Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 135 of 190
Found at i:21767289 original size:98 final size:97
Alignment explanation
Indices: 21767070--21767261 Score: 293
Period size: 98 Copynumber: 2.0 Consensus size: 97
21767060 TTTAATATTT
* *
21767070 CATGTTTCAATCCC---TAAAAAACAAGCCAACCATAGTCCCCACCTATTTTAAACAAAGCTTTA
1 CATGTTTCAATCCCAAAAAAAAAAAAAGCCAACCATAGTCCCCACCTATTTTAAACAAAGCTTTA
21767132 GTTTTCATCTTTATATGGCATTCTTTCTTTAA
66 GTTTTCATCTTTATATGGCATTCTTTCTTTAA
* *
21767164 CATGTTTCAATCCCAAAAAAAAAAAAAAGCCAGCCTTAGTCCCCA-CTGATTTTAAACAAAGCTT
1 CATGTTTCAATCCC-AAAAAAAAAAAAAGCCAACCATAGTCCCCACCT-ATTTTAAACAAAGCTT
*
21767228 TAGTTTTCATCTTTATATGGCTTTCTTTCTTTAA
64 TAGTTTTCATCTTTATATGGCATTCTTTCTTTAA
21767262 TTTTTTCTAT
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
94 14 0.16
97 2 0.02
98 72 0.82
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (97 bp):
CATGTTTCAATCCCAAAAAAAAAAAAAGCCAACCATAGTCCCCACCTATTTTAAACAAAGCTTTA
GTTTTCATCTTTATATGGCATTCTTTCTTTAA
Found at i:21768844 original size:22 final size:22
Alignment explanation
Indices: 21768788--21768844 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
21768778 GAAACCTTCC
*
21768788 TTTTTCTCTTTTTCAAGCTCTT
1 TTTTTCTCTTTTTCAACCTCTT
*
21768810 TCATTTACT-TTTTTC-ACCTCTT
1 T--TTTTCTCTTTTTCAACCTCTT
21768832 TTTTTCCTCTTTT
1 TTTTT-CTCTTTT
21768845 CTTTACTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 12 0.43
23 6 0.21
24 5 0.18
ACGTcount: A:0.09, C:0.25, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTCTCTTTTTCAACCTCTT
Found at i:21779304 original size:11 final size:11
Alignment explanation
Indices: 21779288--21779322 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21779278 GCCTTTACTT
*
21779288 AAATCTTGGTC
1 AAATCTTGATC
21779299 AAATCTTGATC
1 AAATCTTGATC
*
21779310 AAATCTAGATC
1 AAATCTTGATC
21779321 AA
1 AA
21779323 TCTCCTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (11 bp):
AAATCTTGATC
Found at i:21792174 original size:11 final size:10
Alignment explanation
Indices: 21792157--21792187 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
21792147 GGAAAATTGC
21792157 TCAAAATTTT
1 TCAAAATTTT
21792167 TGCAAAATTTT
1 T-CAAAATTTT
21792178 TCAAAATTTT
1 TCAAAATTTT
21792188 CTTGAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (10 bp):
TCAAAATTTT
Found at i:21796329 original size:21 final size:21
Alignment explanation
Indices: 21796269--21796332 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
21796259 TTCTTATTCC
*
21796269 TCTTTTCTTATA-TTCTT-GT
1 TCTTTTCTTTTAGTTCTTAGT
*
21796288 TTTGTTTC-TTTAGTTTTCTTAGT
1 TCT-TTTCTTTTAG--TTCTTAGT
21796311 TCTTTTCTTTTAGTTCTTAGT
1 TCTTTTCTTTTAGTTCTTAGT
21796332 T
1 T
21796333 ATCAGCTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 9 0.25
22 9 0.25
23 9 0.25
ACGTcount: A:0.09, C:0.12, G:0.09, T:0.69
Consensus pattern (21 bp):
TCTTTTCTTTTAGTTCTTAGT
Found at i:21798139 original size:31 final size:31
Alignment explanation
Indices: 21798104--21798174 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
21798094 AACCCAACCA
21798104 CCAATCCACCACCAAAACAACAATTTTCACC
1 CCAATCCACCACCAAAACAACAATTTTCACC
21798135 CCAATCCACCACCAAAACAACAATTTTCACC
1 CCAATCCACCACCAAAACAACAATTTTCACC
21798166 CCAATCCAC
1 CCAATCCAC
21798175 AACCCTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (31 bp):
CCAATCCACCACCAAAACAACAATTTTCACC
Found at i:21799378 original size:54 final size:54
Alignment explanation
Indices: 21799295--21799403 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
21799285 GCCAATCTTG
21799295 GATGTTTCCAGTGAAGAAGGTGACAATGATGCATTCAAATCATTGGTTATAGAT
1 GATGTTTCCAGTGAAGAAGGTGACAATGATGCATTCAAATCATTGGTTATAGAT
* *
21799349 GATGTTTCCGGTGAAGAAGGTGACGATGATGCATTCAAATCATTGGTTATAGAT
1 GATGTTTCCAGTGAAGAAGGTGACAATGATGCATTCAAATCATTGGTTATAGAT
21799403 G
1 G
21799404 CTAGTTATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (54 bp):
GATGTTTCCAGTGAAGAAGGTGACAATGATGCATTCAAATCATTGGTTATAGAT
Found at i:21810122 original size:2 final size:2
Alignment explanation
Indices: 21810117--21810145 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21810107 ATGCGCACGC
21810117 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21810146 TTCCGTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21817614 original size:2 final size:2
Alignment explanation
Indices: 21817607--21817640 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21817597 AAAGAGAAGC
*
21817607 GA GA GA GA CA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21817641 AAAACCTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21818727 original size:1 final size:1
Alignment explanation
Indices: 21818723--21818750 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
21818713 TTCATTTGTG
21818723 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
21818751 CTGAGTCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21819196 original size:16 final size:16
Alignment explanation
Indices: 21819177--21819211 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21819167 TTTGTATTTT
*
21819177 TTATTTTATATTTGGA
1 TTATATTATATTTGGA
*
21819193 TTATATTATATTTTGA
1 TTATATTATATTTGGA
21819209 TTA
1 TTA
21819212 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (16 bp):
TTATATTATATTTGGA
Found at i:21822234 original size:15 final size:14
Alignment explanation
Indices: 21822214--21822254 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
21822204 TTAAAATTTT
21822214 TTAAAATTTTCTAAA
1 TTAAAATTTT-TAAA
21822229 TTAAAATTTTTAAA
1 TTAAAATTTTTAAA
*
21822243 --AAATTTTTTAAA
1 TTAAAATTTTTAAA
21822255 AAAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
14 4 0.16
15 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAAATTTTTAAA
Found at i:21822235 original size:25 final size:26
Alignment explanation
Indices: 21822204--21822261 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
21822194 TTAAAAAATT
*
21822204 TTAAAATTTTT-TAAAATTTTCTAAA
1 TTAAAATTTTTAAAAAATTTTCTAAA
*
21822229 TTAAAATTTTTAAAAAATTTTTTAAA
1 TTAAAATTTTTAAAAAATTTTCTAAA
21822255 --AAAATTT
1 TTAAAATTT
21822262 AAAATCTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 7 0.23
25 11 0.37
26 12 0.40
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
TTAAAATTTTTAAAAAATTTTCTAAA
Found at i:21822256 original size:13 final size:13
Alignment explanation
Indices: 21822216--21822261 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
21822206 AAAATTTTTT
*
21822216 AAAATTTTCTAAA
1 AAAATTTTTTAAA
21822229 TTAAAA-TTTTT-AA
1 --AAAATTTTTTAAA
21822242 AAAATTTTTTAAA
1 AAAATTTTTTAAA
21822255 AAAATTT
1 AAAATTT
21822262 AAAATCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 4 0.14
12 5 0.18
13 11 0.39
14 4 0.14
15 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTTTTAAA
Found at i:21823598 original size:19 final size:19
Alignment explanation
Indices: 21823574--21823610 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21823564 TTTCTCATTT
*
21823574 TTTATTAATTTATTTTTAA
1 TTTATTAATTAATTTTTAA
*
21823593 TTTATTAGTTAATTTTTA
1 TTTATTAATTAATTTTTA
21823611 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTATTAATTAATTTTTAA
Found at i:21823845 original size:27 final size:26
Alignment explanation
Indices: 21823785--21823847 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
21823775 TCTTGATAAA
*
21823785 AATTTTCTT-TTCTTACATTTTTTATT
1 AATTTT-TTATTCGTACATTTTTTATT
*
21823811 -ATTCTTTATTCGTACTATTTTTTATT
1 AATTTTTTATTCGTAC-ATTTTTTATT
21823837 AATTTTTTATT
1 AATTTTTTATT
21823848 AAATATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 2 0.06
25 10 0.32
26 10 0.32
27 9 0.29
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.68
Consensus pattern (26 bp):
AATTTTTTATTCGTACATTTTTTATT
Found at i:21825006 original size:13 final size:13
Alignment explanation
Indices: 21824983--21825018 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21824973 CAAACAGATC
21824983 AAAAGA-AAAAAA
1 AAAAGAGAAAAAA
21824995 AAGAAGAGAAAAAA
1 AA-AAGAGAAAAAA
21825009 AAAAGAGAAA
1 AAAAGAGAAA
21825019 TATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.09
13 12 0.55
14 8 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAAAA
Found at i:21825485 original size:49 final size:50
Alignment explanation
Indices: 21825285--21825692 Score: 378
Period size: 49 Copynumber: 8.3 Consensus size: 50
21825275 ACATTAATAC
* * * * *
21825285 TTAAAAATTTCATCTCAGAAAAAGC-TAATCTAAACATAGGCTCAATAACT
1 TTAAAAATTTCATCT-TGAAAAAGCTTCATCTAAGCAGAGGCTCAATGACT
** *
21825335 TTAAAAATTT-ATCTTGAAAAAGC-TCATCTAAATA-AGGGCTCAATAACT
1 TTAAAAATTTCATCTTGAAAAAGCTTCATCTAAGCAGA-GGCTCAATGACT
* * * * * *
21825383 TAAAAAATATCATCTTGGAAAAAGGCTT-ATTTAAGTAAAGGCTCAACGACT
1 TTAAAAATTTCATCTT-GAAAAA-GCTTCATCTAAGCAGAGGCTCAATGACT
* * *
21825434 TTAAAAATTTCATCTTGAAAAAG-TTCATTTAAGCAGAGGGTTAATGACT
1 TTAAAAATTTCATCTTGAAAAAGCTTCATCTAAGCAGAGGCTCAATGACT
* * *
21825483 TTAAAAATTTCATCCTT-AAAAAGTTTC-TCTAAGCAAAGGCTCAACGACT
1 TTAAAAATTTCAT-CTTGAAAAAGCTTCATCTAAGCAGAGGCTCAATGACT
* * * **
21825532 TTAAAAA-TTCATCTTGGAAAAGCTT--TCTAATCAGAGGCTTAACAACT
1 TTAAAAATTTCATCTTGAAAAAGCTTCATCTAAGCAGAGGCTCAATGACT
* *
21825579 TTAAAAATTTCATCCTGAAAATA-C-TCCTCTAAGCAGAGGCTCAATGACT
1 TTAAAAATTTCATCTTGAAAA-AGCTTCATCTAAGCAGAGGCTCAATGACT
* * *
21825628 TTAAAAATTTCATCTTGGAAAAAGCTTC-TTTAAGTAGAGACTCAATGACT
1 TTAAAAATTTCATCTT-GAAAAAGCTTCATCTAAGCAGAGGCTCAATGACT
21825678 TTAAAAA-TTCATCTT
1 TTAAAAATTTCATCTT
21825693 TTCTTGAAAC
Statistics
Matches: 304, Mismatches: 37, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
47 30 0.10
48 63 0.21
49 114 0.38
50 60 0.20
51 35 0.12
52 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (50 bp):
TTAAAAATTTCATCTTGAAAAAGCTTCATCTAAGCAGAGGCTCAATGACT
Found at i:21825612 original size:145 final size:147
Alignment explanation
Indices: 21825285--21825692 Score: 461
Period size: 145 Copynumber: 2.8 Consensus size: 147
21825275 ACATTAATAC
* * * * *
21825285 TTAAAAATTTCATCTCAGAAAAAGCTAATCTAAACATAGGCTCAATAACTTTAAAAATTT-ATCT
1 TTAAAAATTTCATC-CTGAAAAAGCTCATCTAAGCAGAGGCTCAATGACTTTAAAAATTTCATCT
* * * * * *
21825349 TGAAAAAGCTCATCTAAATAAGGGCTCAATAACTTAAAAAATATCATCTTGGAAAAAGGCTTATT
65 TGAAAAAGTTC-TCTAAGTAAAGGCTCAATGACTTTAAAAAT-TCATCTTGGAAAAAGGCTTATC
*
21825414 TAAGTAAAGGCTCAACGACT
128 TAAGTAAAGGCTCAACAACT
* * * * *
21825434 TTAAAAATTTCATCTTGAAAAAGTTCATTTAAGCAGAGGGTTAATGACTTTAAAAATTTCATCCT
1 TTAAAAATTTCATCCTGAAAAAGCTCATCTAAGCAGAGGCTCAATGACTTTAAAAATTTCAT-CT
* *
21825499 T-AAAAAGTTTCTCTAAGCAAAGGCTCAACGACTTTAAAAATTCATCTTGG-AAAA-GCTT-TCT
65 TGAAAAAG-TTCTCTAAGTAAAGGCTCAATGACTTTAAAAATTCATCTTGGAAAAAGGCTTATCT
* *
21825560 AA-TCAGAGGCTTAACAACT
129 AAGT-AAAGGCTCAACAACT
*
21825579 TTAAAAATTTCATCCTGAAAATA-CTCCTCTAAGCAGAGGCTCAATGACTTTAAAAATTTCATCT
1 TTAAAAATTTCATCCTGAAAA-AGCTCATCTAAGCAGAGGCTCAATGACTTTAAAAATTTCATCT
* * *
21825643 TGGAAAAAGCTTCTTTAAGTAGAGACTCAATGACTTTAAAAATTCATCTT
65 T-GAAAAAG-TTCTCTAAGTAAAGGCTCAATGACTTTAAAAATTCATCTT
21825693 TTCTTGAAAC
Statistics
Matches: 219, Mismatches: 33, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
144 4 0.02
145 70 0.32
146 46 0.21
147 4 0.02
148 44 0.20
149 46 0.21
150 5 0.02
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (147 bp):
TTAAAAATTTCATCCTGAAAAAGCTCATCTAAGCAGAGGCTCAATGACTTTAAAAATTTCATCTT
GAAAAAGTTCTCTAAGTAAAGGCTCAATGACTTTAAAAATTCATCTTGGAAAAAGGCTTATCTAA
GTAAAGGCTCAACAACT
Found at i:21839115 original size:3 final size:3
Alignment explanation
Indices: 21839109--21839252 Score: 144
Period size: 3 Copynumber: 48.0 Consensus size: 3
21839099 AAGAAAAAAT
* * * * * * * * *
21839109 ATA ATA ATA ATA ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
21839157 ATG ATA ATA ATG ATA ATG ATA ATG ATA ATG ATA ATG ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21839205 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21839253 CAAAATGGTG
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 123 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21839618 original size:20 final size:19
Alignment explanation
Indices: 21839595--21839638 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
21839585 TGACCAAGAA
*
21839595 TTTTTAGATTTTTTTAATAT
1 TTTTTAGAATTTTTTAA-AT
21839615 TTTTTAGAATTTTTTAAAT
1 TTTTTAGAATTTTTTAAAT
21839634 TTTTT
1 TTTTT
21839639 TTTAGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTTAGAATTTTTTAAAT
Found at i:21839639 original size:20 final size:22
Alignment explanation
Indices: 21839595--21839649 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
21839585 TGACCAAGAA
*
21839595 TTTTTAG-ATTTTTTTAA-TAT
1 TTTTTAGAATTTTTTAAATTAT
*
21839615 TTTTTAGAATTTTTTAAATTTT
1 TTTTTAGAATTTTTTAAATTAT
21839637 TTTTTAGAATTTT
1 TTTTTAGAATTTT
21839650 AAATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 7 0.23
21 9 0.29
22 15 0.48
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTTAGAATTTTTTAAATTAT
Found at i:21839649 original size:10 final size:10
Alignment explanation
Indices: 21839591--21839638 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
21839581 TATTTGACCA
21839591 AGAA-TTTTT
1 AGAATTTTTT
*
21839600 AGATTTTTTT
1 AGAATTTTTT
21839610 A-ATATTTTTT
1 AGA-ATTTTTT
21839620 AGAATTTTTT
1 AGAATTTTTT
21839630 A-AATTTTTT
1 AGAATTTTTT
21839639 TTTAGAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 12 0.35
10 21 0.62
11 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (10 bp):
AGAATTTTTT
Found at i:21839650 original size:20 final size:21
Alignment explanation
Indices: 21839595--21839653 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
21839585 TGACCAAGAA
* * *
21839595 TTTTTAGATTTTTTTAA-TAT
1 TTTTTAGAATTTTTAAATTTT
21839615 TTTTTAGAATTTTTTAAATTTT
1 TTTTTAGAA-TTTTTAAATTTT
21839637 TTTTTAGAA-TTTTAAAT
1 TTTTTAGAATTTTTAAAT
21839654 AATTTTAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.47
21 7 0.21
22 11 0.32
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTTAGAATTTTTAAATTTT
Found at i:21839659 original size:22 final size:23
Alignment explanation
Indices: 21839609--21839659 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
21839599 TAGATTTTTT
*
21839609 TAATATTTTTTAGAATTTTTTAAA
1 TAATTTTTTTTAGAA-TTTTTAAA
21839633 T--TTTTTTTTAGAA-TTTTAAA
1 TAATTTTTTTTAGAATTTTTAAA
21839653 TAATTTT
1 TAATTTT
21839660 AAACAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 8 0.33
22 15 0.62
24 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TAATTTTTTTTAGAATTTTTAAA
Found at i:21844313 original size:4 final size:4
Alignment explanation
Indices: 21844304--21844356 Score: 63
Period size: 4 Copynumber: 12.8 Consensus size: 4
21844294 AAAAGTATGA
*
21844304 AAAT AAAT AAAT AAAT AGAT AAAT AAAT AAAT AAA- ACAAGT AAAT AAAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AA-T AAAT -AAAT
21844354 AAA
1 AAA
21844357 CATATAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 1 0.02
4 35 0.81
5 6 0.14
6 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:21844364 original size:17 final size:17
Alignment explanation
Indices: 21844325--21844380 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 17
21844315 TAAATAGATA
21844325 AATAAAT-AAATAAAAC
1 AATAAATAAAATAAAAC
21844341 AAGTAAATAAAAT-AAAC
1 AA-TAAATAAAATAAAAC
21844358 ATATAAAATAAAAGTGAAAAC
1 A-AT-AAATAAAA-T-AAAAC
21844379 AA
1 AA
21844381 AGATACTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.06
17 11 0.33
18 13 0.39
19 1 0.03
20 1 0.03
21 5 0.15
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAATAAAATAAAAC
Found at i:21845692 original size:43 final size:44
Alignment explanation
Indices: 21845610--21845693 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
21845600 ACTTGAACAA
* * *
21845610 TTTTAAAAGAATCCTCTAAATAGAGGCATGCAAGTTTCAAAAAC
1 TTTTAAAAGAATCCTCTAAATAAAGGCATGAAAGCTTCAAAAAC
*
21845654 TTTT-AAAGAATTCCTTTAAATAAAGGCAT-AAAGCTTCAAA
1 TTTTAAAAGAA-TCCTCTAAATAAAGGCATGAAAGCTTCAAA
21845694 CAAATCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 15 0.43
44 20 0.57
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (44 bp):
TTTTAAAAGAATCCTCTAAATAAAGGCATGAAAGCTTCAAAAAC
Found at i:21845782 original size:43 final size:43
Alignment explanation
Indices: 21845735--21845846 Score: 172
Period size: 43 Copynumber: 2.6 Consensus size: 43
21845725 GACTTCTCTC
** *
21845735 TATAGAGG-TAAAACAACTTTAAATTAAGAAATGGGCTTTTTTA
1 TATAGAGGCT-AAACAACTTTAAATTAAGAAATGGGCTCCTATA
*
21845778 TATAGAGGCTAAACAACTTTAAATTAAGAAATTGGCTCCTATA
1 TATAGAGGCTAAACAACTTTAAATTAAGAAATGGGCTCCTATA
21845821 TATAGAGGCTAAACAACTTTAAATTA
1 TATAGAGGCTAAACAACTTTAAATTA
21845847 GAATCCTCTA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (43 bp):
TATAGAGGCTAAACAACTTTAAATTAAGAAATGGGCTCCTATA
Found at i:21847984 original size:104 final size:103
Alignment explanation
Indices: 21847771--21847984 Score: 311
Period size: 104 Copynumber: 2.1 Consensus size: 103
21847761 AATGTAGTCA
* * * **
21847771 CTTTTCATTGTTAACCAGTAGCATTCAACTCTCATAATTTATCTTGTCATCATGTGTCCATTGGC
1 CTTTTTATTGTTAACCAATAGCATTCAACTCTCATAATCTATCTTGTCATCAAATGTCCATTGGC
* *
21847836 ATGTCCTCACATACCCCATCATGCATATCTTGAATAAT
66 ATGTCCTCACATACCCCATCATGCATATCCTCAATAAT
* *
21847874 CTTTTTTATTGTTAACCAATAGCATTCAACTCTCATAATCTGTTTTGTCATCAAATGTCCATTGG
1 C-TTTTTATTGTTAACCAATAGCATTCAACTCTCATAATCTATCTTGTCATCAAATGTCCATTGG
**
21847939 CATGTGCCTCACATTTCCCATCATGCATATCCTCAATAAT
65 CATGT-CCTCACATACCCCATCATGCATATCCTCAATAAT
21847979 CTTTTT
1 CTTTTT
21847985 TGCTCATATG
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
103 1 0.01
104 66 0.67
105 31 0.32
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.40
Consensus pattern (103 bp):
CTTTTTATTGTTAACCAATAGCATTCAACTCTCATAATCTATCTTGTCATCAAATGTCCATTGGC
ATGTCCTCACATACCCCATCATGCATATCCTCAATAAT
Found at i:21853237 original size:37 final size:38
Alignment explanation
Indices: 21853157--21853238 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
21853147 TAGTTCATAG
*
21853157 TAAAAAA-TATCCTTTAATATGTTAGTAAGATTTTCTA
1 TAAAAAATTATCCTTTAATATGTTAGTAAGATTTTATA
* *
21853194 TCAAAAATTAT-CTTCTAATATGTT-GATAGGATTTTATA
1 TAAAAAATTATCCTT-TAATATGTTAG-TAAGATTTTATA
21853232 -AAAAAAT
1 TAAAAAAT
21853239 AAAAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
37 16 0.42
38 22 0.58
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (38 bp):
TAAAAAATTATCCTTTAATATGTTAGTAAGATTTTATA
Found at i:21856173 original size:52 final size:52
Alignment explanation
Indices: 21856112--21856219 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
21856102 TAGATTTAAA
*
21856112 AATACTATTAACAAATTCATAAATTGAGATAACATTATGCTTAAAATATCAT
1 AATACTATTAACAAATTCATAAAATGAGATAACATTATGCTTAAAATATCAT
*
21856164 AATACTATTAACAAATTCATAAAATGAGATAACATTGTGCTTAAAATATCAT
1 AATACTATTAACAAATTCATAAAATGAGATAACATTATGCTTAAAATATCAT
21856216 AATA
1 AATA
21856220 AATGTATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (52 bp):
AATACTATTAACAAATTCATAAAATGAGATAACATTATGCTTAAAATATCAT
Found at i:21856293 original size:39 final size:39
Alignment explanation
Indices: 21856250--21856326 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
21856240 ATATTATTGT
21856250 TTGTATTTT-ATTTT-TAATAAA-AATTAAACAAAAATATGC
1 TTGTATTTTGATTTTGTAATAAAGAA-T-AA-AAAAATATGC
21856289 TTGTATTTTGATTTTGTAATAAAGAATAAAAAAATATG
1 TTGTATTTTGATTTTGTAATAAAGAATAAAAAAATATG
21856327 ACATATTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
39 18 0.51
40 7 0.20
41 8 0.23
42 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (39 bp):
TTGTATTTTGATTTTGTAATAAAGAATAAAAAAATATGC
Found at i:21859206 original size:37 final size:37
Alignment explanation
Indices: 21859164--21859234 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
21859154 TAATTTATTT
* ** *
21859164 TCAAAAATATCTTCTATTATGTTGGTAAGATTTTCTA
1 TCAAAAATATCTTCCAACATGTTGATAAGATTTTCTA
*
21859201 TCAAAATTATCTTCCAACATGTTGATAAGATTTT
1 TCAAAAATATCTTCCAACATGTTGATAAGATTTT
21859235 ATGGAAACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.44
Consensus pattern (37 bp):
TCAAAAATATCTTCCAACATGTTGATAAGATTTTCTA
Found at i:21859687 original size:8 final size:8
Alignment explanation
Indices: 21859674--21859739 Score: 64
Period size: 8 Copynumber: 8.1 Consensus size: 8
21859664 AAATAATCAC
21859674 AAATAAAT
1 AAATAAAT
*
21859682 AAATAAAC
1 AAATAAAT
21859690 AAATAAAT
1 AAATAAAT
*
21859698 ACAAAAATAT
1 A-AATAA-AT
21859708 AAATACAA-
1 AAATA-AAT
21859716 AAATAAAT
1 AAATAAAT
*
21859724 AAAAAAAT
1 AAATAAAT
21859732 AAA-AAAT
1 AAATAAAT
21859739 A
1 A
21859740 TACAACAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
7 7 0.14
8 30 0.61
9 8 0.16
10 4 0.08
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (8 bp):
AAATAAAT
Found at i:21859695 original size:12 final size:13
Alignment explanation
Indices: 21859661--21859734 Score: 84
Period size: 12 Copynumber: 5.8 Consensus size: 13
21859651 TATTTTATTA
21859661 AAAAAAT-AATCAC
1 AAAAAATAAAT-AC
21859674 AAATAAATAAATA-
1 AAA-AAATAAATAC
*
21859687 AACAAATAAATAC
1 AAAAAATAAATAC
21859700 AAAAATATAAATAC
1 AAAAA-ATAAATAC
21859714 -AAAAATAAATA-
1 AAAAAATAAATAC
21859725 AAAAAATAAA
1 AAAAAATAAA
21859735 AAATATACAA
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
12 25 0.46
13 13 0.24
14 13 0.24
15 3 0.06
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAAAATAAATAC
Found at i:21859695 original size:26 final size:24
Alignment explanation
Indices: 21859661--21859732 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 24
21859651 TATTTTATTA
21859661 AAAAAATAATCACAAATAA-ATAAAT
1 AAAAAATAAT-ACAAA-AATATAAAT
21859686 AAACAAATAAATACAAAAATATAAAT
1 AAA-AAAT-AATACAAAAATATAAAT
*
21859712 ACAAAAATAAATAAAAAAATA
1 A-AAAAAT-AATACAAAAATA
21859733 AAAAATATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
25 5 0.12
26 32 0.76
27 5 0.12
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAAAATAATACAAAAATATAAAT
Found at i:21861196 original size:20 final size:20
Alignment explanation
Indices: 21861171--21861208 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21861161 ATTGGATGAG
*
21861171 TAATTAACTAATTAAATATT
1 TAATTAACTAAGTAAATATT
*
21861191 TAATTAATTAAGTAAATA
1 TAATTAACTAAGTAAATA
21861209 CTCTATTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
TAATTAACTAAGTAAATATT
Found at i:21861650 original size:457 final size:453
Alignment explanation
Indices: 21860800--21861713 Score: 1693
Period size: 457 Copynumber: 2.0 Consensus size: 453
21860790 GTAAAAATTT
* *
21860800 AAAACTAGTTAAAGAAAAGACTAAAAATAAATAAATAAATAAGATAAACAAGATATATATATATA
1 AAAACTAGATAAAGAAAAGACTAAAAATAAATAAACAAATAAGATAAACAAGATATATATATATA
* *
21860865 TATATACATATAGATAAATAAAATAAACATAAACATAAAAACATGAAAAATAAGAAATGTAAGAA
66 TATATACATATAGATAAATAAAATAAAAATAAACATAAAAACATGAAAAAGAAGAAATGTAAGAA
*
21860930 ATTAGACAATTAAGATTGGATCAAATTTAGACCTAATTTGTTTGGGCTTCAGACTAAATAGAGTG
131 ATTAGACAATTAAGATTGGATCAAATTCAGACCTAATTTGTTTGGGCTTCAGACTAAATAGAGTG
21860995 TCTACATAACTTCATCAAATATCTCTCCATATCTGTTAAAAGATATAGGTTTGTTAAAGATAGAA
196 TCTACATAACTTCATCAAATATCTCTCCATATCTGTTAAAAGATATAGGTTTGTTAAAGATAGAA
21861060 GAAACCAAATCATGCACCCATTAATAATTTGATGTAAAAAAATGATATTAGACATTAGTGGTTTA
261 GAAACCAAATCATGCACCCATTAATAATTTGATGTAAAAAAATGATATTAGACATTAGTGGTTTA
21861125 TTAAAATAACTAATTTATTAATCGATTGATCCATTGATTGGATGAGTAATTAACTAATTAAATAT
326 TTAAAATAACTAATTTATTAATCGATTGATCCATTGATTGGATGAGTAATTAACTAATTAAATAT
21861190 TTAATTAATTAAGTAAATACTCTATTTACTTGAAAGTCAAAAACTATGCATGAAATTGAAAAC
391 TTAATTAATTAAGTAAATACTCTATTTACTTGAAAGTCAAAAACTATGCATGAAATTGAAAAC
21861253 AAAACTAGATAAAGAAAAGACTAAAAATAAATAAACAAATAAGATAAACAAGATATATATATATA
1 AAAACTAGATAAAGAAAAGACTAAAAATAAATAAACAAATAAGATAAACAAG----ATATATATA
21861318 TATATATATACATATAGATAAATAAAATAAAAATAAACATAAAAACATGAAAAAGAAGAAATGTA
62 TATATATATACATATAGATAAATAAAATAAAAATAAACATAAAAACATGAAAAAGAAGAAATGTA
* *
21861383 AGAAATTAGACAATTAAGATTGGATCGAATTCAGACCTAATTTGTTTGGGCTTTAGACTAAATAG
127 AGAAATTAGACAATTAAGATTGGATCAAATTCAGACCTAATTTGTTTGGGCTTCAGACTAAATAG
*
21861448 AGTGTCTACATAACTTCATCAAATATCTCTCCATATCTGTTAAAAGATATATGTTTGTTAAAGAT
192 AGTGTCTACATAACTTCATCAAATATCTCTCCATATCTGTTAAAAGATATAGGTTTGTTAAAGAT
*
21861513 AGAAGAAACCAAATCATGCACCCATTGATAATTTGATGTAAAAAAATGATATTAGACATTAGTGG
257 AGAAGAAACCAAATCATGCACCCATTAATAATTTGATGTAAAAAAATGATATTAGACATTAGTGG
*
21861578 TTTATTAAAATAACTAATTTATTAATCGATTGATCCATTGATTGGATGAGTGATTAACTAATTAA
322 TTTATTAAAATAACTAATTTATTAATCGATTGATCCATTGATTGGATGAGTAATTAACTAATTAA
*
21861643 ATATTTAATTAATTAAGTAAATACTCTATTTACTTGAAAGTCATAAACTATGCATGAAATTGAAA
387 ATATTTAATTAATTAAGTAAATACTCTATTTACTTGAAAGTCAAAAACTATGCATGAAATTGAAA
21861708 AC
452 AC
21861710 AAAA
1 AAAA
21861714 AGAAAATTTG
Statistics
Matches: 446, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
453 50 0.11
457 396 0.89
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (453 bp):
AAAACTAGATAAAGAAAAGACTAAAAATAAATAAACAAATAAGATAAACAAGATATATATATATA
TATATACATATAGATAAATAAAATAAAAATAAACATAAAAACATGAAAAAGAAGAAATGTAAGAA
ATTAGACAATTAAGATTGGATCAAATTCAGACCTAATTTGTTTGGGCTTCAGACTAAATAGAGTG
TCTACATAACTTCATCAAATATCTCTCCATATCTGTTAAAAGATATAGGTTTGTTAAAGATAGAA
GAAACCAAATCATGCACCCATTAATAATTTGATGTAAAAAAATGATATTAGACATTAGTGGTTTA
TTAAAATAACTAATTTATTAATCGATTGATCCATTGATTGGATGAGTAATTAACTAATTAAATAT
TTAATTAATTAAGTAAATACTCTATTTACTTGAAAGTCAAAAACTATGCATGAAATTGAAAAC
Found at i:21864970 original size:2 final size:2
Alignment explanation
Indices: 21864963--21864994 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
21864953 ACATAGTCTT
*
21864963 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21864995 CACACACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21867443 original size:125 final size:126
Alignment explanation
Indices: 21867256--21867543 Score: 300
Period size: 125 Copynumber: 2.3 Consensus size: 126
21867246 TTGGAAAGAA
* * * * * *
21867256 TATTGAAGGCG-TTTTCGGCAAAAAACGCCTTTAATAATCCATAGAAAAGATATGGAACGGATTC
1 TATTGAAGGCGATTTTTGTC-AAAAACGCCTTCAATAATCCATACAAAAAATATGAAACGGATTC
* * * *
21867320 CTGAAGGCGTTTTTGGC-CGAAAATGCCTTCAATAATCTA-ATCGA-AAATTTTTATGTGGGAT
65 CTAAAAGCGTTTTTGGCTC-AAAATGCCTTCAATAATCTACA-CAATAAATTTTTAGGTGGGAT
* * *
21867381 TATTGAAGGCGATTTTTGTCAAAAACACCTTCAATAATCGATACAAAAAAGT-TGAAATGGATTC
1 TATTGAAGGCGATTTTTGTCAAAAACGCCTTCAATAATCCATACAAAAAA-TATGAAACGGATTC
* * * * *
21867445 TTAAAAGTGTTTTTGGCTCAAAATGCCTTTAATATTTTACACAATAAATTTTTAGGTGGGAT
65 CTAAAAGCGTTTTTGGCTCAAAATGCCTTCAATAATCTACACAATAAATTTTTAGGTGGGAT
* * *
21867507 TATTGAAGG-AAATTTTGATCAAAAATGCCTTCAATAA
1 TATTGAAGGCGATTTTTG-TCAAAAACGCCTTCAATAA
21867544 CATTTTATTA
Statistics
Matches: 135, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
125 84 0.62
126 51 0.38
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (126 bp):
TATTGAAGGCGATTTTTGTCAAAAACGCCTTCAATAATCCATACAAAAAATATGAAACGGATTCC
TAAAAGCGTTTTTGGCTCAAAATGCCTTCAATAATCTACACAATAAATTTTTAGGTGGGAT
Found at i:21867835 original size:304 final size:304
Alignment explanation
Indices: 21867276--21867892 Score: 859
Period size: 304 Copynumber: 2.0 Consensus size: 304
21867266 GTTTTCGGCA
* * * *
21867276 AAAAACGCCTTTAATAATCCATAGAAAAGATATGGAACGGATTCCTGAAGGCGTTTTTGGCCGAA
1 AAAAATGCCCTTAATAATCCATAGAAAAGATATGGAACGGATTCCTAAACGCGTTTTTGGCCGAA
* * * *
21867341 AATGCCTTCAATAATCTAATCGAAAATTTTTATGTGGGATTATTGAAGGCGATTTTTGTCAAAAA
66 AATGCATTCAATAATCCAATCAAAAATTTTTATGTAGGATTATTGAAGGCGATTTTTGTCAAAAA
* ** *
21867406 CACCTTCAATAATCGATACAAAAAAGTTGAAATGGATTCTTAAAAGTGTTTTTGGCTCAAAATGC
131 CACCTTCAATAATCAATACAAAAAAGTTGAAACAGATTCTTAAAAGTGTTTTTGGCCCAAAATGC
*
21867471 CTTTAATATTTTACACAATAAATTTTTAGGTGGGATTATTGAAGGAAATTTTGATCAAAAATGCC
196 CTTTAATATTTCACACAATAAATTTTTAGGTGGGATTATTGAAGGAAATTTTGATCAAAAATGCC
* * *
21867536 TTCAATAACATTTTATTAG-GAATTTTTTAAGGCATTTTCTTGCT
261 TCCAATAACATTTTATTAGAG-ATTATTCAAGGCATTTTCTTGCT
* * *
21867580 AAAAATGCCCTTAATAATCCATAAGAAAA-ATATGGAACGGATTCTTAAACGTGTTTTTGGCTGA
1 AAAAATGCCCTTAATAATCCAT-AGAAAAGATATGGAACGGATTCCTAAACGCGTTTTTGGCCGA
* *
21867644 AAGTGTATTCAATAATCCAATCAATAAATTTTTA-GTTAGGATTATTGAA-GCGATTTTTGTCAA
65 AAATGCATTCAATAATCCAATCAA-AAATTTTTATG-TAGGATTATTGAAGGCGATTTTTGTCAA
* * *
21867707 AAACGCCTTCAATAATCAATACAAAAAAGTTGGAACAGATTCTT-GAAGCCT-TTTTTGGCCCAA
128 AAACACCTTCAATAATCAATACAAAAAAGTTGAAACAGATTCTTAAAAG--TGTTTTTGGCCCAA
*** *
21867770 AATGCCTTTAATATTTCACACAATAAATTTTTAGGTGGGATTATTGAAGTCGATTTTGGTCAAAA
191 AATGCCTTTAATATTTCACACAATAAATTTTTAGGTGGGATTATTGAAGGAAATTTTGATCAAAA
* *
21867835 ATGCCTCCAATAACATTTTGTTAGAGATTATTCAAGGTATTTTCTTGCT
256 ATGCCTCCAATAACATTTTATTAGAGATTATTCAAGGCATTTTCTTGCT
*
21867884 AAAATTGCC
1 AAAAATGCC
21867893 TTCAGTAATC
Statistics
Matches: 276, Mismatches: 31, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
303 3 0.01
304 244 0.88
305 29 0.11
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (304 bp):
AAAAATGCCCTTAATAATCCATAGAAAAGATATGGAACGGATTCCTAAACGCGTTTTTGGCCGAA
AATGCATTCAATAATCCAATCAAAAATTTTTATGTAGGATTATTGAAGGCGATTTTTGTCAAAAA
CACCTTCAATAATCAATACAAAAAAGTTGAAACAGATTCTTAAAAGTGTTTTTGGCCCAAAATGC
CTTTAATATTTCACACAATAAATTTTTAGGTGGGATTATTGAAGGAAATTTTGATCAAAAATGCC
TCCAATAACATTTTATTAGAGATTATTCAAGGCATTTTCTTGCT
Found at i:21869496 original size:21 final size:21
Alignment explanation
Indices: 21869458--21869502 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
21869448 TACAATGAAT
*
21869458 ATAAATATTAAAACCAAATCA
1 ATAAATATTAAAAACAAATCA
*
21869479 ATAAATA-TAATAAACAAATTA
1 ATAAATATTAA-AAACAAATCA
21869500 ATA
1 ATA
21869503 TTAAACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAATATTAAAAACAAATCA
Found at i:21871231 original size:37 final size:37
Alignment explanation
Indices: 21871190--21871275 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
21871180 CATTTAACAA
* * * * *
21871190 ACCATACAGCATACCATTTAGCAATGTTTTCAGAAAT
1 ACCATACAGCAAACCAATCAGCAATGTGTTCAGAAAC
** *
21871227 ACCATTTAGTAAACCAATCAGCAATGTGTTCAGAAAC
1 ACCATACAGCAAACCAATCAGCAATGTGTTCAGAAAC
*
21871264 ACCATCCAGCAA
1 ACCATACAGCAA
21871276 GCCATTGAGA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (37 bp):
ACCATACAGCAAACCAATCAGCAATGTGTTCAGAAAC
Found at i:21871305 original size:25 final size:25
Alignment explanation
Indices: 21871258--21871306 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21871248 CAATGTGTTC
* *
21871258 AGAAACACCATCCAGCAAGCCATTG
1 AGAAACACCATCCAACAAACCATTG
* *
21871283 AGAAATACCATTCAACAAACCATT
1 AGAAACACCATCCAACAAACCATT
21871307 TAGTGAACCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (25 bp):
AGAAACACCATCCAACAAACCATTG
Found at i:21871306 original size:12 final size:12
Alignment explanation
Indices: 21871264--21871341 Score: 57
Period size: 12 Copynumber: 6.4 Consensus size: 12
21871254 GTTCAGAAAC
*
21871264 ACCATCCAGCAA
1 ACCATTCAGCAA
* * *
21871276 GCCATTGAGAAA
1 ACCATTCAGCAA
*
21871288 TACCATTCAACAA
1 -ACCATTCAGCAA
* **
21871301 ACCATTTAGTGA
1 ACCATTCAGCAA
* *
21871313 ACCATACAGGAA
1 ACCATTCAGCAA
21871325 ACCATTCAGCAA
1 ACCATTCAGCAA
21871337 ACCAT
1 ACCAT
21871342 GCAACATACA
Statistics
Matches: 47, Mismatches: 18, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
12 39 0.83
13 8 0.17
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.18
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:21871333 original size:111 final size:110
Alignment explanation
Indices: 21871109--21871341 Score: 261
Period size: 111 Copynumber: 2.1 Consensus size: 110
21871099 ATACTACGTA
* *
21871109 CAGAAACACCATTCAGTAAATCAATCAGCAATGTGTTCAAAAACACCATTCAACAAACCATTGAG
1 CAGAAA-ACCATTCAGTAAACCAATCAGCAATGTGTTCAAAAACACCATCCAACAAACCATTGAG
* ** ****
21871174 AAACACCATTTAACAAACCATACAGCATACCATTTAGCAATGTTTT
65 AAACACCATTCAACAAACCATACAGCATACCATACAGCAAACCATT
* * * *
21871220 CAGAAATACCATTTAGTAAACCAATCAGCAATGTGTTCAGAAACACCATCCAGCAAGCCATTGAG
1 CAGAAA-ACCATTCAGTAAACCAATCAGCAATGTGTTCAAAAACACCATCCAACAAACCATTGAG
* ** * *
21871285 AAATACCATTCAACAAACCATTTAGTGA-ACCATACAGGAAACCATT
65 AAACACCATTCAACAAACCATACAG-CATACCATACAGCAAACCATT
*
21871331 CAGCAAACCAT
1 CAGAAAACCAT
21871342 GCAACATACA
Statistics
Matches: 101, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
110 5 0.05
111 95 0.94
112 1 0.01
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (110 bp):
CAGAAAACCATTCAGTAAACCAATCAGCAATGTGTTCAAAAACACCATCCAACAAACCATTGAGA
AACACCATTCAACAAACCATACAGCATACCATACAGCAAACCATT
Found at i:21872662 original size:180 final size:183
Alignment explanation
Indices: 21872445--21872801 Score: 413
Period size: 180 Copynumber: 1.9 Consensus size: 183
21872435 GAAAGTGTAG
* * * *
21872445 AATGCAAAAAATGCCTTCAATAAATTAGTTTAAAAATT-AGAACGAATTAGT-AAAG-GCTTTTT
1 AATGCAAAAAACGCCTTCAATAAATTACTTAAAAAATTCAG-ACAAATTAGTGAAAGTG-TTTTT
* * ** *
21872507 CTTAGAATAAACGCCTTTAATAATTGTCTAAAAACTTTAGT-GTGG-A-A-GGCGTTTTCTACTA
64 -ATAGAATAAACGCCTTCAATAACCGTCTAAAAACTTTAGTAGTGGAATATGGCATTTTCTACTA
* * * *
21872568 AAATACGCCTTTAATAATCCTAGACAATTTATAAAAAAAAATTATTGAAGTCTTAT
128 AAAGACACCTTTAATAATCCCAAACAATTTATAAAAAAAAATTATTGAAGTCTTAT
* *
21872624 AATGCAAAAAAACGCCTTCAATAAATTTCTTAAAAAATTCAGACAAATTATTGAAAGTGTTTTTA
1 AATGC-AAAAAACGCCTTCAATAAATTACTTAAAAAATTCAGACAAATTAGTGAAAGTGTTTTTA
* * *
21872689 TGGAATAAACGCCTTCAATAACCGTTTAAAAATTTTAGTAGTGGAATATTGATGGCATTTTCTAC
65 TAGAATAAACGCCTTCAATAACCGTCTAAAAACTTTAGTAGTGG-A-A-T-ATGGCATTTTCTAC
* *
21872754 TAGAAGACACCTTTAATAATCCCAAACAATTTATAAAAGAAAATTATT
126 TAAAAGACACCTTTAATAATCCCAAACAATTTATAAAAAAAAATTATT
21872802 AAAGGCATTT
Statistics
Matches: 146, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
179 5 0.03
180 70 0.48
181 15 0.10
182 1 0.01
184 1 0.01
187 1 0.01
188 53 0.36
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (183 bp):
AATGCAAAAAACGCCTTCAATAAATTACTTAAAAAATTCAGACAAATTAGTGAAAGTGTTTTTAT
AGAATAAACGCCTTCAATAACCGTCTAAAAACTTTAGTAGTGGAATATGGCATTTTCTACTAAAA
GACACCTTTAATAATCCCAAACAATTTATAAAAAAAAATTATTGAAGTCTTAT
Found at i:21872896 original size:238 final size:237
Alignment explanation
Indices: 21872601--21873285 Score: 933
Period size: 239 Copynumber: 2.9 Consensus size: 237
21872591 ACAATTTATA
* * * *
21872601 AAAAAAAATTATTGAAGTCTTATAATGCAAAAAAACGCCTTCAATAAATTTCTTAAAAAATTCAG
1 AAAAAAAATTATTAAAGGCATATAATGC-AAAAAATGCCTTCAATAAATTTCTTAAAAAATT-AG
* * ** * *
21872666 ACAAATTATTGAAAGTGTTTTTATGGAATAAACGCCTTCAATAACCGTTTAAAAATTTTAGTAGT
64 ACAAATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAGT
* * * * *
21872731 GGAATATTGATGGCATTTTCTACTAGAAGACACCTTTAATAATCCCAAACAATTTATAAAAGAAA
129 AGAATATTGAAGGTATTTTCTACTAGAAGATACATTTAATAATCCCAAACAATTTATAAAAGAAA
*
21872796 ATTATTAAAGGCATTTTTCTCATAAAACAACATTAATAATTCTG
194 ATTATTGAAGGCATTTTTCTCATAAAACAACATTAATAATTCTG
* * *
21872840 AAAAAAAATTATTAAAGGCATATAATGCATAAAATGCCTACAATAAATTCCTTAAAAAATTAGAA
1 AAAAAAAATTATTAAAGGCATATAATGCAAAAAATGCCTTCAATAAATTTCTTAAAAAATTAG-A
* * *
21872905 CGAATTAGTG-AGGCATTTTTCTGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTTGTA
65 CAAATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAGTA
* * * *
21872969 GAATATTGAAGGTGTTTTCTACTAGAAGATGCATTTAATAATCACAAACAATTTATAAAAGCAAA
130 GAATATTGAAGGTATTTTCTACTAGAAGATACATTTAATAATCCCAAACAATTTATAAAAGAAAA
**
21873034 TTATTGAAGGCATTTTTTCTCATAAAACGTCATTAATAATTCTG
195 TTATTGAAGGCA-TTTTTCTCATAAAACAACATTAATAATTCTG
* * * * * *
21873078 GACAAAAATTATTAAAGGCGTATAATGCAAAAAATACCTTCAATAAATTTTTTCAAAAATTAGA-
1 AAAAAAAATTATTAAAGGCATATAATGCAAAAAATGCCTTCAATAAATTTCTTAAAAAATTAGAC
* * ** **
21873142 ATGAATTAGTGAAGGCATTTTTATAGAATAAATGCCTTCAATAACCATCTAAAAATTTTAAAACC
66 A--AATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAGT
*
21873207 ACAATATTGAAGGTATTTTCTACTAGAAGATACATTTAATAATCCCAAACAATTTATAAAAGAAA
129 AGAATATTGAAGGTATTTTCTACTAGAAGATACATTTAATAATCCCAAACAATTTATAAAAGAAA
21873272 ATTATTGAAGGCAT
194 ATTATTGAAGGCAT
21873286 ATAATGCAAA
Statistics
Matches: 390, Mismatches: 51, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
237 117 0.30
238 130 0.33
239 143 0.37
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (237 bp):
AAAAAAAATTATTAAAGGCATATAATGCAAAAAATGCCTTCAATAAATTTCTTAAAAAATTAGAC
AAATTAGTGAAGGCATTTTTATGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAGTAG
AATATTGAAGGTATTTTCTACTAGAAGATACATTTAATAATCCCAAACAATTTATAAAAGAAAAT
TATTGAAGGCATTTTTCTCATAAAACAACATTAATAATTCTG
Found at i:21873457 original size:187 final size:187
Alignment explanation
Indices: 21873082--21873466 Score: 551
Period size: 186 Copynumber: 2.1 Consensus size: 187
21873072 ATTCTGGACA
* * * *
21873082 AAAATTATTAAAGGCGTATAATGCAAAAAATACCTTCAATAAATTTTTTCAAAAATTAGAATGAA
1 AAAATTATTAAAGGCATATAATGCAAAAAACACCTTCAATAAATTCTTTCAAAAATTAGAACGAA
*
21873147 TTAGTGAAGGCATTTTTATAGAATAAATGCCTTCAATAACCATCTAAAAATTTTAAAACCACAAT
66 TTAGTGAAGGCATTTTTATAGAATAAACGCCTTCAATAACCATCTAAAAATTTTAAAACCACAAT
* *
21873212 ATTGAAGGTATTTTCTACTAGAAGATACATTTAATAATCCCAAACAATTTATAAAAG
131 ATTGAAGGCATTTTCTACTAGAAAATACATTTAATAATCCCAAACAATTTATAAAAG
* * *
21873269 AAAATTATTGAAGGCATATAATGCAAAAAACGCCTTCAATAAATTCTTTCTAAAATTTAG-ACGA
1 AAAATTATTAAAGGCATATAATGCAAAAAACACCTTCAATAAATTCTTTC-AAAAATTAGAACGA
* * * ** ****
21873333 ATTAGTGAAGGC-TTTTTCTGGAATAAACGCCTTCAATAACCGTCTAAAAATTTTAGTAGTGGAA
65 ATTAGTGAAGGCATTTTTATAGAATAAACGCCTTCAATAACCATCTAAAAATTTTAAAACCACAA
*
21873397 TATTGAAGGCATTTTCTACTAGAAAATACCTTTAATAATCCCAAACAATTTATAAAA-
130 TATTGAAGGCATTTTCTACTAGAAAATACATTTAATAATCCCAAACAATTTATAAAAG
21873454 AGAAATTATTAAA
1 A-AAATTATTAAA
21873467 AGTGTTTTGC
Statistics
Matches: 175, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
185 1 0.01
186 106 0.61
187 60 0.34
188 8 0.05
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (187 bp):
AAAATTATTAAAGGCATATAATGCAAAAAACACCTTCAATAAATTCTTTCAAAAATTAGAACGAA
TTAGTGAAGGCATTTTTATAGAATAAACGCCTTCAATAACCATCTAAAAATTTTAAAACCACAAT
ATTGAAGGCATTTTCTACTAGAAAATACATTTAATAATCCCAAACAATTTATAAAAG
Found at i:21873499 original size:425 final size:424
Alignment explanation
Indices: 21872840--21873612 Score: 1033
Period size: 425 Copynumber: 1.8 Consensus size: 424
21872830 AATAATTCTG
* *
21872840 AAAAAAAATTATTAAAGGCATATAATGCATAAAATGCCTACAATAAATTCCTTAAAAAATTAGAA
1 AAAAAAAATTATTAAAGGCATATAATGCAAAAAACGCCTACAATAAATTCCTTAAAAAATTAGAA
*
21872905 CGAATTAGTGAGGCATTTTTCTGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTTGTAG
66 CGAATTAGTGAGGCATTTTTCTGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAGTAG
** * *
21872970 AATATTGAAGGTGTTTTCTACTAGAAGATGCATTTAATAATCACAAACAATTTATAAAAGCAAAT
131 AATATTGAAGGCATTTTCTACTAGAAAATACATTTAATAATCACAAACAATTTATAAAAGCAAAT
* * * * * **
21873035 TATTGAAGGCATTTTTTCTCATAAAACGTCATTAATAATTCTGGACAAAAATTATTAAAGGCGTA
196 TATTAAAAG-ATTTTTGCTCATAAAACGACATTAATAATTCTCGACAAAAATTATTAAAGGCAAA
* * **** **
21873100 TAATGCAAA-AAATACCTTCAATAAATTTTTTC-AAAAATTAGAATGAATTAGTGAAGGCATTTT
260 TAATGAAAATAAACACCTTCAATAAA-TCCACCAAAAAATTAGAAAAAATTAGTGAAGGCATTTT
21873163 T-ATAGAATAAATGCCTTCAATAACCATCTAAAAATTTTAAAACCACAATATTGAAGGTATTTTC
324 TCA-AGAATAAATGCCTTCAATAACCATCTAAAAATTTTAAAACCACAATATTGAAGGTATTTTC
21873227 TACTAGAAGATACATTTAATAATCCCAAACAATTTAT
388 TACTAGAAGATACATTTAATAATCCCAAACAATTTAT
* * * * *
21873264 AAAAGAAAATTATTGAAGGCATATAATGCAAAAAACGCCTTCAATAAATTCTTTCTAAAATTTAG
1 AAAA-AAAATTATTAAAGGCATATAATGCAAAAAACGCCTACAATAAATTCCTT-AAAAAATTAG
*
21873329 -ACGAATTAGTGAAGGC-TTTTTCTGGAATAAACGCCTTCAATAACCGTCTAAAAATTTTAGTAG
64 AACGAATTAGTG-AGGCATTTTTCTGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAG
* * *
21873392 TGGAATATTGAAGGCATTTTCTACTAGAAAATACCTTTAATAATCCCAAACAATTTATAAAAAG-
128 TAGAATATTGAAGGCATTTTCTACTAGAAAATACATTTAATAATCACAAACAATTTAT-AAAAGC
* * *
21873456 AAATTATTAAAAG-TGTTTTGCATCA-ACAAAC-ACCTTCAATAATTCTCTATAAAAATTATTAA
192 AAATTATTAAAAGAT-TTTTGC-TCATA-AAACGACATT-AATAATTCTCGACAAAAATTATTAA
* *
21873518 AGGCAAATTATGAAAATAAACGCCTTCAATAAATCCACCATAAAAATTAGAAAAAATTAGTGAAG
253 AGGCAAATAATGAAAATAAACACCTTCAATAAATCCACCA-AAAAATTAGAAAAAATTAGTGAAG
* *
21873583 GCATTTTTCAAGCATAAATGCCTTTAATAA
317 GCATTTTTCAAGAATAAATGCCTTCAATAA
21873613 TTGCTAAAAA
Statistics
Matches: 299, Mismatches: 38, Indels: 21
0.84 0.11 0.06
Matches are distributed among these distances:
423 1 0.00
424 13 0.04
425 205 0.69
426 31 0.10
427 48 0.16
428 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (424 bp):
AAAAAAAATTATTAAAGGCATATAATGCAAAAAACGCCTACAATAAATTCCTTAAAAAATTAGAA
CGAATTAGTGAGGCATTTTTCTGGAATAAACGCCTTCAATAACCATCTAAAAATTTTAGTAGTAG
AATATTGAAGGCATTTTCTACTAGAAAATACATTTAATAATCACAAACAATTTATAAAAGCAAAT
TATTAAAAGATTTTTGCTCATAAAACGACATTAATAATTCTCGACAAAAATTATTAAAGGCAAAT
AATGAAAATAAACACCTTCAATAAATCCACCAAAAAATTAGAAAAAATTAGTGAAGGCATTTTTC
AAGAATAAATGCCTTCAATAACCATCTAAAAATTTTAAAACCACAATATTGAAGGTATTTTCTAC
TAGAAGATACATTTAATAATCCCAAACAATTTAT
Found at i:21882574 original size:3 final size:3
Alignment explanation
Indices: 21882566--21882590 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
21882556 TAAATATATT
21882566 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
21882591 ATTCTCGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21883889 original size:1 final size:1
Alignment explanation
Indices: 21883885--21883911 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
21883875 TTTCTCTTCC
21883885 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
21883912 GCTGCAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21890900 original size:21 final size:21
Alignment explanation
Indices: 21890856--21890900 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21890846 AAATTAAGTT
* *
21890856 AAAAAATTTAAAATCTTTTTA
1 AAAAAATTTAAAATCATTTAA
* *
21890877 AAAAAATTTCATATCATTTAA
1 AAAAAATTTAAAATCATTTAA
21890898 AAA
1 AAA
21890901 TATTAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATTTAAAATCATTTAA
Found at i:21891444 original size:18 final size:18
Alignment explanation
Indices: 21891407--21891445 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21891397 TTGAATTTTT
* * *
21891407 AATTTAATTTTAATTCAA
1 AATTTAATTTCAAATAAA
21891425 AATTTAATTTCAAATAAA
1 AATTTAATTTCAAATAAA
21891443 AAT
1 AAT
21891446 ATGATTTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAATTTCAAATAAA
Found at i:21892425 original size:24 final size:25
Alignment explanation
Indices: 21892398--21892445 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
21892388 GATTCCTAAA
*
21892398 TAATTAC-TACTCGAATTTTTTTTT
1 TAATTACATACTCGAAATTTTTTTT
* *
21892422 TAATTTCATCCTCGAAATTTTTTT
1 TAATTACATACTCGAAATTTTTTT
21892446 GTTTGTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.25, C:0.15, G:0.04, T:0.56
Consensus pattern (25 bp):
TAATTACATACTCGAAATTTTTTTT
Found at i:21894278 original size:21 final size:21
Alignment explanation
Indices: 21894252--21894293 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21894242 CAATGGATAG
21894252 GGGATTATTGAAAGCATTTTT
1 GGGATTATTGAAAGCATTTTT
*
21894273 GGGATTATTGAAGGCATTTTT
1 GGGATTATTGAAAGCATTTTT
21894294 TGCATATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.43
Consensus pattern (21 bp):
GGGATTATTGAAAGCATTTTT
Found at i:21894384 original size:20 final size:20
Alignment explanation
Indices: 21894359--21894397 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21894349 CGTTTTTGGT
21894359 AATAATCCCCTATCCATTTC
1 AATAATCCCCTATCCATTTC
21894379 AATAATCCCCTATCCATTT
1 AATAATCCCCTATCCATTT
21894398 TTGAAGGGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAATCCCCTATCCATTTC
Found at i:21902519 original size:13 final size:13
Alignment explanation
Indices: 21902501--21902538 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
21902491 AACTTCTCAA
21902501 TTCTTTATATATG
1 TTCTTTATATATG
*
21902514 TTCTTTACATATG
1 TTCTTTATATATG
*
21902527 TTTTTTATATAT
1 TTCTTTATATAT
21902539 TCACTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (13 bp):
TTCTTTATATATG
Found at i:21904211 original size:161 final size:161
Alignment explanation
Indices: 21903699--21904794 Score: 1087
Period size: 161 Copynumber: 6.8 Consensus size: 161
21903689 TGTTTACAAG
* * * * * * * *
21903699 TTTTTGTGCCATTACAAGGTAAAAATACAAATTTACAGTTATTGTTTTGTTTTAATAGTTTTGAT
1 TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGAT
* * * * * *
21903764 AGTTTTAATACATGATATTAAACTTATCCAAATTATTGAACTTAGTTTTCACAGTTGATATGTAT
66 AGCTTCAATACATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTTCACAGTTGATATGTAT
* *
21903829 GAAAAAGTTATTGTTTACATCTATTTAGGGC
131 GAAAAAGTTATTGTTTACATCTGTTTAGGAC
* * * * *
21903860 TTTTTGTGTCGTTAATAGGTAAAAATACAAATTTGTTGTTGTTGTTCTA-TTTAACAATTTGGAT
1 TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGAT
* * *
21903924 AGCTCCAATACATGATATTAAACTTGTTCG-AATGATTGAACTTGGTTTCCAC-GATTGATATGT
66 AGCTTCAATACATGATATTAAACTTG-TCGAAATAATTGAACTTGGTTTTCACAG-TTGATATGT
* *
21903987 GTGAAAAAGTTATTGTTTACATCTGTTTAAGAC
129 ATGAAAAAGTTATTGTTTACATCTGTTTAGGAC
* * * * * ** *
21904020 TTTTTGTGCTATTAAGAGGTAAATATGCAAATTTGTTGTTATTGTTCTATTTTAACGGTTTGCAT
1 TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGAT
* *
21904085 AGCTTCAATATATGATATTAAACTTGTCGAAACAATTGAACTTGGTTTTCACAGTTGATATGTAT
66 AGCTTCAATACATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTTCACAGTTGATATGTAT
* *
21904150 GAAAAAAGTTAATGTTTACGTCTGTTTAGGAC
131 G-AAAAAGTTATTGTTTACATCTGTTTAGGAC
* * * * * * *
21904182 TTTTTATGCCATTAAAAGG-AAAAATGCAAATGTGATATTATTGTTCAATTTTAACCATTTGGAT
1 TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGAT
*
21904246 AGCTTTAATACATGATATTAAACTTGTCCG-AATGAA-TGAACTTGG-TTTCTACAGTTGATATG
66 AGCTTCAATACATGATATTAAACTTGT-CGAAAT-AATTGAACTTGGTTTTC-ACAGTTGATATG
* * * *
21904308 TGTGAAAAACTTGTTGTTTA-ATCTATTTAGGACC
128 TATGAAAAAGTTATTGTTTACATCTGTTTAGGA-C
* * * *
21904342 ATTTTTGT--CATTAAAAGGCAAAAATACAAA--TGCTATTATTATTCTATTTTAACAATTTGAA
1 -TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGA
* ** * * *
21904403 TTGCTTCAATACATGATATTAAACTT-TTTAGAATGATTGAACTTGG-TTTCTGCAGTTGATATA
65 TAGCTTCAATACATGATATTAAACTTGTCGA-AATAATTGAACTTGGTTTTC-ACAGTTGATATG
* *
21904466 TATGAAAAAGTTATTGTTTACCTCAGTTTAGGA-
128 TATGAAAAAGTTATTGTTTACATCTGTTTAGGAC
** * * * * *
21904499 TTTTTCG-GTCTGTTAAAAGGAAAAAATACAAAATTGCTGTTATTGTTTTGTTTTAACAGTTTGG
1 TTTTT-GTG-CCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGG
* * ** * * * *
21904563 ATAGCTTCAATACATAATATTAAACTTTTTTAAATGATTGAACTTAGTTTTCATAGTTGATATAT
64 ATAGCTTCAATACATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTTCACAGTTGATATGT
* * * * *
21904628 GTGAAAAAGTTGTTATTTGCCTCTGTTTAGGAC
129 ATGAAAAAGTTATTGTTTACATCTGTTTAGGAC
* * * * * * *
21904661 TTTTTTTTACCGTTAAAAGGCAAAAATACAAAGTTGTTATTA-TGTTCTATTTTAACAATTTGGA
1 -TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGA
* * * *
21904725 TAGCTTCAATACATAATATTAAACTTGTCCAAATAATTAAATTTGG-TTTC-CATGATTGATATG
65 TAGCTTCAATACATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTTCACA-G-TTGATATG
21904788 TATGAAA
128 TATGAAA
21904795 GACCAAAATG
Statistics
Matches: 783, Mismatches: 123, Indels: 58
0.81 0.13 0.06
Matches are distributed among these distances:
156 5 0.01
157 3 0.00
158 94 0.12
159 50 0.06
160 169 0.22
161 373 0.48
162 84 0.11
163 5 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (161 bp):
TTTTTGTGCCATTAAAAGGTAAAAATACAAATTTGCTGTTATTGTTCTATTTTAACAATTTGGAT
AGCTTCAATACATGATATTAAACTTGTCGAAATAATTGAACTTGGTTTTCACAGTTGATATGTAT
GAAAAAGTTATTGTTTACATCTGTTTAGGAC
Found at i:21904542 original size:480 final size:481
Alignment explanation
Indices: 21903761--21904794 Score: 1248
Period size: 480 Copynumber: 2.1 Consensus size: 481
21903751 TAATAGTTTT
* * * *
21903761 GATAGTTTTAATACATGATATTAAACTTATCCAAATTATTGAACTTAGTTTTCACAGTTGATATG
1 GATAGCTTTAATACATGATATTAAACTTGTCCAAATGAATGAACTTAGTTTTCACAGTTGATATG
* * * * * *
21903826 TATGAAAAAGTTATTGTTTACATCTATTTAGGGCTTTTTGTGTCGTTAATAGGTAAAAATACAAA
66 TATGAAAAACTTATTGTTTACATCTATTTAGGCCATTTTGTGTCATTAAAAGGCAAAAATACAAA
* * * * * *
21903891 TTTGTTGTTGTTGTTCTATTTAACAATTTGGATAGCTCCAATACATGATATTAAACTTGTTCGAA
131 -TTGCTATTATTATTCTATTTAACAATTTGAATAGCTCCAATACATGATATTAAACTTGTTAGAA
* * *
21903956 TGATTGAACTTGGTTTCCACGATTGATATGTGTGAAAAAGTTATTGTTTACATCTGTTTAAGACT
195 TGATTGAACTTGGTTTCCACGATTGATATATATGAAAAAGTTATTGTTTACATCAGTTTAAGACT
* * * * * * *
21904021 TTTTGTGCTATTAAGAGGTAAATATGCAAATTTGTTGTTATTGTTCTATTTTAACGGTTTGCATA
260 TTTTGTGCTATTAAAAGGAAAAAATACAAAATTGCTGTTATTGTTCTATTTTAACAGTTTGCATA
* * * *
21904086 GCTTCAATATATGATATTAAACTTGTCGAAACAATTGAACTTGGTTTTCACAGTTGATATGTATG
325 GCTTCAATACATAATATTAAACTTGTCGAAACAATTGAACTTAGTTTTCACAGTTGATATATATG
* * * *
21904151 AAAAAAGTTAATGTTTACGTCTGTTTAGGAC-TTTTTATGCCATTAAAAGG-AAAAATGCAAA-T
390 -AAAAAGTTAATATTTACCTCTGTTTAGGACTTTTTTATACCATTAAAAGGCAAAAATACAAAGT
*
21904213 GTGATATTATTGTTCAATTTTAACCATTTG
454 -TGATATTA-TGTTCAATTTTAACAATTTG
* *
21904243 GATAGCTTTAATACATGATATTAAACTTGTCCGAATGAATGAACTT-GGTTTCTACAGTTGATAT
1 GATAGCTTTAATACATGATATTAAACTTGTCCAAATGAATGAACTTAGTTTTC-ACAGTTGATAT
* *
21904307 GTGTGAAAAACTTGTTGTTTA-ATCTATTTAGGACCATTTT-TGTCATTAAAAGGCAAAAATACA
65 GTATGAAAAACTTATTGTTTACATCTATTTAGG-CCATTTTGTGTCATTAAAAGGCAAAAATACA
* * *
21904370 AA-TGCTATTATTATTCTATTTTAACAATTTGAATTGCTTCAATACATGATATTAAACTTTTTAG
129 AATTGCTATTATTATTCTA-TTTAACAATTTGAATAGCTCCAATACATGATATTAAACTTGTTAG
* *
21904434 AATGATTGAACTTGGTTTCTGCA-G-TTGATATATATGAAAAAGTTATTGTTTACCTCAGTTTAG
193 AATGATTGAACTTGGTTTC--CACGATTGATATATATGAAAAAGTTATTGTTTACATCAGTTTAA
* * *
21904497 GA-TTTTTCG-GTCTGTTAAAAGGAAAAAATACAAAATTGCTGTTATTGTTTTGTTTTAACAGTT
256 GACTTTTT-GTG-CTATTAAAAGGAAAAAATACAAAATTGCTGTTATTGTTCTATTTTAACAGTT
* * ** ** *
21904560 TGGATAGCTTCAATACATAATATTAAACTTTTTTAAATGATTGAACTTAGTTTTCATAGTTGATA
319 TGCATAGCTTCAATACATAATATTAAACTTGTCGAAACAATTGAACTTAGTTTTCACAGTTGATA
* ** * * *
21904625 TATGTGAAAAAGTTGTTATTTGCCTCTGTTTAGGACTTTTTTTTACCGTTAAAAGGCAAAAATAC
384 TATATGAAAAAGTTAATATTTACCTCTGTTTAGGACTTTTTTATACCATTAAAAGGCAAAAATAC
* *
21904690 AAAGTTGTTATTATGTTCTATTTTAACAATTTG
449 AAAGTTGATATTATGTTCAATTTTAACAATTTG
* * * * * *
21904723 GATAGCTTCAATACATAATATTAAACTTGTCCAAAT-AATTAAATTTGGTTTC-CATGATTGATA
1 GATAGCTTTAATACATGATATTAAACTTGTCCAAATGAATGAACTTAGTTTTCACA-G-TTGATA
21904786 TGTATGAAA
64 TGTATGAAA
21904795 GACCAAAATG
Statistics
Matches: 471, Mismatches: 68, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
478 2 0.00
479 51 0.11
480 284 0.60
481 56 0.12
482 78 0.17
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (481 bp):
GATAGCTTTAATACATGATATTAAACTTGTCCAAATGAATGAACTTAGTTTTCACAGTTGATATG
TATGAAAAACTTATTGTTTACATCTATTTAGGCCATTTTGTGTCATTAAAAGGCAAAAATACAAA
TTGCTATTATTATTCTATTTAACAATTTGAATAGCTCCAATACATGATATTAAACTTGTTAGAAT
GATTGAACTTGGTTTCCACGATTGATATATATGAAAAAGTTATTGTTTACATCAGTTTAAGACTT
TTTGTGCTATTAAAAGGAAAAAATACAAAATTGCTGTTATTGTTCTATTTTAACAGTTTGCATAG
CTTCAATACATAATATTAAACTTGTCGAAACAATTGAACTTAGTTTTCACAGTTGATATATATGA
AAAAGTTAATATTTACCTCTGTTTAGGACTTTTTTATACCATTAAAAGGCAAAAATACAAAGTTG
ATATTATGTTCAATTTTAACAATTTG
Found at i:21905992 original size:18 final size:17
Alignment explanation
Indices: 21905964--21905997 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21905954 AATAAATATT
*
21905964 AAAAGAAATTTTTTAAA
1 AAAAGAAATTTCTTAAA
21905981 AAAAGTAAATTTCTTAA
1 AAAAG-AAATTTCTTAA
21905998 TTTTGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAAGAAATTTCTTAAA
Found at i:21906175 original size:34 final size:33
Alignment explanation
Indices: 21906089--21906175 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 33
21906079 ATGTTTTTCT
*
21906089 ATACAAATGCCACTAAATAGAGCGGCATTTAATG
1 ATACAAATGCCACTAAAT-TAGCGGCATTTAATG
* * **
21906123 ATACAAATGCTACTAAATTAGTGGCATTTTCCTG
1 ATACAAATGCCACTAAATTAGCGGCA-TTTAATG
21906157 ATACAAATGCCACTAAATT
1 ATACAAATGCCACTAAATT
21906176 GTGCTGATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 6 0.13
34 40 0.87
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (33 bp):
ATACAAATGCCACTAAATTAGCGGCATTTAATG
Found at i:21908248 original size:24 final size:23
Alignment explanation
Indices: 21908221--21908290 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
21908211 CTTATCCTTT
* *
21908221 TTTTGTGTTTTGTTGTTGTTATTA
1 TTTTGTGTTTTTTTATTGTT-TTA
* *
21908245 TTTT-TTTATTTTTTTTTGTTTTA
1 TTTTGTGT-TTTTTTATTGTTTTA
21908268 TTTTGTGATTTTTTTATTGTTTT
1 TTTTGTG-TTTTTTTATTGTTTT
21908291 TAAAAGTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.24
24 28 0.74
25 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.13, T:0.79
Consensus pattern (23 bp):
TTTTGTGTTTTTTTATTGTTTTA
Found at i:21908253 original size:8 final size:8
Alignment explanation
Indices: 21908242--21908292 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
21908232 GTTGTTGTTA
21908242 TTATTTTT
1 TTATTTTT
21908250 TTATTTTT
1 TTATTTTT
*
21908258 TT-TTGTT
1 TTATTTTT
*
21908265 TTATTTTG
1 TTATTTTT
*
21908273 TGATTTTT
1 TTATTTTT
21908281 TTATTGTTT
1 TTATT-TTT
21908290 TTA
1 TTA
21908293 AAAGTTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
7 6 0.17
8 23 0.66
9 6 0.17
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (8 bp):
TTATTTTT
Found at i:21908624 original size:69 final size:69
Alignment explanation
Indices: 21908446--21908625 Score: 168
Period size: 69 Copynumber: 2.6 Consensus size: 69
21908436 ACTAAATCAC
* * * *
21908446 AAGTTAAGAAATAAAGATGATCGGGATGAAACCTTAAATAAAAAAATATAGATGCCTGAGACAAA
1 AAGTT-AGAAATAAAGATGATCGGGATGAAACCATAAGTCAAAAAATATAGATACCTGAGACAAA
21908511 GTCGT
65 GTCGT
* * * ** * * *
21908516 AAGTCA-AGAACAAAGATGACCGGGACAAAACCACAAGTCAAAAAATA-ATGATA-ATCGAGATA
1 AAGTTAGA-AATAAAGATGATCGGGATGAAACCATAAGTCAAAAAATATA-GATACCT-GAGACA
21908578 AAGTCGT
63 AAGTCGT
* * *
21908585 AAGTTAGAAATAAAGATGATCGAGATGAAACCGTGAGTCAA
1 AAGTTAGAAATAAAGATGATCGGGATGAAACCATAAGTCAA
21908626 GAACAAAAAT
Statistics
Matches: 85, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
68 3 0.04
69 77 0.91
70 5 0.06
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (69 bp):
AAGTTAGAAATAAAGATGATCGGGATGAAACCATAAGTCAAAAAATATAGATACCTGAGACAAAG
TCGT
Found at i:21908714 original size:102 final size:101
Alignment explanation
Indices: 21908515--21908773 Score: 277
Period size: 102 Copynumber: 2.5 Consensus size: 101
21908505 GACAAAGTCG
* * * * *
21908515 TAAGTCAAGAACAAAGATGACCGGGACAAAACCACAAGTCAAAAAATAATGATAATCGAGATAAA
1 TAAGTCAAGAACAAAGATGACTGGGACAAAAGCATAAGTCAAAAAA-AA-GATGATCAAGATAAA
* * *
21908580 GTCGTAAGTTAGAAATAAAGATGATCGAGATGAAACCG
64 GTCGTAAGTTAAAAATAAAGACGATCGAGATGAAACCA
* * * * * *
21908618 TGAGTCAAGAACAAAAATGACTTGGACAAAAGCATAAGTTAAAAAGAAAGATGATTAAGATGAAG
1 TAAGTCAAGAACAAAGATGACTGGGACAAAAGCATAAGTCAAAAA-AAAGATGATCAAGATAAAG
* * * *
21908683 TCGTAAGTTAAAAATAAAGGCGATTGGGATGAAGCCA
65 TCGTAAGTTAAAAATAAAGACGATCGAGATGAAACCA
* * *
21908720 TAAATCAAAAATAAAGATGACTGGGAC-AAAGTCATAAGTCAAAAATAAAGATGA
1 TAAGTCAAGAACAAAGATGACTGGGACAAAAG-CATAAGTCAAAAA-AAAGATGA
21908774 CAAAGACAAA
Statistics
Matches: 128, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
101 4 0.03
102 83 0.65
103 40 0.31
104 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (101 bp):
TAAGTCAAGAACAAAGATGACTGGGACAAAAGCATAAGTCAAAAAAAAGATGATCAAGATAAAGT
CGTAAGTTAAAAATAAAGACGATCGAGATGAAACCA
Found at i:21908774 original size:34 final size:34
Alignment explanation
Indices: 21908487--21909086 Score: 154
Period size: 34 Copynumber: 17.6 Consensus size: 34
21908477 CCTTAAATAA
* * *
21908487 AAAAATATAGATGCCTGAGACAAAGTCGTAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * * * ** *
21908521 AAGAACAAAGATGACCGGGACAAAACCACAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * * * *
21908555 AAAAAATAATGAT-AATCGAGATAAAGTCGTAAGTT
1 -AAAAATAAAGATGACT-GAGACAAAGTCATAAGTC
* * * * *
21908590 AGAAATAAAGATGA-TCGAGATGAAA-CCGTGAGTC
1 AAAAATAAAGATGACT-GAGA-CAAAGTCATAAGTC
* * * *
21908624 AAGAACAAAAATGACTTG-GACAAAAG-CATAAGTT
1 AAAAATAAAGATGAC-TGAGAC-AAAGTCATAAGTC
* * * ** * *
21908658 AAAAAGAAAGATGATTAAGATGAAGTCGTAAGTT
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
** * * ** * *
21908692 AAAAATAAAGGCGATTGGGATGAAGCCATAAATC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
*
21908726 AAAAATAAAGATGACTGGGACAAAGTCATAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
** * * * *
21908760 AAAAATAAAGATGACAAAGACAAAGTTACAATTT
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * ** *
21908794 AGAAAATAAAAATGAC-AAGGATTAAG-CTGTAAGTC
1 A-AAAATAAAGATGACTGA-GACAAAGTC-ATAAGTC
* * *
21908829 AAAAAATGAAA-ATGA-TTATGACGAAG-C-TGCAAGTT
1 -AAAAAT-AAAGATGACTGA-GACAAAGTCAT--AAGTC
* * ** ***
21908864 AAAAATAAAAATGATTGAGGTAAAGTTGCAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * * * **
21908898 AAGAACAAAGATGACCGAAACAAAACCATAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * * *
21908932 AAAAA-AGAAGAATGAC-CAGGATAAAATCGTAA-TC
1 AAAAATA-AAG-ATGACTGA-GACAAAGTCATAAGTC
* * * * *
21908966 AGAAATAAA-ATGAC-CAAACAAA-CCACAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * * * *
21908997 AGAAAAGAAAAATGATTGAGATAAAGTCACAAGTC
1 A-AAAATAAAGATGACTGAGACAAAGTCATAAGTC
* * *
21909032 AGAAATAAAGATGACCGAGACAAAGTCGTAAGTC
1 AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
21909066 AAAAAATAAAGATGACTGAGA
1 -AAAAATAAAGATGACTGAGA
21909087 TGAAGCCGCA
Statistics
Matches: 405, Mismatches: 129, Indels: 63
0.68 0.22 0.11
Matches are distributed among these distances:
30 3 0.01
31 7 0.02
32 13 0.03
33 13 0.03
34 254 0.63
35 110 0.27
36 5 0.01
ACGTcount: A:0.52, C:0.12, G:0.19, T:0.17
Consensus pattern (34 bp):
AAAAATAAAGATGACTGAGACAAAGTCATAAGTC
Found at i:21909020 original size:65 final size:69
Alignment explanation
Indices: 21908904--21909055 Score: 179
Period size: 65 Copynumber: 2.3 Consensus size: 69
21908894 AGTCAAGAAC
* * **
21908904 AAAGATGACCGAAACAAAACCATAAGTCAAAAAAGAAGAATGACCAGGATAAAATCGTAA-TCAG
1 AAAGATGACCGAAACAAAACCACAAGTCAAAAAAGAAAAATGACCAGGATAAAATCACAAGTCAG
21908968 AAAT
66 AAAT
* ** *
21908972 AAA-ATGACC-AAAC-AAACCACAAGTCAGAAAAGAAAAATGA-TTGAGATAAAGTCACAAGTCA
1 AAAGATGACCGAAACAAAACCACAAGTCAAAAAAGAAAAATGACCAG-GATAAAATCACAAGTCA
21909033 GAAAT
65 GAAAT
*
21909038 AAAGATGACCGAGACAAA
1 AAAGATGACCGAAACAAA
21909056 GTCGTAAGTC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 1 0.01
65 34 0.49
66 15 0.21
67 12 0.17
68 6 0.09
69 2 0.03
ACGTcount: A:0.56, C:0.15, G:0.16, T:0.12
Consensus pattern (69 bp):
AAAGATGACCGAAACAAAACCACAAGTCAAAAAAGAAAAATGACCAGGATAAAATCACAAGTCAG
AAAT
Found at i:21909073 original size:35 final size:35
Alignment explanation
Indices: 21908968--21909109 Score: 112
Period size: 35 Copynumber: 4.2 Consensus size: 35
21908958 TCGTAATCAG
* * *
21908968 AAATAAA-ATGACC-AAACAAA-CCACAAGTCAGA
1 AAATAAAGATGACCGAGACAAAGCCGCAAGTCAAA
* * ** * * * *
21909000 AAAGAAAAATGATTGAGATAAAGTCACAAGTC-AG
1 AAATAAAGATGACCGAGACAAAGCCGCAAGTCAAA
* *
21909034 AAATAAAGATGACCGAGACAAAGTCGTAAGTCAAA
1 AAATAAAGATGACCGAGACAAAGCCGCAAGTCAAA
* **
21909069 AAATAAAGATGACTGAGATGAAGCCGCAAGTCAAA
1 AAATAAAGATGACCGAGACAAAGCCGCAAGTCAAA
21909104 AAATAA
1 AAATAA
21909110 GAATGAAAAT
Statistics
Matches: 85, Mismatches: 21, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
32 6 0.07
33 4 0.05
34 30 0.35
35 45 0.53
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (35 bp):
AAATAAAGATGACCGAGACAAAGCCGCAAGTCAAA
Found at i:21909086 original size:69 final size:68
Alignment explanation
Indices: 21908864--21909101 Score: 225
Period size: 69 Copynumber: 3.5 Consensus size: 68
21908854 GCTGCAAGTT
* * * *
21908864 AAAAATAAAAATGATTGAGGTAAAGTTGCAAGTCA-AGAACAAAGATGACCGAAACAAAACCATA
1 AAAAATAAAAATGACTGAGATAAAGTCGCAAGTCAGA-AATAAAGATGACCGAAAC-AAACCATA
21908928 AGTCA
64 AGTCA
* * * * * *
21908933 AAAAAGAAGAATGAC-CAGGATAAAATCGTAA-TCAGAAATAAA-ATGACC-AAACAAACCACAA
1 AAAAATAAAAATGACTGA-GATAAAGTCGCAAGTCAGAAATAAAGATGACCGAAACAAACCATAA
21908994 GTCA
65 GTCA
* * * * * * *
21908998 GAAAAGAAAAATGATTGAGATAAAGTCACAAGTCAGAAATAAAGATGACCGAGACAAAGTCGTAA
1 AAAAATAAAAATGACTGAGATAAAGTCGCAAGTCAGAAATAAAGATGACCGAAACAAA-CCATAA
21909063 GTCA
65 GTCA
* * *
21909067 AAAAATAAAGATGACTGAGATGAAGCCGCAAGTCA
1 AAAAATAAAAATGACTGAGATAAAGTCGCAAGTCA
21909102 AAAAATAAGA
Statistics
Matches: 134, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
65 34 0.25
66 16 0.12
67 12 0.09
68 15 0.11
69 57 0.43
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.15
Consensus pattern (68 bp):
AAAAATAAAAATGACTGAGATAAAGTCGCAAGTCAGAAATAAAGATGACCGAAACAAACCATAAG
TCA
Found at i:21913986 original size:24 final size:25
Alignment explanation
Indices: 21913952--21913998 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21913942 TATGTGAATC
21913952 CTTTCTCTCTTT-TTTCAGCCATGG
1 CTTTCTCTCTTTCTTTCAGCCATGG
* *
21913976 CTTTCTTTCTTTCTTTCTGCCAT
1 CTTTCTCTCTTTCTTTCAGCCAT
21913999 AGTGACCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.06, C:0.30, G:0.09, T:0.55
Consensus pattern (25 bp):
CTTTCTCTCTTTCTTTCAGCCATGG
Found at i:21915800 original size:6 final size:6
Alignment explanation
Indices: 21915785--21915818 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
21915775 TTTTGAGAAA
*
21915785 TTTTGTT TTTTGT TTTTGT TTTTGT ATTTGT TTT
1 TTTTG-T TTTTGT TTTTGT TTTTGT TTTTGT TTT
21915819 ATTTGATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (6 bp):
TTTTGT
Found at i:21916034 original size:71 final size:74
Alignment explanation
Indices: 21915914--21916059 Score: 201
Period size: 71 Copynumber: 2.0 Consensus size: 74
21915904 GCCAAAAGAT
* *
21915914 TTTTTTTAAAGATTCTTTTTTTTTAAAAAATTTTAGTCTTATTCGTACCATTATTACC-CATAAA
1 TTTTTTTAAAGATTCTTTTTTTTT---AAATTTTAGTCTTACTCATACCATTATTACCTC-TAAA
21915978 TACAAAGAATGAG
62 TACAAAGAATGAG
21915991 TTTTTTTAAAGA-T-TTTTTTTTT-AATTTTAGTCTTACTCATACCATTATTACCTCTAAATACA
1 TTTTTTTAAAGATTCTTTTTTTTTAAATTTTAGTCTTACTCATACCATTATTACCTCTAAATACA
*
21916053 GAGAATG
66 AAGAATG
21916060 TTCCTTCATG
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
71 42 0.65
72 1 0.02
75 9 0.14
76 1 0.02
77 12 0.18
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (74 bp):
TTTTTTTAAAGATTCTTTTTTTTTAAATTTTAGTCTTACTCATACCATTATTACCTCTAAATACA
AAGAATGAG
Found at i:21917601 original size:14 final size:15
Alignment explanation
Indices: 21917578--21917621 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
21917568 TGTTTAAGGG
21917578 TTTA-GGGTTTAGGT
1 TTTATGGGTTTAGGT
21917592 TTT-TGGGTTTAGGT
1 TTTATGGGTTTAGGT
*
21917606 TTTAT-GATTTAGGT
1 TTTATGGGTTTAGGT
21917620 TT
1 TT
21917622 CAAAATTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 26 0.96
15 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
TTTATGGGTTTAGGT
Found at i:21917689 original size:7 final size:7
Alignment explanation
Indices: 21917664--21917712 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
21917654 TTTATGGGAA
21917664 TTTAGGG
1 TTTAGGG
*
21917671 TTTCATGG
1 TTT-AGGG
21917679 TTTAGGG
1 TTTAGGG
21917686 TTTAGGG
1 TTTAGGG
*
21917693 TTTAGAG
1 TTTAGGG
21917700 TTT-GGAG
1 TTTAGG-G
21917707 TTTAGG
1 TTTAGG
21917713 AAAATTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 1 0.03
7 26 0.74
8 8 0.23
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:21917735 original size:17 final size:17
Alignment explanation
Indices: 21917714--21917787 Score: 94
Period size: 17 Copynumber: 4.3 Consensus size: 17
21917704 GAGTTTAGGA
*
21917714 AAATTTAGGGTTTCATG
1 AAATTTGGGGTTTCATG
* * *
21917731 GAATTTGGGGTATCGTGG
1 AAATTTGGGGTTTCAT-G
21917749 AAATTTGGGGTTTCATG
1 AAATTTGGGGTTTCATG
*
21917766 AAATTTGAGGTTTCATG
1 AAATTTGGGGTTTCATG
21917783 AAATT
1 AAATT
21917788 ATGTATAAGA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
17 34 0.71
18 14 0.29
ACGTcount: A:0.27, C:0.05, G:0.28, T:0.39
Consensus pattern (17 bp):
AAATTTGGGGTTTCATG
Found at i:21918743 original size:20 final size:19
Alignment explanation
Indices: 21918710--21918756 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
21918700 TACCTTCAAG
21918710 ATTTCTTTAATTTTTTCTCTT
1 ATTT-TTTAATTTTTTCT-TT
*
21918731 ATTTTTTATTTTTTTCTTT
1 ATTTTTTAATTTTTTCTTT
21918750 AGTTTTT
1 A-TTTTT
21918757 CCCCTCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.77
Consensus pattern (19 bp):
ATTTTTTAATTTTTTCTTT
Found at i:21918755 original size:19 final size:20
Alignment explanation
Indices: 21918715--21918756 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21918705 TCAAGATTTC
*
21918715 TTTAATTTTTTCTCTTATTT
1 TTTAATTTTTTCTCTTAGTT
*
21918735 TTTATTTTTTTCT-TTAGTT
1 TTTAATTTTTTCTCTTAGTT
21918754 TTT
1 TTT
21918757 CCCCTCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTAATTTTTTCTCTTAGTT
Found at i:21920417 original size:137 final size:137
Alignment explanation
Indices: 21920171--21920449 Score: 427
Period size: 137 Copynumber: 2.0 Consensus size: 137
21920161 AAATTTATTA
*
21920171 TCAAACTTGTAGAAATTACAATTTTTAGGAATTCTCATTACAAAGAAAATCCTCTAAATCTTTTC
1 TCAAACTTGTAGAAACTACAATTTTTAGGAATTCTCATTACAAAGAAAATCCTCTAAATCTTTTC
* * *
21920236 CTCGATAAAAATATGCGTCAAAGGTCAAGCAAACTTTTTCTTGAATGCTTCAAGGGTCATTGAGG
66 CTCGATAAAAATACGCGTCAAAGGTCAAGCAAACTTGTTCTTGAATGCTTCAAAGGTCATTGA-G
21920301 A-TTGTTC
130 ACTTGTTC
* *
21920308 TCAAACTTGTAGAAACTACAATTTTTTA-GAATTCTTATTACAAAGAAAATCCTCTAATTCTTTT
1 TCAAACTTGTAGAAACTACAA-TTTTTAGGAATTCTCATTACAAAGAAAATCCTCTAAATCTTTT
* * ** *
21920372 CCTCGATAAAAATCCGCTTCAAAGGTCAAGCAGGCTTGTTCTTGAATGCTTTAAAGGTCATTGAG
65 CCTCGATAAAAATACGCGTCAAAGGTCAAGCAAACTTGTTCTTGAATGCTTCAAAGGTCATTGAG
21920437 ACTTGTTC
130 ACTTGTTC
21920445 TCAAA
1 TCAAA
21920450 TGTTTCAAGG
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
136 2 0.02
137 121 0.94
138 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.35
Consensus pattern (137 bp):
TCAAACTTGTAGAAACTACAATTTTTAGGAATTCTCATTACAAAGAAAATCCTCTAAATCTTTTC
CTCGATAAAAATACGCGTCAAAGGTCAAGCAAACTTGTTCTTGAATGCTTCAAAGGTCATTGAGA
CTTGTTC
Found at i:21924444 original size:15 final size:15
Alignment explanation
Indices: 21924420--21924455 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
21924410 GAATTTCACT
21924420 TAAAAGAATATCTTCA
1 TAAAA-AATATCTTCA
21924436 TAAAAAATATCTTCA
1 TAAAAAATATCTTCA
21924451 -AAAAA
1 TAAAAA
21924456 TTTTCAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 10 0.50
16 5 0.25
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAAAAATATCTTCA
Found at i:21954869 original size:158 final size:157
Alignment explanation
Indices: 21954693--21955142 Score: 566
Period size: 158 Copynumber: 2.8 Consensus size: 157
21954683 TCATAATACT
* * * *
21954693 CACAAAGCACTATCTAGTTCAATACTAAATTTCATATAATATTTAGGCTTTCAATTACTACATTA
1 CACAAAACACTATATAGTTCAATACTAAATTTCCTACAATATTTAGGCTTTCAATTACTACATTA
* * *
21954758 TCTACTTCATCAACAATCACAATACACAACCAAAATCACTAAGAAAAATA-CTAAATAGTTTTTA
66 TCTACTTCATCAACAATCACAATACACAACCAAAATCACAAAGAAAAATACCT-AATACTTTTCA
*
21954822 CCTTCACAAATTCATTGTATCTCAATAAG
130 CCTTCACAAATTCATTATATCTCAA-AAG
* * * *
21954851 CACAAAACACTATATAGTTCAATATTGAATTTCCTACAATATTTAGGCTTTCAATTATTACACTA
1 CACAAAACACTATATAGTTCAATACTAAATTTCCTACAATATTTAGGCTTTCAATTACTACA-TT
* * *
21954916 AT-AACTTCATCAACAATCACAATACACAACCAGAATCACAAAGCAAAATACCTAATACTTTTCA
65 ATCTACTTCATCAACAATCACAATACACAACCAAAATCACAAAGAAAAATACCTAATACTTTTCA
*
21954980 CCTTTACAAATTCATTATATCTCAAAAG
130 CCTTCACAAATTCATTATATCTCAAAAG
* * * * * *
21955008 CATAAAAATATTATATAGTTTAATACTAAATTTCCTACAATGTTTAGGCTTTCAATTACTATC-C
1 CA-CAAAACACTATATAGTTCAATACTAAATTTCCTACAATATTTAGGCTTTCAATTACTA-CAT
* * * * *
21955072 TATCTACTTCATCAACAATCACAATACACAACTACAATCACAAATGCAAAATATGC-AATAGTTT
64 TATCTACTTCATCAACAATCACAATACACAACCAAAATCACAAA-GAAAAATA-CCTAATACTTT
21955136 TCACCTT
127 TCACCTT
21955143 TCGCAAATGT
Statistics
Matches: 254, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
157 7 0.03
158 218 0.86
159 28 0.11
160 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (157 bp):
CACAAAACACTATATAGTTCAATACTAAATTTCCTACAATATTTAGGCTTTCAATTACTACATTA
TCTACTTCATCAACAATCACAATACACAACCAAAATCACAAAGAAAAATACCTAATACTTTTCAC
CTTCACAAATTCATTATATCTCAAAAG
Found at i:21961013 original size:32 final size:32
Alignment explanation
Indices: 21960972--21961034 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
21960962 GATTCCATAT
21960972 TTCAACACAAAT-ACAAAAAT-TCTTATTTCTAG
1 TTCAACAC-AATCACAAAAATGT-TTATTTCTAG
*
21961004 TTCAACACAATCACATAAATGTTTATTTCTA
1 TTCAACACAATCACAAAAATGTTTATTTCTA
21961035 ACTCAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 3 0.11
32 24 0.86
33 1 0.04
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (32 bp):
TTCAACACAATCACAAAAATGTTTATTTCTAG
Found at i:21971010 original size:10 final size:10
Alignment explanation
Indices: 21970995--21971028 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
21970985 AGTCCTTGAG
21970995 TTAAAAGAGT
1 TTAAAAGAGT
21971005 TTAAAAGAGT
1 TTAAAAGAGT
21971015 TT-AAAGAGT
1 TTAAAAGAGT
21971024 TTAAA
1 TTAAA
21971029 GATGCAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (10 bp):
TTAAAAGAGT
Found at i:21971020 original size:9 final size:9
Alignment explanation
Indices: 21970992--21971030 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
21970982 TCCAGTCCTT
*
21970992 GAGTTAAAA
1 GAGTTTAAA
21971001 GAGTTTAAAA
1 GAGTTT-AAA
21971011 GAGTTTAAA
1 GAGTTTAAA
21971020 GAGTTTAAA
1 GAGTTTAAA
21971029 GA
1 GA
21971031 TGCAATAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (9 bp):
GAGTTTAAA
Found at i:21971020 original size:19 final size:19
Alignment explanation
Indices: 21970992--21971028 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21970982 TCCAGTCCTT
21970992 GAGTTAAAAGAGTTTAAAA
1 GAGTTAAAAGAGTTTAAAA
*
21971011 GAGTTTAAAGAGTTTAAA
1 GAGTTAAAAGAGTTTAAA
21971029 GATGCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.30
Consensus pattern (19 bp):
GAGTTAAAAGAGTTTAAAA
Found at i:21977108 original size:19 final size:19
Alignment explanation
Indices: 21977077--21977114 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21977067 TGAAAGAGTT
21977077 TTAATGAAGGATGAAGAGA
1 TTAATGAAGGATGAAGAGA
*
21977096 TTAA-GAAGTGATGGAGAGA
1 TTAATGAAG-GATGAAGAGA
21977115 CTATTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (19 bp):
TTAATGAAGGATGAAGAGA
Found at i:21980707 original size:20 final size:20
Alignment explanation
Indices: 21980664--21980707 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
21980654 CATTTACAAT
*
21980664 TAAATATCAAAATTCATCAC
1 TAAATATCAAAATTCATCAA
*
21980684 TAAATATCAAAATTCGTCAA
1 TAAATATCAAAATTCATCAA
21980704 TAAA
1 TAAA
21980708 AATAACTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAATATCAAAATTCATCAA
Found at i:21981208 original size:8 final size:7
Alignment explanation
Indices: 21981195--21981272 Score: 66
Period size: 8 Copynumber: 9.7 Consensus size: 7
21981185 GAAATTTTCA
21981195 AAAAATAT
1 AAAAAT-T
21981203 AAAAATT
1 AAAAATT
21981210 AAAAAAAATCT
1 --A-AAAAT-T
21981221 AAAAATT
1 AAAAATT
21981228 AAAAATAT
1 AAAAAT-T
21981236 AGAAAATT
1 A-AAAATT
21981244 AAAAATCT
1 AAAAAT-T
21981252 AAAAATTT
1 AAAAA-TT
21981260 GAAAAATT
1 -AAAAATT
21981268 AAAAA
1 AAAAA
21981273 AGTCCCCAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 19
0.76 0.00 0.24
Matches are distributed among these distances:
7 18 0.30
8 24 0.39
9 13 0.21
10 5 0.08
11 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:21981215 original size:16 final size:15
Alignment explanation
Indices: 21981195--21981272 Score: 77
Period size: 16 Copynumber: 4.9 Consensus size: 15
21981185 GAAATTTTCA
21981195 AAAAATATAAAAATT
1 AAAAATATAAAAATT
*
21981210 AAAAAAAATCTAAAAATT
1 ---AAAAATATAAAAATT
21981228 AAAAATATAGAAAATT
1 AAAAATATA-AAAATT
*
21981244 AAAAATCTAAAAATTT
1 AAAAATATAAAAA-TT
21981260 GAAAAAT-TAAAAA
1 -AAAAATATAAAAA
21981273 AGTCCCCAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
15 12 0.22
16 22 0.41
17 6 0.11
18 14 0.26
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAAATATAAAAATT
Found at i:21981217 original size:18 final size:18
Alignment explanation
Indices: 21981194--21981248 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
21981184 AGAAATTTTC
21981194 AAAAAATATAAAAATTAA
1 AAAAAATATAAAAATTAA
*
21981212 AAAAAATCTAAAAATT--
1 AAAAAATATAAAAATTAA
21981228 -AAAAATATAGAAAATTAA
1 AAAAAATATA-AAAATTAA
21981246 AAA
1 AAA
21981249 TCTAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 8 0.26
16 6 0.19
18 15 0.48
19 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAATTAA
Found at i:21981265 original size:24 final size:23
Alignment explanation
Indices: 21981195--21981272 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 23
21981185 GAAATTTTCA
*
21981195 AAAAATATAAAAATTAAAAAAAATCT
1 AAAAAT-TAAAAATT-AGAAAAAT-T
21981221 AAAAATTAAAAATATAG-AAAATT
1 AAAAATTAAAAAT-TAGAAAAATT
*
21981244 AAAAATCTAAAAATTTGAAAAATT
1 AAAAAT-TAAAAATTAGAAAAATT
21981268 AAAAA
1 AAAAA
21981273 AGTCCCCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
23 9 0.19
24 23 0.49
25 8 0.17
26 7 0.15
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (23 bp):
AAAAATTAAAAATTAGAAAAATT
Found at i:21981737 original size:25 final size:25
Alignment explanation
Indices: 21981691--21981738 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21981681 AAAATTGCAA
*
21981691 TAAAATAAAAAGAAGCTTAAAAATT
1 TAAAATAAAAAGAAGCTGAAAAATT
*
21981716 TAAAATTAAAAA-AATCTGAAAAA
1 TAAAA-TAAAAAGAAGCTGAAAAA
21981739 AACTCTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (25 bp):
TAAAATAAAAAGAAGCTGAAAAATT
Found at i:21981880 original size:20 final size:20
Alignment explanation
Indices: 21981835--21981881 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
21981825 CAATTTATCC
21981835 GTTTTTTAAATCTTTTTCAA
1 GTTTTTTAAATCTTTTTCAA
* * *
21981855 CATTTTTAAAATCTTTTT-TA
1 -GTTTTTTAAATCTTTTTCAA
21981875 GTTTTTT
1 GTTTTTT
21981882 TTTTGAATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 5 0.24
20 1 0.05
21 15 0.71
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.64
Consensus pattern (20 bp):
GTTTTTTAAATCTTTTTCAA
Found at i:21981883 original size:23 final size:23
Alignment explanation
Indices: 21981857--21981902 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21981847 TTTTTCAACA
21981857 TTTTTAAAATCTTTTT-TAGTTTT
1 TTTTTAAAAT-TTTTTGTAGTTTT
**
21981880 TTTTTTGAATTTTTTGTAGTTTT
1 TTTTTAAAATTTTTTGTAGTTTT
21981903 AATATTTCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTTTAAAATTTTTTGTAGTTTT
Found at i:21982011 original size:22 final size:21
Alignment explanation
Indices: 21981986--21982057 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 21
21981976 TTCATATACA
21981986 TTTTTTTTTTAAATTTGGGATT
1 TTTTTTTTTTAAATTT-GGATT
* *
21982008 TTTTTATTTCAAATTT-G-TT
1 TTTTTTTTTTAAATTTGGATT
** *
21982027 TTTCTTTTTTTAGTTTTAGGAAT
1 TTT-TTTTTTTAAATTT-GGATT
21982050 TTTTTTTT
1 TTTTTTTT
21982058 GAATTTTTAC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 5 0.13
20 10 0.26
22 20 0.51
23 4 0.10
ACGTcount: A:0.17, C:0.03, G:0.10, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTTAAATTTGGATT
Found at i:21982172 original size:18 final size:18
Alignment explanation
Indices: 21982107--21982177 Score: 56
Period size: 18 Copynumber: 3.8 Consensus size: 18
21982097 TTTAAAAAAA
*
21982107 TTTTCATATTTTATTTAAT
1 TTTTCAAATTTT-TTTAAT
* *
21982126 TTTTC-AGTTTTTTGAAAAT
1 TTTTCAAATTTTTT--TAAT
*
21982145 ATTT-AGAATTTTTTTAAT
1 TTTTCA-AATTTTTTTAAT
21982163 TTTTCAAATTTTTTT
1 TTTTCAAATTTTTTT
21982178 TTGAAATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
17 2 0.05
18 19 0.47
19 12 0.30
20 7 0.17
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTTCAAATTTTTTTAAT
Found at i:21982231 original size:41 final size:39
Alignment explanation
Indices: 21982133--21982255 Score: 99
Period size: 41 Copynumber: 3.0 Consensus size: 39
21982123 AATTTTTCAG
** *
21982133 TTTTTTGAAAATATTTAGAATTTTTTTAATT-TTTCAAATTT
1 TTTTTTG-AAATATTTA-AATTTTTAAAATTCTTT-GAATTT
21982174 TTTTTTGAAATATTT-AATTTTTAGAAAATTGCTTTGAATTT
1 TTTTTTGAAATATTTAAATTTTT--AAAATT-CTTTGAATTT
* * *
21982215 TGTTTTTG-GATTTTTAAAATTTTTAAAATTCTTTTAATTT
1 T-TTTTTGAAATATTT-AAATTTTTAAAATTCTTTGAATTT
21982255 T
1 T
21982256 ATAATTTATT
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
38 7 0.10
40 22 0.32
41 24 0.35
42 9 0.13
43 7 0.10
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (39 bp):
TTTTTTGAAATATTTAAATTTTTAAAATTCTTTGAATTT
Found at i:21982272 original size:38 final size:37
Alignment explanation
Indices: 21982225--21982306 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 37
21982215 TGTTTTTGGA
* *
21982225 TTTTTAAAATTTTT-AAAATTCTTTTAATTTTATAATT
1 TTTTTAAAATTTTTCAAAATT-TTCTAAATTTATAATT
*
21982262 TATTTTAAAATTTTTCTAAATTTTCTAAATTTATAATT
1 T-TTTTAAAATTTTTCAAAATTTTCTAAATTTATAATT
21982300 TTTTTAA
1 TTTTTAA
21982307 TATTAACGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
37 7 0.17
38 28 0.70
39 5 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (37 bp):
TTTTTAAAATTTTTCAAAATTTTCTAAATTTATAATT
Found at i:21982452 original size:21 final size:21
Alignment explanation
Indices: 21982428--21982479 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
21982418 AAAAAAAGAT
21982428 GTATTATAAATG-AAAATTTAA
1 GTATT-TAAATGTAAAATTTAA
* *
21982449 GTATTTAATTGTAAAATTTAT
1 GTATTTAAATGTAAAATTTAA
*
21982470 TTATTTAAAT
1 GTATTTAAAT
21982480 ATGAAACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (21 bp):
GTATTTAAATGTAAAATTTAA
Found at i:21982721 original size:19 final size:19
Alignment explanation
Indices: 21982693--21982730 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21982683 TGAATACTTT
*
21982693 TTATTATAAAAATTAATAA
1 TTATTATAAAAATAAATAA
*
21982712 TTATTTTAAAAATAAATAA
1 TTATTATAAAAATAAATAA
21982731 AATAATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTATTATAAAAATAAATAA
Found at i:21985986 original size:34 final size:34
Alignment explanation
Indices: 21985903--21985989 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
21985893 AGCTTTTGGG
* * *
21985903 TTTGCATTTCCAGAGGC-CTTAAAAGCTTCAAGA
1 TTTGCATTTCAAGAAGCTTTTAAAAGCTTCAAGA
*** * *
21985936 TTTGCATTTTTGGAAGCTTTTAAAAGCTTCCATA
1 TTTGCATTTCAAGAAGCTTTTAAAAGCTTCAAGA
*
21985970 TTTGTATTTCAAGAAGCTTT
1 TTTGCATTTCAAGAAGCTTT
21985990 ATTTGCATTT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 13 0.31
34 29 0.69
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (34 bp):
TTTGCATTTCAAGAAGCTTTTAAAAGCTTCAAGA
Found at i:21986681 original size:165 final size:165
Alignment explanation
Indices: 21986484--21986814 Score: 644
Period size: 165 Copynumber: 2.0 Consensus size: 165
21986474 GGAGATCATT
*
21986484 GCGCTCATTGTGGTCGTGAATTTTTAAAAATTTTTCTCAACTTACTATAAAATATAATAATTATA
1 GCGCTCATTGTGGTCGTGAATTTTTAAAAATTTTTCCCAACTTACTATAAAATATAATAATTATA
21986549 ATTATAATAATAAAAACTCTTATTTAGTATCTTTAAAATAATTTATAATATTTCATGTCTTTTAT
66 ATTATAATAATAAAAACTCTTATTTAGTATCTTTAAAATAATTTATAATATTTCATGTCTTTTAT
21986614 TTACTTGATAAAAAAATTATTTACAATATTTATGA
131 TTACTTGATAAAAAAATTATTTACAATATTTATGA
21986649 GCGCTCATTGTGGTCGTGAATTTTTAAAAATTTTTCCCAACTTACTATAAAATATAATAATTATA
1 GCGCTCATTGTGGTCGTGAATTTTTAAAAATTTTTCCCAACTTACTATAAAATATAATAATTATA
21986714 ATTATAATAATAAAAACTCTTATTTAGTATCTTTAAAATAATTTATAATATTTCATGTCTTTTAT
66 ATTATAATAATAAAAACTCTTATTTAGTATCTTTAAAATAATTTATAATATTTCATGTCTTTTAT
*
21986779 TTACTTGATAAAAAGATTATTTACAATATTTATGA
131 TTACTTGATAAAAAAATTATTTACAATATTTATGA
21986814 G
1 G
21986815 ATTATAATAA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
165 164 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (165 bp):
GCGCTCATTGTGGTCGTGAATTTTTAAAAATTTTTCCCAACTTACTATAAAATATAATAATTATA
ATTATAATAATAAAAACTCTTATTTAGTATCTTTAAAATAATTTATAATATTTCATGTCTTTTAT
TTACTTGATAAAAAAATTATTTACAATATTTATGA
Found at i:21994645 original size:20 final size:22
Alignment explanation
Indices: 21994610--21994654 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
21994600 CCAAATCCTG
21994610 TAAGACCTTAAACCCTAAAACC
1 TAAGACCTTAAACCCTAAAACC
*
21994632 TAAG-CCTT-AACCCTAAACCC
1 TAAGACCTTAAACCCTAAAACC
21994652 TAA
1 TAA
21994655 ATCATTAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 4 0.18
22 4 0.18
ACGTcount: A:0.42, C:0.33, G:0.04, T:0.20
Consensus pattern (22 bp):
TAAGACCTTAAACCCTAAAACC
Found at i:21994904 original size:18 final size:18
Alignment explanation
Indices: 21994881--21994941 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
21994871 CTTGTTATCA
21994881 CATGCATTTTTATATTGT
1 CATGCATTTTTATATTGT
**
21994899 CATGCATTCATACT-TTGT
1 CATGCATTTTTA-TATTGT
* *
21994917 CATTCA-TTTTATATTAT
1 CATGCATTTTTATATTGT
21994934 CATGCATT
1 CATGCATT
21994942 CATCTTGTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
18 20 0.61
19 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (18 bp):
CATGCATTTTTATATTGT
Found at i:21997163 original size:75 final size:75
Alignment explanation
Indices: 21997043--21997274 Score: 253
Period size: 75 Copynumber: 3.1 Consensus size: 75
21997033 TTTCAAGAAC
* * * *
21997043 TTTATTTTTTCAAGGTTAAAGCCTCAGT-GAAGAGTACTTTATTTTTCAAAGTTAAAGCCTTAGT
1 TTTA-TTTTTCAAAGTTGAAGCTTCAGTGGAAGAGTACTTTATTTTTCAAAGTTGAAGCCTTAGT
*
21997107 GCATGAGTACTT
65 GAATGAGTAC-T
21997119 TTTATTTTTCAAAGTTGAAG-TTCAGTGGAAGAGTACTTTATTTTTCAAAGTTGAAGCCTTAGTG
1 TTTATTTTTCAAAGTTGAAGCTTCAGTGGAAGAGTACTTTATTTTTCAAAGTTGAAGCCTTAGTG
* * *
21997183 GAGGAGT-CC
66 AATGAGTACT
* * * *
21997192 TTTA-TTTTCTAAAGTTGAAGCCTT-GGTGGAGGAATACTTTATTTTTCTAAAGTTGAAG-CTTT
1 TTTATTTTTC-AAAGTTGAAG-CTTCAGTGGAAGAGTACTTTATTTTTC-AAAGTTGAAGCCTTA
21997254 GATGAATGAGTA-T
63 G-TGAATGAGTACT
21997267 TTTATTTT
1 TTTATTTT
21997275 ATTTAAAGTT
Statistics
Matches: 134, Mismatches: 14, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
72 5 0.04
73 14 0.10
74 30 0.22
75 78 0.58
76 7 0.05
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (75 bp):
TTTATTTTTCAAAGTTGAAGCTTCAGTGGAAGAGTACTTTATTTTTCAAAGTTGAAGCCTTAGTG
AATGAGTACT
Found at i:21997247 original size:38 final size:37
Alignment explanation
Indices: 21997041--21997250 Score: 239
Period size: 37 Copynumber: 5.6 Consensus size: 37
21997031 AATTTCAAGA
* * * *
21997041 ACTTTATTTTTTCAAGGTTAAAGCCTCAGT-GAAGAGT
1 ACTTTA-TTTTTCAAAGTTGAAGCCTTAGTGGAGGAGT
* * *
21997078 ACTTTATTTTTCAAAGTTAAAGCCTTAGTGCATGAGT
1 ACTTTATTTTTCAAAGTTGAAGCCTTAGTGGAGGAGT
*
21997115 ACTTTTTATTTTTCAAAGTTGAAG--TTCAGTGGAAGAGT
1 AC--TTTATTTTTCAAAGTTGAAGCCTT-AGTGGAGGAGT
21997153 ACTTTATTTTTCAAAGTTGAAGCCTTAGTGGAGGAGT
1 ACTTTATTTTTCAAAGTTGAAGCCTTAGTGGAGGAGT
* * *
21997190 CCTTTA-TTTTCTAAAGTTGAAGCCTTGGTGGAGGAAT
1 ACTTTATTTTTC-AAAGTTGAAGCCTTAGTGGAGGAGT
21997227 ACTTTATTTTTCTAAAGTTGAAGC
1 ACTTTATTTTTC-AAAGTTGAAGC
21997251 TTTGATGAAT
Statistics
Matches: 153, Mismatches: 12, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
36 46 0.30
37 58 0.38
38 30 0.20
39 19 0.12
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (37 bp):
ACTTTATTTTTCAAAGTTGAAGCCTTAGTGGAGGAGT
Found at i:21997274 original size:112 final size:110
Alignment explanation
Indices: 21997041--21997249 Score: 269
Period size: 112 Copynumber: 1.9 Consensus size: 110
21997031 AATTTCAAGA
*
21997041 ACTTTATTTTTTCAAGGTTAAAGCCTCAGTGAAGAGTACTTTATTTTTCAAAGTTAAAGCCTTAG
1 ACTTTA-TTTTTCAAAGTTAAAGCCTCAGTGAAGAGTACTTTATTTTTCAAAGTTAAAGCCTTAG
* *
21997106 TGCATGAGTACTTTTTATTTTTCAAAGTTGAAGTTCAGTGGAAGAGT
65 TGCAGGAATAC-TTTTATTTTTCAAAGTTGAAGTTCAGTGGAAGAGT
* * * * * *
21997153 ACTTTATTTTTCAAAGTTGAAGCCTTAGTGGAGGAGTCCTTTA-TTTTCTAAAGTTGAAGCCTTG
1 ACTTTATTTTTCAAAGTTAAAGCCTCAGT-GAAGAGTACTTTATTTTTC-AAAGTTAAAGCCTTA
*
21997217 GTGGAGGAATAC-TTTATTTTTCTAAAGTTGAAG
64 GTGCAGGAATACTTTTATTTTTC-AAAGTTGAAG
21997250 CTTTGATGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
110 10 0.12
111 35 0.42
112 39 0.46
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (110 bp):
ACTTTATTTTTCAAAGTTAAAGCCTCAGTGAAGAGTACTTTATTTTTCAAAGTTAAAGCCTTAGT
GCAGGAATACTTTTATTTTTCAAAGTTGAAGTTCAGTGGAAGAGT
Found at i:21997349 original size:38 final size:38
Alignment explanation
Indices: 21997272--21997367 Score: 122
Period size: 38 Copynumber: 2.5 Consensus size: 38
21997262 AGTATTTTAT
* *
21997272 TTTATTTAAAGTTTCAAGTCTTAGTTGTAAGGTAACAA
1 TTTATTTAAAGTTTCAAGCCTTAGTTATAAGGTAACAA
* * * *
21997310 TTTATGTAAAATTTCAAGCCTTAGTTATGAGAG-AGCAA
1 TTTATTTAAAGTTTCAAGCCTTAGTTATAAG-GTAACAA
21997348 TTTATTTAAAGTTTCAAGCC
1 TTTATTTAAAGTTTCAAGCC
21997368 ACAATTATAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 48 0.98
39 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (38 bp):
TTTATTTAAAGTTTCAAGCCTTAGTTATAAGGTAACAA
Found at i:21998929 original size:14 final size:14
Alignment explanation
Indices: 21998910--21998936 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21998900 GATTTTGATT
21998910 TTGTTTTGATTTTG
1 TTGTTTTGATTTTG
21998924 TTGTTTTGATTTT
1 TTGTTTTGATTTT
21998937 TATTTATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.00, G:0.19, T:0.74
Consensus pattern (14 bp):
TTGTTTTGATTTTG
Found at i:21998951 original size:15 final size:15
Alignment explanation
Indices: 21998933--21998974 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
21998923 GTTGTTTTGA
21998933 TTTTTATTTATTTAC
1 TTTTTATTTATTTAC
21998948 TTTTT-TATTATTTAC
1 TTTTTAT-TTATTTAC
*
21998963 TATTTTAATTAT
1 T-TTTTATTTAT
21998975 GTGATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 14 0.61
16 8 0.35
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTATTTATTTAC
Found at i:21998954 original size:16 final size:15
Alignment explanation
Indices: 21998933--21998974 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
21998923 GTTGTTTTGA
21998933 TTTTTATTTATTTACT
1 TTTTTA-TTATTTACT
21998949 TTTTTATTATTTACT
1 TTTTTATTATTTACT
*
21998964 ATTTTAATTAT
1 -TTTTTATTAT
21998975 GTGATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTATTATTTACT
Found at i:21999279 original size:50 final size:52
Alignment explanation
Indices: 21999172--21999280 Score: 150
Period size: 50 Copynumber: 2.1 Consensus size: 52
21999162 ATTATTGTCG
* *
21999172 CATGATAATTTTGTGTGATACTTTATATTATTGCATGATTATTAAGATAATTG
1 CATGATAATTTTGTATGATAC-TTATATTATTGCATGATTATTAAGATAATTA
* **
21999225 CATGATAATTTTGTATGATA-TTAT-TTATTGCATGATTATTGATTTAATTA
1 CATGATAATTTTGTATGATACTTATATTATTGCATGATTATTAAGATAATTA
21999275 CATGAT
1 CATGAT
21999281 TTATTATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
50 28 0.55
51 4 0.08
53 19 0.37
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.49
Consensus pattern (52 bp):
CATGATAATTTTGTATGATACTTATATTATTGCATGATTATTAAGATAATTA
Found at i:21999280 original size:20 final size:18
Alignment explanation
Indices: 21999239--21999287 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
21999229 ATAATTTTGT
*
21999239 ATGA-TATTATTTATTGC
1 ATGATTATTATTTATTAC
21999256 ATGATTATTGATTTAATTAC
1 ATGATTATT-ATTT-ATTAC
21999276 ATGATTTATTAT
1 ATGA-TTATTAT
21999288 ATAATTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.15
18 4 0.15
19 4 0.15
20 10 0.37
21 5 0.19
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (18 bp):
ATGATTATTATTTATTAC
Found at i:21999292 original size:20 final size:20
Alignment explanation
Indices: 21999255--21999293 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21999245 TTATTTATTG
*
21999255 CATGATTATTGATTTAATTA
1 CATGATTATTGATATAATTA
21999275 CATGATTTATT-ATATAATT
1 CATGA-TTATTGATATAATT
21999294 TTGCATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
CATGATTATTGATATAATTA
Found at i:21999440 original size:32 final size:32
Alignment explanation
Indices: 21999401--21999519 Score: 161
Period size: 32 Copynumber: 3.7 Consensus size: 32
21999391 ATATTTATTT
21999401 TGATATTTACATAATTGCATGATAAATTGGCA
1 TGATATTTACATAATTGCATGATAAATTGGCA
21999433 TGATATTTACATAATTGCATGATAAATTGGCA
1 TGATATTTACATAATTGCATGATAAATTGGCA
** *
21999465 TGATATTTACATGAA-TGCATGATATTTTTGGAA
1 TGATATTTACAT-AATTGCATGATA-AATTGGCA
* *
21999498 TGAT-TTTGCATGATTGCATGAT
1 TGATATTTACATAATTGCATGAT
21999520 TTAATGTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
31 1 0.01
32 67 0.85
33 11 0.14
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (32 bp):
TGATATTTACATAATTGCATGATAAATTGGCA
Found at i:21999454 original size:19 final size:19
Alignment explanation
Indices: 21999401--21999491 Score: 64
Period size: 19 Copynumber: 5.4 Consensus size: 19
21999391 ATATTTATTT
21999401 TGATATTTACATAATTGCA
1 TGATATTTACATAATTGCA
*
21999420 TGATA---A-AT--TGGCA
1 TGATATTTACATAATTGCA
21999433 TGATATTTACATAATTGCA
1 TGATATTTACATAATTGCA
*
21999452 TGATA---A-AT--TGGCA
1 TGATATTTACATAATTGCA
21999465 TGATATTTACATGAA-TGCA
1 TGATATTTACAT-AATTGCA
21999484 TGATATTT
1 TGATATTT
21999492 TTGGAATGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 26
0.65 0.05 0.31
Matches are distributed among these distances:
13 18 0.33
15 4 0.07
16 4 0.07
17 4 0.07
19 25 0.45
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (19 bp):
TGATATTTACATAATTGCA
Found at i:22000007 original size:34 final size:33
Alignment explanation
Indices: 21999968--22000039 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 33
21999958 GTACAATACC
* *
21999968 GTTAATTTAGTGACGTTTGTATCAAAAAAATGCT
1 GTTAATTTAGAGACGGTTGTATC-AAAAAATGCT
** *
22000002 GTTAATTTAGAGGTGGTTGTATCATAAAATGCT
1 GTTAATTTAGAGACGGTTGTATCAAAAAATGCT
22000035 GTTAA
1 GTTAA
22000040 AGTAGGGGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 14 0.42
34 19 0.58
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (33 bp):
GTTAATTTAGAGACGGTTGTATCAAAAAATGCT
Found at i:22000243 original size:17 final size:18
Alignment explanation
Indices: 22000216--22000249 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22000206 TGCCGCAAAA
22000216 TTAATAAATTTACTTTTT
1 TTAATAAATTTACTTTTT
*
22000234 TTAA-AAATTTTCTTTT
1 TTAATAAATTTACTTTT
22000250 AAAATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATAAATTTACTTTTT
Found at i:22000910 original size:19 final size:19
Alignment explanation
Indices: 22000886--22000926 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
22000876 TTATGTTGGG
*
22000886 CCCAATCCAAGGCCTCGGA
1 CCCAATCCAAGGCCTCGAA
*
22000905 CCCAATCTAAGGCCTCGAA
1 CCCAATCCAAGGCCTCGAA
22000924 CCC
1 CCC
22000927 GTCTATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.27, C:0.44, G:0.17, T:0.12
Consensus pattern (19 bp):
CCCAATCCAAGGCCTCGAA
Done.