Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 91 of 106
Found at i:18853418 original size:21 final size:21
Alignment explanation
Indices: 18853394--18853434 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18853384 AACTATAAAG
18853394 ATTACCAAAATTTTTTCAAAA
1 ATTACCAAAATTTTTTCAAAA
**
18853415 ATTATTAAAATTTTTTCAAA
1 ATTACCAAAATTTTTTCAAA
18853435 GGAAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTACCAAAATTTTTTCAAAA
Found at i:18853563 original size:21 final size:20
Alignment explanation
Indices: 18853513--18853551 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18853503 CTAATTAACA
*
18853513 CACTACAAAGATTATCAAAT
1 CACTACAAATATTATCAAAT
18853533 CACTACAAATATTATCAAA
1 CACTACAAATATTATCAAA
18853552 ATTCCTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.03, T:0.26
Consensus pattern (20 bp):
CACTACAAATATTATCAAAT
Found at i:18856354 original size:2 final size:2
Alignment explanation
Indices: 18856347--18856384 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
18856337 GAAGATACAA
* *
18856347 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18856385 GTATCCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:18858126 original size:7 final size:7
Alignment explanation
Indices: 18858114--18858138 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18858104 TCCATGATGT
18858114 TGAAATA
1 TGAAATA
18858121 TGAAATA
1 TGAAATA
18858128 TGAAATA
1 TGAAATA
18858135 TGAA
1 TGAA
18858139 CAAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
TGAAATA
Found at i:18864903 original size:19 final size:17
Alignment explanation
Indices: 18864879--18864925 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
18864869 ATATAAAATA
*
18864879 TATTTTATAATTTTTAACT
1 TATTTT-TAATATTTAA-T
18864898 TATTTTTTAATATTTAAT
1 TA-TTTTTAATATTTAAT
18864916 TATTTTTAAT
1 TATTTTTAAT
18864926 CTAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 11 0.42
20 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTTAATATTTAAT
Found at i:18865198 original size:19 final size:18
Alignment explanation
Indices: 18865174--18865227 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
18865164 CTATTTGTAT
*
18865174 TATTATAAATATTTAAAAA
1 TATTATAAAAATTT-AAAA
*
18865193 TATTATAAAAAATTTATAA
1 TATTAT-AAAAATTTAAAA
18865212 TATTATAAAAAATTTA
1 TATTAT-AAAAATTTA
18865228 TGATATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTATAAAAATTTAAAA
Found at i:18865205 original size:22 final size:20
Alignment explanation
Indices: 18865180--18865227 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
18865170 GTATTATTAT
18865180 AAATATTTAAAAATATTATAA
1 AAATATTT-AAAATATTATAA
*
18865201 AAA-ATTTATAATATTATAA
1 AAATATTTAAAATATTATAA
18865220 AAA-ATTTA
1 AAATATTTA
18865228 TGATATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 19 0.73
20 4 0.15
21 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATATTTAAAATATTATAA
Found at i:18865228 original size:19 final size:19
Alignment explanation
Indices: 18865191--18865236 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
18865181 AATATTTAAA
18865191 AATATTATAAAAAATTTAT
1 AATATTATAAAAAATTTAT
18865210 AATATTATAAAAAATTTAT
1 AATATTATAAAAAATTTAT
*
18865229 GATATTAT
1 AATATTAT
18865237 TTTTTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTATAAAAAATTTAT
Found at i:18865257 original size:21 final size:21
Alignment explanation
Indices: 18865233--18865279 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
18865223 ATTTATGATA
18865233 TTATTT-TTTATATTTTTAAAT
1 TTATTTATTTA-ATTTTTAAAT
18865254 TTATTTATTTAATTTTTAAAT
1 TTATTTATTTAATTTTTAAAT
*
18865275 ATATT
1 TTATT
18865280 GAATATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTTAATTTTTAAAT
Found at i:18865297 original size:24 final size:22
Alignment explanation
Indices: 18865239--18865306 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 22
18865229 GATATTATTT
18865239 TTTATATTTTTAAATTTATT--TA
1 TTTA-ATTTTTAAA-TTATTAATA
18865261 TTTAATTTTTAAATATATTGAATA
1 TTTAATTTTTAAAT-TATT-AATA
18865285 TTT-ATTTTATAAATTATTAATA
1 TTTAATTTT-TAAATTATTAATA
18865307 ATATTATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.02
21 13 0.32
22 8 0.20
23 9 0.22
24 10 0.24
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTAATTTTTAAATTATTAATA
Found at i:18865376 original size:21 final size:22
Alignment explanation
Indices: 18865334--18865374 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18865324 TTCATATATA
*
18865334 TTTATAAATAATTTATATAAAT
1 TTTATAAATAATATATATAAAT
18865356 TTTA-AAATAATATAT-TAAA
1 TTTATAAATAATATATATAAA
18865375 ATAATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTTATAAATAATATATATAAAT
Found at i:18867697 original size:23 final size:22
Alignment explanation
Indices: 18867670--18867715 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
18867660 TAAAATTTAA
18867670 TATTATAATT-TGATTTTATTATT
1 TATTA-AATTATGATTTTA-TATT
*
18867693 TATTAATTTATGATTTTATATT
1 TATTAAATTATGATTTTATATT
18867715 T
1 T
18867716 GAAATTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TATTAAATTATGATTTTATATT
Found at i:18872500 original size:411 final size:411
Alignment explanation
Indices: 18871731--18872528 Score: 1479
Period size: 411 Copynumber: 1.9 Consensus size: 411
18871721 ATTAGGCTTT
18871731 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
1 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
* * *
18871796 CATCTTCACCTTCTTCATAAAGCTAAACCTCCTCGAGAACTTGCCGCTTCTCCGCTTCATGAGAA
66 CATCTTCACCTTCTCCATAAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCAAGAGAA
* *
18871861 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCCCCGCTGATATGAAGCACCGTGTTATCT
131 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCCCCGCGGATATGAAGCACCCTGTTATCT
18871926 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
196 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
18871991 CGGGGTCTCCTTCCAGTCAACACGAGCGTAGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
261 CGGGGTCTCCTTCCAGTCAACACGAGCGTAGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
*
18872056 AATTCTCGAAGGGATCCCATAGATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCTC
326 AATTCTCGAAGGGATCCCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCTC
18872121 CATACATCTACAGAGAATGAA
391 CATACATCTACAGAGAATGAA
18872142 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
1 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
* *
18872207 CATCTTCACCTTCTCCTTGAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCAAGAGAA
66 CATCTTCACCTTCTCCATAAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCAAGAGAA
18872272 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCCCCGCGGATATGAAGCACCCTGTTATCT
131 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCCCCGCGGATATGAAGCACCCTGTTATCT
18872337 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
196 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
* * *
18872402 CGGGGTCTCCTTCCAGTTAACACGAGCGTTGACAAAATCGGAGTTCTCTTGGGAGAGTGATGGGA
261 CGGGGTCTCCTTCCAGTCAACACGAGCGTAGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
* *
18872467 AATTCTTGAAGGGATCCCATACATCTGCAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTG
326 AATTCTCGAAGGGATCCCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTG
18872529 ACAAAGAAAA
Statistics
Matches: 374, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
411 374 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (411 bp):
TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
CATCTTCACCTTCTCCATAAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCAAGAGAA
GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCCCCGCGGATATGAAGCACCCTGTTATCT
TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
CGGGGTCTCCTTCCAGTCAACACGAGCGTAGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
AATTCTCGAAGGGATCCCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCTC
CATACATCTACAGAGAATGAA
Found at i:18876204 original size:21 final size:21
Alignment explanation
Indices: 18876151--18876205 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
18876141 AACGCAATTC
* *
18876151 AAGACTTACCAAAAATATTACA
1 AAGA-TTACCAAAAAAAGTACA
* *
18876173 AAGTTTA-CAAAAAAAGTATA
1 AAGATTACCAAAAAAAGTACA
18876193 AAGATTACCAAAA
1 AAGATTACCAAAA
18876206 TTTTTTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.59
21 8 0.30
22 3 0.11
ACGTcount: A:0.58, C:0.13, G:0.07, T:0.22
Consensus pattern (21 bp):
AAGATTACCAAAAAAAGTACA
Found at i:18876220 original size:21 final size:21
Alignment explanation
Indices: 18876196--18876236 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18876186 AAGTATAAAG
18876196 ATTACCAAAATTTTTTCAAAA
1 ATTACCAAAATTTTTTCAAAA
**
18876217 ATTATTAAAATTTTTTCAAA
1 ATTACCAAAATTTTTTCAAA
18876237 GGAAACTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTACCAAAATTTTTTCAAAA
Found at i:18883834 original size:39 final size:38
Alignment explanation
Indices: 18883775--18883860 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 38
18883765 GAGCCAGATT
* * *
18883775 TTTTTTTTGTTTTTTCTTCAAATCTATTACGTGATATA
1 TTTTTTTTATTTTTTCTTCAAATCTATCACGTGATAGA
* * *
18883813 TTTTTTTTATTATTTTTTTCAAATTTGTCACGTGATAGA
1 TTTTTTTTATT-TTTTCTTCAAATCTATCACGTGATAGA
18883852 TTTTTTTTA
1 TTTTTTTTA
18883861 ACTCCATCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 10 0.24
39 31 0.76
ACGTcount: A:0.21, C:0.08, G:0.08, T:0.63
Consensus pattern (38 bp):
TTTTTTTTATTTTTTCTTCAAATCTATCACGTGATAGA
Found at i:18885578 original size:411 final size:411
Alignment explanation
Indices: 18884809--18885605 Score: 1495
Period size: 411 Copynumber: 1.9 Consensus size: 411
18884799 ATTAGGCTTT
18884809 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
1 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
* *
18884874 CATCTTCACCTTCTTCATAAAGCTAAACCTCCTCGAGAACTTGCCGCTTCTCCGCTTCATGAGAA
66 CATCTTCACCTTCTCCATAAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCATGAGAA
* *
18884939 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCCCCGCTGATATGAAGCACCGTGTTATCT
131 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCACCGCTGATATGAAGCACCCTGTTATCT
18885004 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
196 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
18885069 CGGGGTCTCCTTCCAGTCAACACGAGCGTTGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
261 CGGGGTCTCCTTCCAGTCAACACGAGCGTTGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
*
18885134 AATTCTCGAAGGGATCCCATAGATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTCATC
326 AATTCTCGAAGGGATCCCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTCATC
18885199 CATACATCTACAGAGAATGAA
391 CATACATCTACAGAGAATGAA
18885220 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
1 TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
* *
18885285 CATCTTCACCTTCTCCTTGAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCATGAGAA
66 CATCTTCACCTTCTCCATAAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCATGAGAA
18885350 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCACCGCTGATATGAAGCACCCTGTTATCT
131 GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCACCGCTGATATGAAGCACCCTGTTATCT
18885415 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
196 TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
* *
18885480 CGGGGTCTCCTTCCAGTTAACACGAGCGTTGACAAAATCGGAGTTCTCTTGGGAGAGTGATGGGA
261 CGGGGTCTCCTTCCAGTCAACACGAGCGTTGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
* *
18885545 AATTCTTGAAGGGATCCCATACATCTGCAGAGAATGAATCAAAGTTATTGCCTTGTCGGTT
326 AATTCTCGAAGGGATCCCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTT
18885606 GACGAAGAAA
Statistics
Matches: 375, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
411 375 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (411 bp):
TCCACTTCAACTTTAGGAACAGTGACGGTGAGATCCCCATTTTCCATAGAAGCTTTAACTTGATC
CATCTTCACCTTCTCCATAAAGCTAAACCTCCTCGAGAACTTGCCACTTCTCCGCTTCATGAGAA
GCCTTATGTCATTCTTGTCCTTCTCAACATTCCTCTCACCGCTGATATGAAGCACCCTGTTATCT
TCAATCTCCACTTTCACTTCCTCCTTCGTCATGTCTAGATAGTAGATCGTGAACACATGGGCTTC
CGGGGTCTCCTTCCAGTCAACACGAGCGTTGACAAAATCGGAGTTCTCTTGAGAGAGTGATGGGA
AATTCTCGAAGGGATCCCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTCATC
CATACATCTACAGAGAATGAA
Found at i:18900310 original size:4 final size:4
Alignment explanation
Indices: 18900289--18900359 Score: 61
Period size: 4 Copynumber: 17.8 Consensus size: 4
18900279 GTCTATTATT
* * * * * * * * *
18900289 TATG TGTG TGTG TGTG TATG TATG TATA TATA TATA TATA TATA TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
18900337 TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TAT
18900360 ATTGGGGGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:18900318 original size:2 final size:2
Alignment explanation
Indices: 18900313--18900339 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18900303 TGTATGTATG
18900313 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
18900340 GTATGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18907435 original size:10 final size:10
Alignment explanation
Indices: 18907420--18907462 Score: 70
Period size: 10 Copynumber: 4.4 Consensus size: 10
18907410 GAACAACCCC
18907420 CCATGCCTTG
1 CCATGCCTTG
18907430 CCATGCCTTG
1 CCATGCCTTG
*
18907440 CCATGCCTCG
1 CCATGCCTTG
18907450 CCATGCCTT-
1 CCATGCCTTG
18907459 CCAT
1 CCAT
18907463 CCTGCAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 4 0.13
10 27 0.87
ACGTcount: A:0.12, C:0.44, G:0.16, T:0.28
Consensus pattern (10 bp):
CCATGCCTTG
Found at i:18912708 original size:20 final size:20
Alignment explanation
Indices: 18912683--18912721 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18912673 CACATAAGCC
18912683 TTCCAAGTTGTCCCCACCGA
1 TTCCAAGTTGTCCCCACCGA
18912703 TTCCAAGTTGTCCCCACCG
1 TTCCAAGTTGTCCCCACCG
18912722 GTGATCCAAC
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:0.18, C:0.41, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCCAAGTTGTCCCCACCGA
Found at i:18914487 original size:18 final size:18
Alignment explanation
Indices: 18914460--18914502 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
18914450 TTATTATTTT
*
18914460 ATTTATATAT-TAATTTAA
1 ATTTAAATATATAA-TTAA
18914478 ATTTAAATATATAATTAA
1 ATTTAAATATATAATTAA
18914496 ATTTAAA
1 ATTTAAA
18914503 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTAAATATATAATTAA
Found at i:18941599 original size:47 final size:48
Alignment explanation
Indices: 18941546--18941637 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
18941536 TTGGCTTCGA
*
18941546 TAAAATTTTTAAAAAAATTTAATTTTAAT-ATATTTAATATTAAATTT
1 TAAAATTTTTAAAAAAATTAAATTTTAATAATATTTAATATTAAATTT
* * * * *
18941593 TAAAATTTTTTATAAAATTAAATTTTCATAATTTTTAATGTTAAA
1 TAAAATTTTTAAAAAAATTAAATTTTAATAATATTTAATATTAAA
18941638 AAATAATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 25 0.66
48 13 0.34
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (48 bp):
TAAAATTTTTAAAAAAATTAAATTTTAATAATATTTAATATTAAATTT
Found at i:18941616 original size:25 final size:25
Alignment explanation
Indices: 18941546--18941628 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
18941536 TTGGCTTCGA
* * *
18941546 TAAAATTTTTAAAAAAATTTAATTT
1 TAAAATTTTTTATAAAATTAAATTT
* * *
18941571 T--AATATATT-TAATATTAAATTT
1 TAAAATTTTTTATAAAATTAAATTT
18941593 TAAAATTTTTTATAAAATTAAATTT
1 TAAAATTTTTTATAAAATTAAATTT
*
18941618 TCATAATTTTT
1 T-AAAATTTTT
18941629 AATGTTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
22 11 0.25
23 5 0.11
24 6 0.14
25 14 0.32
26 8 0.18
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
TAAAATTTTTTATAAAATTAAATTT
Found at i:18941670 original size:21 final size:22
Alignment explanation
Indices: 18941646--18941694 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
18941636 AAAAATAATA
*
18941646 AAAATGTATAAAAAT-AAT-TTT
1 AAAATATA-AAAAATAAATATTT
18941667 AAAATATAAAAAATAAATATTT
1 AAAATATAAAAAATAAATATTT
18941689 AAAATA
1 AAAATA
18941695 AAATATGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 10 0.40
22 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATAAAAAATAAATATTT
Found at i:18941697 original size:20 final size:20
Alignment explanation
Indices: 18941634--18941694 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
18941624 TTTTTAATGT
* *
18941634 TAAAAAATAA--TAAAAATG
1 TAAAAAATAATTTTAAAATA
18941652 TATAAAAATAATTTTAAAATA
1 TA-AAAAATAATTTTAAAATA
18941673 TAAAAAATAAATATTTAAAATA
1 TAAAAAAT-AAT-TTTAAAATA
18941695 AAATATGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 6 0.17
21 11 0.31
22 9 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAAATAATTTTAAAATA
Found at i:18941856 original size:16 final size:16
Alignment explanation
Indices: 18941835--18941865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18941825 TTGTTAGAAT
18941835 TTAAATATTAAATTTA
1 TTAAATATTAAATTTA
*
18941851 TTAAATATTATATTT
1 TTAAATATTAAATTT
18941866 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATATTAAATTTA
Found at i:18947599 original size:173 final size:173
Alignment explanation
Indices: 18947301--18947647 Score: 631
Period size: 173 Copynumber: 2.0 Consensus size: 173
18947291 CGTGCCATTA
*
18947301 AACACAGGCATCATATACAAAAATTCTACCAGGCAATGCACATGACACATCATAAAGAGGAGTTA
1 AACACAGGCATCATATACAAAAATTCTACCAGGCAATGCACATGACACACCATAAAGAGGAGTTA
* * *
18947366 GCACTTACAACAAGCGCACAAGAATAAGTGTTCAAAGCACTGGTAACAACAATTTATACTTTGGT
66 GCACTTACAACAAGCACACAAGAATAAGTGTTCAAAGCACTGGTAACAACAATCTATACTTCGGT
*
18947431 GGACAAATTTAACATGGACCATTTCACTTGTATCATGAAGTTT
131 GGACAAATTTAACATGGACCATTTCACTTGTATCACGAAGTTT
*
18947474 AACACAGGCATCATATACAAAAATTCTACCAGGCAATGCACATGACACACCATAAGGAGGAGTTA
1 AACACAGGCATCATATACAAAAATTCTACCAGGCAATGCACATGACACACCATAAAGAGGAGTTA
*
18947539 GCACTTACAACAAGCACACAAGAATAAGTGTTCAAAGCACTGGTAACAAGAATCTATACTTCGGT
66 GCACTTACAACAAGCACACAAGAATAAGTGTTCAAAGCACTGGTAACAACAATCTATACTTCGGT
18947604 GGACAAATTTAACATGGACCATTTCACTTGTATCACGAAGTTT
131 GGACAAATTTAACATGGACCATTTCACTTGTATCACGAAGTTT
18947647 A
1 A
18947648 TCACTTAAGG
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
173 167 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (173 bp):
AACACAGGCATCATATACAAAAATTCTACCAGGCAATGCACATGACACACCATAAAGAGGAGTTA
GCACTTACAACAAGCACACAAGAATAAGTGTTCAAAGCACTGGTAACAACAATCTATACTTCGGT
GGACAAATTTAACATGGACCATTTCACTTGTATCACGAAGTTT
Found at i:18954104 original size:24 final size:25
Alignment explanation
Indices: 18954060--18954106 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18954050 AAATTATATA
* *
18954060 TTTTTATTTTTTATATTTTAAAATT
1 TTTTTATTTTGTATATATTAAAATT
18954085 TTTTTATTTTGTA-ATATTAAAA
1 TTTTTATTTTGTATATATTAAAA
18954107 ACATAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTTATTTTGTATATATTAAAATT
Found at i:18954127 original size:25 final size:25
Alignment explanation
Indices: 18954099--18954146 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
18954089 TATTTTGTAA
*
18954099 TATT-AAAAACATAAAATTTTAATTT
1 TATTGAAAAAAAT-AAATTTTAATTT
*
18954124 TATTGAAAAAAATTAATTTTAAT
1 TATTGAAAAAAATAAATTTTAAT
18954147 ATTAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TATTGAAAAAAATAAATTTTAATTT
Found at i:18960636 original size:14 final size:14
Alignment explanation
Indices: 18960617--18960644 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18960607 CGACACTCAC
18960617 CTTAAATTTGGAGG
1 CTTAAATTTGGAGG
18960631 CTTAAATTTGGAGG
1 CTTAAATTTGGAGG
18960645 TGTTATTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
CTTAAATTTGGAGG
Found at i:18960717 original size:2 final size:2
Alignment explanation
Indices: 18960704--18960738 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18960694 CTCATAAATT
*
18960704 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18960739 CATGAACTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:18968431 original size:18 final size:18
Alignment explanation
Indices: 18968408--18968447 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18968398 TTATTTATTT
*
18968408 ATTAAAT-TTAATAAATAA
1 ATTAAATATGAATAAA-AA
18968426 ATTAAATATGAATAAAAA
1 ATTAAATATGAATAAAAA
18968444 ATTA
1 ATTA
18968448 TTTTATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATTAAATATGAATAAAAA
Found at i:18992299 original size:2 final size:2
Alignment explanation
Indices: 18992292--18992335 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
18992282 AATAGGAAGA
18992292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18992334 AT
1 AT
18992336 GAGTCCAGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18998193 original size:36 final size:36
Alignment explanation
Indices: 18998104--18998193 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
18998094 TCAAATAAAT
*
18998104 ATTTTATCATTAATTTAATTTTATTATTATAATATTTA
1 ATTTTATCA--AAATTAATTTTATTATTATAATATTTA
* * *** * *
18998142 ATCTCATCGTTATTAATTTTATTATTATTATTTTTA
1 ATTTTATCAAAATTAATTTTATTATTATAATATTTA
18998178 ATTTTATCAAAATTAA
1 ATTTTATCAAAATTAA
18998194 GGTTATCGTC
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
36 33 0.85
38 6 0.15
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.58
Consensus pattern (36 bp):
ATTTTATCAAAATTAATTTTATTATTATAATATTTA
Found at i:19007489 original size:45 final size:45
Alignment explanation
Indices: 19007438--19007525 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
19007428 CCCAAACAAA
*
19007438 GTTAAGAGGAACGCAATGTTAGCAGTCCAACATAACCCACTCAAG
1 GTTAAGAGGAAAGCAATGTTAGCAGTCCAACATAACCCACTCAAG
19007483 GTTAAGAGGAAAGCAATGTTAGCAGTCCAACATAACCCACTCA
1 GTTAAGAGGAAAGCAATGTTAGCAGTCCAACATAACCCACTCA
19007526 TGTGCTGTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (45 bp):
GTTAAGAGGAAAGCAATGTTAGCAGTCCAACATAACCCACTCAAG
Found at i:19012589 original size:10 final size:10
Alignment explanation
Indices: 19012576--19012605 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19012566 ATTGAGTTTT
19012576 TATATTTTAA
1 TATATTTTAA
19012586 TATATTTTAA
1 TATATTTTAA
19012596 T-TATTTTAA
1 TATATTTTAA
19012605 T
1 T
19012606 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:19012602 original size:9 final size:9
Alignment explanation
Indices: 19012578--19012607 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19012568 TGAGTTTTTA
19012578 TATTTTAAT
1 TATTTTAAT
19012587 ATATTTTAAT
1 -TATTTTAAT
19012597 TATTTTAAT
1 TATTTTAAT
19012606 TA
1 TA
19012608 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:19013261 original size:18 final size:19
Alignment explanation
Indices: 19013238--19013273 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19013228 CTTAAAGCCA
19013238 TATTTTT-TTCTTTTTTAC
1 TATTTTTGTTCTTTTTTAC
*
19013256 TATTTTTGTTTTTTTTTA
1 TATTTTTGTTCTTTTTTA
19013274 AATTTACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.81
Consensus pattern (19 bp):
TATTTTTGTTCTTTTTTAC
Found at i:19029137 original size:44 final size:45
Alignment explanation
Indices: 19029072--19029160 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 45
19029062 AAGATACAGG
* ** *
19029072 GAAAAAAAAAGGAAGAATTGATT-AGACGGAAGTCGATTCGTTATTT
1 GAAAAAAAAA-GAAAAATTGATTGA-ACAAAAATCGATTCGTTATTT
19029118 GAAAAAAAAA-AAAAATTGATTGAACAAAAATCGATTCGTTATT
1 GAAAAAAAAAGAAAAATTGATTGAACAAAAATCGATTCGTTATT
19029161 CGATTGAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 27 0.71
45 1 0.03
46 10 0.26
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (45 bp):
GAAAAAAAAAGAAAAATTGATTGAACAAAAATCGATTCGTTATTT
Found at i:19034916 original size:32 final size:32
Alignment explanation
Indices: 19034879--19034946 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
19034869 TATATTTGAT
19034879 AATTTATATATTTATATCATATAAAATATTAA
1 AATTTATATATTTATATCATATAAAATATTAA
* ***
19034911 AATTTATATATTTATATTATATTTTATATTAA
1 AATTTATATATTTATATCATATAAAATATTAA
19034943 AATT
1 AATT
19034947 ATGTATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
AATTTATATATTTATATCATATAAAATATTAA
Found at i:19034932 original size:13 final size:13
Alignment explanation
Indices: 19034914--19034962 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
19034904 ATATTAAAAT
19034914 TTATATATTTATA
1 TTATATATTTATA
19034927 TTATAT-TTTATA
1 TTATATATTTATA
* *
19034939 TTA-AAATTATGTA
1 TTATATATT-TATA
19034952 TTATA-ATTTAT
1 TTATATATTTAT
19034963 GTCAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.03
12 13 0.43
13 15 0.50
14 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:19035069 original size:24 final size:24
Alignment explanation
Indices: 19035042--19035092 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
19035032 TAATATTATT
* *
19035042 TTTATATTTTATT-TTCATGTCATA
1 TTTATATTATATTATT-ATATCATA
19035066 TTTATATTATATTATTATATCATA
1 TTTATATTATATTATTATATCATA
19035090 TTT
1 TTT
19035093 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATATTATATTATTATATCATA
Found at i:19039035 original size:1 final size:1
Alignment explanation
Indices: 19039029--19039053 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
19039019 CTCCCTCCCG
19039029 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
19039054 GGGAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19039261 original size:34 final size:34
Alignment explanation
Indices: 19039188--19039299 Score: 115
Period size: 34 Copynumber: 3.3 Consensus size: 34
19039178 AAGTTTACGG
* * * *
19039188 AAATAAATCTTT-AAAAAATTATAAA-CTTTTCAA
1 AAATAAAT-TTTCGAAATATTATAAATTTTTTCGA
*
19039221 AAATAAATTTATCGAAA-GTTATAAAATTTTTT-GA
1 AAATAAATTT-TCGAAATATTAT-AAATTTTTTCGA
19039255 AAATAAATTTTCGAAATATTATAAATTTTTTCGA
1 AAATAAATTTTCGAAATATTATAAATTTTTTCGA
*
19039289 AAATGAATTTT
1 AAATAAATTTT
19039300 TAAAAAATCA
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
32 2 0.03
33 28 0.42
34 33 0.49
35 4 0.06
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (34 bp):
AAATAAATTTTCGAAATATTATAAATTTTTTCGA
Found at i:19039448 original size:34 final size:33
Alignment explanation
Indices: 19039410--19039508 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
19039400 CGGAAAGCAA
*
19039410 TATAACTTTTCGAAAATTTATTTTTAAAAAAATT
1 TATAA-TTTTCAAAAATTTATTTTTAAAAAAATT
* * *
19039444 TATAATTCTCTAAAAATTTATTTTTGAAAAATTT
1 TATAATTTTC-AAAAATTTATTTTTAAAAAAATT
* * *
19039478 TATAATTTTTTAAAAATTCATTTTCAAAAAA
1 TATAA-TTTTCAAAAATTTATTTTTAAAAAA
19039509 TTATAAAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
33 4 0.07
34 47 0.87
35 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (33 bp):
TATAATTTTCAAAAATTTATTTTTAAAAAAATT
Found at i:19039509 original size:34 final size:34
Alignment explanation
Indices: 19039422--19039510 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 34
19039412 TAACTTTTCG
*
19039422 AAAATTTATTTTTAAAAAAATTTATAATTCTCTA
1 AAAATTTATTTTTAAAAAATTTTATAATTCTCTA
* * *
19039456 AAAATTTATTTTTGAAAAATTTTATAATTTTTTA
1 AAAATTTATTTTTAAAAAATTTTATAATTCTCTA
* *
19039490 AAAATTCATTTTCAAAAAATT
1 AAAATTTATTTTTAAAAAATT
19039511 ATAAAATTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (34 bp):
AAAATTTATTTTTAAAAAATTTTATAATTCTCTA
Found at i:19039526 original size:10 final size:10
Alignment explanation
Indices: 19039513--19039537 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19039503 AAAAAATTAT
19039513 AAAATTGTAA
1 AAAATTGTAA
19039523 AAAATTGTAA
1 AAAATTGTAA
19039533 AAAAT
1 AAAAT
19039538 AATTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (10 bp):
AAAATTGTAA
Found at i:19042134 original size:44 final size:43
Alignment explanation
Indices: 19042043--19042160 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 43
19042033 TTTATATAAG
* * * *
19042043 GCTAAATAACTTTAAACTAAGAAAT-GTGCTTTTCTATATAGAG
1 GCTAAATAACTTTAAATTAAGAAATAG-GCTTTTCTATACAAAA
*
19042086 GCTAAATAACTTTAAAATTAAGAAATAGGCTTTTGTATACAAAA
1 GCTAAATAACTTT-AAATTAAGAAATAGGCTTTTCTATACAAAA
*
19042130 GCTAAAACAACTTTAAATTAAGAAATAGGCT
1 GCT-AAATAACTTTAAATTAAGAAATAGGCT
19042161 CCTTTATATG
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 13 0.20
44 43 0.65
45 10 0.15
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (43 bp):
GCTAAATAACTTTAAATTAAGAAATAGGCTTTTCTATACAAAA
Found at i:19042169 original size:88 final size:85
Alignment explanation
Indices: 19041925--19042190 Score: 245
Period size: 85 Copynumber: 3.1 Consensus size: 85
19041915 GGTAAAAAAA
* * * * * *
19041925 TTTAAATTAAAAAATTAGCTCCTCTATACAAAGGCTAAACAACTTTAAAATAAAAAATGGGTTCC
1 TTTAAAATAGAAAATGAGCTCCTTTATACAAAGGCTAAACAACTTTAAAATAAGAAAT-GGCTCC
* * * *
19041990 TCTATATAAAGGCTAAACAAT
65 TTTATATAGAGGCTAAATAAC
* * * *
19042011 TTTAAAATAGAAAATGAGCTCCTTTATA-TAAGGCTAAATAACTTTAAACTAAGAAATGTGCT-T
1 TTTAAAATAGAAAATGAGCTCCTTTATACAAAGGCTAAACAACTTTAAAATAAGAAATG-GCTCC
19042074 TTCTATATAGAGGCTAAATAAC
65 TT-TATATAGAGGCTAAATAAC
* * *
19042096 TTTAAAATTA-AGAAAT-AGGCT-TTTGTATACAAAAGCTAAAACAACTTTAAATTAAGAAATAG
1 TTTAAAA-TAGA-AAATGA-GCTCCTT-TATACAAAGGCT-AAACAACTTTAAAATAAGAAAT-G
*
19042158 GCTCCTTTATATGGAGGCTAAATAAC
60 GCTCCTTTATATAGAGGCTAAATAAC
*
19042184 TTAAAAA
1 TTTAAAA
19042191 ACTTTAAATA
Statistics
Matches: 148, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
84 2 0.01
85 54 0.36
86 37 0.25
87 5 0.03
88 47 0.32
89 3 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (85 bp):
TTTAAAATAGAAAATGAGCTCCTTTATACAAAGGCTAAACAACTTTAAAATAAGAAATGGCTCCT
TTATATAGAGGCTAAATAAC
Found at i:19042178 original size:44 final size:43
Alignment explanation
Indices: 19041925--19042185 Score: 212
Period size: 43 Copynumber: 6.0 Consensus size: 43
19041915 GGTAAAAAAA
* * *
19041925 TTTAAATTAAAAAATTA-GCTCCTCTATACAAAGGCTAAACAAC
1 TTTAAATTAAGAAA-TAGGCTCCTTTATATAAAGGCTAAACAAC
* * * * * *
19041968 TTTAAAATAAAAAATGGGTTCCTCTATATAAAGGCTAAACAAT
1 TTTAAATTAAGAAATAGGCTCCTTTATATAAAGGCTAAACAAC
* *
19042011 TTTAAAAT-AGAAA-ATGAGCTCCTTTATAT-AAGGCTAAATAAC
1 TTTAAATTAAGAAATA-G-GCTCCTTTATATAAAGGCTAAACAAC
* * * *
19042053 TTTAAACTAAGAAAT-GTGCT-TTTCTATATAGAGGCTAAATAAC
1 TTTAAATTAAGAAATAG-GCTCCTT-TATATAAAGGCTAAACAAC
* * *
19042096 TTTAAAATTAAGAAATAGGCT-TTTGTATACAAAAGCTAAAACAAC
1 TTT-AAATTAAGAAATAGGCTCCTT-TATATAAAGGCT-AAACAAC
** *
19042141 TTTAAATTAAGAAATAGGCTCCTTTATATGGAGGCTAAATAAC
1 TTTAAATTAAGAAATAGGCTCCTTTATATAAAGGCTAAACAAC
19042184 TT
1 TT
19042186 AAAAAACTTT
Statistics
Matches: 180, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
41 2 0.01
42 33 0.18
43 82 0.46
44 51 0.28
45 12 0.07
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (43 bp):
TTTAAATTAAGAAATAGGCTCCTTTATATAAAGGCTAAACAAC
Found at i:19042549 original size:35 final size:34
Alignment explanation
Indices: 19042510--19042576 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
19042500 AAGAGGTTAT
19042510 AGATTCGAAAAAAATTTAAATTTTGCAAAAGTTTC
1 AGATTC-AAAAAAATTTAAATTTTGCAAAAGTTTC
* * * * *
19042545 AGATTCACAAGAATTTTAGTTTTTCAAAAGTT
1 AGATTCAAAAAAATTTAAATTTTGCAAAAGTT
19042577 CTAAATTCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (34 bp):
AGATTCAAAAAAATTTAAATTTTGCAAAAGTTTC
Found at i:19042683 original size:18 final size:18
Alignment explanation
Indices: 19042605--19042698 Score: 72
Period size: 18 Copynumber: 5.4 Consensus size: 18
19042595 TAAGTTTTGT
* * *
19042605 AGAAGTTTCAGATTCGTA
1 AGAATTTTCAAATTCATA
*
19042623 AGAATTTT-AATTTCATA
1 AGAATTTTCAAATTCATA
*
19042640 AGAA--TTCAAAGATTCACA
1 AGAATTTTC-AA-ATTCATA
**
19042658 AGAA--TTCAAATTTGTA
1 AGAATTTTCAAATTCATA
19042674 AGAATTTTCAAATTCATA
1 AGAATTTTCAAATTCATA
19042692 AGAATTT
1 AGAATTT
19042699 AGATTTGCAA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
15 2 0.03
16 8 0.13
17 14 0.23
18 36 0.60
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (18 bp):
AGAATTTTCAAATTCATA
Found at i:19042705 original size:34 final size:32
Alignment explanation
Indices: 19042600--19042718 Score: 89
Period size: 34 Copynumber: 3.5 Consensus size: 32
19042590 GGTTCTAAGT
* *
19042600 TTTGT-AGAAGTTTCAGATTCGTAAGAATTTTAA
1 TTTGTAAGAA-TTTCAAATTCATAAGAA-TTTAA
* * *
19042633 TTTCATAAGAA-TTCAAAGATTCACAAGAATTCAAA
1 TTT-GTAAGAATTTC-AA-ATTCATAAGAATT-TAA
19042668 TTTGTAAGAATTTTCAAATTCATAAGAATTTAGA
1 TTTGTAAGAA-TTTCAAATTCATAAGAATTTA-A
* *
19042702 TTTGCAAGACTTTCAAA
1 TTTGTAAGAATTTCAAA
19042719 CTTGCAAGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
33 14 0.21
34 31 0.46
35 20 0.29
36 3 0.04
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (32 bp):
TTTGTAAGAATTTCAAATTCATAAGAATTTAA
Found at i:19043110 original size:46 final size:46
Alignment explanation
Indices: 19043023--19043149 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 46
19043013 ACCTTTACAA
* * * ** *
19043023 TTCAAAGATTCTCATTTGAAAAATTTCA-AGGTTTCACATCCAAAAT
1 TTCAAAGATTCACATTAGAAAAATTTTAGAAATTCCA-ATCCAAAAT
* * *
19043069 TTTAAAGATTCACATTAGAAATATTTTAGGAATTCCAATCCAAAAT
1 TTCAAAGATTCACATTAGAAAAATTTTAGAAATTCCAATCCAAAAT
* *
19043115 TTCAAAGATTCTCATTTGAAAAATTTTAGAAATTC
1 TTCAAAGATTCACATTAGAAAAATTTTAGAAATTC
19043150 ACATCTAAGG
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
46 62 0.94
47 4 0.06
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (46 bp):
TTCAAAGATTCACATTAGAAAAATTTTAGAAATTCCAATCCAAAAT
Found at i:19043137 original size:24 final size:24
Alignment explanation
Indices: 19043023--19043140 Score: 66
Period size: 24 Copynumber: 5.1 Consensus size: 24
19043013 ACCTTTACAA
19043023 TTCAAAGATTCTCATTTGAAAAAT
1 TTCAAAGATTCTCATTTGAAAAAT
* ** **
19043047 TTC-AAGGTT-TCACATCCAAAAT
1 TTCAAAGATTCTCATTTGAAAAAT
* * * *
19043069 TTTAAAGATTCACATTAGAAATAT
1 TTCAAAGATTCTCATTTGAAAAAT
* * * **
19043093 TT-TAGGAATTC-CA-ATCCAAAAT
1 TTCAAAG-ATTCTCATTTGAAAAAT
19043115 TTCAAAGATTCTCATTTGAAAAAT
1 TTCAAAGATTCTCATTTGAAAAAT
19043139 TT
1 TT
19043141 TAGAAATTCA
Statistics
Matches: 62, Mismatches: 26, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
22 21 0.34
23 18 0.29
24 23 0.37
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (24 bp):
TTCAAAGATTCTCATTTGAAAAAT
Found at i:19044281 original size:19 final size:20
Alignment explanation
Indices: 19044254--19044292 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
19044244 TTTTTTTATT
* *
19044254 TTTTATTTTTAGTTTTTTTC
1 TTTTATTTTAACTTTTTTTC
19044274 TTTT-TTTTAACTTTTTTTC
1 TTTTATTTTAACTTTTTTTC
19044293 ATATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTATTTTAACTTTTTTTC
Found at i:19047388 original size:26 final size:26
Alignment explanation
Indices: 19047359--19047410 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19047349 TTCATAACTC
*
19047359 CCATTTGTGTTTCAATTTCAACCATA
1 CCATTTGTGTTCCAATTTCAACCATA
19047385 CCATTTGTGTTCCAATTTCAACCATA
1 CCATTTGTGTTCCAATTTCAACCATA
19047411 ACTCTATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (26 bp):
CCATTTGTGTTCCAATTTCAACCATA
Found at i:19049247 original size:21 final size:22
Alignment explanation
Indices: 19049221--19049262 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
19049211 GATAATCAAA
19049221 TAAATAAAT-AAATAAAATAGT
1 TAAATAAATAAAATAAAATAGT
19049242 TAAATAAATAAAAATAAAATA
1 TAAATAAAT-AAAATAAAATA
19049263 AAAAATACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAATAAATAAAATAAAATAGT
Found at i:19051927 original size:21 final size:22
Alignment explanation
Indices: 19051889--19051940 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
19051879 CCCGAAATTA
19051889 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
19051911 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
19051932 AT-AAATATT
1 ATAAAATATT
19051941 TTAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:19052382 original size:34 final size:34
Alignment explanation
Indices: 19052339--19052408 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
19052329 GAAAGTGATG
19052339 CTTAATTTCTTTGCAAGAGTATATTTGATCAAAT
1 CTTAATTTCTTTGCAAGAGTATATTTGATCAAAT
19052373 CTTAATTTCTTTGCAAGAGTATATTTGATCAAAT
1 CTTAATTTCTTTGCAAGAGTATATTTGATCAAAT
19052407 CT
1 CT
19052409 ATTTTATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (34 bp):
CTTAATTTCTTTGCAAGAGTATATTTGATCAAAT
Found at i:19061914 original size:17 final size:17
Alignment explanation
Indices: 19061869--19061938 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
19061859 TTTTGATCTG
*
19061869 ATTTAATATATATTATTT
1 ATTT-ATATATTTTATTT
19061887 -TTTAT-TA-TTTATTT
1 ATTTATATATTTTATTT
* *
19061901 AATTATATATTTTATAT
1 ATTTATATATTTTATTT
19061918 ATTTATATAATTTTATATT
1 ATTTATAT-ATTTTAT-TT
19061937 AT
1 AT
19061939 ATTTAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.14
15 6 0.14
16 4 0.10
17 16 0.38
18 7 0.17
19 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTATATATTTTATTT
Found at i:19061917 original size:9 final size:9
Alignment explanation
Indices: 19061903--19061935 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19061893 ATTTATTTAA
19061903 TTATATATT
1 TTATATATT
19061912 TTATATA-T
1 TTATATATT
19061920 TTATATAATT
1 TTATAT-ATT
19061930 TTATAT
1 TTATAT
19061936 TATATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.32
9 8 0.36
10 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATATATT
Found at i:19061920 original size:25 final size:26
Alignment explanation
Indices: 19061869--19061936 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
19061859 TTTTGATCTG
*
19061869 ATTTAATATATATTATTTTTTATTATTT
1 ATTTAAT-TATA-TATTTTATATTATTT
19061897 ATTTAATTATATATTTTATA-TATTT
1 ATTTAATTATATATTTTATATTATTT
* *
19061922 ATATAATTTTATATT
1 ATTTAATTATATATT
19061937 ATATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 18 0.49
26 8 0.22
27 4 0.11
28 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTTAATTATATATTTTATATTATTT
Found at i:19061966 original size:21 final size:21
Alignment explanation
Indices: 19061907--19061975 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
19061897 ATTTAATTAT
* *
19061907 ATATTTTATATATTTATATAATT
1 ATATTTTATAT-TTTA-AAAATA
* *
19061930 TTATATTATA-TTTAAAAATA
1 ATATTTTATATTTTAAAAATA
19061950 ATATTTTATATTTTAAAAATA
1 ATATTTTATATTTTAAAAATA
19061971 ATATT
1 ATATT
19061976 AAATAATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 12 0.31
21 19 0.49
23 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTTTATATTTTAAAAATA
Found at i:19061988 original size:24 final size:21
Alignment explanation
Indices: 19061940--19061980 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19061930 TTATATTATA
*
19061940 TTTAAAAATAATATTTTATAT
1 TTTAAAAATAATATTTAATAT
*
19061961 TTTAAAAATAATATTAAATA
1 TTTAAAAATAATATTTAATA
19061981 ATATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAAAAATAATATTTAATAT
Found at i:19063366 original size:1 final size:1
Alignment explanation
Indices: 19063317--19063346 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
19063307 GCATATTCTC
19063317 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19063347 CTGTTTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19064778 original size:27 final size:27
Alignment explanation
Indices: 19064740--19064823 Score: 168
Period size: 27 Copynumber: 3.1 Consensus size: 27
19064730 TTCCTCATTA
19064740 ATAATAACTATGATTCTTAGTTTCTTC
1 ATAATAACTATGATTCTTAGTTTCTTC
19064767 ATAATAACTATGATTCTTAGTTTCTTC
1 ATAATAACTATGATTCTTAGTTTCTTC
19064794 ATAATAACTATGATTCTTAGTTTCTTC
1 ATAATAACTATGATTCTTAGTTTCTTC
19064821 ATA
1 ATA
19064824 TGTCATGCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (27 bp):
ATAATAACTATGATTCTTAGTTTCTTC
Found at i:19069455 original size:14 final size:16
Alignment explanation
Indices: 19069430--19069466 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
19069420 ATATATATTT
*
19069430 AATAAATTTAGGG-GA
1 AATAATTTTAGGGAGA
19069445 AA-AATTTTAGGGAGA
1 AATAATTTTAGGGAGA
19069460 AATAATT
1 AATAATT
19069467 GGTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 9 0.47
15 6 0.32
16 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.30
Consensus pattern (16 bp):
AATAATTTTAGGGAGA
Found at i:19084524 original size:2 final size:2
Alignment explanation
Indices: 19084517--19084570 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
19084507 AGATGGCTAC
* * *
19084517 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AC AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19084559 AT AT AT AT AT AT
1 AT AT AT AT AT AT
19084571 TACATAATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:19086773 original size:45 final size:45
Alignment explanation
Indices: 19086692--19086778 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
19086682 ACAATGAAGA
* ** *
19086692 TTAAGGAATTAATTATTGGTTCTGCATACTTTATAATCTGTCCCC
1 TTAAGGAATTAATTATGGGTTCTGCATAAGTGATAATCTGTCCCC
* *
19086737 TTAAGGAATTAATTATGGGTTTTGGATAAGTGATAATCTGTC
1 TTAAGGAATTAATTATGGGTTCTGCATAAGTGATAATCTGTC
19086779 TTACTCATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41
Consensus pattern (45 bp):
TTAAGGAATTAATTATGGGTTCTGCATAAGTGATAATCTGTCCCC
Found at i:19089083 original size:22 final size:22
Alignment explanation
Indices: 19089040--19089085 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
19089030 CGACATAGAT
**
19089040 TAAAATTTTAACAAAACTTATA
1 TAAAATTTTAACAAAAAATATA
* *
19089062 TAAAATTTTTATAAAAAATATA
1 TAAAATTTTAACAAAAAATATA
19089084 TA
1 TA
19089086 TTTTATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATTTTAACAAAAAATATA
Found at i:19090625 original size:22 final size:22
Alignment explanation
Indices: 19090600--19090672 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
19090590 TTATGTTTTA
*
19090600 AATATAAATATATTTATTTTTT
1 AATATAAATATATTTATTTATT
*
19090622 AATATAAAT-TA-TAATTTAATT
1 AATATAAATATATTTATTT-ATT
19090643 ATATATAAATATAATTT-TTTATT
1 A-ATATAAATAT-ATTTATTTATT
*
19090666 AAAATAA
1 AATATAA
19090673 GAAATCAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 5 0.12
21 5 0.12
22 22 0.52
23 5 0.12
24 4 0.10
25 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATAAATATATTTATTTATT
Found at i:19090640 original size:40 final size:41
Alignment explanation
Indices: 19090586--19090663 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
19090576 TTATTATTTT
** * *
19090586 TAAATTATGTTTTAAATATAAATATAT-TTATTTTTTAATA
1 TAAATTATAATTTAAATATAAATAAATATAATTTTTTAATA
* *
19090626 TAAATTATAATTTAATTATATATAAATATAATTTTTTA
1 TAAATTATAATTTAAATATAAATAAATATAATTTTTTA
19090664 TTAAAATAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 22 0.71
41 9 0.29
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (41 bp):
TAAATTATAATTTAAATATAAATAAATATAATTTTTTAATA
Found at i:19091340 original size:34 final size:34
Alignment explanation
Indices: 19091286--19091352 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
19091276 ATTTTTTAGA
*
19091286 AAAATTATTGAAGCTGTTTTT-AGCCAAAAACACG
1 AAAATTATTGAAGCTATTTTTGA-CCAAAAACACG
19091320 AAAATTATTGAAG-TCATTTTTGACCAAAAACAC
1 AAAATTATTGAAGCT-ATTTTTGACCAAAAACAC
19091353 TTAAAAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 1 0.03
34 28 0.93
35 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (34 bp):
AAAATTATTGAAGCTATTTTTGACCAAAAACACG
Found at i:19091897 original size:91 final size:91
Alignment explanation
Indices: 19091742--19091930 Score: 333
Period size: 91 Copynumber: 2.1 Consensus size: 91
19091732 GTTATTAATC
* *
19091742 ATAAGATCATGGGTTCGATTTTTCTCTTTAGCATTTTTTGAATTTTTAAAGAAATTATTGAAGGT
1 ATAAGATCATGGGTTCGATCTTTCTCTTTAACATTTTTTGAATTTTTAAAGAAATTATTGAAGGT
*
19091807 GCCTTCAATAATTCTTCAAAAAACTT
66 GCCTTCAATAATTCCTCAAAAAACTT
*
19091833 ATAAGATCATGGGTTCGATCTTTCTCTTTAACATTTTTTGAATTTTTAAAGGAATTATTGAAGGT
1 ATAAGATCATGGGTTCGATCTTTCTCTTTAACATTTTTTGAATTTTTAAAGAAATTATTGAAGGT
19091898 GCCTTCAATAATTCCTCAAAAAACTT
66 GCCTTCAATAATTCCTCAAAAAACTT
*
19091924 AAAAGAT
1 ATAAGAT
19091931 GCTGAAAAGA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (91 bp):
ATAAGATCATGGGTTCGATCTTTCTCTTTAACATTTTTTGAATTTTTAAAGAAATTATTGAAGGT
GCCTTCAATAATTCCTCAAAAAACTT
Found at i:19092361 original size:65 final size:61
Alignment explanation
Indices: 19092183--19092360 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 61
19092173 CTGAAACATT
* * * * * *
19092183 TTCAATAATCCCTTATAAAAAATTGAAAGAGATTATTAAAGGTATTTTTTTACAGAAAATGCC
1 TTCAATAATCCCTTA-AAAAAATT-AAGGGGATTATTGAAGGTGTTTTTTTACAAAAAATACC
*
19092246 TTCAATAATCCTCTTTAAAAAAATTACAGGGGATTATTGAAGGCGTTTTTTGGT-CAAAAAATAC
1 TTCAATAATCC-C-TTAAAAAAATTA-AGGGGATTATTGAAGGTGTTTTTT--TACAAAAAATAC
19092310 C
61 C
*
19092311 TTCAATAATCCCTTCAAAAAAATTAGGGGGATTATTGAAGGTGTTTTTTT
1 TTCAATAATCCCTT-AAAAAAATTAAGGGGATTATTGAAGGTGTTTTTTT
19092361 TTTTTTCAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
61 1 0.01
63 36 0.36
64 39 0.39
65 23 0.23
66 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36
Consensus pattern (61 bp):
TTCAATAATCCCTTAAAAAAATTAAGGGGATTATTGAAGGTGTTTTTTTACAAAAAATACC
Found at i:19094764 original size:34 final size:34
Alignment explanation
Indices: 19094684--19094778 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 34
19094674 TTTTAAGTAC
* *
19094684 AAACGCCATTAAATTTAATGACATTTGTATCAAA
1 AAACGCCACTAAATTTAAAGACATTTGTATCAAA
*** * * *
19094718 AAATATCGCTAAATTTAAAGACATTTGTATTAGA
1 AAACGCCACTAAATTTAAAGACATTTGTATCAAA
**
19094752 AAACGCCACTAAATTTAGCGACATTTG
1 AAACGCCACTAAATTTAAAGACATTTG
19094779 ACACCGTTAT
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.32
Consensus pattern (34 bp):
AAACGCCACTAAATTTAAAGACATTTGTATCAAA
Found at i:19103762 original size:29 final size:29
Alignment explanation
Indices: 19103730--19103804 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
19103720 ATTGAATTTA
19103730 TATTT-ATATTATT-ATATTAATAAAATAAT
1 TATTTAATA-TATTAAT-TTAATAAAATAAT
*
19103759 TATTTAATATATTAATTTAATAAAATTAT
1 TATTTAATATATTAATTTAATAAAATAAT
*
19103788 TATATTTATATA-TAATT
1 TAT-TTAATATATTAATT
19103805 AAGATATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 29 0.71
30 12 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TATTTAATATATTAATTTAATAAAATAAT
Found at i:19103792 original size:24 final size:24
Alignment explanation
Indices: 19103736--19103839 Score: 60
Period size: 24 Copynumber: 4.3 Consensus size: 24
19103726 TTTATATTTA
*
19103736 TATTATTATATT-AATAA-AATAAT
1 TATTA-TATATTAAATAATAAGAAT
*
19103759 TATTTAATATATTAATTTAATAA-AAT
1 TA-TT-ATATATTAA-ATAATAAGAAT
19103785 TATTATAT-TTATATATAATTAAGATAT
1 TATTATATATTA-A-ATAA-TAAGA-AT
*
19103812 AATT-TATATTAAATAATAA-AAT
1 TATTATATATTAAATAATAAGAAT
19103834 T-TTATA
1 TATTATA
19103840 AATATTATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
21 2 0.03
22 4 0.06
23 6 0.09
24 20 0.30
25 11 0.17
26 13 0.20
27 10 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TATTATATATTAAATAATAAGAAT
Found at i:19107782 original size:13 final size:13
Alignment explanation
Indices: 19107760--19107798 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19107750 AATTTTTTTA
*
19107760 ATTTTTATATATT
1 ATTTTAATATATT
**
19107773 ATTTTAATATAAA
1 ATTTTAATATATT
19107786 ATTTTAATATATT
1 ATTTTAATATATT
19107799 TAAATAAAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:19107867 original size:20 final size:19
Alignment explanation
Indices: 19107835--19107878 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
19107825 ATTTTTATTT
*
19107835 TATAAAAATTTAAAAAATA
1 TATAAAAAGTTAAAAAATA
*
19107854 TATATAAAAGTTAAAATATA
1 TATA-AAAAGTTAAAAAATA
19107874 TATAA
1 TATAA
19107879 TTTTGTTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TATAAAAAGTTAAAAAATA
Found at i:19107987 original size:22 final size:25
Alignment explanation
Indices: 19107959--19108012 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
19107949 AATTTTATTC
19107959 AAATTAAA-TAAAAAAT-TAA-TTT
1 AAATTAAATTAAAAAATATAATTTT
* *
19107981 AAATTAAATTAAATATTATAATTTT
1 AAATTAAATTAAAAAATATAATTTT
19108006 AAATTAA
1 AAATTAA
19108013 TTTTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 8 0.30
23 6 0.22
24 3 0.11
25 10 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTAAATTAAAAAATATAATTTT
Found at i:19113436 original size:18 final size:18
Alignment explanation
Indices: 19113413--19113448 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19113403 CACATAAAGT
19113413 GATCTATAAATTTTCTAA
1 GATCTATAAATTTTCTAA
19113431 GATCTATAAATTTTCTAA
1 GATCTATAAATTTTCTAA
19113449 CAGTTAACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
GATCTATAAATTTTCTAA
Found at i:19137429 original size:8 final size:8
Alignment explanation
Indices: 19137416--19137442 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
19137406 TTGGCATGTC
19137416 ATATGTGT
1 ATATGTGT
19137424 ATATGTGT
1 ATATGTGT
19137432 ATATGTGT
1 ATATGTGT
19137440 ATA
1 ATA
19137443 CGCATGCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (8 bp):
ATATGTGT
Found at i:19138491 original size:30 final size:30
Alignment explanation
Indices: 19138456--19138519 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
19138446 CCGTAAGAAT
19138456 TATTAAATATATAA-TT-AGATAAATCAATTA
1 TATTAAAT-TATAAGTTCAGATAAA-CAATTA
*
19138486 TATTAAATTTTAAGTTCAGATAAACAATTA
1 TATTAAATTATAAGTTCAGATAAACAATTA
19138516 TATT
1 TATT
19138520 CGTACAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
30 20 0.65
31 7 0.23
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (30 bp):
TATTAAATTATAAGTTCAGATAAACAATTA
Found at i:19138732 original size:16 final size:17
Alignment explanation
Indices: 19138711--19138744 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19138701 TAAGTTACTC
19138711 TTTTA-TTGAAAATAAA
1 TTTTATTTGAAAATAAA
*
19138727 TTTTATTTGAATATAAA
1 TTTTATTTGAAAATAAA
19138744 T
1 T
19138745 CACCAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTATTTGAAAATAAA
Found at i:19144813 original size:33 final size:33
Alignment explanation
Indices: 19144776--19144843 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
19144766 TATATATATT
19144776 AAATT-TTTATAAAATA-AAATAATTTTATATGAA
1 AAATTATTTA-AAAATATAAA-AATTTTATATGAA
* * *
19144809 AAATTATTTAAATATATTAAAATTTTATATTAA
1 AAATTATTTAAAAATATAAAAATTTTATATGAA
19144842 AA
1 AA
19144844 TAAAATATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (33 bp):
AAATTATTTAAAAATATAAAAATTTTATATGAA
Found at i:19146053 original size:21 final size:24
Alignment explanation
Indices: 19146006--19146054 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
19145996 GAAATTTTTT
* *
19146006 ATTTTTATATATTATTTTAATATA
1 ATTTTTATATATTATTTAAAGATA
19146030 ATTTTTA-ATA-TATTTAAAGA-A
1 ATTTTTATATATTATTTAAAGATA
19146051 ATTT
1 ATTT
19146055 ATACATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 5 0.22
22 8 0.35
23 3 0.13
24 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTTATATATTATTTAAAGATA
Found at i:19154712 original size:26 final size:26
Alignment explanation
Indices: 19154650--19154700 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
19154640 AAATTAATTA
*
19154650 AAATTAATATATTTTTATAAAAATAT
1 AAATTAATATATATTTATAAAAATAT
19154676 AAATTAATATATATTTATAAAAATA
1 AAATTAATATATATTTATAAAAATA
19154701 CCTAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AAATTAATATATATTTATAAAAATAT
Found at i:19156460 original size:17 final size:17
Alignment explanation
Indices: 19156438--19156472 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
19156428 TCTTGTCACA
19156438 TTTATTTAATAAAAAAT
1 TTTATTTAATAAAAAAT
*
19156455 TTTATTTAATATAAAAT
1 TTTATTTAATAAAAAAT
19156472 T
1 T
19156473 ATAAACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTATTTAATAAAAAAT
Found at i:19158166 original size:13 final size:13
Alignment explanation
Indices: 19158150--19158191 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
19158140 TTATATACAT
19158150 AAATTAAAAATAA
1 AAATTAAAAATAA
* *
19158163 AAATTATATATAA
1 AAATTAAAAATAA
19158176 AAA-TAAAAATAA
1 AAATTAAAAATAA
19158188 AAAT
1 AAAT
19158192 ATATAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:19158172 original size:26 final size:24
Alignment explanation
Indices: 19158138--19158204 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 24
19158128 AATTAAATTT
19158138 AATTATATACATAAATTAAAAATAAA
1 AATTATATA-A-AAATTAAAAATAAA
*
19158164 AATTATATATAAAAATAAAAATAAA
1 AATTATATA-AAAATTAAAAATAAA
19158189 AA-TATATAAAAATTAA
1 AATTATATAAAAATTAA
19158205 GTTTAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.18
24 6 0.16
25 15 0.39
26 10 0.26
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (24 bp):
AATTATATAAAAATTAAAAATAAA
Found at i:19158183 original size:5 final size:6
Alignment explanation
Indices: 19158154--19158192 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
19158144 ATACATAAAT
* *
19158154 TAAAAA TAAAAA TTATATA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA -TAAAAA TAAAAA TAAAAA TAAAAA TA
19158193 TATAAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAA
Found at i:19163107 original size:21 final size:20
Alignment explanation
Indices: 19163083--19163148 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
19163073 AATATTTAAC
19163083 AAAACAAAACAAAAAAGAAAA
1 AAAACAAAACAAAAAA-AAAA
19163104 AAAACAAAACAGAAAAAAAAA
1 AAAACAAAACA-AAAAAAAAA
* **
19163125 ATAAGTAAACAAACAAAAAAA
1 AAAACAAAACAAA-AAAAAAA
19163146 AAA
1 AAA
19163149 GAAAGAAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.05
21 32 0.82
22 5 0.13
ACGTcount: A:0.83, C:0.09, G:0.05, T:0.03
Consensus pattern (20 bp):
AAAACAAAACAAAAAAAAAA
Found at i:19163122 original size:26 final size:25
Alignment explanation
Indices: 19163080--19163152 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
19163070 AATAATATTT
19163080 AACAAAACAAAACAAAAAAGAAAAAA
1 AACAAAACAAAA-AAAAAAGAAAAAA
**
19163106 AACAAAACAGAAAAAAAAA-ATAAGTA
1 AACAAAACA-AAAAAAAAAGA-AAAAA
19163132 AAC-AAACAAAAAAAAAAGAAA
1 AACAAAACAAAAAAAAAAGAAA
19163153 GAAGTCAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 11 0.26
25 7 0.17
26 21 0.50
27 3 0.07
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.03
Consensus pattern (25 bp):
AACAAAACAAAAAAAAAAGAAAAAA
Found at i:19165007 original size:141 final size:142
Alignment explanation
Indices: 19164809--19165092 Score: 491
Period size: 141 Copynumber: 2.0 Consensus size: 142
19164799 TCATAATTCA
* *
19164809 TATTAATAATAAGATTAATAAATAAAAAAAGTATAATAAAATTAGAATTTTAAATATAAACAGTC
1 TATTAAAAATAAGATTAATAAAT-AAAAAAGTATAATAAAATTAGAATCTTAAATATAAACAGTC
19164874 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
65 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
*
19164939 TTAAATTGTATTT
130 TTAAATTGCATTT
19164952 TATTAAAAATAAGATTAATAAAT-AAAAAGTATAATAAAATT-GAGATCTTAAATATAAACAGTC
1 TATTAAAAATAAGATTAATAAATAAAAAAGTATAATAAAATTAGA-ATCTTAAATATAAACAGTC
* *
19165015 GCACCTAAGCTCTGCTTAGATGTTGGAGAGTCGGGGTGGTCTTATTATATTTAAGAATCCAACTC
65 GCACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTC
19165080 TTAAATTGCATTT
130 TTAAATTGCATTT
19165093 CATTTTACAT
Statistics
Matches: 135, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
140 2 0.01
141 111 0.82
143 22 0.16
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (142 bp):
TATTAAAAATAAGATTAATAAATAAAAAAGTATAATAAAATTAGAATCTTAAATATAAACAGTCG
CACCTAAGCTCTGCCTAGATGTTGGAGAGTCGGGGTGGTCTCATTATATTTAAGAATCCAACTCT
TAAATTGCATTT
Found at i:19168991 original size:30 final size:29
Alignment explanation
Indices: 19168952--19169027 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
19168942 TTGTTTTGGA
* *
19168952 GAATTAGTTTTTGAAAAAGAAATTATTTAT
1 GAATAAGTTTTT-AAAAAAAAATTATTTAT
*
19168982 GAATAAGTTTCTAAAGAAAAAATTATTTAT
1 GAATAAGTTTTTAAA-AAAAAATTATTTAT
19169012 GAATTAA-TTTTTAAAA
1 GAA-TAAGTTTTTAAAA
19169028 TAGATTCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.10
30 33 0.82
31 3 0.08
ACGTcount: A:0.47, C:0.01, G:0.11, T:0.41
Consensus pattern (29 bp):
GAATAAGTTTTTAAAAAAAAATTATTTAT
Found at i:19188849 original size:30 final size:29
Alignment explanation
Indices: 19188823--19188920 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 29
19188813 ATATTAAGGG
* * *
19188823 TTTATTTAGATATAAATTAAAAATTAAAAA
1 TTTATTT-GATACAAATTAAAGATTAAAGA
19188853 TTTATTTGGATACAAATTAAAGATTAAAGA
1 TTTATTT-GATACAAATTAAAGATTAAAGA
*
19188883 TTTATTTGAATACAAATTAAAGATTAAAAA
1 TTTATTTG-ATACAAATTAAAGATTAAAGA
*
19188913 CTTATTTG
1 TTTATTTG
19188921 GATATAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 1 0.02
30 60 0.98
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (29 bp):
TTTATTTGATACAAATTAAAGATTAAAGA
Found at i:19189305 original size:30 final size:30
Alignment explanation
Indices: 19189271--19189335 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
19189261 TGTTATAGGC
* * *
19189271 TTATTCAAATACAAATTAAAGTTTAAGAGT
1 TTATTCAAATACAAATTAAAATTTAAAAAT
** *
19189301 TTATTTGAATATAAATTAAAATTTAAAAAT
1 TTATTCAAATACAAATTAAAATTTAAAAAT
19189331 TTATT
1 TTATT
19189336 TAAGTGTAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (30 bp):
TTATTCAAATACAAATTAAAATTTAAAAAT
Found at i:19189336 original size:30 final size:30
Alignment explanation
Indices: 19189278--19189370 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
19189268 GGCTTATTCA
* * * *
19189278 AATACAAATTAAAGTTTAAGAGTTTATTTG
1 AATATAAATTAAAATTTAAAAATTTATTTG
19189308 AATATAAATTAAAATTTAAAAATTTATTT-
1 AATATAAATTAAAATTTAAAAATTTATTTG
* * *
19189337 AAGTGTAACA-TAAAAATTAAAAATTTGTTTG
1 AA-TATAA-ATTAAAATTTAAAAATTTATTTG
19189368 AAT
1 AAT
19189371 GCAATAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
29 2 0.04
30 48 0.91
31 3 0.06
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (30 bp):
AATATAAATTAAAATTTAAAAATTTATTTG
Found at i:19190060 original size:11 final size:10
Alignment explanation
Indices: 19190012--19190062 Score: 75
Period size: 10 Copynumber: 4.9 Consensus size: 10
19190002 CCAATTGGCT
19190012 TTTATTTTTA
1 TTTATTTTTA
19190022 TTTATTTTTA
1 TTTATTTTTA
19190032 TTTATTTTTA
1 TTTATTTTTA
*
19190042 TTTTATTTTTC
1 -TTTATTTTTA
19190053 TTTGATTTTT
1 TTT-ATTTTT
19190063 TTAGTTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
10 23 0.61
11 15 0.39
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:19193101 original size:60 final size:59
Alignment explanation
Indices: 19192945--19193234 Score: 311
Period size: 58 Copynumber: 4.9 Consensus size: 59
19192935 AAAAAAATAA
* * * *
19192945 AAATTTTCAAAAAGAAATATTTTTGAGAAAAAGTTGAAAGTATTAA-TTTTCGTTGAAAATAA
1 AAATTTTCAAAAATAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TT-AAAA-AT
** *
19193007 AAATTTTTTTAAAA-AAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAA-TTTTCAAAAATAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* * *
19193067 AAATTTTCTAAAAA-AAATATTTTCGAGGAGAAGTTAAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTTC-AAAAATAAATATTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* * * * * *
19193127 AAGTTTTCAAAAATGAAT-TTTTGAGAAAAAGTTAAAAGTATAAATTTTCCTTAAAAAT
1 AAATTTTCAAAAATAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* *
19193185 AAGTTTTCAAAAATGAAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 AAATTTTCAAAAATAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
19193235 CTGTATAAAA
Statistics
Matches: 202, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
58 79 0.39
59 17 0.08
60 55 0.27
61 3 0.01
62 35 0.17
63 13 0.06
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (59 bp):
AAATTTTCAAAAATAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
Found at i:19193146 original size:31 final size:31
Alignment explanation
Indices: 19193111--19193205 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
19193101 TAAAAGTATC
19193111 AATTTTCCTTAAAAATAAGTTTTCAAAAATG
1 AATTTTCCTTAAAAATAAGTTTTCAAAAATG
* * *
19193142 AATTTT--TGAGAAA-AAG--TT-AAAAGTATA
1 AATTTTCCTTAAAAATAAGTTTTCAAAA--ATG
19193169 AATTTTCCTTAAAAATAAGTTTTCAAAAATG
1 AATTTTCCTTAAAAATAAGTTTTCAAAAATG
19193200 AATTTT
1 AATTTT
19193206 TGAGGAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 8 0.16
28 3 0.06
29 10 0.20
30 3 0.06
31 14 0.28
32 2 0.04
33 4 0.08
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (31 bp):
AATTTTCCTTAAAAATAAGTTTTCAAAAATG
Found at i:19199480 original size:22 final size:22
Alignment explanation
Indices: 19199453--19199516 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
19199443 ATTCTACTCA
19199453 ATTTTTTATGTATATA-TAAATT
1 ATTTTTTAT-TATATATTAAATT
* * *
19199475 ATTTTTAATTATTTATTTAATT
1 ATTTTTTATTATATATTAAATT
*
19199497 A-TTTTT-TTATATATTTAATT
1 ATTTTTTATTATATATTAAATT
19199517 TTATATTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.36
21 9 0.25
22 14 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTTTTATTATATATTAAATT
Found at i:19199511 original size:20 final size:21
Alignment explanation
Indices: 19199455--19199532 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 21
19199445 TCTACTCAAT
*
19199455 TTTTTATGTATATA-TAAATTA
1 TTTTTAT-TATATATTTAATTA
*
19199476 TTTTTAATTATTTATTTAATTA
1 TTTTT-ATTATATATTTAATTA
19199498 TTTTT-TTATATATTTAA-T-
1 TTTTTATTATATATTTAATTA
*
19199516 TTTATATT-TATATTTAA
1 TTTTTATTATATATTTAA
19199533 AAAATAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
18 13 0.26
19 3 0.06
20 11 0.22
21 10 0.20
22 13 0.26
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (21 bp):
TTTTTATTATATATTTAATTA
Found at i:19203201 original size:17 final size:17
Alignment explanation
Indices: 19203181--19203213 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19203171 TTAATATGGG
19203181 TATT-TTTTATTTTTTAT
1 TATTATTTT-TTTTTTAT
19203198 TATTATTTTTTTTTTA
1 TATTATTTTTTTTTTA
19203214 GAACTGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TATTATTTTTTTTTTAT
Found at i:19204862 original size:27 final size:27
Alignment explanation
Indices: 19204824--19204879 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
19204814 CTTATTTGTT
**
19204824 CAAACACCAAAGATGTACATGTTGAAC
1 CAAACACCAAAGATCAACATGTTGAAC
* *
19204851 CAAACGCCAAAGATCAATATGTTGAAC
1 CAAACACCAAAGATCAACATGTTGAAC
19204878 CA
1 CA
19204880 GAATATTGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (27 bp):
CAAACACCAAAGATCAACATGTTGAAC
Found at i:19207892 original size:70 final size:70
Alignment explanation
Indices: 19207779--19207918 Score: 226
Period size: 70 Copynumber: 2.0 Consensus size: 70
19207769 AAGACATGAT
* * *
19207779 GAACTCATTACCGTTGCTAATGTTAGGTAAGCTTCCCTAATTAACTGTAGTGAGCTGTGTAGGAC
1 GAACTCATTACCGTTGCTAATGATAGGTAAGATTCCCTAATTAACTGTAGTGAGCTGTATAGGAC
19207844 TACAG
66 TACAG
* * *
19207849 GAACTCATTACTGTTGTTAATGATAGGTAAGATTCTCTAATTAACTGTAGTGAGCTGTATAGGAC
1 GAACTCATTACCGTTGCTAATGATAGGTAAGATTCCCTAATTAACTGTAGTGAGCTGTATAGGAC
19207914 TACAG
66 TACAG
19207919 ATCTTGGTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (70 bp):
GAACTCATTACCGTTGCTAATGATAGGTAAGATTCCCTAATTAACTGTAGTGAGCTGTATAGGAC
TACAG
Found at i:19213244 original size:20 final size:19
Alignment explanation
Indices: 19213215--19213263 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
19213205 TTGAAGCATA
19213215 AAAATAAATATAATAATTT
1 AAAATAAATATAATAATTT
* *
19213234 AAAATATAATATCATAATAT
1 AAAATA-AATATAATAATTT
*
19213254 AACATAAATA
1 AAAATAAATA
19213264 ACATATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATAAATATAATAATTT
Found at i:19213280 original size:11 final size:11
Alignment explanation
Indices: 19213235--19213282 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
19213225 TAATAATTTA
19213235 AAATATAATAT
1 AAATATAATAT
*
19213246 CATAATATAACAT
1 -A-AATATAATAT
19213259 AAATA-ACATAT
1 AAATATA-ATAT
19213270 AAATATAATAT
1 AAATATAATAT
19213281 AA
1 AA
19213283 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 1 0.03
11 18 0.58
12 3 0.10
13 9 0.29
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATATAATAT
Found at i:19222707 original size:28 final size:28
Alignment explanation
Indices: 19222652--19222707 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
19222642 TAATTTTTTT
* *
19222652 AATATAATATATAATATGTGATTTTAAA
1 AATATAATATATAATATGTAATTATAAA
*
19222680 AATAT-ATAATATAATATTTAATTATAAA
1 AATATAAT-ATATAATATGTAATTATAAA
19222708 TTTATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (28 bp):
AATATAATATATAATATGTAATTATAAA
Found at i:19222733 original size:23 final size:22
Alignment explanation
Indices: 19222702--19222744 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
19222692 AATATTTAAT
19222702 TATAAATTTATTAATTAATATGA
1 TATAAATTTATT-ATTAATATGA
* *
19222725 TATATATTTATTGTTAATAT
1 TATAAATTTATTATTAATAT
19222745 TATTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TATAAATTTATTATTAATATGA
Found at i:19225527 original size:16 final size:16
Alignment explanation
Indices: 19225506--19225536 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19225496 TATATTATAA
*
19225506 TTCTTCTTTAAATTAT
1 TTCTTCTTAAAATTAT
19225522 TTCTTCTTAAAATTA
1 TTCTTCTTAAAATTA
19225537 CATAATAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (16 bp):
TTCTTCTTAAAATTAT
Found at i:19225958 original size:30 final size:29
Alignment explanation
Indices: 19225917--19225974 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
19225907 ATTTTTATTA
*
19225917 TATTTAAAT-AAATTATTAATTATTAATTTG
1 TATTTAAATAAAATT-TTAAAT-TTAATTTG
*
19225947 TATTTAGATAAAATTTTAAATTTAATTT
1 TATTTAAATAAAATTTTAAATTTAATTT
19225975 ATATCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TATTTAAATAAAATTTTAAATTTAATTTG
Found at i:19226773 original size:21 final size:21
Alignment explanation
Indices: 19226730--19226773 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
19226720 AATTTATTTT
*
19226730 TAATTAAATAAGAATTTAGAA
1 TAATTAAATAAGAAATTAGAA
** *
19226751 TAATTAAATGTGAAATTATAA
1 TAATTAAATAAGAAATTAGAA
19226772 TA
1 TA
19226774 GTTTTTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
TAATTAAATAAGAAATTAGAA
Found at i:19227830 original size:20 final size:21
Alignment explanation
Indices: 19227801--19227847 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
19227791 TTTTTTAATT
19227801 ATTTTATAAG-ATTATATTTA
1 ATTTTATAAGAATTATATTTA
*
19227821 ATTTTGTAAGACATTATATTTA
1 ATTTTATAAGA-ATTATATTTA
19227843 ATTTT
1 ATTTT
19227848 TTTCTCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTTATAAGAATTATATTTA
Found at i:19230452 original size:83 final size:83
Alignment explanation
Indices: 19230336--19230500 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 83
19230326 TATTTGATAG
* * *
19230336 AAAGGTTTTTTTGATTTGGGCTTTTAA-TTTTTTTGTAGGGTTTTTTTTTATGGCATC-CTTTTT
1 AAAGATTTTTTTGATTTGGGCTTTTAATTTTTTTTGCA-GG-TTTTTTTTATGACATCTCTTTTT
19230399 TTTTAATCATTTATGGTTCT
64 TTTTAATCATTTATGGTTCT
** * *
19230419 AAAGATTTTTTTGATTTGGTTTTTTTATTTTTTTTGCAGGTTTTTTTTATGACATCTTTTTTTTT
1 AAAGATTTTTTTGATTTGGGCTTTTAATTTTTTTTGCAGGTTTTTTTTATGACATC-TCTTTTTT
*
19230484 TTTTATCATTTATGGTT
65 TTTAATCATTTATGGTT
19230501 TTATTTATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
82 15 0.21
83 25 0.35
84 31 0.44
ACGTcount: A:0.16, C:0.06, G:0.15, T:0.64
Consensus pattern (83 bp):
AAAGATTTTTTTGATTTGGGCTTTTAATTTTTTTTGCAGGTTTTTTTTATGACATCTCTTTTTTT
TTAATCATTTATGGTTCT
Found at i:19231019 original size:16 final size:16
Alignment explanation
Indices: 19230994--19231024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19230984 AGTTTAGTGT
*
19230994 AAAAATAAATTAAGTA
1 AAAAAGAAATTAAGTA
19231010 AAAAAGAAATTAAGT
1 AAAAAGAAATTAAGT
19231025 CGGTATGACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (16 bp):
AAAAAGAAATTAAGTA
Found at i:19231658 original size:37 final size:37
Alignment explanation
Indices: 19231584--19231664 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
19231574 ATAAAAAACA
19231584 AAATATATCATATTTAATAATTTAAAATAAATAATTAT
1 AAATA-ATCATATTTAATAATTTAAAATAAATAATTAT
*
19231622 AAATAAT-ATATTTGATATAATTT-TAATAAATAATTAT
1 AAATAATCATATTT-A-ATAATTTAAAATAAATAATTAT
*
19231659 TAATAA
1 AAATAA
19231665 AATTTAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
36 6 0.15
37 21 0.54
38 12 0.31
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (37 bp):
AAATAATCATATTTAATAATTTAAAATAAATAATTAT
Done.