTTTT
10339171 ATTTACATATTTTT
1 ATTTAC-TATTTTT
10339185 ATTGTA-TATTTTT
1 ATT-TACTATTTTT
10339198 ATT
1 ATT
10339201 ATTATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 16 0.59
14 9 0.33
15 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTTACTATTTTT
Found at i:10340604 original size:21 final size:20
Alignment explanation
Indices: 10340578--10340620 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
10340568 ATCCTATAAG
*
10340578 AAATTATTAATAATAATACTT
1 AAATTATAAATAATAATA-TT
*
10340599 AAATTATAAATTATAATATT
1 AAATTATAAATAATAATATT
10340619 AA
1 AA
10340621 TATTCAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTATAAATAATAATATT
Found at i:10340629 original size:27 final size:28
Alignment explanation
Indices: 10340578--10340634 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
10340568 ATCCTATAAG
*
10340578 AAATTATTAATAATAATACTTAAATTAT
1 AAATTATTAATAATAATACTTAAATCAT
*
10340606 AAATTA-TAATATTAATA-TTCAAATCAT
1 AAATTATTAATAATAATACTT-AAATCAT
10340633 AA
1 AA
10340635 TTAATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.08
27 18 0.69
28 6 0.23
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
AAATTATTAATAATAATACTTAAATCAT
Found at i:10340671 original size:15 final size:15
Alignment explanation
Indices: 10340651--10340680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10340641 TTTATATATT
*
10340651 TTTTAATATTAAATA
1 TTTTAAAATTAAATA
10340666 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
10340681 AAATTGATTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAAAATTAAATA
Found at i:10340851 original size:21 final size:21
Alignment explanation
Indices: 10340827--10340890 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
10340817 ATACAAGTAG
10340827 TAAATATAATTATTTTTTTAA
1 TAAATATAATTATTTTTTTAA
* *
10340848 TAAA-AGTAAATATTTATTTTTA
1 TAAATA-TAATTATTT-TTTTAA
* *
10340870 -AAATATTATTAATTTTTTAA
1 TAAATATAATTATTTTTTTAA
10340890 T
1 T
10340891 TTTAAACTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
20 6 0.18
21 21 0.64
22 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TAAATATAATTATTTTTTTAA
Found at i:10340874 original size:25 final size:26
Alignment explanation
Indices: 10340825--10340874 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
10340815 AAATACAAGT
**
10340825 AGTAAATATAATTATTTTTTTAATAAA
1 AGTAAATAT-ATTATTTTTAAAATAAA
10340852 AGTAAATAT-TTATTTTTAAAATA
1 AGTAAATATATTATTTTTAAAATA
10340875 TTATTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
27 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (26 bp):
AGTAAATATATTATTTTTAAAATAAA
Found at i:10341627 original size:23 final size:23
Alignment explanation
Indices: 10341601--10341669 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
10341591 CTGGTGCTAT
*
10341601 TAAAATTTAGAAAAAATAATAAA
1 TAAAATTTAGAAAAATTAATAAA
*
10341624 T-AAATTTAGAATAATTTAATAAA
1 TAAAATTTAGAA-AAATTAATAAA
*
10341647 -AAAATTTAGAAAAATTATTAAA
1 TAAAATTTAGAAAAATTAATAAA
10341669 T
1 T
10341670 TTTAATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 19 0.49
23 20 0.51
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAAATTTAGAAAAATTAATAAA
Found at i:10341628 original size:22 final size:22
Alignment explanation
Indices: 10341603--10341669 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
10341593 GGTGCTATTA
*
10341603 AAATTTAGAAAAAATAATAAAT
1 AAATTTAGAAAAATTAATAAAT
* *
10341625 AAATTTAGAATAATTTAATAAAA
1 AAATTTAGAA-AAATTAATAAAT
*
10341648 AAATTTAGAAAAATTATTAAAT
1 AAATTTAGAAAAATTAATAAAT
10341670 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 19 0.50
23 19 0.50
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATTTAGAAAAATTAATAAAT
Found at i:10343324 original size:31 final size:31
Alignment explanation
Indices: 10343267--10343325 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10343257 TCATTTATTT
*
10343267 ATCTATTTATTCATTTATTTATTTCTAAAAA
1 ATCTATTTATTCATTTATTCATTTCTAAAAA
10343298 ATCTATTTATTGTCA-TTATTCA-TTCTAA
1 ATCTATTTA-T-TCATTTATTCATTTCTAA
10343326 GTCTCTCTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 15 0.60
32 7 0.28
33 3 0.12
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (31 bp):
ATCTATTTATTCATTTATTCATTTCTAAAAA
Found at i:10343584 original size:24 final size:22
Alignment explanation
Indices: 10343557--10343603 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
10343547 CTCGTACTAC
10343557 TTATTCTAAAACTTGCTTTATATG
1 TTATT-TAAAACTTG-TTTATATG
* *
10343581 TTATTTTAAACTTGTTTTTATG
1 TTATTTAAAACTTGTTTATATG
10343603 T
1 T
10343604 ACTATTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (22 bp):
TTATTTAAAACTTGTTTATATG
Found at i:10343649 original size:60 final size:59
Alignment explanation
Indices: 10343581--10343694 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 59
10343571 GCTTTATATG
* * * *
10343581 TTATTTTAAACTTGTTTTTATGTACTATT-AATGTTTTATTATTTGTTTTAAATTGTTACT
1 TTATTTTAAACAT-CTTTTATGTA-TATTAAATGTTTTATTATTTATTCTAAATTGTTACT
* *
10343641 TTATTTTAAACATCTTTTATTTATTTTAAAATGTTTTATTATTTATTCTAAATT
1 TTATTTTAAACATCTTTTATGTATATT-AAATGTTTTATTATTTATTCTAAATT
10343695 TTTATATGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 3 0.07
59 8 0.17
60 35 0.76
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (59 bp):
TTATTTTAAACATCTTTTATGTATATTAAATGTTTTATTATTTATTCTAAATTGTTACT
Found at i:10343665 original size:20 final size:19
Alignment explanation
Indices: 10343619--10343684 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
10343609 TAATGTTTTA
* *
10343619 TTATTTGTTTT-AAAT-TG
1 TTATTTATTTTAAAATCTT
10343636 TTACTTTATTTTAAACATCTT
1 TTA-TTTATTTTAAA-ATCTT
*
10343657 TTATTTATTTTAAAATGTT
1 TTATTTATTTTAAAATCTT
10343676 TTA-TTATTT
1 TTATTTATTT
10343685 ATTCTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.07
18 13 0.31
19 9 0.21
20 13 0.31
21 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
TTATTTATTTTAAAATCTT
Found at i:10343920 original size:62 final size:62
Alignment explanation
Indices: 10343853--10343977 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
10343843 TTTATCATCC
* * * *
10343853 TAAAATTTTTTTACATCTTATTTATCTTGATTTGCTTTATATCTTTTTATCATTTAATTCAT
1 TAAAATGTGTTTACATCTTATTTATCTTGATTTGCATTATACCTTTTTATCATTTAATTCAT
10343915 TAAAATGTGTTTACATCTTATTTATCTTGATTTGCATTATACCTTTTTATCATTTAATTCAT
1 TAAAATGTGTTTACATCTTATTTATCTTGATTTGCATTATACCTTTTTATCATTTAATTCAT
10343977 T
1 T
10343978 CTCTTATTTG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (62 bp):
TAAAATGTGTTTACATCTTATTTATCTTGATTTGCATTATACCTTTTTATCATTTAATTCAT
Found at i:10346049 original size:28 final size:27
Alignment explanation
Indices: 10345977--10346071 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 27
10345967 ACATTTTGTG
*
10345977 TAATTTTCTTACGACTTTATAAAATTTTA
1 TAATTTT-TTACGATTTTAT-AAATTTTA
* *
10346006 TAATTTTTTTA-TATTTCTATATATTTTA
1 TAA-TTTTTTACGATTT-TATAAATTTTA
*
10346034 TAATTTTTTACGATTTTTATAAAATTTCA
1 TAATTTTTTACGA-TTTTAT-AAATTTTA
*
10346063 CAATTTTTT
1 TAATTTTTT
10346072 TATATATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 7 0.13
28 17 0.31
29 26 0.48
30 4 0.07
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (27 bp):
TAATTTTTTACGATTTTATAAATTTTA
Found at i:10346051 original size:19 final size:19
Alignment explanation
Indices: 10346029--10346101 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
10346019 TTTCTATATA
10346029 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
** * *
10346048 TTTTATAAAATTTCACAAT
1 TTTTATAATTTTTTACGAT
* *
10346067 TTTTTTATATATTTTTACGGT
1 TTTTATA-AT-TTTTTACGAT
10346088 TTTTATAATTTTTT
1 TTTTATAATTTTTT
10346102 TCTAATTTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 26 0.63
20 3 0.07
21 12 0.29
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:10346053 original size:57 final size:59
Alignment explanation
Indices: 10345954--10346076 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 59
10345944 TTTTATGAAA
* * * *
10345954 TTTATATTTCTTTACATTTTGTGTAATTTTCTTACGACTTTATAAAATTTTATAATTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTCACAATTTT
* *
10346013 TTTATATTTCTATATA-TTT-TATAATTTT-TTACGATTTTTATAAAATTTCACAATTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTCACAATTTT
10346070 TTTATAT
1 TTTATAT
10346077 ATTTTTACGG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
56 6 0.11
57 34 0.60
58 3 0.05
59 14 0.25
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (59 bp):
TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTCACAATTTT
Found at i:10347553 original size:19 final size:19
Alignment explanation
Indices: 10347531--10347569 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10347521 TTATTTTTAT
10347531 TTATGTATAATTTATCATA
1 TTATGTATAATTTATCATA
* * *
10347550 TTATTTATATTTTATTATA
1 TTATGTATAATTTATCATA
10347569 T
1 T
10347570 ATTTTATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATGTATAATTTATCATA
Found at i:10347568 original size:29 final size:31
Alignment explanation
Indices: 10347510--10347639 Score: 108
Period size: 29 Copynumber: 4.1 Consensus size: 31
10347500 GTAAAAAAAT
* *
10347510 TATTATAT-ATATTATTTTTA-TTTATGTATA
1 TATTTTATCATATTATTTATATTTTAT-TATA
10347540 -A-TTTATCATATTATTTATATTTTATTATA
1 TATTTTATCATATTATTTATATTTTATTATA
*
10347569 TATTTTATTATA-TATTATATCATTTTACTATATA
1 TATTTTATCATATTATT-TAT-ATTTTA-T-TATA
* * *
10347603 TATTATTCATTATATTATTTTTATTCTATTATA
1 TATT-TT-ATCATATTATTTATATTTTATTATA
10347636 TATT
1 TATT
10347640 ATATTATTTT
Statistics
Matches: 84, Mismatches: 5, Indels: 19
0.78 0.05 0.18
Matches are distributed among these distances:
28 4 0.05
29 16 0.19
30 10 0.12
31 11 0.13
32 6 0.07
33 9 0.11
34 9 0.11
35 7 0.08
36 8 0.10
37 4 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (31 bp):
TATTTTATCATATTATTTATATTTTATTATA
Found at i:10347606 original size:55 final size:52
Alignment explanation
Indices: 10347547--10347665 Score: 139
Period size: 55 Copynumber: 2.2 Consensus size: 52
10347537 ATAATTTATC
* *
10347547 ATATTATTTATATTTTATTATATATTTTATTATATATTATATCATTTTACTATAT
1 ATATTATTTATATATTATT-TATATTCTATTATATATTATATCATTTTACT-T-T
* * * *
10347602 ATATTATTCATTATATTATTTTTATTCTATTATATATTATATTATTTTGCTTT
1 ATATTATTTA-TATATTATTTATATTCTATTATATATTATATCATTTTACTTT
*
10347655 TTATTATTTAT
1 ATATTATTTAT
10347666 TATGTATAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.02
53 9 0.16
54 1 0.02
55 36 0.65
56 8 0.15
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (52 bp):
ATATTATTTATATATTATTTATATTCTATTATATATTATATCATTTTACTTT
Found at i:10347639 original size:12 final size:12
Alignment explanation
Indices: 10347508--10347646 Score: 81
Period size: 12 Copynumber: 12.4 Consensus size: 12
10347498 ATGTAAAAAA
10347508 ATTAT-TATATAT
1 ATTATATAT-TAT
*
10347520 ATTAT-TTTTAT
1 ATTATATATTAT
* *
10347531 -TTATGTATAAT
1 ATTATATATTAT
10347542 -TTATCATATTAT
1 ATTAT-ATATTAT
10347554 -TTATAT-TT-T
1 ATTATATATTAT
*
10347563 ATTATATATTTT
1 ATTATATATTAT
10347575 ATTATATATTAT
1 ATTATATATTAT
*
10347587 ATCAT-T-TTACT
1 ATTATATATTA-T
10347598 A-TATATATTAT
1 ATTATATATTAT
*
10347609 -TCATTATATTAT
1 ATTA-TATATTAT
*
10347621 -TT-T-TATTCT
1 ATTATATATTAT
10347630 ATTATATATTAT
1 ATTATATATTAT
10347642 ATTAT
1 ATTAT
10347647 TTTGCTTTTT
Statistics
Matches: 102, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
9 6 0.06
10 20 0.20
11 22 0.22
12 54 0.53
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (12 bp):
ATTATATATTAT
Found at i:10347640 original size:26 final size:27
Alignment explanation
Indices: 10347547--10347649 Score: 104
Period size: 26 Copynumber: 3.8 Consensus size: 27
10347537 ATAATTTATC
* * *
10347547 ATATTATTTA-TATTTTATTATATATT
1 ATATTATATATTATATTATTTTATATT
* *
10347573 TTATTATATATTATATCATTTTACTATAT
1 ATATTATATATTATATTATTTTA-TAT-T
10347602 ATATTAT-TCATTATATTATTTT-TATT
1 ATATTATAT-ATTATATTATTTTATATT
*
10347628 CTATTATATATTATATTATTTT
1 ATATTATATATTATATTATTTT
10347650 GCTTTTTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
26 28 0.44
27 13 0.20
28 4 0.06
29 19 0.30
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATTATATATTATATTATTTTATATT
Found at i:10347938 original size:14 final size:14
Alignment explanation
Indices: 10347919--10347954 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10347909 ACCACATTTA
10347919 TTGTATTTAGTTTT
1 TTGTATTTAGTTTT
*
10347933 TTGTATTTATTTTT
1 TTGTATTTAGTTTT
*
10347947 TTATATTT
1 TTGTATTT
10347955 TATATGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (14 bp):
TTGTATTTAGTTTT
Found at i:10347947 original size:13 final size:13
Alignment explanation
Indices: 10347914--10347947 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10347904 TTTTTACCAC
*
10347914 ATTTATTGTATTT
1 ATTTTTTGTATTT
10347927 AGTTTTTTGTATTT
1 A-TTTTTTGTATTT
10347941 ATTTTTT
1 ATTTTTT
10347948 TATATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
ATTTTTTGTATTT
Found at i:10359733 original size:90 final size:90
Alignment explanation
Indices: 10359625--10360401 Score: 1157
Period size: 90 Copynumber: 8.7 Consensus size: 90
10359615 ATCGAGGAAG
* * * *
10359625 CAGATTTGGTGTTTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* *
10359690 TTACATCAAATCAGTTCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
*
10359715 CAGATTTGGCGTCTCTG---TA-ACGGGGAGCAAATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
10359776 TTACATCAAAGTAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
* * * * * * *
10359801 CAAATTTGGCATCTATGTATTAGACAGGGAGCAGATCGAAGATAATGGATCTGATATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
** *
10359866 TTACATTGAAGCAGATCAAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
*
10359891 CAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* *
10359956 TTACATCGAAGTAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
* *
10359981 TAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGC
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
10360046 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
*
10360071 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
* * * *
10360136 TTGCATCGAAGTAGATCGAAAATGA
66 TTACATCAAAGCAGATCGAAGATGA
* * *
10360161 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATTTAACATTCGCGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
10360226 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
* * * *
10360251 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATTTAACATTCGCGTGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
*
10360316 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCAAAGCAGATCGAAGATGA
* * *
10360341 CAGATTTGGTGTCTCTGTATTAGACGGGGAGTAGATCAAAGATAGTAGATCTGACATTCGT
1 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGT
10360402 CTCTGTATTA
Statistics
Matches: 629, Mismatches: 54, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
86 75 0.12
87 2 0.00
89 2 0.00
90 550 0.87
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (90 bp):
CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGT
TTACATCAAAGCAGATCGAAGATGA
Found at i:10359879 original size:45 final size:45
Alignment explanation
Indices: 10359654--10360747 Score: 388
Period size: 45 Copynumber: 24.3 Consensus size: 45
10359644 TTAGACAGGG
** * *
10359654 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCAA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * * * ** *
10359699 ATCAGTTCGAAGATGACAGATTTGGCGTCTC-TGT-A--AC-GGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATCGA
* * * *
10359740 AGCAAATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCAA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * * * * *
10359785 AGTAGATCGAAGATGACAAATTTGGCA-TC-TATGTATTAGACA-GGG
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTG-ATT--ACATCGA
* * * *
10359830 AGCAGATCGAAGATAATGGATCTGATATTCGTGTGTTTACATTGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * * * * *
10359875 AGCAGATCAAAGATGACAGATTTGGCGTCTC-TGT-ATTAGATGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACAT-CGA
* *
10359920 AGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * * *
10359965 AGTAGATCGAAGATGATAGATTTGGCGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC--GA
* *
10360010 AGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * *** * *
10360055 AGCAGATCGAAGATGACAGATTTGGTGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC--GA
* * *
10360100 AGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTGCATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * * * * *
10360145 AGTAGATCGAAAATGACAGATTTGGCGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC--GA
* * * * *
10360190 AGCAGATCGAAGATAGTAGATTTAACATTCGCGTGTTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * *** * *
10360235 AGCAGATCGAAGATGACAGATTTGGTGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC--GA
* * * * *
10360280 AGCAGATCGAAGATAGTAGATTTAACATTCGCGTGTTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * *** * *
10360325 AGCAGATCGAAGATGACAGATTTGGTGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC--GA
* * * * *
10360370 AGTAGATCAAAGATAGTAGATCTGACATTCGTCTCTGTATTAGA-CGGGA
1 AGCAGATCGAAGATAATAGATCTGACATTCG--TGTG-ATTACATC--GA
* *
10360419 AGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * * *
10360464 AGCAGATCAAAGATGACAGATTTGGCGTCTC-TGT-ATTAGA-CGGGGA
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC---GA
* *
10360510 A-CAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * * * *
10360554 AGCAGATCGAAGATGATAAATTTGGCGTCTC-TGT-ATTAGA-CGA
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATCGA
* * * *
10360597 GGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAA
1 --AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
* * * *** * *
10360644 AGCAGATCGAAGATGACAGATTTGGTGTCTC-TGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAATAGATCTGACAT-TCGTGTGATTACATC--GA
* * * *
10360689 AGCAGATCAAAGATAGTAGATCTGACATTCGTATGTTTACATCGA
1 AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
*
10360734 AGTAGATCGAAGAT
1 AGCAGATCGAAGAT
10360748 GACTGGCGTC
Statistics
Matches: 732, Mismatches: 248, Indels: 138
0.65 0.22 0.12
Matches are distributed among these distances:
40 2 0.00
41 22 0.03
42 2 0.00
43 13 0.02
44 66 0.09
45 505 0.69
46 66 0.09
47 17 0.02
49 39 0.05
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (45 bp):
AGCAGATCGAAGATAATAGATCTGACATTCGTGTGATTACATCGA
Found at i:10360461 original size:409 final size:404
Alignment explanation
Indices: 10359990--10360802 Score: 1356
Period size: 409 Copynumber: 2.0 Consensus size: 404
10359980 ATAGATTTGG
*
10359990 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
1 CGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
* * *
10360055 AGCAGATCGAAGATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGA
66 AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
* * *
10360120 TCTGACATTCGTGTGTTTGCATCGAAGTAGATCGAAAATGACAGATTTGGCGTCTCTGTATTAGA
131 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGACAAATTTGGCGTCTCTGTATTAGA
* * *
10360185 CGGGGAGCAGATCGAAGATAGTAGATTTAACATTCGCGTGTTTACATCGAAGCAGATCGAAGATG
196 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGCGTGTTTACATCAAAGCAGATCGAAGATG
* * *
10360250 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATTTAACATTCGCGTG
261 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTAACATTCGCATG
* * *
10360315 TTTACATCGAAGCAGATCGAAGATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGTAGATCAA
326 TTTACATCGAAGCAGATCGAAGATGAC-----TGGCGTCTCTGTATTAGACGGGGAGCAAATCAA
*
10360380 AGATAGTAGATCTGACATT
386 AGATAGTAGATCTAACATT
*
10360399 CGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
10360464 AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
66 AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
* *
10360529 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGATAAATTTGGCGTCTCTGTATTAGA
131 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGACAAATTTGGCGTCTCTGTATTAGA
*
10360594 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAAAGCAGATCGAAGATG
196 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGCGTGTTTACATCAAAGCAGATCGAAGATG
* *
10360659 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCGTATG
261 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTAACATTCGCATG
* *
10360724 TTTACATCGAAGTAGATCGAAGATGACTGGCGTCTCTGTATTAGACGGGGAGCAAATCGAAGATA
326 TTTACATCGAAGCAGATCGAAGATGACTGGCGTCTCTGTATTAGACGGGGAGCAAATCAAAGATA
10360789 GTAGATCTAACATT
391 GTAGATCTAACATT
10360803 TGTGTGTTTA
Statistics
Matches: 379, Mismatches: 25, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
404 47 0.12
409 332 0.88
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (404 bp):
CGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGCTTACATCGA
AGCAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAAATGACAAATTTGGCGTCTCTGTATTAGA
CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGCGTGTTTACATCAAAGCAGATCGAAGATG
ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTAACATTCGCATG
TTTACATCGAAGCAGATCGAAGATGACTGGCGTCTCTGTATTAGACGGGGAGCAAATCAAAGATA
GTAGATCTAACATT
Found at i:10360518 original size:90 final size:90
Alignment explanation
Indices: 10360399--10360855 Score: 701
Period size: 90 Copynumber: 5.1 Consensus size: 90
10360389 ATCTGACATT
*
10360399 CGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
*
10360464 AGCAGATCAAAGATGACAGATTTGG
66 AGCAGATCGAAGATGACAGATTTGG
*
10360489 CGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
* *
10360554 AGCAGATCGAAGATGATAAATTTGG
66 AGCAGATCGAAGATGACAGATTTGG
* * *
10360579 CGTCTCTGTATTAGACGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
10360644 AGCAGATCGAAGATGACAGATTTGG
66 AGCAGATCGAAGATGACAGATTTGG
* * *
10360669 TGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCGTATGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
*
10360734 AGTAGATCGAAGATGAC-----TGG
66 AGCAGATCGAAGATGACAGATTTGG
* * *
10360754 CGTCTCTGTATTAGACGGGGAGCAAATCGAAGATAGTAGATCTAACATTTGTGTGTTTACATCGA
1 CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
*
10360819 AGCAGATCAAAGAT-AGCAGATTTGG
66 AGCAGATCGAAGATGA-CAGATTTGG
* *
10360844 CGTATTTGTATT
1 CGTCTCTGTATT
10360856 TGATAAGGAG
Statistics
Matches: 333, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
84 1 0.00
85 75 0.23
90 257 0.77
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (90 bp):
CGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGA
AGCAGATCGAAGATGACAGATTTGG
Found at i:10360562 original size:319 final size:319
Alignment explanation
Indices: 10360081--10360720 Score: 1129
Period size: 319 Copynumber: 2.0 Consensus size: 319
10360071 CAGATTTGGT
* *
10360081 GTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTGCATCGAA
1 GTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGAA
* *
10360146 GTAGATCGAAAATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGAT
66 GCAGATCGAAAATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGAT
* * *
10360211 TTAACATTCGCGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGTGTCTCTGTATTAGAC
131 CTAACATTCGCGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTAGAC
* * *
10360276 GGGGAGCAGATCGAAGATAGTAGATTTAACATTCGCGTGTTTACATCGAAGCAGATCGAAGATGA
196 GAGGAGCAGATCGAAGATAGTAGATCTAACATTCGCGTGTTTACATCAAAGCAGATCGAAGATGA
*
10360341 CAGATTTGGTGTCTCTGTATTAGACGGGGAGTAGATCAAAGATAGTAGATCTGACATTC
261 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTC
10360400 GTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGAA
1 GTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGAA
10360465 GCAGATC-AAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
66 GCAGATCGAAA-ATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGA
* * *
10360529 TCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGATAAATTTGGCGTCTCTGTATTAGA
130 TCTAACATTCGCGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTAGA
*
10360594 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGTGTGTTTACATCAAAGCAGATCGAAGATG
195 CGAGGAGCAGATCGAAGATAGTAGATCTAACATTCGCGTGTTTACATCAAAGCAGATCGAAGATG
10360659 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTC
260 ACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTC
10360719 GT
1 GT
10360721 ATGTTTACAT
Statistics
Matches: 305, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
318 3 0.01
319 302 0.99
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (319 bp):
GTCTCTGTATTAGACGGGAAGCAGATCGAAGATAGTAGATCTGACATTCGTGTGTTTACATCGAA
GCAGATCGAAAATGACAGATTTGGCGTCTCTGTATTAGACGGGGAACAGATCGAAGATAGTAGAT
CTAACATTCGCGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTAGAC
GAGGAGCAGATCGAAGATAGTAGATCTAACATTCGCGTGTTTACATCAAAGCAGATCGAAGATGA
CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTC
Found at i:10360802 original size:85 final size:85
Alignment explanation
Indices: 10360670--10360832 Score: 263
Period size: 85 Copynumber: 1.9 Consensus size: 85
10360660 CAGATTTGGT
* *
10360670 GTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCGTATGTTTACATCGAA
1 GTCTCTGTATTAGACGGGGAGCAAATCAAAGATAGTAGATCTAACATTCGTATGTTTACATCGAA
* *
10360735 GTAGATCGAAGATGACTGGC
66 GCAGATCAAAGATGACTGGC
* * *
10360755 GTCTCTGTATTAGACGGGGAGCAAATCGAAGATAGTAGATCTAACATTTGTGTGTTTACATCGAA
1 GTCTCTGTATTAGACGGGGAGCAAATCAAAGATAGTAGATCTAACATTCGTATGTTTACATCGAA
10360820 GCAGATCAAAGAT
66 GCAGATCAAAGAT
10360833 AGCAGATTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (85 bp):
GTCTCTGTATTAGACGGGGAGCAAATCAAAGATAGTAGATCTAACATTCGTATGTTTACATCGAA
GCAGATCAAAGATGACTGGC
Found at i:10362367 original size:29 final size:29
Alignment explanation
Indices: 10362335--10362391 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
10362325 ATTTTAATCC
* * *
10362335 TTTTAATTATTTTTTTTATAATTTATTTA
1 TTTTAAATATTTTATATATAATTTATTTA
*
10362364 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
10362392 TTACTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:10362441 original size:12 final size:12
Alignment explanation
Indices: 10362424--10362567 Score: 97
Period size: 12 Copynumber: 12.0 Consensus size: 12
10362414 ATGTAAAAAA
10362424 ATTATTATATAT
1 ATTATTATATAT
* *
10362436 ATTATTTTTATTT
1 ATTA-TTATATAT
10362449 ATGTATTATTTATCAT
1 AT-TATTA--TAT-AT
10362465 ATTATT-TATAT
1 ATTATTATATAT
*
10362476 TTTATTATATAT
1 ATTATTATATAT
*
10362488 TTTATT-TATAT
1 ATTATTATATAT
10362499 ATT-TTAT-TAT
1 ATTATTATATAT
10362509 A-TATTATATCAT
1 ATTATTATAT-AT
* *
10362521 TTTACTATATAT
1 ATTATTATATAT
10362533 ATTATTCAT-TAT
1 ATTATT-ATATAT
*
10362545 ATTATT-TTTAT
1 ATTATTATATAT
10362556 -TCTATTATATAT
1 AT-TATTATATAT
10362568 TATATTATTT
Statistics
Matches: 106, Mismatches: 11, Indels: 30
0.72 0.07 0.20
Matches are distributed among these distances:
9 1 0.01
10 12 0.11
11 23 0.22
12 39 0.37
13 19 0.18
14 2 0.02
15 7 0.07
16 3 0.03
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:10362457 original size:17 final size:18
Alignment explanation
Indices: 10362425--10362494 Score: 67
Period size: 19 Copynumber: 4.0 Consensus size: 18
10362415 TGTAAAAAAA
10362425 TTATTATATATATTATTT
1 TTATTATATATATTATTT
*
10362443 TTATT-TATGTATTA--T
1 TTATTATATATATTATTT
*
10362458 TTATCATAT-TATTTATATT
1 TTATTATATATA-TTAT-TT
*
10362477 TTATTATATATTTTATTT
1 TTATTATATATATTATTT
10362495 ATATATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 7 0.17
16 6 0.14
17 8 0.19
18 7 0.17
19 13 0.31
20 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
TTATTATATATATTATTT
Found at i:10362460 original size:15 final size:14
Alignment explanation
Indices: 10362424--10362594 Score: 93
Period size: 12 Copynumber: 12.6 Consensus size: 14
10362414 ATGTAAAAAA
10362424 ATTATTATATATATT
1 ATTATT-TATATATT
*
10362439 ATT-TTTATTTATGT
1 ATTATTTATATAT-T
*
10362453 ATTATTTAT-CA-T
1 ATTATTTATATATT
10362465 ATTA-TT-TATATT
1 ATTATTTATATATT
10362477 -TTA-TTATATATT
1 ATTATTTATATATT
10362489 -TTATTTATATATT
1 ATTATTTATATATT
10362502 -TTA-TTATATATT
1 ATTATTTATATATT
10362514 ATATCATTTTACTATATAT
1 AT-T-A-TTTA-TATAT-T
*
10362533 ATTATTCATTATATT
1 ATTATTTA-TATATT
*
10362548 ATT-TTTAT-T-CT
1 ATTATTTATATATT
*
10362559 ATTATATATTATATT
1 ATTATTTA-TATATT
* *
10362574 ATT-TTTCT-TTTT
1 ATTATTTATATATT
10362586 ATTATTTAT
1 ATTATTTAT
10362595 TATGTATAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
10 1 0.01
11 12 0.10
12 34 0.27
13 26 0.21
14 14 0.11
15 17 0.14
16 8 0.06
17 4 0.03
18 6 0.05
19 3 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (14 bp):
ATTATTTATATATT
Found at i:10362473 original size:23 final size:22
Alignment explanation
Indices: 10362424--10362575 Score: 95
Period size: 23 Copynumber: 6.9 Consensus size: 22
10362414 ATGTAAAAAA
10362424 ATTA-TTATATA-TA-TTAT-T
1 ATTATTTATATATTATTTATAT
* *
10362442 TTTATTTATGTATTATTTATCAT
1 ATTATTTATATATTATTTAT-AT
*
10362465 ATTATTTATATTTTATTATATAT
1 ATTATTTATATATTATT-TATAT
* *
10362488 TTTATTTATATATTTTATTATAT
1 ATTATTTATATATTAT-TTATAT
* *
10362511 ATTA--TATCATTTTACTATATAT
1 ATTATTTAT-ATATTA-TTTATAT
*
10362533 ATTATTCATTATATTATTT-T-T
1 ATTATTTA-TATATTATTTATAT
*
10362554 ATTCTATTATATATTATATTAT
1 ATTAT-TTATATATTAT-TTAT
10362576 TTTTCTTTTT
Statistics
Matches: 102, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
18 3 0.03
19 6 0.06
20 2 0.02
21 20 0.20
22 18 0.18
23 42 0.41
24 10 0.10
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (22 bp):
ATTATTTATATATTATTTATAT
Found at i:10362477 original size:35 final size:36
Alignment explanation
Indices: 10362426--10362602 Score: 99
Period size: 34 Copynumber: 5.0 Consensus size: 36
10362416 GTAAAAAAAT
*
10362426 TATTATATATATTATTTTTATT-TATGTATTATTTATCA
1 TATTATAT-TA-TATTTTTATTATATATATTATTTAT-A
*
10362464 TATTAT-TTATA-TTTTATTATATATTTTATTTATA
1 TATTATATTATATTTTTATTATATATATTATTTATA
* * *
10362498 TATTTTATTATA----TATTATATCATTTTACTATATA
1 TATTATATTATATTTTTATTATAT-ATATTA-TTTATA
* *
10362532 TATTATTCATTATATTATTT-TTAT-TCTATTATATATTA
1 TATTA-T-ATTATATT-TTTATTATATATATTATTTA-TA
* * *
10362570 TATTAT-TTTTCTTTTTATTAT-T-TATTATGTATA
1 TATTATATTATATTTTTATTATATATATTATTTATA
10362603 ATTTTAAAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 31
0.74 0.06 0.20
Matches are distributed among these distances:
32 8 0.07
33 8 0.07
34 33 0.28
35 30 0.26
36 8 0.07
37 6 0.05
38 17 0.15
39 1 0.01
40 4 0.03
41 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TATTATATTATATTTTTATTATATATATTATTTATA
Found at i:10362513 original size:46 final size:45
Alignment explanation
Indices: 10362441--10362551 Score: 127
Period size: 46 Copynumber: 2.4 Consensus size: 45
10362431 TATATATTAT
* *
10362441 TTTTATTTATGTATTATTTATCATATTATTTAT-ATTTTATTATATA
1 TTTTATTTATATATTATTTATCATATTA--TATCATTTTACTATATA
*
10362487 TTTTATTTATATATTTTATTAT-ATATTATATCATTTTACTATATA
1 TTTTATTTATATATTAT-TTATCATATTATATCATTTTACTATATA
* *
10362532 TATTATTCATTATATTATTT
1 TTTTATTTA-TATATTATTT
10362552 TTATTCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 3 0.05
45 21 0.38
46 28 0.50
47 4 0.07
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.64
Consensus pattern (45 bp):
TTTTATTTATATATTATTTATCATATTATATCATTTTACTATATA
Found at i:10362514 original size:32 final size:33
Alignment explanation
Indices: 10362433--10362578 Score: 73
Period size: 31 Copynumber: 4.5 Consensus size: 33
10362423 AATTATTATA
* *
10362433 TATATTATT-TTTA-TTTATGTAT-TA-TTTAT
1 TATATTATTATATATTTTATTTATATATTTTAT
*
10362462 CATATTATT-TATATTTTA-TTATATATTTTAT
1 TATATTATTATATATTTTATTTATATATTTTAT
* *
10362493 T-TATATATT-T-TATTATATATTATATCATTTTAC
1 TATAT-TATTATATATTTTAT-TTATAT-ATTTTAT
* *
10362526 TATATATATTATTCATTATATTATTT-T-TATTCTAT
1 TATAT-TATTA-T-A-TATTTTATTTATATATTTTAT
10362561 TATA-TATTATATTATTTT
1 TATATTATTATA-TATTTT
10362579 TCTTTTTATT
Statistics
Matches: 93, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
29 14 0.15
30 15 0.16
31 17 0.18
32 7 0.08
33 12 0.13
34 8 0.09
35 9 0.10
36 2 0.02
37 1 0.01
38 2 0.02
39 6 0.06
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (33 bp):
TATATTATTATATATTTTATTTATATATTTTAT
Found at i:10362517 original size:80 final size:80
Alignment explanation
Indices: 10362424--10362573 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
10362414 ATGTAAAAAA
* * * * *
10362424 ATTATTATATATATTATTTTTA-TTTATGTATTATTTATCATATTATTTATATTTTATTATATAT
1 ATTATTATATATATCA-TTTTACTATATATATTATTCATCATATTATTTATATTCTATTATATAT
*
10362488 TTTATTTATATATTTT
65 TATATTTATATATTTT
* *
10362504 ATTA-TATATTATATCATTTTACTATATATATTATTCATTATATTATTTTTATTCTATTATATAT
1 ATTATTATA-TATATCATTTTACTATATATATTATTCATCATATTATTTATATTCTATTATATAT
10362568 TATATT
65 TATATT
10362574 ATTTTTCTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 9 0.15
80 51 0.85
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (80 bp):
ATTATTATATATATCATTTTACTATATATATTATTCATCATATTATTTATATTCTATTATATATT
ATATTTATATATTTT
Found at i:10362861 original size:14 final size:14
Alignment explanation
Indices: 10362842--10362877 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10362832 ACCACATTTA
10362842 TTGTATTTAGTTTT
1 TTGTATTTAGTTTT
*
10362856 TTGTATTTATTTTT
1 TTGTATTTAGTTTT
*
10362870 TTATATTT
1 TTGTATTT
10362878 TATATGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (14 bp):
TTGTATTTAGTTTT
Found at i:10362870 original size:13 final size:13
Alignment explanation
Indices: 10362837--10362870 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10362827 TTTTTACCAC
*
10362837 ATTTATTGTATTT
1 ATTTTTTGTATTT
10362850 AGTTTTTTGTATTT
1 A-TTTTTTGTATTT
10362864 ATTTTTT
1 ATTTTTT
10362871 TATATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
ATTTTTTGTATTT
Found at i:10363909 original size:34 final size:34
Alignment explanation
Indices: 10363821--10363919 Score: 112
Period size: 34 Copynumber: 2.9 Consensus size: 34
10363811 GTAATATGAT
*
10363821 ATGCTTATAACAAATCAATA-TAGTA-ACAATTAAA
1 ATGCTTATAACAAATCAATACGA-TAGA-AATTAAA
*
10363855 ATGCTTATAACAAATCAATACGATAGAAATTAAT
1 ATGCTTATAACAAATCAATACGATAGAAATTAAA
* * * *
10363889 ATGCTTATGACAGATCAATACTATAGCAATT
1 ATGCTTATAACAAATCAATACGATAGAAATT
10363920 TGGTTGTGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
34 55 0.96
35 2 0.04
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.30
Consensus pattern (34 bp):
ATGCTTATAACAAATCAATACGATAGAAATTAAA
Found at i:10369044 original size:15 final size:15
Alignment explanation
Indices: 10369008--10369050 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10368998 AAAATATTAA
*
10369008 AATATA-TAATTTTT
1 AATATATTAATATTT
*
10369022 ATTAATATTAATATTT
1 AAT-ATATTAATATTT
10369038 AATATATTAATAT
1 AATATATTAATAT
10369051 AAGTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 13 0.54
16 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATATATTAATATTT
Found at i:10370333 original size:19 final size:20
Alignment explanation
Indices: 10370296--10370346 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
10370286 GCTAATAGTT
* *
10370296 TGATAATTTGATATTTTTTTA
1 TGATTATTT-ATATATTTTTA
10370317 T-ATTATTTATATATTTTTA
1 TGATTATTTATATATTTTTA
10370336 TGATT-TTTATA
1 TGATTATTTATA
10370347 AGTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.63
20 9 0.33
21 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TGATTATTTATATATTTTTA
Found at i:10370352 original size:10 final size:9
Alignment explanation
Indices: 10370311--10370670 Score: 66
Period size: 9 Copynumber: 38.6 Consensus size: 9
10370301 ATTTGATATT
10370311 TTTTTAT-A
1 TTTTTATAA
10370319 TTATTTATATA
1 TT-TTTATA-A
*
10370330 TTTTTATGA
1 TTTTTATAA
10370339 TTTTTATAA
1 TTTTTATAA
*
10370348 GTTTTTTTTTAA
1 ---TTTTTATAA
* *
10370360 ATTTTAAATA
1 TTTTTATA-A
10370370 TTTGTTATTAA
1 TTT-TTA-TAA
*
10370381 --TTT-GAA
1 TTTTTATAA
*
10370387 TTTTTATTA
1 TTTTTATAA
* *
10370396 TTTATTAGAT
1 TTT-TTATAA
*
10370406 TTTTTAGAA
1 TTTTTATAA
*
10370415 TATTTATAA
1 TTTTTATAA
*
10370424 GTTTTTATGA
1 -TTTTTATAA
10370434 TTTTTATAA
1 TTTTTATAA
* *
10370443 ATTTTA-AG
1 TTTTTATAA
* *
10370451 TTTATAAGAA
1 TTT-TTATAA
*
10370461 TTTTAATAA
1 TTTTTATAA
10370470 -TTTT-TAA
1 TTTTTATAA
*
10370477 TGTTTA-ATA
1 TTTTTATA-A
*
10370486 TTTTTATGA
1 TTTTTATAA
*
10370495 TTTTTAATGAT
1 TTTTT-AT-AA
10370506 TTTTTATAA
1 TTTTTATAA
10370515 GTTTTTA-AGA
1 -TTTTTATA-A
* *
10370525 TTTTTTTACG
1 TTTTTATA-A
*
10370535 TTATTATACAA
1 TT-TT-TATAA
*
10370546 TTTTGA-ATA
1 TTTTTATA-A
10370555 TGTTTTATTAA
1 T-TTTTA-TAA
10370566 -TTTTATAA
1 TTTTTATAA
*
10370574 TTGATTT-GAA
1 TT--TTTATAA
*
10370584 TTTTAAT-A
1 TTTTTATAA
10370592 TTTTTATAA
1 TTTTTATAA
*
10370601 TATTTATAA
1 TTTTTATAA
*
10370610 GTTTATATCAA
1 -TTTTTAT-AA
* **
10370621 TTTTAATTT
1 TTTTTATAA
10370630 TTTTTA-AA
1 TTTTTATAA
* *
10370638 TATTTAACAA
1 T-TTTTATAA
*
10370648 TTTTTATGA
1 TTTTTATAA
10370657 TTTTT-TAA
1 TTTTTATAA
10370665 TATTTT
1 T-TTTT
10370671 TATGAGATAA
Statistics
Matches: 251, Mismatches: 60, Indels: 81
0.64 0.15 0.21
Matches are distributed among these distances:
6 2 0.01
7 3 0.01
8 34 0.14
9 116 0.46
10 62 0.25
11 22 0.09
12 12 0.05
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10370464 original size:26 final size:26
Alignment explanation
Indices: 10370407--10370482 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
10370397 TTATTAGATT
* * * *
10370407 TTTTAGAATATTTATAAGTTTTTATGAT
1 TTTTATAA-ATTT-TAAGTTTATAAGAA
10370435 TTTTATAAATTTTAAGTTTATAAGAA
1 TTTTATAAATTTTAAGTTTATAAGAA
*
10370461 TTTTAATAATTTTTAATGTTTA
1 TTTT-ATAAATTTTAA-GTTTA
10370483 ATATTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.37
27 14 0.34
28 12 0.29
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
TTTTATAAATTTTAAGTTTATAAGAA
Found at i:10370511 original size:20 final size:20
Alignment explanation
Indices: 10370486--10370530 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10370476 ATGTTTAATA
*
10370486 TTTTTATGA-TTTTTAATGAT
1 TTTTTATAAGTTTTTAA-GAT
10370506 TTTTTATAAGTTTTTAAGAT
1 TTTTTATAAGTTTTTAAGAT
10370526 TTTTT
1 TTTTT
10370531 TACGTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTTATAAGTTTTTAAGAT
Found at i:10370623 original size:37 final size:36
Alignment explanation
Indices: 10370538--10370673 Score: 116
Period size: 37 Copynumber: 3.7 Consensus size: 36
10370528 TTTTACGTTA
10370538 TTATA-CAATTTTGAATATGTTTTATTAAT-TTTATAAT
1 TTATATCAATTTT-AATAT-TTTTA-TAATATTTATAAT
* * *
10370575 TGATTTGAATTTTAATATTTTTATAATATTTATAAGT
1 TTATATCAATTTTAATATTTTTATAATATTTATAA-T
* *
10370612 TTATATCAATTTTAAT-TTTTTTTAAATATTTAACAAT
1 TTATATCAATTTTAATATTTTTAT-AATATTT-ATAAT
* * *
10370649 TTTTATGATTTTTTAATATTTTTAT
1 TTATATCA-ATTTTAATATTTTTAT
10370674 GAGATAATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
35 4 0.05
36 18 0.22
37 36 0.45
38 16 0.20
39 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (36 bp):
TTATATCAATTTTAATATTTTTATAATATTTATAAT
Found at i:10378615 original size:23 final size:22
Alignment explanation
Indices: 10378589--10378641 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10378579 TAGCTCATTG
*
10378589 GAGCTTACCGATTCAGCTCGAA-A
1 GAGCTTACCG-TTCAACTC-AATA
*
10378612 GAGCTTACTGTTCAACTCAATA
1 GAGCTTACCGTTCAACTCAATA
10378634 GAGCTTAC
1 GAGCTTAC
10378642 TGTTTATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (22 bp):
GAGCTTACCGTTCAACTCAATA
Found at i:10378645 original size:22 final size:23
Alignment explanation
Indices: 10378565--10378643 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
10378555 ATAGCTCGTA
* * *
10378565 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGATTCAGCTCAAT
* *
10378588 GGAGCTTACCGATTCAGCTCGAA-
1 AGAGCTTACTGATTCAGCTC-AAT
*
10378611 AGAGCTTACTG-TTCAACTCAAT
1 AGAGCTTACTGATTCAGCTCAAT
10378633 AGAGCTTACTG
1 AGAGCTTACTG
10378644 TTTATCAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.04
22 18 0.39
23 25 0.54
24 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:10390232 original size:14 final size:14
Alignment explanation
Indices: 10390213--10390272 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
10390203 GTATATCATC
10390213 ATTTAAATCCACTA
1 ATTTAAATCCACTA
10390227 ATTTAAATCCAC--
1 ATTTAAATCCACTA
* *
10390239 ATGTGTATAT-CA-TC
1 AT-T-TAAATCCACTA
10390253 ATTTAAATCCACTA
1 ATTTAAATCCACTA
10390267 ATTTAA
1 ATTTAA
10390273 CTCTCATGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 25 0.68
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.38
Consensus pattern (14 bp):
ATTTAAATCCACTA
Found at i:10390244 original size:40 final size:40
Alignment explanation
Indices: 10390193--10390272 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10390183 AATTAAACTT
10390193 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
1 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
10390233 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
1 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
10390273 CTCTCATGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (40 bp):
ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
Found at i:10391365 original size:15 final size:15
Alignment explanation
Indices: 10391345--10391374 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10391335 GAGTTTTTGT
10391345 ACGTTAATGAATGAG
1 ACGTTAATGAATGAG
10391360 ACGTTAATGAATGAG
1 ACGTTAATGAATGAG
10391375 TTTTTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
ACGTTAATGAATGAG
Found at i:10391496 original size:21 final size:21
Alignment explanation
Indices: 10391471--10391512 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10391461 TACTCGTGTA
10391471 ATTTCCTTTCTGAATTTTTTT
1 ATTTCCTTTCTGAATTTTTTT
10391492 ATTTCCTTTCTGAATTTTTTT
1 ATTTCCTTTCTGAATTTTTTT
10391513 CTTTTTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.67
Consensus pattern (21 bp):
ATTTCCTTTCTGAATTTTTTT
Found at i:10393551 original size:51 final size:52
Alignment explanation
Indices: 10393425--10393551 Score: 170
Period size: 52 Copynumber: 2.5 Consensus size: 52
10393415 ACTAGTGACT
* *
10393425 CAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAGAAAGATAGCATTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCATTGCTCA
* *
10393477 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGACT-A
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCATTG-CTCA
*
10393528 CAACG-GTGGTACTATGTGTAGGCC
1 CAA-GTGTGGTACTATGTGAAGGCC
10393552 GCCGGGTATC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
51 32 0.47
52 36 0.53
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCATTGCTCA
Found at i:10413043 original size:18 final size:18
Alignment explanation
Indices: 10413020--10413112 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
10413010 CCCAACTACT
*
10413020 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
10413038 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
10413056 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
10413074 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
10413092 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
10413110 GTA
1 GTA
10413113 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:10413072 original size:36 final size:36
Alignment explanation
Indices: 10413020--10413112 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
10413010 CCCAACTACT
*
10413020 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
10413056 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
10413092 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
10413113 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:10415831 original size:4 final size:4
Alignment explanation
Indices: 10415822--10415852 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
10415812 TGATAAGGTC
10415822 TACA TACA TACA TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TACA TAC
10415853 GTAATTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:10435635 original size:31 final size:31
Alignment explanation
Indices: 10435577--10435671 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
10435567 AATCCTAAAA
**
10435577 TTCAGG-TCCCAATATAGGAACAATTACCAAG
1 TTCAGGCT-CCAATATAAAAACAATTACCAAG
* * * *
10435608 TTCATGCTCTAATATAAAAACACTTACCTAG
1 TTCAGGCTCCAATATAAAAACAATTACCAAG
* ** *
10435639 GTCAGGCTCCAATATGGAAACAATTACTAAG
1 TTCAGGCTCCAATATAAAAACAATTACCAAG
10435670 TT
1 TT
10435672 AAGCCTTAAT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (31 bp):
TTCAGGCTCCAATATAAAAACAATTACCAAG
Found at i:10438887 original size:26 final size:26
Alignment explanation
Indices: 10438833--10438886 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
10438823 TTATTATTTT
* *
10438833 AAATATATATAATATAAATTTATATA
1 AAATATATACAATATAAAATTATATA
10438859 AAATATATACAAT-TAAAATTATATA
1 AAATATATACAATATAAAATTATATA
10438884 AAA
1 AAA
10438887 AGCTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATATACAATATAAAATTATATA
Found at i:10438944 original size:17 final size:18
Alignment explanation
Indices: 10438922--10438967 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
10438912 TAAAAATTAT
10438922 AATTTATAAATTAAT-AA
1 AATTTATAAATTAATAAA
* *
10438939 AATTTACAAATTTATAAA
1 AATTTATAAATTAATAAA
*
10438957 AATATATAAAT
1 AATTTATAAAT
10438968 ATATAGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTATAAATTAATAAA
Found at i:10438998 original size:43 final size:43
Alignment explanation
Indices: 10438910--10439016 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
10438900 TTGAAAAACA
* * * *
10438910 TATAAAAAT-TAT-AATTTATAAATTAATAAAATTTACAAATT
1 TATAAAAATATATAAATATATAAATGAATAAAAATTACAAATG
*
10438951 TATAAAAATATATAAATATATAGAA-GAATAAAAATTATAAATG
1 TATAAAAATATATAAATATATA-AATGAATAAAAATTACAAATG
* *
10438994 TATAAATATATA-AAATATCTAAA
1 TATAAAAATATATAAATATATAAA
10439017 AAGCACAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 11 0.20
42 11 0.20
43 32 0.57
44 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (43 bp):
TATAAAAATATATAAATATATAAATGAATAAAAATTACAAATG
Found at i:10439938 original size:54 final size:54
Alignment explanation
Indices: 10439856--10439963 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
10439846 TTTGTGGTAT
10439856 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
1 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
*
10439910 GGGTTCAAATCTCCCCCTATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
1 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
10439964 ATGACAAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (54 bp):
GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
Found at i:10443126 original size:41 final size:42
Alignment explanation
Indices: 10443019--10443187 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 42
10443009 ATATCGTACA
* *
10443019 ATGCTAATGTCCCAGACGTGGTCTTACATGC-AATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACA--CAAATCACATATCG
* * * *
10443062 ATGCCACTATCCCAGACAGGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAATCACATATCG
* * *
10443103 GTGACAATGTCCCAGACATGGTCTTACACATAATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACA-AATCACATATCG
*
10443146 ATGCCAACGTCCCAGACATGGTCTTACACGAGAA-CACATATC
1 ATGCCAATGTCCCAGACATGGTCTTACAC-A-AATCACATATC
10443188 AAAAATCCTA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 28 0.27
42 16 0.15
43 57 0.55
44 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAATCACATATCG
Found at i:10448328 original size:3 final size:3
Alignment explanation
Indices: 10448322--10448348 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10448312 CAAAAAAAAA
10448322 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
10448349 TTAAGACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10459445 original size:21 final size:21
Alignment explanation
Indices: 10459421--10459470 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10459411 TTTTCCTAGG
* *
10459421 ATGTGAATTGAATTGAATTGA
1 ATGTGAAATGAATTAAATTGA
*
10459442 ATGTGAAATGTATTAAATTG-
1 ATGTGAAATGAATTAAATTGA
*
10459462 ATGTTAAAT
1 ATGTGAAAT
10459471 TTACTCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
ATGTGAAATGAATTAAATTGA
Found at i:10467124 original size:18 final size:18
Alignment explanation
Indices: 10467101--10467149 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
10467091 TTCTCACATT
10467101 TATATCACTTTTGTCATG
1 TATATCACTTTTGTCATG
10467119 TATATCACTTTTGTCATG
1 TATATCACTTTTGTCATG
10467137 TATATCACTTTTG
1 TATATCACTTTTG
10467150 ACTTTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.51
Consensus pattern (18 bp):
TATATCACTTTTGTCATG
Found at i:10480970 original size:35 final size:33
Alignment explanation
Indices: 10480923--10480991 Score: 77
Period size: 35 Copynumber: 2.0 Consensus size: 33
10480913 TTGAACTGTG
* *
10480923 GCATGAGATTTTAAATTTTGGACATTGAATAATTT
1 GCATGAGATTTTAAATTATGG--ATTAAATAATTT
*
10480958 GCATG-GATTTTTATATTATGGATTAAATAATTT
1 GCATGAGA-TTTTAAATTATGGATTAAATAATTT
10480991 G
1 G
10480992 ACATTTTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 12 0.40
34 2 0.07
35 16 0.53
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (33 bp):
GCATGAGATTTTAAATTATGGATTAAATAATTT
Found at i:10482383 original size:18 final size:19
Alignment explanation
Indices: 10482346--10482384 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10482336 ATTACAAAAT
*
10482346 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
10482365 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
10482383 AA
1 AA
10482385 ATCCCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:10482385 original size:19 final size:19
Alignment explanation
Indices: 10482346--10482399 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10482336 ATTACAAAAT
*
10482346 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
10482365 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
* *
10482384 AATCCCAAA-ATTTATA
1 AATTCAAAATATTTATA
10482400 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:10482428 original size:20 final size:20
Alignment explanation
Indices: 10482399--10482439 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10482389 CAAAATTTAT
10482399 ATTTT-AAAAAAGTTTATAAA
1 ATTTTAAAAAAAG-TTATAAA
*
10482419 ATTTTTAAAAAAGTTATAAA
1 ATTTTAAAAAAAGTTATAAA
10482439 A
1 A
10482440 AATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAAAGTTATAAA
Found at i:10482440 original size:21 final size:21
Alignment explanation
Indices: 10482400--10482439 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10482390 AAAATTTATA
10482400 TTTTAAAAAAGTTTATAAAAT
1 TTTTAAAAAAGTTTATAAAAT
10482421 TTTTAAAAAAG-TTATAAAA
1 TTTTAAAAAAGTTTATAAAA
10482440 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTAAAAAAGTTTATAAAAT
Found at i:10482670 original size:23 final size:23
Alignment explanation
Indices: 10482627--10482673 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10482617 TGTAATAAGA
*
10482627 TTTTAATTTAACATATTTAATTT
1 TTTTAATTTAACATATATAATTT
* *
10482650 TTTTAATTTAACTTGTATAATTT
1 TTTTAATTTAACATATATAATTT
10482673 T
1 T
10482674 ACTCTATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAATTTAACATATATAATTT
Done.