Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 21 of 211
Found at i:5653560 original size:22 final size:24
Alignment explanation
Indices: 5653534--5653577 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5653524 GAAAAATATT
5653534 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
5653556 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
5653578 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:5653671 original size:59 final size:59
Alignment explanation
Indices: 5653644--5653759 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 59
5653634 TCAAGTTTAT
* *
5653644 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAAATAATAATTAGATAAA
* * *
5653703 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTA-ATAA
1 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAAATAATAATTAGATAA
5653760 TTTGATAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 4 0.07
59 50 0.93
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAAATAATAATTAGATAAA
Found at i:5653786 original size:16 final size:16
Alignment explanation
Indices: 5653765--5653798 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5653755 AATAATTTGA
*
5653765 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
5653781 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
5653797 TA
1 TA
5653799 GTCTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:5654235 original size:109 final size:110
Alignment explanation
Indices: 5653998--5654276 Score: 472
Period size: 109 Copynumber: 2.5 Consensus size: 110
5653988 GATAGGTCTA
5653998 GTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTATTTTTTTCGT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTA-TTTTTTCGT
*
5654063 GTCAGAATCAGATAAAAAATACGAAAAAAATTAAAAAAAATTTTGG
65 GTCAGAATCAGATAAAAAATACGAAAAAAATTAAAAAAAAATTTGG
* * *
5654109 GTGCTGGCCTGTCAATGGCCGGCACCCAGTACGCAGTACAAAGAAAAAAAAATTATTTTTTCTTG
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTATTTTTTCGTG
5654174 TCAGAATCAGATAAAAAAATACG-AAAAAA-TAAAAAAAAATTTGG
66 TCAGAATCAGAT-AAAAAATACGAAAAAAATTAAAAAAAAATTTGG
* *
5654218 GTGCTGGCCTGTAAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAATTTTATTTT
1 GTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTATTTT
5654277 ATCTGATTCT
Statistics
Matches: 159, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
109 69 0.43
110 27 0.17
111 63 0.40
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (110 bp):
GTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTATTTTTTCGTG
TCAGAATCAGATAAAAAATACGAAAAAAATTAAAAAAAAATTTGG
Found at i:5654515 original size:115 final size:113
Alignment explanation
Indices: 5654294--5654709 Score: 610
Period size: 115 Copynumber: 3.7 Consensus size: 113
5654284 TCTGACACGA
5654294 AATTTTTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTT
1 AATTTTTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTT
5654358 TTTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT
66 TTTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT
* *
5654406 AATTTTTTTTTCTTTATACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCATCC-AAATTTTT
1 AATTTTTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTT
* * *
5654470 TTTAAAAATTTTTTTCATATTTTTTTATCTGATTCTGACAGGAAAAAAAAT
66 TTT---TATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT
* * * *
5654521 AAATTTTTTTTCTTTGTACTGTGTCCTGGGTGCCGGCCATTGACAGGTCAGCACCCAAAAATTTT
1 AATTTTTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAA-TTT
5654586 TTTTTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT
64 TTTTTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT
** * *
5654636 AA---AATTTT-TTTGTACTGTGTACTGGGTGCCGGCCATTGACAGGGCAGCACCCAAAAATTTT
1 AATTTTTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTT
*
5654697 TTTTTGTTTTTTT
65 TTTTTATTTTTTT
5654710 TCTTTTTCGT
Statistics
Matches: 279, Mismatches: 19, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
110 16 0.06
111 47 0.17
112 69 0.25
115 136 0.49
117 3 0.01
118 8 0.03
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.43
Consensus pattern (113 bp):
AATTTTTTTTTCTTTGTACTGCGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTT
TTTTATTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAT
Found at i:5660920 original size:59 final size:62
Alignment explanation
Indices: 5660834--5660958 Score: 150
Period size: 59 Copynumber: 2.1 Consensus size: 62
5660824 TTTTTTAAAA
* * * *
5660834 TTTAGAATTAGAACTAAACTGACAAATTGTGTAAATATTGAGGACT-AA-TTATT-AAATTT
1 TTTAGAATTAGAACTAAAATGACAAATTGTATAAACATTAAGGACTAAATTTATTAAAATTT
* * *
5660893 TTTAGAATTCA-AACTAAAATGATAAATTTTATAAACATTAAGGACTAAATTTGTTAAAATTT
1 TTTAGAATT-AGAACTAAAATGACAAATTGTATAAACATTAAGGACTAAATTTATTAAAATTT
5660955 TTTA
1 TTTA
5660959 ATATTTGAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 38 0.69
60 3 0.05
61 4 0.07
62 10 0.18
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (62 bp):
TTTAGAATTAGAACTAAAATGACAAATTGTATAAACATTAAGGACTAAATTTATTAAAATTT
Found at i:5684530 original size:16 final size:16
Alignment explanation
Indices: 5684502--5684540 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
5684492 AAAACCATGA
*
5684502 AAAAG-AAAGGAAAAC
1 AAAAGAAAAAGAAAAC
5684517 AAAAGAAAAAGAAAAC
1 AAAAGAAAAAGAAAAC
5684533 AAAA-AAAA
1 AAAAGAAAA
5684541 TCATGAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAC
Found at i:5684536 original size:21 final size:20
Alignment explanation
Indices: 5684500--5684540 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
5684490 ATAAAACCAT
**
5684500 GAAAAAGAAAGGAAAACAAAA
1 GAAAAAGAAAACAAAA-AAAA
5684521 GAAAAAGAAAACAAAAAAAA
1 GAAAAAGAAAACAAAAAAAA
5684541 TCATGAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
GAAAAAGAAAACAAAAAAAA
Found at i:5685295 original size:15 final size:14
Alignment explanation
Indices: 5685262--5685312 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 14
5685252 ATTATGTTGC
*
5685262 ATTTTAAAAATT--
1 ATTTTAAAATTTCA
5685274 ATTTTAAAATTTCA
1 ATTTTAAAATTTCA
*
5685288 AGTTTTAAAATTTTA
1 A-TTTTAAAATTTCA
5685303 A-TTTAAAATT
1 ATTTTAAAATT
5685313 ATTTCTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 11 0.32
13 9 0.26
14 1 0.03
15 13 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (14 bp):
ATTTTAAAATTTCA
Found at i:5689357 original size:26 final size:25
Alignment explanation
Indices: 5689325--5689378 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
5689315 GACTTCTTTG
*
5689325 TGTTTACT-TTCCTAGTGGACTACACC
1 TGTTTACTGTACC-AGTGGACTAC-CC
5689351 TGTTTACTGTACCAGTGGACTACCC
1 TGTTTACTGTACCAGTGGACTACCC
5689376 TGT
1 TGT
5689379 GTTTATTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 18 0.69
27 3 0.12
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (25 bp):
TGTTTACTGTACCAGTGGACTACCC
Found at i:5693540 original size:73 final size:74
Alignment explanation
Indices: 5693421--5693572 Score: 236
Period size: 73 Copynumber: 2.1 Consensus size: 74
5693411 GTATTTTAGT
* *
5693421 TTTTATATTCGGAAAATGAGTAATTTAATTTTTGTGCATTAAATTAAAAAGTAAA-TGGTAATTC
1 TTTTATATTCGGAAAATGAGTAAATTAATTTTTGTGCATTAAATTAAAAAGTAAATTAGTAATTC
5693485 TATTAAAAA
66 TATTAAAAA
* *
5693494 TTTTATATTCGGAAGATGAGTAAATTAATTTTTTTG-AGTTAAATTAAAAAGTAAATTAGTAATT
1 TTTTATATTCGGAAAATGAGTAAATTAATTTTTGTGCA-TTAAATTAAAAAGTAAATTAGTAATT
*
5693558 TTATTAAAAA
65 CTATTAAAAA
5693568 TTTTA
1 TTTTA
5693573 ATTATTTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
72 1 0.01
73 50 0.69
74 21 0.29
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.43
Consensus pattern (74 bp):
TTTTATATTCGGAAAATGAGTAAATTAATTTTTGTGCATTAAATTAAAAAGTAAATTAGTAATTC
TATTAAAAA
Found at i:5706374 original size:2 final size:2
Alignment explanation
Indices: 5706367--5706407 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
5706357 TTACTTTAGA
*
5706367 AT AT AT AT AT GAT AT AT AT AT AT AT AT AC AT AT AT -T AT AT A
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5706408 AGTAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5716895 original size:54 final size:54
Alignment explanation
Indices: 5716829--5716932 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
5716819 ATTCCAGACA
* *
5716829 CAACCAATTTTTCCTTCTCCAAATTTCAAAT-CTCTGATCTCTCTCATAATTACT
1 CAACCAAATTTTCCTTCTCCAAATTGCAAATGCT-TGATCTCTCTCATAATTACT
* *
5716883 CAACCAAATTTTCCTTCTCCAACTTGCAAATGGTTGATCTCTCTCATAAT
1 CAACCAAATTTTCCTTCTCCAAATTGCAAATGCTTGATCTCTCTCATAAT
5716933 GACTTCACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.38
Consensus pattern (54 bp):
CAACCAAATTTTCCTTCTCCAAATTGCAAATGCTTGATCTCTCTCATAATTACT
Found at i:5720342 original size:10 final size:10
Alignment explanation
Indices: 5720315--5720352 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
5720305 TAATATCTAC
*
5720315 ATAAAAATA-
1 ATAAATATAT
5720324 ATAAATATAT
1 ATAAATATAT
*
5720334 ATGAATATAT
1 ATAAATATAT
5720344 ATAAATATA
1 ATAAATATA
5720353 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAAATATAT
Found at i:5720458 original size:20 final size:17
Alignment explanation
Indices: 5720416--5720449 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5720406 CATATATAAT
5720416 TAAAAA-AATAATTACA
1 TAAAAATAATAATTACA
5720432 TAAAAATAATAATTACA
1 TAAAAATAATAATTACA
5720449 T
1 T
5720450 CCTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATAATAATTACA
Found at i:5721194 original size:23 final size:22
Alignment explanation
Indices: 5721168--5721212 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
5721158 ACATTAAATC
5721168 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
*
5721191 TCTAAGATTACATATCATATCT
1 TCTAAGATTACAAATCATATCT
5721213 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:5721215 original size:19 final size:19
Alignment explanation
Indices: 5721168--5721244 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
5721158 ACATTAAATC
*
5721168 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
5721188 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
5721210 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
5721229 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
5721245 CTCGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 7 0.13
23 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:5721606 original size:44 final size:44
Alignment explanation
Indices: 5721549--5721847 Score: 196
Period size: 44 Copynumber: 6.9 Consensus size: 44
5721539 GGCCATCTTC
5721549 AGTCTGC-CTCACTGCAACTTCAGGAG-GATAAGACTTGATTACTT
1 AGTCTGCTC-CACTGCAACTTCAGGAGAGATAAGACTTGATTA-TT
* *
5721593 AGTCTGCTCCACTGCAACTACAGG-GAGATAAGAAC-T-A-TATG
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAG-ACTTGATTATT
* * ** *
5721634 CGATCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCCAAGGTT-TT
1 AG-TCTGCTCCACTGCAACTTCAGGAGAGATAAGA--CTTGATTATT
* * * * * **
5721678 AATCCGCTCCACTACAACTTCAGG-GAGATAGGATTATCGGCT-TT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T-GATTATT
* * * *
5721722 AATTTGCTCCACTGCAACTTTAGG-GAGATAAGATTTGCCATT-TT
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTG--ATTATT
* *
5721766 CAGTCTGCTTCACTGCAACTTCAGGA-AGATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGATTA-TT
*
5721811 AGTCTGCCCCACTGCAACTTCA-GAGAGATAAGACTTG
1 AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTG
5721848 GTGGCTTAAA
Statistics
Matches: 201, Mismatches: 33, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
40 2 0.01
41 21 0.10
42 10 0.05
43 12 0.06
44 118 0.59
45 38 0.19
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGATTATT
Found at i:5721928 original size:44 final size:44
Alignment explanation
Indices: 5721880--5722592 Score: 159
Period size: 44 Copynumber: 16.2 Consensus size: 44
5721870 TATCTTGGAA
* *
5721880 AGATAAGATTTGCCGTCTTCGATCTGCTCTGCTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
* * ** * * * * *
5721924 AGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
** ** * * * *
5721968 AGATAAGGCTTGGTGGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-TCCGCTACT-GCTTAGG-G
* *
5722012 AGATAAGATTTGCCGTCTGT-GATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCT-TCAATCTGCTCCGCTACTGCTTAGGG
* * ** * * * * * *
5722056 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
* ** ** * * * *
5722100 AGACAAGGCTTGATGGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-TCCGCTACT-GCTTAGG-G
* *
5722144 AGATAAGATTTGCCGTCTAT-GATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCT-TCAATCTGCTCCGCTACTGCTTAGGG
* * ** * * * *
5722188 AGATAAGATCTACAATCTTTAA-CTTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATC-TGCTCCGCTACTGCTTAGGG
* ** ** * * * *
5722232 AGACAAGGCTTGGTGGCTTAAATCTGCTTCC-C-ACTATCTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-TCCGCTACT-GCTTAGG-G
* ** * *
5722276 AGATAAGATTTGCTGTCTTTGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
* ** * * *
5722320 AGATAAGATTTACAATCTTCAA-CTTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATC-TGCTCCGCTACTGCTTAGGG
* * ** * * * **
5722364 AGACAATG-CTTGGTGGCTTAAATCTGCTTCC-C-ACTATCTTAGAA
1 AGATAA-GATTTGCCGTCTTCAATCTGC-TCCGCTACT-GCTTAGGG
* **
5722408 AGATAAGATTTGCCGTCTGT-GATCTGCTCCATTACTGCTTAGGG
1 AGATAAGATTTGCCGTCT-TCAATCTGCTCCGCTACTGCTTAGGG
* * ** * * * *
5722452 AGATAAGATCTACAATCTTCAACCTACTCTGCTACTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
* ** ** * * * **
5722496 AGACAAGGCTTGGTGGCTTAAATCTGCTTCC-C-ACTATCTTAGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-TCCGCTACT-GCTTAGGG
** ** * * *
5722540 AGATAAGATTTGTTGTCTTTGATCTGCTCCACTATTACTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
5722584 AGATAAGAT
1 AGATAAGAT
5722593 CTACAATTTT
Statistics
Matches: 454, Mismatches: 177, Indels: 76
0.64 0.25 0.11
Matches are distributed among these distances:
43 37 0.08
44 377 0.83
45 40 0.09
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCGCTACTGCTTAGGG
Found at i:5721985 original size:132 final size:131
Alignment explanation
Indices: 5721830--5722701 Score: 1375
Period size: 132 Copynumber: 6.6 Consensus size: 131
5721820 CACTGCAACT
* * * *
5721830 TCAGAGAGATAAGACTTGGTGGCTTAAATCTGCTTCGCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
**
5721895 TCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
66 TCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
5721960 GC
130 GC
* *
5721962 TCAAGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
5722027 TCTGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCT
66 TCT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
*
5722092 AC
130 GC
*
5722094 TCAGGGAGACAAGGCTTGATGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
5722159 TCTATGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAACTTTCTCCGCTGCT
66 TCT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
5722224 GC
130 GC
*
5722226 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCTG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * *
5722291 TCTTTGATCTGTTCCACTACTGCTTAGGGAGATAAGATTTACAATCTTCAACTTTCTCCGCTGCT
66 TC-TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
5722356 GC
130 GC
* *
5722358 TCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * *
5722423 TCTGTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTACT
66 TCT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
5722488 GC
130 GC
* **
5722490 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGTTG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * * *
5722555 TCTTTGATCTGCTCCACTATTACTTAGGGAGATAAGATCTACAATTTTTAACCTTCTCCGCTGCT
66 TC-TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
5722620 GC
130 GC
*
5722622 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
5722687 TCTTTAATCTGCTCC
66 TC-TTGATCTGCTCC
5722702 CTAAGGAACA
Statistics
Matches: 688, Mismatches: 48, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 684 0.99
133 3 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (131 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
C
Found at i:5729951 original size:14 final size:14
Alignment explanation
Indices: 5729934--5729967 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5729924 ATTTATGAAA
5729934 ATAAATAAAAATAT
1 ATAAATAAAAATAT
* *
5729948 ATAAATATACATAT
1 ATAAATAAAAATAT
5729962 ATAAAT
1 ATAAAT
5729968 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAAATAAAAATAT
Found at i:5730145 original size:10 final size:10
Alignment explanation
Indices: 5730118--5730155 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
5730108 TAATATCTAC
*
5730118 ATAAAAATA-
1 ATAAATATAT
5730127 ATAAATATAT
1 ATAAATATAT
*
5730137 ATGAATATAT
1 ATAAATATAT
5730147 ATAAATATA
1 ATAAATATA
5730156 AAAAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
ATAAATATAT
Found at i:5730247 original size:17 final size:16
Alignment explanation
Indices: 5730221--5730252 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
5730211 ATATATAATT
5730221 AAAAAATAATTACATA
1 AAAAAATAATTACATA
5730237 AAAATAATAATTACAT
1 AAAA-AATAATTACAT
5730253 CCTAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATAATTACATA
Found at i:5730499 original size:3 final size:3
Alignment explanation
Indices: 5730491--5730530 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
5730481 ATATGTAGGT
*
5730491 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5730531 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5730514 original size:15 final size:12
Alignment explanation
Indices: 5730493--5730544 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
5730483 ATGTAGGTAT
5730493 AATAATAATATATA
1 AATAATAATA-A-A
5730507 ATATAATAATAAA
1 A-ATAATAATAAA
5730520 AATAATAATAACA
1 AATAATAATAA-A
*
5730533 AA-ATTAATAAA
1 AATAATAATAAA
5730544 A
1 A
5730545 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:5730990 original size:22 final size:21
Alignment explanation
Indices: 5730955--5731012 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
5730945 AAAGGGTATC
* * *
5730955 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
*
5730976 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
5730999 TACATATCATATCT
1 TACAAATCATATCT
5731013 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:5731676 original size:9 final size:9
Alignment explanation
Indices: 5731659--5731689 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5731649 TCGAGTTGAT
5731659 TCGAATAAC
1 TCGAATAAC
*
5731668 TCGATTAAC
1 TCGAATAAC
5731677 TCGAATAAC
1 TCGAATAAC
5731686 TCGA
1 TCGA
5731690 TCCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:5732082 original size:23 final size:23
Alignment explanation
Indices: 5732056--5732109 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
5732046 TTTAAAAATA
*
5732056 AAATTAAAAAAAGCACAAAAAAG
1 AAATTAAAAAAAGAACAAAAAAG
* * * *
5732079 AAATCAAAAACAGAATACAAAAG
1 AAATTAAAAAAAGAACAAAAAAG
5732102 AAATTAAA
1 AAATTAAA
5732110 GGTGGCCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.11
Consensus pattern (23 bp):
AAATTAAAAAAAGAACAAAAAAG
Found at i:5734237 original size:21 final size:22
Alignment explanation
Indices: 5734196--5734240 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
5734186 GGTTCCGTTT
5734196 TTTTCCTTTTTTTACTGTCTTG
1 TTTTCCTTTTTTTACTGTCTTG
*
5734218 TTTT-CTTTATTTT-CTTTCTTG
1 TTTTCCTTT-TTTTACTGTCTTG
5734239 TT
1 TT
5734241 CTTTAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTCCTTTTTTTACTGTCTTG
Found at i:5734748 original size:19 final size:19
Alignment explanation
Indices: 5734724--5734781 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
5734714 TTTATTACTA
5734724 TATTATTATTAGCATT-TAT
1 TATTATTATTA-CATTATAT
* *
5734743 TATTATTGTTATATTATAT
1 TATTATTATTACATTATAT
5734762 TATTATTA-TACA-TATAT
1 TATTATTATTACATTATAT
5734779 TAT
1 TAT
5734782 ATGCGCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 20 0.59
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTATTATTACATTATAT
Found at i:5744902 original size:24 final size:25
Alignment explanation
Indices: 5744843--5744905 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 25
5744833 TTGAGCCAGT
*
5744843 ATTCTTTTATTCTTTTTTCGAGTAATT
1 ATTCTTTTATTCTTTTTTC--GTAATC
5744870 ATTCTTTTATTC-TTTTTC-TACATC
1 ATTCTTTTATTCTTTTTTCGTA-ATC
5744894 ATTCTTTTATTC
1 ATTCTTTTATTC
5744906 ATTTCATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 2 0.06
24 14 0.41
26 6 0.18
27 12 0.35
ACGTcount: A:0.17, C:0.16, G:0.03, T:0.63
Consensus pattern (25 bp):
ATTCTTTTATTCTTTTTTCGTAATC
Found at i:5744917 original size:23 final size:23
Alignment explanation
Indices: 5744865--5744918 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
5744855 TTTTTTCGAG
* *
5744865 TAATTATTCTTTTATTCTTTTTC
1 TAATCATTCTTTTATTCTATTTC
5744888 TACATCATTCTTTTATTC-ATTTC
1 TA-ATCATTCTTTTATTCTATTTC
5744911 ATAATCAT
1 -TAATCAT
5744919 ATTTTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATCATTCTTTTATTCTATTTC
Found at i:5750086 original size:99 final size:100
Alignment explanation
Indices: 5749873--5750059 Score: 270
Period size: 100 Copynumber: 1.9 Consensus size: 100
5749863 ACATTGCATT
* * *
5749873 TTAAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCCTGGCGATGCAGTGGACCAGATTGAAG
1 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGATGCAGTGGACCAGATTGAAG
*
5749938 CTACGACGGTGGATCTGGTTTCCCTAACAGCGCAA
66 CTACGACGGCGGATCTGGTTTCCCTAACAGCGCAA
* * * *
5749973 TTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTAGC-AGTGCAGTTGA-CAGGTTGAA
1 TTAAAAAGATTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGA-TGCAGTGGACCAGATTGAA
*
5750036 GCTACGACGGCGGATCTTGTTTCC
65 GCTACGACGGCGGATCTGGTTTCC
5750060 TCGACATTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 31 0.40
100 46 0.60
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (100 bp):
TTAAAAAGATTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGATGCAGTGGACCAGATTGAAG
CTACGACGGCGGATCTGGTTTCCCTAACAGCGCAA
Found at i:5751017 original size:21 final size:22
Alignment explanation
Indices: 5750976--5751020 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
5750966 GGTTCCGTTT
5750976 TTTTCCTTTTTTTACTGTCTTG
1 TTTTCCTTTTTTTACTGTCTTG
*
5750998 TTTT-CTTTATTTT-CTTTCTTG
1 TTTTCCTTT-TTTTACTGTCTTG
5751019 TT
1 TT
5751021 CTTTAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTCCTTTTTTTACTGTCTTG
Found at i:5751528 original size:19 final size:19
Alignment explanation
Indices: 5751504--5751561 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
5751494 TTTATTACTA
5751504 TATTATTATTAGCATT-TAT
1 TATTATTATTA-CATTATAT
* *
5751523 TATTATTGTTATATTATAT
1 TATTATTATTACATTATAT
5751542 TATTATTA-TACA-TATAT
1 TATTATTATTACATTATAT
5751559 TAT
1 TAT
5751562 ATGCGCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 20 0.59
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TATTATTATTACATTATAT
Found at i:5754862 original size:43 final size:43
Alignment explanation
Indices: 5754704--5754860 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
5754694 TATGTGTTTT
* * * *
5754704 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
* * *
5754747 CGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGATT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
* *
5754788 CGTGTAAGACC-CTGTCTGGGACACTGGCATTGATATATGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATATGATTA
* *
5754831 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
5754861 TGTACGAGTT
Statistics
Matches: 96, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 27 0.28
42 14 0.15
43 54 0.56
44 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
Found at i:5757981 original size:20 final size:21
Alignment explanation
Indices: 5757956--5757995 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5757946 TGATCTCATC
*
5757956 ATTTTA-CCATGATAATTTCT
1 ATTTTATCCACGATAATTTCT
5757976 ATTTTATCCACGATAATTTC
1 ATTTTATCCACGATAATTTC
5757996 AACTTGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTTTATCCACGATAATTTCT
Found at i:5762092 original size:453 final size:451
Alignment explanation
Indices: 5761248--5762139 Score: 1389
Period size: 453 Copynumber: 2.0 Consensus size: 451
5761238 GCATCGATTG
* *
5761248 AAACTTATAGACTTCTTTTTGAACAATTTCTATAGAGAAATCCCATCATGGTTTGATTCCTTCCC
1 AAACTTATAGACTTCGTTTTGAACAATTTCTAGAGAGAAATCCCATCATGGTTTGATTCCTTCCC
5761313 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCTAATATGTTTG
66 TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCTAATATGTTTG
*
5761378 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGGAACAAGCTCTCCGGAAAAATTCCATTG
131 ATCATCTACCTAGATTGCAACAGCTTTACTTGGAA-GGAACAAGCCCTCCGGAAAAATTCCATTG
* ** *
5761443 GGTTATTCAAGTGCAAAGAGTTAGTGTTCATATCCTTGGCTGATAATAGGTTGGAAGGGATTCTG
195 GGTTATTCAAGTGCAAAGAGTTAGAGGACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCTA
* * *
5761508 CCGAAAGAAATAGGAAACTTGACAATGCTTAGGAATCTATATCTCTACAACAACCTGTTCGAAGG
260 CCGAAAGAAATAGGAAACTTGACAATACTTAGGAATCTATATCTCGACAACAACCTATTCGAAGG
* *
5761573 TAAACGGAAAGCAGGTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTTG
325 TAAACGAAAAGCAGCTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTTG
*
5761638 TTTGGTAAGAAAGCTTCAA-TACTTTTTTTTTTTTACCAAGTAAAAATTTAAACTTCATTTT
390 TTTGGTAAGAAAGCTTCAATTAATTTTTTTTTTTTACCAAGTAAAAATTTAAACTTCATTTT
* * *
5761699 AAACTTATAGACTT-GTTTTGAAACAATTTCTAGGGAGAAATCTCGTCATGGTTTGATTCCTTCC
1 AAACTTATAGACTTCGTTTTG-AACAATTTCTAGAGAGAAATCCCATCATGGTTTGATTCCTTCC
* * * *
5761763 CTAAACTTCAATACTTTGTGTTTGAGCTTTACCAATCTTGCAGGTGAGATCCCATC-AGATATGT
65 CTAAACTTCAATAC-TTGTCTTTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCTA-ATATGT
* ** * * *
5761827 TTGATCATCTATCTAGATTGCAAGTGCTTTACTTGGGTAA-GAACAATCCCTCTGGCAAAATTCC
128 TTGATCATCTACCTAGATTGCAACAGCTTTACTT-GG-AAGGAACAAGCCCTCCGGAAAAATTCC
5761891 ATTGGGTTTATTCAAGTGCAAAGAGTTAGAGGACATATCCTTGGCTGATAATAGGTTGGAAGGGA
191 ATTGGG-TTATTCAAGTGCAAAGAGTTAGAGGACATATCCTTGGCTGATAATAGGTTGGAAGGGA
*
5761956 TTCTACCGAAAGAAATAGGAAACTTGACAATACTTAGGAGTCTATATCTCGACAACAACCTATTC
255 TTCTACCGAAAGAAATAGGAAACTTGACAATACTTAGGAATCTATATCTCGACAACAACCTATTC
* *
5762021 GAAGGTAAACGAAAAGCAGCT-AGGTGTTATTTTAATTTGTTGTCTTTCTCCGACTGCAATATCT
320 GAAGGTAAACGAAAAGCAGCTGA-ATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCT
5762085 GCTTTGTTTGGTAAGAAAGCTTCAATTCTTAATTTTTTTTTTTTACCAAGTAAAA
384 GCTTTGTTTGGTAAGAAAGCTTCAA---TTAATTTTTTTTTTTTACCAAGTAAAA
5762140 TTTTGAAGTT
Statistics
Matches: 401, Mismatches: 29, Indels: 16
0.90 0.07 0.04
Matches are distributed among these distances:
450 5 0.01
451 68 0.17
452 101 0.25
453 200 0.50
454 2 0.00
457 25 0.06
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (451 bp):
AAACTTATAGACTTCGTTTTGAACAATTTCTAGAGAGAAATCCCATCATGGTTTGATTCCTTCCC
TAAACTTCAATACTTGTCTTTGAGCTCTAACAATCTTGCAGGAGAGATCCCATCTAATATGTTTG
ATCATCTACCTAGATTGCAACAGCTTTACTTGGAAGGAACAAGCCCTCCGGAAAAATTCCATTGG
GTTATTCAAGTGCAAAGAGTTAGAGGACATATCCTTGGCTGATAATAGGTTGGAAGGGATTCTAC
CGAAAGAAATAGGAAACTTGACAATACTTAGGAATCTATATCTCGACAACAACCTATTCGAAGGT
AAACGAAAAGCAGCTGAATGTTATTTTAATTTGTTGTCTTTCTCCAACTGCAATATCTGCTTTGT
TTGGTAAGAAAGCTTCAATTAATTTTTTTTTTTTACCAAGTAAAAATTTAAACTTCATTTT
Found at i:5762603 original size:18 final size:18
Alignment explanation
Indices: 5762580--5762614 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5762570 ATGTATTTAA
* *
5762580 AATAAATTTGTAACATAC
1 AATAAATATGAAACATAC
5762598 AATAAATATGAAACATA
1 AATAAATATGAAACATA
5762615 AAGTTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.29
Consensus pattern (18 bp):
AATAAATATGAAACATAC
Found at i:5766587 original size:12 final size:12
Alignment explanation
Indices: 5766566--5766596 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5766556 TTTTATAATC
*
5766566 TTATTCATTTCT
1 TTATTTATTTCT
5766578 TTATTTATTTCT
1 TTATTTATTTCT
5766590 TTATTTA
1 TTATTTA
5766597 CATTTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:5767044 original size:72 final size:72
Alignment explanation
Indices: 5766928--5767068 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
5766918 TCTTTTCAAA
* *
5766928 CTCAAGTTTTAAAGGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACT-GGCATGATCCA
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
5766992 TTTTTTT
66 TTTTTTT
*
5766999 CTCAAGTTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGGTCC
1 CTCAAG-TTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
*
5767064 CTTTT
65 ATTTT
5767069 CTAAACTCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 6 0.09
72 45 0.70
73 13 0.20
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
TTTTTTT
Found at i:5770323 original size:24 final size:24
Alignment explanation
Indices: 5770296--5770347 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
5770286 TTAGTAAGTC
*
5770296 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
5770320 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
5770344 AAAT
1 AAAT
5770348 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:5774240 original size:19 final size:19
Alignment explanation
Indices: 5774216--5774272 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
5774206 ATATTTTTAT
5774216 ATTATTTATTTT-TAATATA
1 ATTATTTATTTTATAAT-TA
5774235 ATTATTCT-TTTTATAATTA
1 ATTATT-TATTTTATAATTA
5774254 ATT-TTTAATTTGTATAATT
1 ATTATTT-ATTT-TATAATT
5774273 TCAAGAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 18 0.55
20 12 0.36
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTATTTATTTTATAATTA
Found at i:5774581 original size:14 final size:16
Alignment explanation
Indices: 5774555--5774586 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
5774545 TATATAAAAT
5774555 TTAAAACTTATTT-TA
1 TTAAAACTTATTTATA
5774570 TTAAAA-TTATTTATA
1 TTAAAACTTATTTATA
5774585 TT
1 TT
5774587 TTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAAACTTATTTATA
Found at i:5774771 original size:16 final size:18
Alignment explanation
Indices: 5774752--5774784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5774742 TCTAAAGTAT
5774752 TAAT-ATTTT-AAAAATC
1 TAATAATTTTCAAAAATC
5774768 TAATAATTTTCAAAAAT
1 TAATAATTTTCAAAAAT
5774785 TTTCTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATTTTCAAAAATC
Found at i:5775516 original size:21 final size:22
Alignment explanation
Indices: 5775483--5775523 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5775473 CAATTTCTCA
* *
5775483 ATCTAATATATATATTTCAATC
1 ATCTAAGATATATAATTCAATC
5775505 ATCTAAGA-ATATAATTCAA
1 ATCTAAGATATATAATTCAA
5775524 GTTACACGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
ATCTAAGATATATAATTCAATC
Found at i:5776330 original size:50 final size:50
Alignment explanation
Indices: 5776202--5776584 Score: 353
Period size: 50 Copynumber: 7.6 Consensus size: 50
5776192 GATAATAACA
* * ** * * **
5776202 TGCCAAAGCCATGTTCCAGACATGGTCTTACATGGGATGTTTTC-T-GCAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * * **
5776251 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
5776301 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** * *
5776351 TGCCCATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
5776401 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * **
5776451 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATTTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
5776507 TGCCAATGCCATGTCCCAGACATGGTCTTACACT---AGCTCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATATCGG
* * *
5776555 TGTCGATGTCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
5776585 TACGAGATCA
Statistics
Matches: 288, Mismatches: 37, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
48 33 0.11
49 33 0.11
50 178 0.62
51 2 0.01
53 3 0.01
54 7 0.02
56 31 0.11
57 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:5777691 original size:30 final size:31
Alignment explanation
Indices: 5777623--5777681 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
5777613 CACCCTTAAA
**
5777623 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAACCCTTCAACTTTTTC
5777654 ATATTTACACT-TTAACCCTTCAACTTTT
1 ATATTTACACTATTAACCCTTCAACTTTT
5777682 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAACTTTTTC
Found at i:5780749 original size:24 final size:26
Alignment explanation
Indices: 5780696--5780751 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 26
5780686 AACAAATGTC
5780696 TATTTTCGTAATTAATTTATTTTCCATA
1 TATTTTCGTAATTAATTTATTTT-C-TA
*
5780724 TATTTTGGTAATTAA-TTATTTT-TA
1 TATTTTCGTAATTAATTTATTTTCTA
5780748 TATT
1 TATT
5780752 ATTTATGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 6 0.22
27 7 0.26
28 14 0.52
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (26 bp):
TATTTTCGTAATTAATTTATTTTCTA
Found at i:5787833 original size:10 final size:10
Alignment explanation
Indices: 5787820--5787844 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5787810 TTTTTAATAG
5787820 TTTTATTTAA
1 TTTTATTTAA
5787830 TTTTATTTAA
1 TTTTATTTAA
5787840 TTTTA
1 TTTTA
5787845 AAGAGTAAAG
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTATTTAA
Found at i:5789094 original size:35 final size:35
Alignment explanation
Indices: 5789044--5789114 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
5789034 TTTTAGGGGG
*
5789044 GTCGAGGCCCTTGCCTACTCCTTGGCTCCGCCACT
1 GTCGAGGCCCCTGCCTACTCCTTGGCTCCGCCACT
*
5789079 GTCGAGGCCCCTGCCTATTCCTTGGCTCCGCCACT
1 GTCGAGGCCCCTGCCTACTCCTTGGCTCCGCCACT
5789114 G
1 G
5789115 ATCTTAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.08, C:0.42, G:0.24, T:0.25
Consensus pattern (35 bp):
GTCGAGGCCCCTGCCTACTCCTTGGCTCCGCCACT
Found at i:5799308 original size:18 final size:17
Alignment explanation
Indices: 5799280--5799314 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5799270 ATTATTAAGA
*
5799280 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5799297 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5799315 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5799452 original size:18 final size:17
Alignment explanation
Indices: 5799424--5799458 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5799414 ATTATTAAGA
*
5799424 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
5799441 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
5799459 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:5799669 original size:44 final size:45
Alignment explanation
Indices: 5799620--5799714 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
5799610 TTACACCTCT
* *
5799620 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
5799664 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
5799709 ATTACA
1 ATTACA
5799715 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:5799714 original size:16 final size:16
Alignment explanation
Indices: 5799693--5799725 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5799683 TTGATTTGCT
*
5799693 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
5799709 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
5799725 A
1 A
5799726 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:5799735 original size:21 final size:21
Alignment explanation
Indices: 5799706--5799748 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5799696 ACACCTCTAT
*
5799706 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
5799727 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
5799748 T
1 T
5799749 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:5806902 original size:6 final size:6
Alignment explanation
Indices: 5806892--5806922 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5806882 TGAGGAAGAT
*
5806892 AATGGT AATGGA AATGGA AATGGA AATGGA A
1 AATGGA AATGGA AATGGA AATGGA AATGGA A
5806923 TAGCTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (6 bp):
AATGGA
Found at i:5817026 original size:18 final size:18
Alignment explanation
Indices: 5817005--5817063 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
5816995 TAGACTGAAT
5817005 CCAAATGCTTCGATCTTA
1 CCAAATGCTTCGATCTTA
* *
5817023 CCAAAT--TTAGA-CTGAA
1 CCAAATGCTTCGATCT-TA
*
5817039 TCTAAATGCTTCGATCTTA
1 -CCAAATGCTTCGATCTTA
5817058 CCAAAT
1 CCAAAT
5817064 TTTGAACTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 5 0.17
18 11 0.37
19 5 0.17
20 2 0.07
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (18 bp):
CCAAATGCTTCGATCTTA
Found at i:5817046 original size:35 final size:35
Alignment explanation
Indices: 5816995--5817065 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
5816985 CTCATCCTGC
5816995 TAGACTGAATCCAAATGCTTCGATCTTACCAAATT
1 TAGACTGAATCCAAATGCTTCGATCTTACCAAATT
*
5817030 TAGACTGAATCTAAATGCTTCGATCTTACCAAATT
1 TAGACTGAATCCAAATGCTTCGATCTTACCAAATT
5817065 T
1 T
5817066 TGAACTTGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (35 bp):
TAGACTGAATCCAAATGCTTCGATCTTACCAAATT
Found at i:5827905 original size:27 final size:26
Alignment explanation
Indices: 5827843--5827905 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
5827833 ATAAAAAATA
*
5827843 ACCAAAATATTATAATTTTTTTATTT
1 ACCAAAATACTATAATTTTTTTATTT
5827869 ACCAAAATACTATAATTTTTTTATTT
1 ACCAAAATACTATAATTTTTTTATTT
5827895 ACCAAATATAC
1 ACCAAA-ATAC
5827906 AATGTACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (26 bp):
ACCAAAATACTATAATTTTTTTATTT
Found at i:5828780 original size:11 final size:11
Alignment explanation
Indices: 5828764--5828798 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5828754 CCCTTTCCCC
5828764 CTCCCTTCTCT
1 CTCCCTTCTCT
5828775 CTCCCTTCTCT
1 CTCCCTTCTCT
5828786 CTTCCC-TCTCT
1 C-TCCCTTCTCT
5828797 CT
1 CT
5828799 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:5829280 original size:3 final size:3
Alignment explanation
Indices: 5829274--5829335 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
5829264 GTTGTCTTTA
* * * *
5829274 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
5829320 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
5829336 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:5829332 original size:23 final size:22
Alignment explanation
Indices: 5829277--5829338 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
5829267 GTCTTTATAT
*
5829277 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
5829298 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
5829320 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
5829339 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:5829345 original size:23 final size:23
Alignment explanation
Indices: 5829272--5829346 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
5829262 TTGTTGTCTT
* *
5829272 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
5829295 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
5829320 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
5829343 TATA
1 TATA
5829347 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:5829777 original size:19 final size:18
Alignment explanation
Indices: 5829733--5829792 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
5829723 ATTATCATTG
5829733 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
5829751 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
5829773 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
5829793 ATTGCATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:5829802 original size:64 final size:64
Alignment explanation
Indices: 5829671--5829802 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
5829661 GTCGTATTAT
* *
5829671 TATATTTTAATATTATATTATATAATTATATATACATATATCTTTTATATATATTATCATTGTA
1 TATATTTTAATATTATATTATATAATTACATATACATATATCTTTTATATATATTATCATTGCA
* * *
5829735 TATATTTTAATATTATTAGTTATAT-TTTACACTATTATATATAT-TTTTCTA-ATATTAT-ATT
1 TATATTTTAATATTA-TA-TTATATAATTACA-TA-TACATATATCTTTTATATATATTATCATT
5829796 GCA
62 GCA
5829799 TATA
1 TATA
5829803 CTGTTGTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
64 24 0.41
65 13 0.22
66 14 0.24
67 8 0.14
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (64 bp):
TATATTTTAATATTATATTATATAATTACATATACATATATCTTTTATATATATTATCATTGCA
Found at i:5830235 original size:38 final size:37
Alignment explanation
Indices: 5830151--5830245 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
5830141 TATACGTACT
*
5830151 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
5830189 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
5830225 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
5830246 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:5842455 original size:132 final size:131
Alignment explanation
Indices: 5842204--5843505 Score: 1189
Period size: 131 Copynumber: 9.9 Consensus size: 131
5842194 AGTCATTAAA
* * * * * * *
5842204 GCAGATCTTGTCTTCATGTATTGGCAGTGAAGTAGATCAAAGATAA-CAGGTC-CGTCTTCCTAT
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATAT
* * * * ** * * * *
5842267 ATTGGTAG-GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
64 ATTGGT-GTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATCG
* *
5842330 AAGAAA
127 ACG-AT
* * *
5842336 GCAGATCTTATCTTCCATATATTGGT-GTGAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCTAT
1 GCAGATCTTGTCTTCC-TATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATAT
* * ** * * * *
5842399 ATTGGTGGGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGAT--
64 ATTGGTGTGAAGTAGATCAAAGATAA-CAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATCG
*
5842460 A-AAT
127 ACGAT
* * * * * * * * **
5842464 AACAGGTCCTATCTTCCTATATTGGTAGGAAATGGATCGACG-ATGCAGATCTTGTCTTCCCATA
1 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATA
* * ** * * * *
5842528 TTGGTGGCGAAGTAGATCGAAGA-AGAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
65 TTGGT-GTGAAGTAGATCAAAGATA-A-CAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATC
* *
5842591 AAAGAT
126 GACGAT
* * * * **
5842597 AGCAGGTC--CTCTTCCTATATTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATA
1 -GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATA
* * *** * * *
5842659 TTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTATC-TCATATATTGG-CGTGAAGTAGATCG
65 TTGGT-GTGAAGTAGATCAAAGATAA-CAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATCG
*
5842721 AAGAT
127 ACGAT
* * *
5842726 GCAGAT-TCTATCTTCCTATATTGGTAGGAAGTAGA-CGAAGAAAGTAGATCTTGTCTTCATGTA
1 GCAGATCT-TGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATA
** * *
5842789 TTGACGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACG
65 TTGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACG
5842854 AT
130 AT
* * * * *
5842856 GC-GATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATA
* *
5842920 TTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACG
65 TTGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACG
5842985 AT
130 AT
* *
5842987 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATC-ACAGAAAGCAGATCTTATTTTCATATA
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGA-AGAAAGCAGATCTTGTCTTCATATA
* * *
5843051 TTGATGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAAGAAGTGGATCGACG
65 TTGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACG
5843116 AT
130 AT
* * * * * * *
5843118 GTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTA
1 GCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATA
* * *
5843183 TTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACG
65 TTGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACG
5843248 AT
130 AT
* * * *
5843250 GCAGATCTTGTCTTCCCATACTGGT-GGCAAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGT
1 GCAGATCTTGTCTTCCTATATTGGTAGG--AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATAT
* * *
5843314 ATTGGCGTGAAGTAGATCAAAGATAAAAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGAC
64 ATTGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCGAC
5843379 GAT
129 GAT
* * *
5843382 GCAGATCTTGTCTTCCTACATTGGTAGGAAGTAGATC-ACAGAAAGCAGATCTTATTTTCATATA
1 GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGA-AGAAAGCAGATCTTGTCTTCATATA
* * ** * * *
5843446 TTGATGTGAAATAGATTGAAGATAGCAGATCCTGCCTTCCTATATTGGTAGGAAGTGGAT
65 TTGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGAT
5843506 TGAAGAACAG
Statistics
Matches: 1033, Mismatches: 106, Indels: 63
0.86 0.09 0.05
Matches are distributed among these distances:
128 52 0.05
129 104 0.10
130 133 0.13
131 375 0.36
132 331 0.32
133 38 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (131 bp):
GCAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATATAT
TGGTGTGAAGTAGATCAAAGATAACAGATCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGA
T
Found at i:5842960 original size:348 final size:346
Alignment explanation
Indices: 5842201--5843132 Score: 1482
Period size: 348 Copynumber: 2.7 Consensus size: 346
5842191 TGAAGTCATT
5842201 AAAGCAGATCTTGTCTTCATGTATTGGCAGTGAAGTAGATCAAAGATAACAGGTCCGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAACAGGTCCGTCTTCCTA
*
5842266 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
5842331 AGAAAGCAGATCTTATCTTCCATATATTGGTGTGAAGTAGATCGAAGATGCAGA-TCTTGTCTTC
130 AGAAAGCAGATCTTATC-T-CATATATTGGTGTGAAGTAGATCGAAGATGCAGATTC-TGTCTTC
* * *
5842395 CTATATTGGTGGGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT
192 CTATATTGGTAGGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGACGTGAAGTAGAT
*
5842460 AAATAACAGGTCCTATCTTCCTATATTGGTAGGAAATGGATCGACGATGCAGATCTTGTCTTCCC
257 AAATAACAGGTCCGATCTTCCTATATTGGTAGGAAATGGATCGACGATGCAGATCTTGTCTTCCC
* *
5842525 ATATTGGTGGCGAAGTAGATCGAAG
322 ATACTGGTGGCGAAGCAGATCGAAG
*
5842550 AAGAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCC-TCTTCCTA
1 AA-AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGTCTTCCTA
*
5842614 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
65 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
* *
5842679 AGAAAGCAGATCTTATCTCATATATTGGCGTGAAGTAGATCGAAGATGCAGATTCTATCTTCCTA
130 AGAAAGCAGATCTTATCTCATATATTGGTGTGAAGTAGATCGAAGATGCAGATTCTGTCTTCCTA
5842744 TATTGGTAGGAAGTAGA-CGAAGAAAGTAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAA
195 TATTGGTAGGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGACGTGAAGTAGAT--A
*
5842808 AGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGATGC-GATCTTGTCTTCCC
258 A-ATAACAGGTCCGATCTTCCTATATTGGTAGGAAATGGATCGACGATGCAGATCTTGTCTTCCC
5842872 ATACTGGTGGCGAAGCAGATCGAAG
322 ATACTGGTGGCGAAGCAGATCGAAG
5842897 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCC-GTCTTCCTA
* *
5842962 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATC-A
65 TATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
* * * * * * *
5843025 CAGAAAGCAGATCTTATTTTCATATATTGATGTGAAGTAGATCAAAGATAACAGGTCCGGTCTTC
130 -AGAAAGCAGATCTTA-TCTCATATATTGGTGTGAAGTAGATCGAAGAT-GCAGATTCTGTCTTC
* * * *
5843090 CTATATTGGTAAGAAGTGGATCGACG-ATGTAGATCTTGTCTTC
192 CTATATTGGTAGGAAGTAGATCGAAGAAAGTAGATCTTGTCTTC
5843133 CCATACTGGT
Statistics
Matches: 543, Mismatches: 29, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
345 42 0.08
346 111 0.20
347 69 0.13
348 219 0.40
349 72 0.13
350 30 0.06
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (346 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAGGTCCGTCTTCCTAT
ATTGGTAGGAAGTGGATCGACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAA
GAAAGCAGATCTTATCTCATATATTGGTGTGAAGTAGATCGAAGATGCAGATTCTGTCTTCCTAT
ATTGGTAGGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGACGTGAAGTAGATAAAT
AACAGGTCCGATCTTCCTATATTGGTAGGAAATGGATCGACGATGCAGATCTTGTCTTCCCATAC
TGGTGGCGAAGCAGATCGAAG
Found at i:5843106 original size:44 final size:44
Alignment explanation
Indices: 5842205--5843511 Score: 905
Period size: 44 Copynumber: 29.9 Consensus size: 44
5842195 GTCATTAAAG
* * * * *
5842205 CAGATCTTGTCTTCATGTATTGGCAGTGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTATATTGG-TGGGAAGTAGATCGAAGATAA
* * * * * *
5842250 CAGGTC-CGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* *
5842292 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGG-GAAGTAGATCGAAGATAA
* * *
5842336 GCAGATCTTATCTTCCATATATTGGTGTGAAGTAGATCGAAGAT-G
1 -CAGATCTTGTCTTCC-TATATTGGTGGGAAGTAGATCGAAGATAA
5842381 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * *
5842424 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGAT--AA-ATAA
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * * * * * *
5842466 CAGGTCCTATCTTCCTATATTGGTAGGAAATGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
*
5842509 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-AGA
1 CAGATCTTGTCTTCCTATATTGGTGG-GAAGTAGATCGAAGATA-A
* * * * * *
5842554 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * * *
5842599 CAGGTC--CTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
*
5842640 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGG-GAAGTAGATCGAAGATAA
* * * * *
5842684 GCAGATCTTATC-TCATATATTGGCGTGAAGTAGATCGAAGAT-G
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* *
5842727 CAGAT-TCTATCTTCCTATATTGGTAGGAAGTAGA-CGAAGA-AA
1 CAGATCT-TGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * ** * *
5842769 GTAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* ** * * * * *
5842814 CAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * *
5842857 C-GATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGG-GAAGTAGATCGAAGATAA
* * * * *
5842900 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* ** * * * *
5842945 CAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
*
5842988 CAGATCTTGTCTTCCTATATTGGTAGGAAGTAGATC-ACAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGA-AGATAA
* * * * * *
5843031 GCAGATCTTATTTTCATATATTGATGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* ** ** * * *
5843076 CAGGTCCGGTCTTCCTATATTGGTAAGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * *
5843119 TAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGG-GAAGTAGATCGAAGATAA
* * * * * *
5843163 GCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* ** * * * * *
5843208 CAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * *
5843251 CAGATCTTGTCTTCCCATACTGGTGGCAAAGCAGATCGAAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGG-GAAGTAGATCGAAGATAA
* * * * *
5843295 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAA
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * ** * * * *
5843340 AAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGAT-G
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* *
5843383 CAGATCTTGTCTTCCTACATTGGTAGGAAGTAGATC-ACAGA-AA
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGA-AGATAA
* * * * * * * *
5843426 GCAGATCTTATTTTCATATATTGATGTGAAATAGATTGAAGATAG
1 -CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
* * * * *
5843471 CAGATCCTGCCTTCCTATATTGGTAGGAAGTGGATTGAAGA
1 CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGA
5843512 ACAGACTCTA
Statistics
Matches: 946, Mismatches: 263, Indels: 107
0.72 0.20 0.08
Matches are distributed among these distances:
41 33 0.03
42 70 0.07
43 263 0.28
44 423 0.45
45 127 0.13
46 30 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
CAGATCTTGTCTTCCTATATTGGTGGGAAGTAGATCGAAGATAA
Found at i:5843348 original size:395 final size:392
Alignment explanation
Indices: 5842606--5843524 Score: 1382
Period size: 395 Copynumber: 2.3 Consensus size: 392
5842596 TAGCAGGTCC
* * * * ** * *
5842606 TCTTCCTATATTGGTAGGAAGTGGATCGA-AG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGA
1 TCTTCCTATATTGGTAGGAAGTAGATC-ACAGAAAGCAGATCTTATTTTCATATATTGAT-GTGA
* * * *** *
5842669 AGTAGATCGAAGA-AAGCAGATCTTATC-TCATATATTGGCGTGAAGTAGATCGAAGATGCAGAT
64 AGTAGATCGAAGATAA-CAGATCCTGTCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGAT
* * * * *
5842732 TCTATCTTCCTATATTGGTAGGAAGTAGACGAAGAAAGTAGATCTTGTCTTCATGTATTGACGTG
128 TCTATCTTCCCATACTGGTAGGAAGCAGACGAAGAAAGCAGATCTTATCTTCATGTATTGACGTG
5842797 AAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGATGCGATC
193 AAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGATGCGATC
*
5842862 TTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
258 TTGTCTTCCCATACTGGTGGCAAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
*
5842927 GAAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGA
323 GAAGTAGATCAAAGATAAAAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGA
5842992 TCTTG
388 TCTTG
5842997 TCTTCCTATATTGGTAGGAAGTAGATCACAGAAAGCAGATCTTATTTTCATATATTGATGTGAAG
1 TCTTCCTATATTGGTAGGAAGTAGATCACAGAAAGCAGATCTTATTTTCATATATTGATGTGAAG
* * * * *
5843062 TAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAAGAAGTGGATCGACGATGTAGA-TCT
66 TAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATTC-
* * *
5843126 TGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTG
130 TATCTTCCCATACTGGTAG-GAAGCAGA-CGAAGAAAGCAGATCTTATCTTCATGTATTGACGTG
5843191 AAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGATGCAGAT
193 AAGTAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGATGC-GAT
5843256 CTTGTCTTCCCATACTGGTGGCAAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
257 CTTGTCTTCCCATACTGGTGGCAAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCG
5843321 TGAAGTAGATCAAAGATAAAAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAG
322 TGAAGTAGATCAAAGATAAAAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAG
5843386 ATCTTG
387 ATCTTG
* *
5843392 TCTTCCTACATTGGTAGGAAGTAGATCACAGAAAGCAGATCTTATTTTCATATATTGATGTGAAA
1 TCTTCCTATATTGGTAGGAAGTAGATCACAGAAAGCAGATCTTATTTTCATATATTGATGTGAAG
* * * * * * *
5843457 TAGATTGAAGATAGCAGATCCTGCCTTCCTATATTGGTAGGAAGTGGATTGAAGA-ACAGACTCT
66 TAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATTCT
5843521 ATCT
131 ATCT
5843525 CCCTGTATTT
Statistics
Matches: 475, Mismatches: 44, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
390 1 0.00
391 52 0.11
392 66 0.14
393 7 0.01
394 101 0.21
395 248 0.52
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (392 bp):
TCTTCCTATATTGGTAGGAAGTAGATCACAGAAAGCAGATCTTATTTTCATATATTGATGTGAAG
TAGATCGAAGATAACAGATCCTGTCTTCCTATATTGGTAAGAAGTGGATCGAAGATGCAGATTCT
ATCTTCCCATACTGGTAGGAAGCAGACGAAGAAAGCAGATCTTATCTTCATGTATTGACGTGAAG
TAGATCAAAGATAACAGGTCCGGTCTTCCTATATTGGTAGGAAATGGATCGACGATGCGATCTTG
TCTTCCCATACTGGTGGCAAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAA
GTAGATCAAAGATAAAAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAGATCT
TG
Found at i:5844828 original size:11 final size:11
Alignment explanation
Indices: 5844812--5844846 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5844802 CCCTTTCCCC
5844812 CTCCCTTCTCT
1 CTCCCTTCTCT
5844823 CTCCCTTCTCT
1 CTCCCTTCTCT
5844834 CTTCCC-TCTCT
1 C-TCCCTTCTCT
5844845 CT
1 CT
5844847 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:5845327 original size:3 final size:3
Alignment explanation
Indices: 5845321--5845382 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
5845311 GTTGTCTTTA
* * * *
5845321 TAT TAT TAG TAT TAT TAG TAT TAC TAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
*
5845367 TAT ATAT TTT TAT TAT
1 TAT -TAT TAT TAT TAT
5845383 GTACGTGTAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:5845379 original size:23 final size:22
Alignment explanation
Indices: 5845324--5845385 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
5845314 GTCTTTATAT
*
5845324 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
5845345 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
5845367 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
5845386 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:5845392 original size:23 final size:23
Alignment explanation
Indices: 5845319--5845393 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
5845309 TTGTTGTCTT
* *
5845319 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
5845342 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
5845367 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
5845390 TATA
1 TATA
5845394 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:5845496 original size:3 final size:3
Alignment explanation
Indices: 5845483--5845518 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
5845473 TATTCCAATG
* *
5845483 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5845519 GTTTACGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5845829 original size:19 final size:18
Alignment explanation
Indices: 5845785--5845844 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
5845775 ATTATCATTG
5845785 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
5845803 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
5845825 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
5845845 ATTGCATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:5845854 original size:64 final size:64
Alignment explanation
Indices: 5845723--5845854 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
5845713 GTCGTATTAT
* *
5845723 TATATTTTAATATTATATTATATAATTATATATACATATATCTTTTATATATATTATCATTGTA
1 TATATTTTAATATTATATTATATAATTACATATACATATATCTTTTATATATATTATCATTGCA
* * *
5845787 TATATTTTAATATTATTAGTTATAT-TTTACACTATTATATATAT-TTTTCTA-ATATTAT-ATT
1 TATATTTTAATATTA-TA-TTATATAATTACA-TA-TACATATATCTTTTATATATATTATCATT
5845848 GCA
62 GCA
5845851 TATA
1 TATA
5845855 CTGTTGTTTA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
64 24 0.41
65 13 0.22
66 14 0.24
67 8 0.14
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (64 bp):
TATATTTTAATATTATATTATATAATTACATATACATATATCTTTTATATATATTATCATTGCA
Found at i:5846286 original size:38 final size:37
Alignment explanation
Indices: 5846202--5846296 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
5846192 TATACGTACT
*
5846202 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
5846240 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
5846276 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
5846297 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:5847413 original size:27 final size:27
Alignment explanation
Indices: 5847383--5847434 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
5847373 GGCCAATCAC
5847383 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
5847410 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
5847435 GACTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.33, T:0.13
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:5848012 original size:19 final size:19
Alignment explanation
Indices: 5847988--5848080 Score: 109
Period size: 19 Copynumber: 5.0 Consensus size: 19
5847978 TCTAATTAAG
5847988 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
5848007 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
5848025 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
5848044 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
*
5848062 TACTAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
5848081 AAATTAAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
18 29 0.49
19 30 0.51
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:5848029 original size:37 final size:37
Alignment explanation
Indices: 5847988--5848080 Score: 177
Period size: 37 Copynumber: 2.5 Consensus size: 37
5847978 TCTAATTAAG
5847988 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
5848025 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
5848062 TACTAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
5848081 AAATTAAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:5848300 original size:26 final size:28
Alignment explanation
Indices: 5848249--5848309 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
5848239 TTTTTTTGGT
5848249 ATATTTT-AGTAAATAAAAAAATTTATA
1 ATATTTTGAGTAAATAAAAAAATTTATA
5848276 ATATTTTGA-TAAATAAAAAAA-TTATA
1 ATATTTTGAGTAAATAAAAAAATTTATA
*
5848302 ATGTTTTG
1 ATATTTTG
5848310 GTTATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 12 0.38
27 19 0.59
28 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.43
Consensus pattern (28 bp):
ATATTTTGAGTAAATAAAAAAATTTATA
Found at i:5851020 original size:15 final size:15
Alignment explanation
Indices: 5851000--5851033 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5850990 TTTATTTTTG
* *
5851000 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
5851015 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
5851030 TTAT
1 TTAT
5851034 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:5852688 original size:18 final size:18
Alignment explanation
Indices: 5852665--5852723 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
5852655 TTGCGTCTTG
*
5852665 ATGAGCTCGCAACTTTGA
1 ATGAGCTCACAACTTTGA
* *
5852683 ATGAGCTCATAACTGTGA
1 ATGAGCTCACAACTTTGA
*
5852701 ATGAACTCACAGA-TTTGA
1 ATGAGCTCACA-ACTTTGA
5852719 ATGAG
1 ATGAG
5852724 TTAGTAGGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
18 32 0.97
19 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (18 bp):
ATGAGCTCACAACTTTGA
Found at i:5857056 original size:16 final size:16
Alignment explanation
Indices: 5857035--5857087 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
5857025 TTAATTCGCC
*
5857035 GTAATGGAATAGAGGT
1 GTAATGGAATAAAGGT
*
5857051 GTAATGGAATAAAGCT
1 GTAATGGAATAAAGGT
* *
5857067 GTAATAGAATAAAGGC
1 GTAATGGAATAAAGGT
5857083 GTAAT
1 GTAAT
5857088 AGTAATTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAAAGGT
Found at i:5857360 original size:17 final size:17
Alignment explanation
Indices: 5857318--5857353 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
5857308 AATTATTATT
5857318 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
5857335 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
5857352 AA
1 AA
5857354 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:5857435 original size:119 final size:119
Alignment explanation
Indices: 5857300--5857656 Score: 619
Period size: 119 Copynumber: 3.0 Consensus size: 119
5857290 TTAATCATAT
* *
5857300 TTTAACATAATTATTATTAAATATAATTTAATAAAAA-ATATAATTTAATAAAAATCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATA-T
*
5857364 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
5857419 TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTACTATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATA
*
5857484 ATTATTCTTATATGAATTTACTAAAATCACAATATATAATACTATAAAATATAA
66 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
5857538 TTTAAAATTATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATA
*
5857603 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAAAA-ATAA
66 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
5857656 T
1 T
5857657 ATATAATCTA
Statistics
Matches: 227, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
118 5 0.02
119 199 0.88
120 23 0.10
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (119 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAAATTCTTAATATA
ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:5857471 original size:59 final size:57
Alignment explanation
Indices: 5857296--5857633 Score: 239
Period size: 56 Copynumber: 5.8 Consensus size: 57
5857286 TAATTTAATC
*
5857296 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAAA-ATATAATTTAATAAA
1 ATATTTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAA
* * * * * * *
5857352 A-ATCTTAATATTAAATATTCTT--ATATGAATTTACTAAAATCATAATATATAATACTATAAA
1 ATATTTTAA-AATAATTATTATTAAATAT-AATTTAATAAAAACAT-ATA-AT-TTA--ATAAA
5857413 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAA
1 ATAT--TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAA
* ** * * *
5857472 AT-TCTTACTATAATTATTCTT--ATATGAATTTACTAAAATCACA-ATATATAATACTATAAA
1 ATATTTTAAAATAATTATTATTAAATAT-AATTTAATAAAA--ACATATA-AT-TTA--ATAAA
* *
5857532 ATATAATTTAAAATTATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAA
1 ATAT--TTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAA
* * * * *
5857591 AT-TCTTAATATAATTATTCTT--ATATGAATTTACTAAAATCATA
1 ATATTTTAAAATAATTATTATTAAATAT-AATTTAATAAAAACATA
5857634 ATATATAATA
Statistics
Matches: 219, Mismatches: 36, Indels: 55
0.71 0.12 0.18
Matches are distributed among these distances:
54 12 0.05
55 42 0.19
56 43 0.20
57 8 0.04
58 6 0.03
59 16 0.07
60 7 0.03
61 11 0.05
62 8 0.04
63 29 0.13
64 29 0.13
65 8 0.04
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (57 bp):
ATATTTTAAAATAATTATTATTAAATATAATTTAATAAAAACATATAATTTAATAAA
Found at i:5857787 original size:19 final size:19
Alignment explanation
Indices: 5857726--5857794 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
5857716 TAATGAAACA
5857726 AATAATTTAATTATTCTAC
1 AATAATTTAATTATTCTAC
* *
5857745 AATAA--AAAATA-T-TAGC
1 AATAATTTAATTATTCTA-C
*
5857761 AGTAATTTAATTATTCTAC
1 AATAATTTAATTATTCTAC
5857780 AATAATTTAA-TATTC
1 AATAATTTAATTATTC
5857795 ATATATTAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
15 2 0.05
16 6 0.15
17 4 0.10
18 9 0.23
19 16 0.41
20 2 0.05
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (19 bp):
AATAATTTAATTATTCTAC
Found at i:5859106 original size:49 final size:49
Alignment explanation
Indices: 5859034--5859137 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
5859024 GAAAAAAAAC
* * *
5859034 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
5859083 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
5859132 AAATTA
1 AAATTA
5859138 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:5865678 original size:37 final size:36
Alignment explanation
Indices: 5865617--5865687 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
5865607 AAAGAAAAAG
* *
5865617 AAAAGAGAAAAAAATCAAAATCAAAATCAAAAAACA
1 AAAAGAAAAAAAAATCAAAATCAAAAGCAAAAAACA
*
5865653 AAAAGAAAAGAAAAATCAAAGTCAAAAGCAAAAAA
1 AAAAGAAAA-AAAAATCAAAATCAAAAGCAAAAAA
5865688 GAGAAATCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 8 0.26
37 23 0.74
ACGTcount: A:0.75, C:0.10, G:0.08, T:0.07
Consensus pattern (36 bp):
AAAAGAAAAAAAAATCAAAATCAAAAGCAAAAAACA
Found at i:5867502 original size:44 final size:44
Alignment explanation
Indices: 5867449--5868226 Score: 336
Period size: 44 Copynumber: 17.8 Consensus size: 44
5867439 CGAAGAAGCA
*
5867449 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* ** * * * *
5867493 AATCCTATCTCCCCAAATTTGTAGTGGAG-ATGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGTCGAT
* * *
5867536 AGATCTTATCTCTCTGAAGTTGCAGT--AG-AG--TGGA-TCACATT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTC-GA-T
* * * *
5867577 AGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGTAAGCA-
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-CG-AT
** * * *
5867622 GGTCTTATC-CCGACTGAAGTTGCAGTGGGGCAGATCGAAGAT-GACC
1 AATCTTATCTCC--CTGAAGTTGCAGTGGAGCAGATTGAAG-TCGA-T
5867668 AATCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTGAAGTCGAT
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGTCGAT
* * * *
5867712 AATCCTATCTCCCTGAAGTTGTAGTGGAG-AGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGTCGAT
* * * * ** *
5867755 GGATCTTATCTCTCTGAACTTGCAGTAGAGTGGA-TCACA-TC-A-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTCGAT
** * * *
5867797 GGTCTTATCTCTCTGAAGTTACAGTGGAGCAGATT-AAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-CG-AT
** * * *
5867841 GGTCTTATC-CCGACTGAAGTTGCAGTGGGGCAGATCGAAGAT-GACC
1 AATCTTATCTCC--CTGAAGTTGCAGTGGAGCAGATTGAAG-TCGA-T
* *
5867887 AATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* * * * *
5867931 AATCCTATCTCCCCGAAGTTGTAGTAGG-G-AGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGT-GGAGCA-GATTGAAGTCGAT
* ** * * *
5867974 GGATCTTATCTCTTTAAAGTT---GT--AGCAGAGTGGA-TCGCAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCG-AT
* * *
5868014 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTG-AGTAAGCA-
1 -A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-CG-AT
** * * *
5868060 GGTCTTATC-CCCTTGAAGTTGTAGT-GAGGCAGATCGAAGAT-GACA
1 AATCTTATCTCCC-TGAAGTTGCAGTGGA-GCAGATTGAAG-TCGA-T
* *
5868105 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* * * * * *
5868149 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGT-AAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
* *
5868192 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
5868227 CACATCAAGT
Statistics
Matches: 556, Mismatches: 112, Indels: 132
0.69 0.14 0.17
Matches are distributed among these distances:
38 2 0.00
39 7 0.01
40 5 0.01
41 71 0.13
42 4 0.01
43 29 0.05
44 264 0.47
45 127 0.23
46 37 0.07
47 10 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCGAT
Found at i:5867828 original size:219 final size:219
Alignment explanation
Indices: 5867433--5868239 Score: 1246
Period size: 219 Copynumber: 3.7 Consensus size: 219
5867423 CAGTAGCGGA
* *
5867433 GCAGATCGAAGAAG-CAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATAATC
1 GCAGATCGAAGATGACAAATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGATAATC
* *
5867497 CTATCTCCCCAAATTTGTAGTGGAGATGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGT
66 CTATCTCCCCAAAGTTGTAGTGGAGAGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGT
* *
5867562 AGAGTGGATCACATTAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCAGGTCT
131 AGAGTGGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAGTAAGCAGGTCT
5867627 TATCCCGACTGAAGTTGCAGTGGG
196 TATCCCGACTGAAGTTGCAGTGGG
*
5867651 GCAGATCGAAGATGACCAATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGATAATC
1 GCAGATCGAAGATGACAAATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGATAATC
** * *
5867716 CTATCTCCCTGAAGTTGTAGTGGAGAGGATTAAAGTAATGGATCTTATCTCTCTGAACTTGCAGT
66 CTATCTCCCCAAAGTTGTAGTGGAGAGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGT
*
5867781 AGAGTGGATCACATCAGGTCTTATCTCTCTGAAGTTACAGTGGAGCAGATTAAGTAAGCAGGTCT
131 AGAGTGGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAGTAAGCAGGTCT
5867846 TATCCCGACTGAAGTTGCAGTGGG
196 TATCCCGACTGAAGTTGCAGTGGG
* * *
5867870 GCAGATCGAAGATGACCAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCAATAATC
1 GCAGATCGAAGATGACAAATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGATAATC
* * * * *
5867935 CTATCTCCCCGAAGTTGTAGTAGG-GAGGATTAAAGTAATGGATCTTATCTCTTTAAAGTTGTAG
66 CTATCTCCCCAAAGTTGTAGT-GGAGAGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAG
* * * * *
5867999 CAGAGTGGATCGCATCAGGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGAGTAAGCAGGTC
130 TAGAGTGGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAGTAAGCAGGTC
* *
5868064 TTATCCC--CTTGAAGTTGTAGTGAG
195 TTATCCCGAC-TGAAGTTGCAGTGGG
* *
5868088 GCAGATCGAAGATGACAAATCTTATCTCCCTGAA-GTTACAGTGGAGCAGATTGAAGCCGATAAT
1 GCAGATCGAAGATGACAAATCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTGAAGTCGATAAT
* *
5868152 CCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAG
65 CCTATCTCCCCAAAGTTGTAGTGGAGAGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAG
** *
5868217 TAGAGCAGATCACATCAAGTCTT
130 TAGAGTGGATCACATCAGGTCTT
5868240 GCTGACTAAA
Statistics
Matches: 540, Mismatches: 44, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
217 3 0.01
218 156 0.29
219 379 0.70
220 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (219 bp):
GCAGATCGAAGATGACAAATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGATAATC
CTATCTCCCCAAAGTTGTAGTGGAGAGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTGCAGT
AGAGTGGATCACATCAGGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAGTAAGCAGGTCT
TATCCCGACTGAAGTTGCAGTGGG
Found at i:5869043 original size:25 final size:25
Alignment explanation
Indices: 5868985--5869047 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
5868975 GAAAGAAGGT
* *
5868985 TTTTCTCTTTTCCTTTTCTCGATTG
1 TTTTCTCTTTTTCTTTGCTCGATTG
**
5869010 GGTTC-CTTTTTCTTTGC-CGATTG
1 TTTTCTCTTTTTCTTTGCTCGATTG
5869033 CTTTTCTCTTTTTCT
1 -TTTTCTCTTTTTCT
5869048 GTTTTGCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 6 0.20
24 13 0.43
25 11 0.37
ACGTcount: A:0.03, C:0.24, G:0.11, T:0.62
Consensus pattern (25 bp):
TTTTCTCTTTTTCTTTGCTCGATTG
Found at i:5871537 original size:18 final size:18
Alignment explanation
Indices: 5871514--5871551 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5871504 CTCACCCAAA
5871514 ATATTACA-TAATATTTTT
1 ATATTACATTAAT-TTTTT
*
5871532 ATATTATATTAATTTTTT
1 ATATTACATTAATTTTTT
5871550 AT
1 AT
5871552 GACGTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTACATTAATTTTTT
Found at i:5872700 original size:14 final size:15
Alignment explanation
Indices: 5872683--5872715 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5872673 ATAAATATTT
*
5872683 ATAAATATTATAA-A
1 ATAAATATAATAATA
5872697 ATAAATATAATAATA
1 ATAAATATAATAATA
5872712 ATAA
1 ATAA
5872716 TGGTAATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATATAATAATA
Found at i:5872821 original size:16 final size:16
Alignment explanation
Indices: 5872800--5872840 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
5872790 AAATAAAAAC
5872800 AATAAACAT-AACAAAT
1 AATAAACATAAAC-AAT
5872816 AATAAACAATAAACAAT
1 AATAAAC-ATAAACAAT
5872833 AA-AAACAT
1 AATAAACAT
5872841 GAAAACAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.09
16 11 0.48
17 7 0.30
18 3 0.13
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAAACATAAACAAT
Found at i:5873959 original size:15 final size:15
Alignment explanation
Indices: 5873925--5873966 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5873915 TTGCAAGAGA
5873925 TAAAAACTTAAT--T
1 TAAAAACTTAATGAT
*
5873938 GAAAAACTTAATGAT
1 TAAAAACTTAATGAT
*
5873953 TAAAAACTTGATGA
1 TAAAAACTTAATGA
5873967 AAAACTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (15 bp):
TAAAAACTTAATGAT
Found at i:5873981 original size:11 final size:12
Alignment explanation
Indices: 5873926--5874072 Score: 109
Period size: 12 Copynumber: 11.4 Consensus size: 12
5873916 TGCAAGAGAT
*
5873926 AAAAACTTAATTG
1 AAAAACTTGA-TG
*
5873939 AAAAACTTAATGATT
1 AAAAAC-T--TGATG
5873954 AAAAACTTGATG
1 AAAAACTTGATG
*
5873966 AAAAACTTTATG
1 AAAAACTTGATG
5873978 AAAAGACTTGATG
1 AAAA-ACTTGATG
*
5873991 AAAAACTT-A-A
1 AAAAACTTGATG
5874001 AAAGAACTTGATG
1 AAA-AACTTGATG
*
5874014 CAAAACTTGATAAG
1 AAAAACTTGAT--G
*
5874028 AAAAACTTGGTAATT
1 AAAAACTT-G--ATG
*
5874043 AAAAACTTGATA
1 AAAAACTTGATG
5874055 AAAGAACTTGATG
1 AAA-AACTTGATG
5874068 AAAAA
1 AAAAA
5874073 TACTTGAAGA
Statistics
Matches: 109, Mismatches: 12, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
10 3 0.03
11 6 0.06
12 39 0.36
13 30 0.28
14 11 0.10
15 16 0.15
16 2 0.02
17 2 0.02
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (12 bp):
AAAAACTTGATG
Found at i:5873981 original size:23 final size:24
Alignment explanation
Indices: 5873954--5874072 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 24
5873944 CTTAATGATT
*
5873954 AAAAACTTGATGAAAAACTTTATGA
1 AAAAACTTGATGAAAAACTTTA-AA
*
5873979 AAAGACTTGATGAAAAAC-TTAAA
1 AAAAACTTGATGAAAAACTTTAAA
* * *
5874002 AAGAACTTGATGCAAAACTTGATAAG
1 AAAAACTTGATGAAAAACTT--TAAA
* *
5874028 AAAAACTTGGTAATTAAAAACTTGATAA
1 AAAAACTT-G--ATGAAAAACTTTA-AA
*
5874056 AAGAACTTGATGAAAAA
1 AAAAACTTGATGAAAAA
5874073 TACTTGAAGA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
23 16 0.22
24 4 0.05
25 24 0.32
26 10 0.14
27 3 0.04
28 8 0.11
29 9 0.12
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.24
Consensus pattern (24 bp):
AAAAACTTGATGAAAAACTTTAAA
Found at i:5875651 original size:21 final size:21
Alignment explanation
Indices: 5875621--5875672 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
5875611 TGGGCTTGAA
5875621 ATTTTGGGCTAGAGTTTTTTT
1 ATTTTGGGCTAGAGTTTTTTT
*
5875642 ATTTTCGGCTAGAGTTTTTTT
1 ATTTTGGGCTAGAGTTTTTTT
5875663 ATTTTGGGCT
1 ATTTTGGGCT
5875673 TGGATATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.08, G:0.23, T:0.56
Consensus pattern (21 bp):
ATTTTGGGCTAGAGTTTTTTT
Found at i:5876625 original size:61 final size:62
Alignment explanation
Indices: 5876520--5876642 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 62
5876510 GCCGCTATTG
* * * * *
5876520 AACATGAGATTTTAGCGGCATTTGTGGATAAAGCGTCGCCAAAGAACATTATCTTTAGCGGC
1 AACATGAGACTTTAGCGGCATTTGTGCAAAAAGCGCCGCCAAAGAACATGATCTTTAGCGGC
* *
5876582 AACATGAG-CTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAGAACATGATCTTTAGCGGC
1 AACATGAGACTTTAGCGGCATTTGTGCAAAAAGCGCCGCCAAAGAACATGATCTTTAGCGGC
5876643 GTTTGTGCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 46 0.85
62 8 0.15
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (62 bp):
AACATGAGACTTTAGCGGCATTTGTGCAAAAAGCGCCGCCAAAGAACATGATCTTTAGCGGC
Found at i:5876643 original size:43 final size:43
Alignment explanation
Indices: 5876582--5876862 Score: 440
Period size: 43 Copynumber: 6.6 Consensus size: 43
5876572 CTTTAGCGGC
5876582 AACATGAG-CTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
1 AACATG-GTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
*
5876625 AACATGATCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
*
5876668 AACATGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
*
5876711 AACATGGTCTTTAGCGGCGTTTGTACAAAAAGCGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
*
5876754 AACATGGTCTTTAGCGGCGTTTGTAC-AAAAGCGCCGCTAAAG
1 AACATGGTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
* * * * ** *
5876796 AACATGATCTTTAGCGTCGTTTTTGGAACTAGCGCCGTTAAAG
1 AACATGGTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
5876839 AACATGGTCTTTAGCGGCGTTTGT
1 AACATGGTCTTTAGCGGCGTTTGT
5876863 ATATAAAGGC
Statistics
Matches: 220, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
42 37 0.17
43 183 0.83
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (43 bp):
AACATGGTCTTTAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAG
Found at i:5876657 original size:104 final size:103
Alignment explanation
Indices: 5876489--5876685 Score: 270
Period size: 104 Copynumber: 1.9 Consensus size: 103
5876479 ACCAAACAAC
* ** * *
5876489 TAGCGGCGTTTGTGCAAAAATGCCGCTATTGAACATGAGATTTTAGCGGCATTTGTGGATAAAGC
1 TAGCGGCGTTTGTGCAAAAACGCCGCTAAAGAACAT-AGATTTTAGCGGCATTTGTGCAAAAAGC
* *
5876554 GTCGCCAAAGAACATTATCTTTAGCGGCAACATGAGCTT
65 GCCGCCAAAGAACATGATCTTTAGCGGCAACATGAGCTT
*
5876593 TAGCGGCGTTTGTGCAAAAAGCGCCGCTAAAGAACAT-GATCTTTAGCGGCGTTTGTGCAAAAAG
1 TAGCGGCGTTTGTGCAAAAA-CGCCGCTAAAGAACATAGAT-TTTAGCGGCATTTGTGCAAAAAG
* *
5876657 CGCCGCTAAAGAACATGGTCTTTAGCGGC
64 CGCCGCCAAAGAACATGATCTTTAGCGGC
5876686 GTTTGTGAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
103 3 0.04
104 65 0.80
105 13 0.16
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (103 bp):
TAGCGGCGTTTGTGCAAAAACGCCGCTAAAGAACATAGATTTTAGCGGCATTTGTGCAAAAAGCG
CCGCCAAAGAACATGATCTTTAGCGGCAACATGAGCTT
Found at i:5883116 original size:312 final size:312
Alignment explanation
Indices: 5882551--5883171 Score: 1197
Period size: 312 Copynumber: 2.0 Consensus size: 312
5882541 TTCTTTCTTT
*
5882551 GGTCTTTCAAAGCTTACCTACCTTGATCTTTCATCAAACAACTTGAGTGGAGTCATTAGATCAGA
1 GGTCTTTCAAAGCTTACCCACCTTGATCTTTCATCAAACAACTTGAGTGGAGTCATTAGATCAGA
5882616 TATGCTTTCAAAGCTAGAGAGTCTTGAAACGCTCGATCTTTCGACAAATAATTTTAGTGGTGTTA
66 TATGCTTTCAAAGCTAGAGAGTCTTGAAACGCTCGATCTTTCGACAAATAATTTTAGTGGTGTTA
5882681 TCAACTTAGATGTTCCATCAAAGTTGAAGAATCTCACTGAAGTTAATCTTTCCAATAACAAGTTA
131 TCAACTTAGATGTTCCATCAAAGTTGAAGAATCTCACTGAAGTTAATCTTTCCAATAACAAGTTA
* **
5882746 AGGCAATTCCCGAGTTTCTTGTGTTCTGCGAAAAGCTTGACAAGTCTTGATCTTTCCAATAACAA
196 AGGCAATTCCCGAGTTTCTTGCGACCTGCGAAAAGCTTGACAAGTCTTGATCTTTCCAATAACAA
5882811 AATTCAGGGTTCAATTTTCAAATGGGAATCGGAAGGTTGGGAACAATTGGAA
261 AATTCAGGGTTCAATTTTCAAATGGGAATCGGAAGGTTGGGAACAATTGGAA
5882863 GGTCTTTCAAAGCTTACCCACCTTGATCTTTCATCAAACAACTTGAGTGGAGTCATTAGATCAGA
1 GGTCTTTCAAAGCTTACCCACCTTGATCTTTCATCAAACAACTTGAGTGGAGTCATTAGATCAGA
5882928 TATGCTTTCAAAGCTAGAGAGTCTTGAAACGCTCGATCTTTCGACAAATAATTTTAGTGGTGTTA
66 TATGCTTTCAAAGCTAGAGAGTCTTGAAACGCTCGATCTTTCGACAAATAATTTTAGTGGTGTTA
5882993 TCAACTTAGATGTTCCATCAAAGTTGAAGAATCTCACTGAAGTTAATCTTTCCAATAACAAGTTA
131 TCAACTTAGATGTTCCATCAAAGTTGAAGAATCTCACTGAAGTTAATCTTTCCAATAACAAGTTA
*
5883058 AGGCAATTCCCGAGTTTCTTGCGACCTGCGAAAAGGTTGACAAGTCTTGATCTTTCCAATAACAA
196 AGGCAATTCCCGAGTTTCTTGCGACCTGCGAAAAGCTTGACAAGTCTTGATCTTTCCAATAACAA
5883123 AATTCAGGGTTCAATTTTCAAATGGGAATCGGAAGGTTGGGAACAATTG
261 AATTCAGGGTTCAATTTTCAAATGGGAATCGGAAGGTTGGGAACAATTG
5883172 ATTGATTTAA
Statistics
Matches: 304, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
312 304 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (312 bp):
GGTCTTTCAAAGCTTACCCACCTTGATCTTTCATCAAACAACTTGAGTGGAGTCATTAGATCAGA
TATGCTTTCAAAGCTAGAGAGTCTTGAAACGCTCGATCTTTCGACAAATAATTTTAGTGGTGTTA
TCAACTTAGATGTTCCATCAAAGTTGAAGAATCTCACTGAAGTTAATCTTTCCAATAACAAGTTA
AGGCAATTCCCGAGTTTCTTGCGACCTGCGAAAAGCTTGACAAGTCTTGATCTTTCCAATAACAA
AATTCAGGGTTCAATTTTCAAATGGGAATCGGAAGGTTGGGAACAATTGGAA
Found at i:5885065 original size:19 final size:19
Alignment explanation
Indices: 5885021--5885071 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
5885011 TTTTTTTTAC
5885021 ATAATTTGATATTTATACT
1 ATAATTTGATATTTATACT
5885040 A-AGATTTGATATTTATA-T
1 ATA-ATTTGATATTTATACT
5885058 ATTAATTTTGATAT
1 A-TAA-TTTGATAT
5885072 AATTTGATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
18 3 0.11
19 16 0.57
20 9 0.32
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (19 bp):
ATAATTTGATATTTATACT
Found at i:5886161 original size:22 final size:23
Alignment explanation
Indices: 5886128--5886192 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
5886118 AACTTAAACT
*
5886128 ATATATATATATTAAAAATATGC
1 ATATATATATATGAAAAATATGC
*
5886151 ATAT-TATATATGGAAAATATGC
1 ATATATATATATGAAAAATATGC
* *
5886173 GTATGTACTATATGAAAAAT
1 ATATATA-TATATGAAAAAT
5886193 GCATGTGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 19 0.53
23 6 0.17
24 11 0.31
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.37
Consensus pattern (23 bp):
ATATATATATATGAAAAATATGC
Found at i:5886201 original size:22 final size:24
Alignment explanation
Indices: 5886142--5886201 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 24
5886132 ATATATATTA
5886142 AAAATATGCATAT-TA-TATATGG
1 AAAATATGCATATGTACTATATGG
*
5886164 AAAATATGCGTATGTACTATAT-G
1 AAAATATGCATATGTACTATATGG
*
5886187 AAAA-ATGCATGTGTA
1 AAAATATGCATATGTA
5886202 TAAATATGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 21 0.64
23 7 0.21
24 5 0.15
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (24 bp):
AAAATATGCATATGTACTATATGG
Found at i:5887608 original size:44 final size:44
Alignment explanation
Indices: 5887549--5887777 Score: 176
Period size: 44 Copynumber: 5.2 Consensus size: 44
5887539 CTGTAACCTC
* *
5887549 AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAGATCTGCCATCTTCGATCTACTCCACTACTGCCT
** * * * *
5887593 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGCCATCTTCGATCTACTCCACTACTGCCT
* *** * * * *
5887637 AGGGAGAT-AGAAT-TACTGGCTTCAATGTACTCCACT-GTAACCT
1 AGGGAGATAAG-ATCTGCCATCTTCGATCTACTCCACTACT-GCCT
* * * * * *
5887680 CAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATCTGCCATCTTCGATCTACTCCACTACTGCCT
** * *
5887725 AGGGAGATAAGATCTGTTATCTTTGATCTATTCCACTACTGCCT
1 AGGGAGATAAGATCTGCCATCTTCGATCTACTCCACTACTGCCT
5887769 AGGGAGATA
1 AGGGAGATA
5887778 GAATTACTGG
Statistics
Matches: 139, Mismatches: 40, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
42 1 0.01
43 20 0.14
44 100 0.72
45 17 0.12
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGCCATCTTCGATCTACTCCACTACTGCCT
Found at i:5887662 original size:132 final size:131
Alignment explanation
Indices: 5887507--5888500 Score: 936
Period size: 132 Copynumber: 7.5 Consensus size: 131
5887497 GCAACTTCAA
5887507 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TGCCATCT
*
5887571 TCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
64 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
5887636 CAG
129 CAG
*
5887639 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TGCCATCTT
* * * ** * *
5887704 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTGATCTATTCCACTACTGCCT
65 CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
5887769 AG
130 AG
*
5887771 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATT-CACTATCT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTGC-C-ATCT
* * * ** * *
5887835 TTGATCTGCTCCACTACTTCTTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCACTGCTGCC
64 TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC
*
5887900 CAA
129 CAG
* *
5887903 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCT
1 GGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATT-GCCATCT
* * * * * ** *
5887967 TTGATCTGC-CCTATTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTAC
64 TCGATCTACTCC-ACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
5888031 CCAG
128 CCAG
* * * * * * * * ***
5888035 GGAGATAGATCTGTAAT--CTTCAATCTATTCCACTGCT--GCTCAGGGAGATAGAATTACTGGC
1 GGAGATAGA-AT-TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATTGCCATC
* * * * * * * ** * ** *
5888096 TTCAATGTACTCCACTA-TAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
63 TTCGATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCT
**
5888160 GCTTAG
126 GCCCAG
* * * * * ** * * * ***
5888166 GGAGACAAGATCTGTAAT--CTTCAATCTATTCCACTGTTGCC-CAGGGAGATAGAATTACTGGC
1 GGAGA-TAGA-AT-TACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTGCCATC
* * * * ** * ** *
5888228 TTCAATGTACTCCACCGTAAC--CTTAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
63 TTCGATCTACTCCA-C-T-ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGC
* **
5888291 TACTTAG
125 TGCCCAG
*
5888298 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATTTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TGCCATCTT
* *
5888363 CGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
65 CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
5888428 AG
130 AG
* *
5888430 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCTGCCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAAT-TGCCATCTT
5888495 CGATCT
65 CGATCT
5888501 GCTTCGCTGT
Statistics
Matches: 735, Mismatches: 100, Indels: 54
0.83 0.11 0.06
Matches are distributed among these distances:
129 4 0.01
130 16 0.02
131 85 0.12
132 604 0.82
133 20 0.03
134 5 0.01
135 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (131 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTGCCATCTTC
GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
G
Found at i:5887673 original size:43 final size:44
Alignment explanation
Indices: 5887518--5887805 Score: 106
Period size: 44 Copynumber: 6.5 Consensus size: 44
5887508 GAGATAGGAA
* * * *
5887518 TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATC
1 TACTGGCTTCAATCTACTCCACTGCT-GCC-CAGGGAGATAGAATC
* *** * * *
5887563 TGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATA-AGATC
1 TACTGGCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGA-ATC
* *
5887607 TGTAAT--CTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAAT-
1 --TACTGGCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATC
* * * *
5887650 TACTGGCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATC
1 TACTGGCTTCAATCTACTCCACTGCT-GCC-CAGGGAGATAGAATC
** *** ** * * **
5887695 CGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATA-AGATC
1 TACTGGCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGA-ATC
** ** ** * * *
5887739 TGTTATCTTTGATCTATTCCACTACTGCCTAGGGAGATAGAAT-
1 TACTGGCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATC
*
5887782 TACTGGCTTCAATGTACTCCACTG
1 TACTGGCTTCAATCTACTCCACTG
5887806 TAACCACAGG
Statistics
Matches: 178, Mismatches: 52, Indels: 28
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 35 0.20
44 100 0.56
45 36 0.20
46 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
TACTGGCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATC
Found at i:5888162 original size:175 final size:175
Alignment explanation
Indices: 5887866--5888218 Score: 539
Period size: 175 Copynumber: 2.0 Consensus size: 175
5887856 TAGGGAGGCA
5887866 AGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAATGTAC
1 AGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAATGTAC
* * * *
5887931 TCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCTATTACTGCTTAGGGAGA
66 TCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCCCTACTACTGCTTAGGGAGA
**
5887996 CAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCCAGGGAGAT
131 CAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAGAT
* * * *
5888041 AGATCTGTAATCTTCAATCTATTCCACTGCTGCTC-AGGGAGATAGAATTACTGGCTTCAATGTA
1 AGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAG-TAGAATTACTGGCTTCAATGTA
* *
5888105 CTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCC-ACTACTGCTTAGGGA
65 CTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGC-CCTACTACTGCTTAGGGA
* * *
5888169 GACAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGAT
129 GACAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAGAT
5888216 AGA
1 AGA
5888219 ATTACTGGCT
Statistics
Matches: 161, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
174 5 0.03
175 154 0.96
176 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (175 bp):
AGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAATGTAC
TCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCCCTACTACTGCTTAGGGAGA
CAAGATCTGAAATCTTCAATCTATTCCACTGCTACCCAGGGAGAT
Found at i:5888167 original size:307 final size:308
Alignment explanation
Indices: 5887725--5888302 Score: 878
Period size: 307 Copynumber: 1.9 Consensus size: 308
5887715 ACTACTGCTT
* **
5887725 AGGGAGATAAGATCTGTTATCTTTGATCTATTCCACTACTGCCTAGGGAGATAGAATTACTGGCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCTAGGGAGATAGAATTACTGGCT
* * * * *
5887790 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACTATCTTTGATCTGCTCCACTACTTC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
*
5887855 TTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAG-TAGAATTACTG
131 TTAGGGAGACAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCC-AGGAAGATAGAATTACTG
* * *
5887919 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGC-CCTATT
195 GCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCT-ACCATCTTCGATCTGCTCC-ACT
*
5887982 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCC
258 ACTACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCC
*
5888033 AGGGAGAT-AGATCTGTAATCTTCAATCTATTCCACTGCTG-CTCAGGGAGATAGAATTACTGGC
1 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCT-AGGGAGATAGAATTACTGGC
* *
5888096 TTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
* * * *
5888161 CTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTG
130 CTTAGGGAGACAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTG
** *
5888226 GCTTCAATGTACTCCACCGTAACCTTAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
195 GCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTAC
5888291 TACTTAGGGAGA
260 TACTTAGGGAGA
5888303 TAGAATTACT
Statistics
Matches: 243, Mismatches: 23, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
306 7 0.03
307 225 0.93
308 11 0.05
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (308 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGCCTAGGGAGATAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
TTAGGGAGACAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAGGAAGATAGAATTACTGG
CTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATCTACCATCTTCGATCTGCTCCACTACT
ACTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCC
Found at i:5888199 original size:44 final size:43
Alignment explanation
Indices: 5887981--5888214 Score: 143
Period size: 43 Copynumber: 5.3 Consensus size: 43
5887971 TCTGCCCTAT
* * **
5887981 TACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGC
1 TACTGCTCAGGGAGA-AAGATCTGTAATCTTCAATCTATTCCAC
* * * *
5888025 TGCTACCCAGGGAGATAGATCTGTAATCTTCAATCTATTCCAC
1 TACTGCTCAGGGAGAAAGATCTGTAATCTTCAATCTATTCCAC
* * * * * *
5888068 TGCTGCTCAGGGAGATAGA-AT-TACTGGCTTCAATGTACTCCAC
1 TACTGCTCAGGGAGAAAGATCTGTAAT--CTTCAATCTATTCCAC
* * ** * **
5888111 TA-TAACCTCAGGGAGGTAAA-ATCCGCCATCTTCGATCTGCTCCAC
1 TACT--GCTCAGGGA-G-AAAGATCTGTAATCTTCAATCTATTCCAC
*
5888156 TACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCAC
1 TACTGCTCAGGGAGA-AAGATCTGTAATCTTCAATCTATTCCAC
** *
5888200 TGTTGCCCAGGGAGA
1 TACTGCTCAGGGAGA
5888215 TAGAATTACT
Statistics
Matches: 142, Mismatches: 37, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
41 3 0.02
42 3 0.02
43 59 0.42
44 56 0.39
45 17 0.12
46 3 0.02
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
TACTGCTCAGGGAGAAAGATCTGTAATCTTCAATCTATTCCAC
Found at i:5888256 original size:44 final size:44
Alignment explanation
Indices: 5888208--5888345 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 44
5888198 ACTGTTGCCC
5888208 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTT
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTT
* * * *** * * *
5888252 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCA-C-T-ACTACTT
1 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACCGTAAC--CTT
* *
5888296 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTT
5888340 AGGGAG
1 AGGGAG
5888346 GTAAAATCTG
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 2 0.03
43 15 0.22
44 34 0.50
45 15 0.22
46 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTT
Found at i:5888275 original size:88 final size:88
Alignment explanation
Indices: 5888182--5888379 Score: 297
Period size: 88 Copynumber: 2.2 Consensus size: 88
5888172 AAGATCTGTA
* * ** *
5888182 ATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTA
1 ATCTTCGATCTACTCCACTACTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTA
*
5888247 ACCTTAGGGAGGTAAAATCTGCC
66 ACCTCAGGGAGGTAAAATCTGCC
* ** *
5888270 ATCTTCGATCTGCTCCACTACTACTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 ATCTTCGATCTACTCCACTACTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTA
5888335 ACCTCAGGGAGGTAAAATCTGCC
66 ACCTCAGGGAGGTAAAATCTGCC
*
5888358 ATTTTCGATCTACTCCACTACT
1 ATCTTCGATCTACTCCACTACT
5888380 GCTTAGGGAG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 98 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (88 bp):
ATCTTCGATCTACTCCACTACTACCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTA
ACCTCAGGGAGGTAAAATCTGCC
Found at i:5888340 original size:220 final size:220
Alignment explanation
Indices: 5887637--5888503 Score: 838
Period size: 220 Copynumber: 3.9 Consensus size: 220
5887627 ACTGCTGCCC
5887637 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* * * * **
5887702 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTGATCTATTCCACTACTGC
66 TTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTACTGC
*
5887767 CTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-T-CAC
131 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGC-C
* *
5887830 TATCTTTGATCTGCTCCACTACTTCTT
195 -ATCTTCGATCTGCTCCACTACTACTT
* * * * * * * * *
5887857 AGGGAGGCA-AG-A-T-CTGAAATCTCCAATCTATTCCACTGCT-GCC-CAAGGAAGTAGAAT-T
1 AGGGA-G-ATAGAATTACTG---GCTTCAATGTACTCCACTG-TAACCTCAGGGAGGTAAAATCC
* *** * * ** ** * * ** *
5887915 ACTGGCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAAT-T-CACCATCTTTGATCT-G
60 GCCATCTTCGATCTACTCCAC--T-ACTGCTTAGGGAGACAAGATCTGTA--ATCTTCAATCTAT
* * ** * * * * **
5887975 CCCTATTACTGCTTAGGGAGACA-AGA-T-CTGAAATCTTCAATCTATTCTGCTGCT-ACC-CAG
120 TCC-ACTACTGCCCAGGGAGATAGA-ATTACTG---GCTTCAATGTACTCCACTG-TAACCACAG
* * ** * ** * * *
5888035 GGAGAT-AGATCTGTAATCTTCAATCTATTCCACTGCTGCTC
179 GGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTACTT
*
5888076 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* **
5888141 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGTTGC
66 TTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTACTGC
* **
5888206 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTTAGGGAGGTAAAATCTGCCA
131 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
5888271 TCTTCGATCTGCTCCACTACTACTT
196 TCTTCGATCTGCTCCACTACTACTT
* *
5888296 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATT
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
**
5888361 TTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGTTGC
66 TTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTACTGC
*
5888426 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCTGCCA
131 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
5888491 TCTTCGATCTGCT
196 TCTTCGATCTGCT
5888504 TCGCTGTCTA
Statistics
Matches: 508, Mismatches: 102, Indels: 74
0.74 0.15 0.11
Matches are distributed among these distances:
217 5 0.01
218 42 0.08
219 99 0.19
220 312 0.61
221 45 0.09
222 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (220 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
TTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTACTGC
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
TCTTCGATCTGCTCCACTACTACTT
Found at i:5888345 original size:307 final size:306
Alignment explanation
Indices: 5887725--5888390 Score: 853
Period size: 307 Copynumber: 2.2 Consensus size: 306
5887715 ACTACTGCTT
* *
5887725 AGGGAGATAAGATCTGTTATCTTTGATCTATTCCACTACTGC-CTAGGGAGATAGAATTACTGGC
1 AGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTACTGCTC-AGGGAGATAGAATTACTGGC
* * * * *
5887789 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACTATCTTTGATCTGCTCCACTACTT
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTG
*
5887854 CTTAGGGAGGCAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTG
130 CTTAGGGAGACAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTG
* * *
5887919 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCTATTAC
195 GCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCCCTACTAC
* * * **
5887984 TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTACCC
260 TACTTAGGGAGACAAGATCTG--AGCTTCAATCTACTCCACTGCTACCC
* *
5888033 AGGGAGAT-AGATCTGTAATCTTCAATCTATTCCACTGCTGCTCAGGGAGATAGAATTACTGGCT
1 AGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTACTGCTCAGGGAGATAGAATTACTGGCT
* *
5888097 TCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
* * * *
5888162 TTAGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC-AGGGAGATAGAATTACTG
131 TTAGGGAGACAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAG-TAGAATTACTG
** *
5888226 GCTTCAATGTACTCCACCGTAACCTTAGGGAGGTAAAA-TCTGCCATCTTCGATCTGCTCC-ACT
195 GCTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATTC-ACCATCTTCGATCTGC-CCTACT
* *
5888289 ACTACTTAGGGAGA-TAGAATTACTG-GCTTCAATGTACTCCACTG-TAACCTC
258 ACTACTTAGGGAGACAAG-A-T-CTGAGCTTCAATCTACTCCACTGCT-ACC-C
* * ** * * *
5888340 AGGGAGGTAAAATCTGCCATTTTCGATCTACTCCACTACTGCTTAGGGAGA
1 AGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTACTGCTCAGGGAGA
5888391 CAAGATCTGT
Statistics
Matches: 310, Mismatches: 38, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
305 1 0.00
306 26 0.08
307 234 0.75
308 46 0.15
309 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (306 bp):
AGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTACTGCTCAGGGAGATAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGC
TTAGGGAGACAAGATCTGAAATCTCCAATCTATTCCACTGCTGCCCAAGGAAGTAGAATTACTGG
CTTCAATGTACTCCACCGTAACCACAGGGAGGTAAAATTCACCATCTTCGATCTGCCCTACTACT
ACTTAGGGAGACAAGATCTGAGCTTCAATCTACTCCACTGCTACCC
Found at i:5888385 original size:88 final size:88
Alignment explanation
Indices: 5888208--5888390 Score: 321
Period size: 88 Copynumber: 2.1 Consensus size: 88
5888198 ACTGTTGCCC
*
5888208 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTTAGGGAGGTAAAATCTGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCTGCCATC
*
5888273 TTCGATCTGCTCCACTACTACTT
66 TTCGATCTACTCCACTACTACTT
* *
5888296 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATT
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCTGCCATC
*
5888361 TTCGATCTACTCCACTACTGCTT
66 TTCGATCTACTCCACTACTACTT
5888384 AGGGAGA
1 AGGGAGA
5888391 CAAGATCTGT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (88 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACCGTAACCTCAGGGAGGTAAAATCTGCCATC
TTCGATCTACTCCACTACTACTT
Done.