Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007847.1 Hibiscus syriacus cultivar Beakdansim tig00110204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1444154
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:333374 original size:23 final size:23
Alignment explanation
Indices: 333341--333408 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
333331 ATTATTATAT
333341 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
333364 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
333387 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
333409 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:339998 original size:30 final size:30
Alignment explanation
Indices: 339936--339998 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
339926 GAGTTATGTA
* * *
339936 ATAAAGGTATGGAAATGATATGTCTATATG
1 ATAAAGGTATGAAAATAATATGTCTACATG
* *
339966 ATAAAGGTATGAAAATAATATGTTTACGTG
1 ATAAAGGTATGAAAATAATATGTCTACATG
339996 ATA
1 ATA
339999 CAAATTATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (30 bp):
ATAAAGGTATGAAAATAATATGTCTACATG
Found at i:340246 original size:23 final size:23
Alignment explanation
Indices: 340213--340280 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
340203 ATTATTATAT
*
340213 GGCACTACGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
340236 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
* *
340259 GGCACTTCGGTGTAATTATACG
1 GGCACTTCGGTGCAATTCTACG
340281 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:342096 original size:22 final size:21
Alignment explanation
Indices: 342054--342093 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
342044 GAGTTTATTT
*
342054 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
342075 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
342094 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:351857 original size:13 final size:14
Alignment explanation
Indices: 351839--351871 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
351829 CATTTATAAA
351839 ATTTTAGAC-TTTT
1 ATTTTAGACATTTT
351852 ATTTTAGACATTTT
1 ATTTTAGACATTTT
351866 ACTTTT
1 A-TTTT
351872 TTAGAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (14 bp):
ATTTTAGACATTTT
Found at i:351882 original size:17 final size:16
Alignment explanation
Indices: 351840--351887 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
351830 ATTTATAAAA
351840 TTTTAGAC-TTTTA--
1 TTTTAGACATTTTATT
351853 TTTTAGACATTTTACTT
1 TTTTAGACATTTTA-TT
351870 TTTTAGA-ATTTTTATT
1 TTTTAGACA-TTTTATT
351886 TT
1 TT
351888 AAGATTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.27
14 5 0.17
16 5 0.17
17 12 0.40
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTAGACATTTTATT
Found at i:359030 original size:2 final size:2
Alignment explanation
Indices: 359025--359062 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
359015 ATATGTTTAA
359025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
359063 TATTGATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:359031 original size:16 final size:16
Alignment explanation
Indices: 359007--359062 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
358997 CGCATTTTTA
* * *
359007 AAATCTATATATGTTT
1 AAATATATATATATAT
359023 AAATATATATATATAT
1 AAATATATATATATAT
*
359039 ATATATATATATATAT
1 AAATATATATATATAT
*
359055 ATATATAT
1 AAATATAT
359063 TATTGATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
AAATATATATATATAT
Found at i:368575 original size:22 final size:24
Alignment explanation
Indices: 368545--368598 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
368535 TTAGTTTATA
* *
368545 ATTTGTTATAATACTTTT-TTT-C
1 ATTTTTTATAATAATTTTATTTAC
368567 ATTTTTTATAATAATTTTATTTAC
1 ATTTTTTATAATAATTTTATTTAC
368591 ATATTTTT
1 AT-TTTTT
368599 TCTCAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 16 0.59
23 3 0.11
24 3 0.11
25 5 0.19
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTTTTTATAATAATTTTATTTAC
Found at i:369240 original size:2 final size:2
Alignment explanation
Indices: 369233--369264 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
369223 TAATCATACA
369233 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
369265 TTCATATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:371889 original size:24 final size:23
Alignment explanation
Indices: 371840--371891 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
371830 AACATTCAGT
*
371840 AATATATTTGTTTAATATTCACA
1 AATATATTTATTTAATATTCACA
*
371863 AATATATTTAATTATAA-ATTCATA
1 AATATATTT-ATT-TAATATTCACA
371887 AATAT
1 AATAT
371892 TAATTAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.36
24 13 0.52
25 3 0.12
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (23 bp):
AATATATTTATTTAATATTCACA
Found at i:372408 original size:29 final size:29
Alignment explanation
Indices: 372366--372454 Score: 124
Period size: 29 Copynumber: 3.1 Consensus size: 29
372356 TACCGGGGGT
*
372366 AGGTCGCCATGCACGCCCGGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
***
372395 AGGTCGCCATGCACGCCCAGCGACCTGGT
1 AGGTCGCCATGCACGCCCAGCGACCTACC
* *
372424 AGGTCGCCATGCATGCCCTGCGACCTACC
1 AGGTCGCCATGCACGCCCAGCGACCTACC
372453 AG
1 AG
372455 CCAACGACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCAGCGACCTACC
Found at i:372732 original size:29 final size:29
Alignment explanation
Indices: 372671--372754 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
372661 ATGAATCCTT
** * **
372671 GGTCGCCCCGAGTGCATGGCGACCTCCTT
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
* *
372700 GGTCGCCGGGCGTGCATGGCGACCTAGGA
1 GGTCGCCGGGAGTGCATGGCGACCTACGA
*
372729 GGTCGCTGGGAGTGCATGGCGACCTA
1 GGTCGCCGGGAGTGCATGGCGACCTA
372755 TGGTTGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.30, G:0.39, T:0.18
Consensus pattern (29 bp):
GGTCGCCGGGAGTGCATGGCGACCTACGA
Found at i:373909 original size:13 final size:13
Alignment explanation
Indices: 373891--373915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
373881 TTGAGTTATT
373891 AGAAAATAAAAAG
1 AGAAAATAAAAAG
373904 AGAAAATAAAAA
1 AGAAAATAAAAA
373916 AATAATACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AGAAAATAAAAAG
Found at i:376482 original size:12 final size:12
Alignment explanation
Indices: 376459--376491 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
376449 TGTTCTGGAT
376459 GCTTTT-TTGAA
1 GCTTTTCTTGAA
376470 GCTTTTCTTGAA
1 GCTTTTCTTGAA
376482 GCTTTTCTTG
1 GCTTTTCTTG
376492 TTGTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (12 bp):
GCTTTTCTTGAA
Found at i:383427 original size:60 final size:59
Alignment explanation
Indices: 383345--383476 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 59
383335 TTTCTTGGGT
* ** *
383345 AAAG-TACAGAAATGGTCCCCCAACTACAAGGTGATGTTTTGTTGAGTCTCTTGATTATTA
1 AAAGTTACA-AAATGATCCCCCAACTACAAGGTGATGTTTTGTTGAGTC-CCAGACTATTA
* * * ** *
383405 AAAGTTATAAAATGATCTCCCAATTTTAAGGTGTTGTTTTGTTGAGTCCCAGACTATTA
1 AAAGTTACAAAATGATCCCCCAACTACAAGGTGATGTTTTGTTGAGTCCCAGACTATTA
383464 AAAGTTACAAAAT
1 AAAGTTACAAAAT
383477 AGTCAACCGA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 20 0.33
60 37 0.62
61 3 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (59 bp):
AAAGTTACAAAATGATCCCCCAACTACAAGGTGATGTTTTGTTGAGTCCCAGACTATTA
Found at i:384720 original size:21 final size:21
Alignment explanation
Indices: 384691--384737 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
384681 ATTCTGACTA
384691 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
384712 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
384733 TCGCA
1 TCGCA
384738 ACGCGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:388188 original size:32 final size:33
Alignment explanation
Indices: 388122--388195 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
388112 GGAAATTACT
*
388122 ATCGCAACGAGAGAATCGCAATGTGAAATAAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATAAAA
* *
388155 ATCGCAACGAGGGAATCGCAA-GCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATAAAA
388187 ATCGCAACG
1 ATCGCAACG
388196 CGAATTTAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 18 0.47
33 20 0.53
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATAAAA
Found at i:388251 original size:19 final size:19
Alignment explanation
Indices: 388227--388285 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
388217 ATTTTAGTCG
388227 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
388246 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
388260 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
388279 TTGCGAT
1 TTGCGAT
388286 AGTCATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:388266 original size:33 final size:34
Alignment explanation
Indices: 388205--388285 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
388195 GCGAATTTAG
* * *
388205 TTTCGCGTTGCGATTTTAGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTACTCGTTGCGATTTTCA
388239 TTTCGCATTGCGATTCT-CTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTCTACTCGTTGCGATTTTCA
388272 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
388286 AGTCATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 29 0.66
34 15 0.34
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (34 bp):
TTTCGCATTGCGATTCTACTCGTTGCGATTTTCA
Found at i:388293 original size:19 final size:17
Alignment explanation
Indices: 388235--388285 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
388225 CGTTGCGATT
388235 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
388252 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
388266 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
388285 T
1 T
388286 AGTCATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
14 6 0.22
16 7 0.26
17 8 0.30
19 6 0.22
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:388404 original size:14 final size:14
Alignment explanation
Indices: 388385--388419 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
388375 TCAATTAAAT
388385 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
388399 AAATCATCTTTTAC
1 AAATCAACTTTTAC
388413 AAATCAA
1 AAATCAA
388420 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:390409 original size:94 final size:95
Alignment explanation
Indices: 390302--390535 Score: 398
Period size: 95 Copynumber: 2.5 Consensus size: 95
390292 ATCGCAACGT
*
390302 GAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAATCAAAAGACAAAAC-
1 GAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACA
390366 AAAGACAAATACTAACTTCACAATGTTAAA
66 AAAGACAAATACTAACTTCACAATGTTAAA
* *
390396 GAATACACAGTTTAGCAGAATTGACAGCAACCAAACAAATTTACTTTCAACCAAAAGACAAAACA
1 GAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACA
*
390461 AAAGACAAATACTAACTTCACAGTGTTAAA
66 AAAGACAAATACTAACTTCACAATGTTAAA
* * *
390491 GAATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAAATTTACT
1 GAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
390536 AAGCAATCTA
Statistics
Matches: 130, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 61 0.47
95 69 0.53
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (95 bp):
GAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACA
AAAGACAAATACTAACTTCACAATGTTAAA
Found at i:392263 original size:20 final size:20
Alignment explanation
Indices: 392233--392294 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
392223 TTTTGGTTGA
392233 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
**
392253 AATGACTATCGCAACGAGA-
1 AATGAAAATCGCAACGAGAG
*
392272 AATTAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
392292 AAT
1 AAT
392295 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:392284 original size:19 final size:19
Alignment explanation
Indices: 392231--392351 Score: 100
Period size: 19 Copynumber: 6.8 Consensus size: 19
392221 TCTTTTGGTT
392231 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
**
392250 GAGAATGACTATCGCAACGA
1 GA-AATGAAAATCGCAACGA
*
392270 GAAATTAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
392289 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
392303 GAAATGAAAATCATAACGA
1 GAAATGAAAATCGCAACGA
*
392322 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
392336 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
392352 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
14 20 0.26
16 3 0.04
17 4 0.05
19 34 0.44
20 17 0.22
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:392307 original size:33 final size:33
Alignment explanation
Indices: 392231--392351 Score: 152
Period size: 33 Copynumber: 3.5 Consensus size: 33
392221 TCTTTTGGTT
*
392231 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGA
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
*
392270 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
392303 GAAATGAAAATCATAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
392336 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
392352 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
33 53 0.71
35 2 0.03
36 1 0.01
37 3 0.04
39 16 0.21
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:392402 original size:21 final size:20
Alignment explanation
Indices: 392383--392454 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
392373 CGATTCTCTC
392383 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
392403 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
392424 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
392444 GTTGCGATTTT
1 GTTGCGATTTT
392455 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:393031 original size:20 final size:20
Alignment explanation
Indices: 393004--393215 Score: 208
Period size: 20 Copynumber: 10.4 Consensus size: 20
392994 TTAAAAATCG
*
393004 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACT
* * **
393024 CATTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
*
393045 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
* * *
393065 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
* * *
393085 TGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACT
* *
393105 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACT
* *
393125 CGTTGCGATTTACGGGTACG
1 CGTTGCGATTTACGGATACT
* **
393145 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGGATACT
* *
393166 CGTTACGATTTACGGATACG
1 CGTTGCGATTTACGGATACT
393186 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACT
393207 CGTTGCGAT
1 CGTTGCGAT
393216 AGTCAGAATC
Statistics
Matches: 148, Mismatches: 41, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
20 100 0.68
21 48 0.32
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACT
Found at i:393090 original size:40 final size:41
Alignment explanation
Indices: 393004--393256 Score: 318
Period size: 41 Copynumber: 6.2 Consensus size: 41
392994 TTAAAAATCG
* * *
393004 CGTTGCGATTTACGGATACACATTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
393045 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
393085 TGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
393125 CGTTGCGATTTACGGGTACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
393166 CGTTACGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * * *
393207 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTT-CATATTCG
1 CGTTGCGAT-TTACGGATA-CGCGTTGCGATTTTACGTATTCT
393247 CGTTGCGATT
1 CGTTGCGATT
393257 CTGGAAAATC
Statistics
Matches: 187, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
40 87 0.47
41 99 0.53
42 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:393256 original size:20 final size:20
Alignment explanation
Indices: 393026--393379 Score: 110
Period size: 20 Copynumber: 17.5 Consensus size: 20
393016 CGGATACACA
*
393026 TTGCGATTTTACGTATT-GTCG
1 TTGCGATTTT-CATATTCG-CG
* ** * *
393047 TTGCGATTTACGGATACGCA
1 TTGCGATTTTCATATTCGCG
* * **
393067 TTGCGATTTACGTATTCTTG
1 TTGCGATTTTCATATTCGCG
* * *
393087 TTGCGATTTACAGATACGCG
1 TTGCGATTTTCATATTCGCG
* * *
393107 TTGCGATTTACGTATTCTCG
1 TTGCGATTTTCATATTCGCG
* *** *
393127 TTGCGATTTACGGGTACGCG
1 TTGCGATTTTCATATTCGCG
*
393147 TTGCGATTTTACGTATT-GTCG
1 TTGCGATTTT-CATATTCG-CG
* * ** *
393168 TTACGATTTACGGATACGCG
1 TTGCGATTTTCATATTCGCG
** * *
393188 TTGCGATTTTACGGATACTCG
1 TTGCGATTTT-CATATTCGCG
** * *
393209 TTGCGATAGTCAGAATCGCG
1 TTGCGATTTTCATATTCGCG
393229 TTGCGATTTTCATATTCGCG
1 TTGCGATTTTCATATTCGCG
** * * *
393249 TTGCGATTCTGGAAAATCGCA
1 TTGCGATT-TTCATATTCGCG
* *
393270 ATGCGAATTTGT-ACTA-TCGCA
1 TTGCG-ATTT-TCA-TATTCGCG
*
393291 TTGCGATTCTTCATAATCGCG
1 TTGCGATT-TTCATATTCGCG
* ** *
393312 TTGTGATTCTGGAGA-TCGCG
1 TTGCGATT-TTCATATTCGCG
*
393332 TTGCGATTTTTAT-TTCGCG
1 TTGCGATTTTCATATTCGCG
* *
393351 TTGCGATTTTTAT-TTCGCA
1 TTGCGATTTTCATATTCGCG
393370 TTGCGATTTT
1 TTGCGATTTT
393380 GTTGGTCATT
Statistics
Matches: 258, Mismatches: 62, Indels: 28
0.74 0.18 0.08
Matches are distributed among these distances:
19 35 0.14
20 139 0.54
21 80 0.31
22 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCATATTCGCG
Found at i:393309 original size:21 final size:21
Alignment explanation
Indices: 393285--393358 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 21
393275 AATTTGTACT
*
393285 ATCGCATTGCGATTCTTCATA
1 ATCGCGTTGCGATTCTTCATA
* ** *
393306 ATCGCGTTGTGATTCTGGA-G
1 ATCGCGTTGCGATTCTTCATA
*
393326 ATCGCGTTGCGATT-TTTAT-
1 ATCGCGTTGCGATTCTTCATA
*
393345 TTCGCGTTGCGATT
1 ATCGCGTTGCGATT
393359 TTTATTTCGC
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 15 0.35
20 13 0.30
21 15 0.35
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (21 bp):
ATCGCGTTGCGATTCTTCATA
Found at i:393351 original size:19 final size:19
Alignment explanation
Indices: 393327--393379 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
393317 ATTCTGGAGA
393327 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
393346 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
*
393365 TCGCATTGCGATTTT
1 TCGCGTTGCGATTTT
393380 GTTGGTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:394807 original size:35 final size:35
Alignment explanation
Indices: 394755--394849 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
394745 GTTAGAAAGT
* *
394755 GGAAGAAGGT-AACGCAACAATCCATGCTAAAGCAA
1 GGAAGAAGATGAA-GCAACAACCCATGCTAAAGCAA
* * *
394790 TGAAGAAGATGAAGCAACAACCCATGGTAAAGCGA
1 GGAAGAAGATGAAGCAACAACCCATGCTAAAGCAA
*
394825 GGAAGAAGATGAAACAACAACCCAT
1 GGAAGAAGATGAAGCAACAACCCAT
394850 TCTATTGCTC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
35 50 0.96
36 2 0.04
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (35 bp):
GGAAGAAGATGAAGCAACAACCCATGCTAAAGCAA
Found at i:408193 original size:14 final size:14
Alignment explanation
Indices: 408174--408203 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
408164 CGGTAGTATA
408174 TTCGTTCATTTATG
1 TTCGTTCATTTATG
*
408188 TTCGTTCGTTTATG
1 TTCGTTCATTTATG
408202 TT
1 TT
408204 GATTTATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.17, T:0.60
Consensus pattern (14 bp):
TTCGTTCATTTATG
Found at i:408425 original size:24 final size:24
Alignment explanation
Indices: 408393--408453 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
408383 ATCTATTTTT
* *
408393 ATTTATGTTCGTTTACGTTCGTTC
1 ATTTATGTTCGTTTACATCCGTTC
*
408417 ATTTGTGTTCGTTTACATCCGTTC
1 ATTTATGTTCGTTTACATCCGTTC
408441 ATTTATGTTCGTT
1 ATTTATGTTCGTT
408454 CATTTGTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.13, C:0.16, G:0.16, T:0.54
Consensus pattern (24 bp):
ATTTATGTTCGTTTACATCCGTTC
Found at i:408463 original size:14 final size:14
Alignment explanation
Indices: 408436--408466 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
408426 CGTTTACATC
408436 CGTTCATTTATGTT
1 CGTTCATTTATGTT
*
408450 CGTTCATTTGTGTT
1 CGTTCATTTATGTT
408464 CGT
1 CGT
408467 ATAACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.16, G:0.19, T:0.55
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:408835 original size:21 final size:21
Alignment explanation
Indices: 408809--408852 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
408799 CCCGATAATC
*
408809 GAGCATGAATACAGTAAGGAA
1 GAGCATGAATACAATAAGGAA
408830 GAGCATGAATACAATAAGGAA
1 GAGCATGAATACAATAAGGAA
408851 GA
1 GA
408853 ACACCCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.27, T:0.14
Consensus pattern (21 bp):
GAGCATGAATACAATAAGGAA
Found at i:411238 original size:15 final size:15
Alignment explanation
Indices: 411218--411346 Score: 131
Period size: 14 Copynumber: 8.5 Consensus size: 15
411208 TAATAAGGTT
411218 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
411233 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
*
411247 ATTTATTAT-AAATA
1 ATTTATTTTAAAATA
*
411261 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
411276 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
411291 AATTATTATAAATATGGA
1 ATTTATTTTAAA-AT--A
411309 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
411327 A-TTATTTT-AAATA
1 ATTTATTTTAAAATA
411340 ATTTATT
1 ATTTATT
411347 AGTATGAATT
Statistics
Matches: 97, Mismatches: 8, Indels: 19
0.78 0.06 0.15
Matches are distributed among these distances:
13 6 0.06
14 40 0.41
15 35 0.36
16 2 0.02
18 2 0.02
20 2 0.02
21 10 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:411365 original size:22 final size:22
Alignment explanation
Indices: 411349--411391 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
411339 AATTTATTAG
411349 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
411371 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
411392 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:411369 original size:32 final size:32
Alignment explanation
Indices: 411328--411891 Score: 296
Period size: 32 Copynumber: 19.3 Consensus size: 32
411318 TTTAAAATAA
411328 TTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411360 TTA-TTT---TAA---A--A-TATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411382 TTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411414 TTATTTT-AA-AA--TA-T-G---G-ATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
*
411436 TTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
** **
411468 TTATTTTAAA-ATATGGATT-G-ATTTATT-AT
1 TTATTTTAAATA-ATTTATTAGTATGAATTGAT
* * * * *
411497 TGTAGTTGTATGGATTGATTTATT--T-T-AAATAAT
1 T-TA-TT-T-T-AAATAATTTATTAGTATGAATTGAT
* * * * *
411530 TTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATT--T-T-AAATAATTTA--TT--AGTATGAATTGAT
* *
411570 TTATTTTAAATAATTTATTAGTAGGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411602 TTATTTT-AA-AA--TA-T-G---G-ATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411624 TTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
* *
411656 TTATTTTAAATAATTTATTTGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
*
411688 TTATTTTAAATAATTTATTAGTATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411720 TTATTTT-AA-AA--TA-T-G---G-ATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411742 TTATTTTAAATAATTTATTAGTATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411774 TTA-TTT---TAA---A--A-TATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
*
411796 TTATTTTAAAA----TA-T-G---G-ATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGAT
411818 TTATTTTAAATAATTTATTAGTAT-ATATTGAT
1 TTATTTTAAATAATTTATTAGTATGA-ATTGAT
*
411850 TTATTTTAAATAATTTATTTGTAT-AGATTGAT
1 TTATTTTAAATAATTTATTAGTATGA-ATTGAT
411882 TTATTTTAAA
1 TTATTTTAAA
411892 ATATGGATTG
Statistics
Matches: 430, Mismatches: 26, Indels: 152
0.71 0.04 0.25
Matches are distributed among these distances:
22 83 0.19
23 18 0.04
24 6 0.01
25 3 0.01
26 14 0.03
27 7 0.02
28 16 0.04
29 4 0.01
30 13 0.03
31 22 0.05
32 209 0.49
33 5 0.01
34 10 0.02
36 7 0.02
37 1 0.00
38 2 0.00
39 1 0.00
40 9 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
TTATTTTAAATAATTTATTAGTATGAATTGAT
Found at i:411391 original size:54 final size:54
Alignment explanation
Indices: 411328--411494 Score: 316
Period size: 54 Copynumber: 3.1 Consensus size: 54
411318 TTTAAAATAA
*
411328 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
411382 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
*
411436 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
411490 TTATT
1 TTATT
411495 ATTGTAGTTG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (54 bp):
TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
Found at i:411428 original size:22 final size:22
Alignment explanation
Indices: 411403--411445 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
411393 AATTTATTAG
411403 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
411425 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
411446 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:411471 original size:18 final size:18
Alignment explanation
Indices: 411448--411495 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
411438 ATTTTAAATA
*
411448 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
411466 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
411488 ATTTATTA
1 ATTTATTA
411496 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:411521 original size:80 final size:82
Alignment explanation
Indices: 411425--412080 Score: 728
Period size: 80 Copynumber: 8.0 Consensus size: 82
411415 TATTTTAAAA
411425 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
411490 TTA-TT-AT-TGTAGTTG
66 TTATTTAATATTTA-TTG
411505 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
411570 TTATTTTAAATAATTTATTAG
66 TTA-TTT-AAT-ATTTATT-G
* ** ** * ** * * * *
411591 TAGGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGAATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATT
411653 GATTTATTTTAAATAATTTATTTG
63 GATTTA-TTT-AAT-ATTTA-TTG
411677 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
411742 TTATTTTAAATAATTTATTAG
66 TTA-TTT-AAT-ATTTATT-G
*
411763 TATGAATTGATTTATTTT-AA-AA--TA-T-G-A---ATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
411818 TTATTTTAAATAATTTATTAG
66 TTA-TTT-AAT-ATTTATT-G
** * *
411839 TATATATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* *
411904 TTA-TT-AT-TGTAGTTA
66 TTATTTAATATTTA-TTG
*
411919 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
411984 TTA-TT-AT-TGTAGTTG
66 TTATTTAATATTTA-TTG
*
411999 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
412063 TTATTTAAATAATTTATT
66 TTATTT-AAT-ATTTATT
412081 ATTGTAGTTG
Statistics
Matches: 508, Mismatches: 37, Indels: 59
0.84 0.06 0.10
Matches are distributed among these distances:
76 65 0.13
77 2 0.00
78 2 0.00
79 18 0.04
80 200 0.39
81 4 0.01
82 9 0.02
83 3 0.01
84 12 0.02
85 17 0.03
86 160 0.31
87 13 0.03
88 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTTAATATTTATTG
Found at i:411562 original size:22 final size:22
Alignment explanation
Indices: 411537--411579 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
411527 AATTTATTAG
411537 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
411559 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
411580 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:411574 original size:54 final size:54
Alignment explanation
Indices: 411505--412081 Score: 556
Period size: 54 Copynumber: 10.6 Consensus size: 54
411495 ATTGTAGTTG
411505 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
411559 TATGGATTGATTTATTTTAAATAATTTATTAGTAGGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
411613 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAATAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A
411673 TTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 ----TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
411731 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* ** ** * ** * * *
411785 TATGAATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
** * *
411839 TATATATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * *
411893 TATGGATTGATTTATTATT--GT-AGTTATATAG-ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATTTAT-TAGTATGGATTGA-TTT--AT--TTTA-AAA
* * * * ***
411951 TATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
*
411999 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
412052 TATGGATTGATTTA-TTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
412082 TTGTAGTTGT
Statistics
Matches: 441, Mismatches: 48, Indels: 70
0.79 0.09 0.13
Matches are distributed among these distances:
48 23 0.05
49 2 0.00
50 4 0.01
52 35 0.08
53 33 0.07
54 237 0.54
55 21 0.05
56 6 0.01
57 8 0.02
58 19 0.04
60 1 0.00
61 2 0.00
62 1 0.00
64 49 0.11
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:411641 original size:14 final size:14
Alignment explanation
Indices: 411622--411706 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 14
411612 ATATGGATTG
411622 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
411636 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
411654 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
411668 ATTTATTTGTATGGATTG
1 ATTTATTT-TA---AATA
411686 ATTTATTTTAAATA
1 ATTTATTTTAAATA
411700 ATTTATT
1 ATTTATT
411707 AGTATGGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
14 27 0.49
15 3 0.05
16 2 0.04
17 3 0.05
18 20 0.36
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:411734 original size:22 final size:22
Alignment explanation
Indices: 411709--411751 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
411699 AATTTATTAG
411709 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
411731 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
411752 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:411788 original size:22 final size:22
Alignment explanation
Indices: 411763--411827 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
411753 AATTTATTAG
411763 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
411785 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
411807 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
411828 TAATTTATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:411835 original size:14 final size:14
Alignment explanation
Indices: 411816--411869 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
411806 ATATGGATTG
411816 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
411830 ATTTATTAGTATATATTG
1 ATTTATT--T-TA-AATA
411848 ATTTATTTTAAATA
1 ATTTATTTTAAATA
411862 ATTTATTT
1 ATTTATTT
411870 GTATAGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:411965 original size:18 final size:18
Alignment explanation
Indices: 411942--411989 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
411932 ATTTTAAATA
*
411942 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
411960 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
411982 ATTTATTA
1 ATTTATTA
411990 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:412071 original size:20 final size:21
Alignment explanation
Indices: 412035--412073 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
412025 TATTAGTATA
412035 GATTGATTTATTTTAAATATG
1 GATTGATTTATTTTAAATATG
412056 GATTGATTTA-TTTAAATA
1 GATTGATTTATTTTAAATA
412074 ATTTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (21 bp):
GATTGATTTATTTTAAATATG
Found at i:412098 original size:414 final size:404
Alignment explanation
Indices: 411328--412080 Score: 1035
Period size: 414 Copynumber: 1.8 Consensus size: 404
411318 TTTAAAATAA
411328 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
* * * *
411393 AATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
66 AATTGATTAGTATGAAATAATTTA-TTTAAAATAT-GATTGATTTATTTTAAATAATTTA-TAAT
* *
411458 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
128 A-GGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTATATAGATTGATTTATTTT
*
411523 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
192 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT-ATGTAT
* * *
411588 TAGTAGGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATT
254 TAGTAGGGATTGATTTATTTTAAAATA--GATTGATTTAGTATAAATAATTTATTAATATGAATT
411653 GATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
317 GATTTATTTTAAATAATTTATTTGTATGGATT-ATTTATTTTAAATAATTTATTAGTATGGATTG
411718 ATTTATTTTAAAATATGGATTGAT
381 ATTTATTTTAAAATATGGATTGAT
411742 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAA
1 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTT-AAA
* * **
411807 TATGGATTGATTTA-TTTTAAATAATTTA-TTAGTATAT-ATTGATTTATTTTAAATAATTTATT
65 TA---ATTGA-TTAGTATGAAATAATTTATTTAAAATATGATTGATTTATTTTAAATAATTTA--
*
411869 TGTATA-GATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTATATAGATTGATTTA
124 T-AATAGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTATATAGATTGATTTA
411933 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT-TGTA
188 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATATGTA
* * * *
411995 GTT-GTATGGATTGATTTATTTT-AAATA-ATTTA-TTAGTATAGATTGATTTATTTTAAATATG
253 -TTAGTAGGGATTGATTTATTTTAAAATAGATTGATTTAGTATA-AATAATTTA--TT-AATATG
*
412056 GATTGATTTA-TTTAAATAATTTATT
313 AATTGATTTATTTTAAATAATTTATT
412081 ATTGTAGTTG
Statistics
Matches: 307, Mismatches: 20, Indels: 32
0.86 0.06 0.09
Matches are distributed among these distances:
403 6 0.02
404 11 0.04
406 17 0.06
407 19 0.06
408 21 0.07
409 2 0.01
410 2 0.01
412 2 0.01
414 194 0.63
415 7 0.02
416 9 0.03
418 14 0.05
419 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (404 bp):
TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
AATTGATTAGTATGAAATAATTTATTTAAAATATGATTGATTTATTTTAAATAATTTATAATAGG
ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTATATAGATTGATTTATTTTAAAT
AATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATATGTATTAGTAGG
GATTGATTTATTTTAAAATAGATTGATTTAGTATAAATAATTTATTAATATGAATTGATTTATTT
TAAATAATTTATTTGTATGGATTATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
AAATATGGATTGAT
Found at i:412131 original size:31 final size:31
Alignment explanation
Indices: 412096--412154 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
412086 AGTTGTATGG
* *
412096 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
412127 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
412155 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:412727 original size:3 final size:3
Alignment explanation
Indices: 412719--412791 Score: 74
Period size: 3 Copynumber: 23.7 Consensus size: 3
412709 ATATTGTTTA
* * * *
412719 TAT TAT TAT TAT TAT AAT AAT AAT TAT TAT TAA TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
* *
412765 TAT TAA TAT TAT TAT TAAA TAT TAT TA
1 TAT TAT TAT TAT TAT T-AT TAT TAT TA
412792 CAAGCCCAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 55 0.92
4 5 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:412787 original size:19 final size:19
Alignment explanation
Indices: 412746--412788 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
412736 TAATAATTAT
* *
412746 TATTAATATTATTATTTAT
1 TATTAATATTATTATTAAA
412765 TATTAATATTATTATTAAA
1 TATTAATATTATTATTAAA
412784 TATTA
1 TATTA
412789 TTACAAGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAATATTATTATTAAA
Found at i:413886 original size:18 final size:18
Alignment explanation
Indices: 413863--413897 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
413853 TATAATTTTA
413863 CATTTTAATCATTAATTT
1 CATTTTAATCATTAATTT
413881 CATTTTAATCATTAATT
1 CATTTTAATCATTAATT
413898 ATTTTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
CATTTTAATCATTAATTT
Found at i:413979 original size:3 final size:3
Alignment explanation
Indices: 413967--414031 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
413957 TCATTTGTAA
*
413967 TAT T-T TAT TAT TAT TAT TAT TAT TAT T-T TAT T-T GTTT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT
414011 TAT T-T TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
414032 TATATAAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
2 7 0.13
3 45 0.82
4 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:414249 original size:20 final size:19
Alignment explanation
Indices: 414224--414265 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
414214 CTATTTTATA
414224 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
414244 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
414263 AAT
1 AAT
414266 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:414349 original size:113 final size:112
Alignment explanation
Indices: 414128--414350 Score: 247
Period size: 112 Copynumber: 2.0 Consensus size: 112
414118 AATAATCATA
* *
414128 TTTTAATATATATTTATTTTTTTAATATTAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTGT
1 TTTTAATATATATTTATTTTTTTAATATAAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTCT
* ** * * *
414193 TTTCTGATATTTTTAAATATCCTATTTTATAAATTATATATTAATTG
66 TTTCTGATATTTCTAAATATAATAATATATAAATTATAAATTAATTG
* * **
414240 TTTTAATTATTTATTTA-TTTTTTAATATCAAAG-AAAAGAGTTGTCTTAAGGCACCTAGAAGTC
1 TTTTAA-TATATATTTATTTTTTTAATAT-AAAGAAAAAGA-CTGTCTTAAAACACCTAGAAGTC
* *
414303 -CTTTTCTGATATTTCTAAATA-AATAAATATCTTAATGTATAAATTAAT
63 TCTTTTCTGATATTTCTAAATATAAT-AATATATAAAT-TATAAATTAAT
414351 AGATTTCTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
111 1 0.01
112 49 0.53
113 42 0.46
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (112 bp):
TTTTAATATATATTTATTTTTTTAATATAAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTCT
TTTCTGATATTTCTAAATATAATAATATATAAATTATAAATTAATTG
Found at i:419623 original size:26 final size:27
Alignment explanation
Indices: 419593--419669 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 27
419583 TGTTATACTC
419593 ATCCAGCAAAGAAA-GAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
419619 ATCCAGCAAAGAAAGGAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
** *
419646 A-AGAGGAAA-AAAGGAAAAAAGAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAA
419670 GAAATAGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
25 15 0.32
26 19 0.40
27 13 0.28
ACGTcount: A:0.70, C:0.08, G:0.19, T:0.03
Consensus pattern (27 bp):
ATCCAGCAAAGAAAGGAAAAAAGAAAA
Found at i:419646 original size:8 final size:8
Alignment explanation
Indices: 419630--419703 Score: 64
Period size: 8 Copynumber: 9.2 Consensus size: 8
419620 TCCAGCAAAG
*
419630 AAAGGAAA
1 AAAGAAAA
419638 AAAGAAAA
1 AAAGAAAA
*
419646 AAGAGGAAA
1 AA-AGAAAA
*
419655 AAAGGAAA
1 AAAGAAAA
419663 AAAGAAAGA
1 AAAGAAA-A
419672 AATAG-AAA
1 AA-AGAAAA
*
419680 AAA-AACA
1 AAAGAAAA
419687 AAA-AAAA
1 AAAGAAAA
419694 AAAGAAAA
1 AAAGAAAA
419702 AA
1 AA
419704 TTAAATCAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
7 12 0.21
8 30 0.54
9 12 0.21
10 2 0.04
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (8 bp):
AAAGAAAA
Found at i:419654 original size:17 final size:18
Alignment explanation
Indices: 419632--419667 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
419622 CAGCAAAGAA
419632 AGGAAAAAA-GAAAAAAG
1 AGGAAAAAAGGAAAAAAG
419649 AGGAAAAAAGGAAAAAAG
1 AGGAAAAAAGGAAAAAAG
419667 A
1 A
419668 AAGAAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AGGAAAAAAGGAAAAAAG
Found at i:419658 original size:25 final size:25
Alignment explanation
Indices: 419607--419703 Score: 85
Period size: 25 Copynumber: 3.9 Consensus size: 25
419597 AGCAAAGAAA
* *
419607 GAAAAAAGAAAAATCCAGCAAAGAAAG
1 GAAAAAAGAAAAA-ACAG-AAAAAAAG
* *
419634 GAAAAAAGAAAAAAGAGGAAAAAAG
1 GAAAAAAGAAAAAACAGAAAAAAAG
*
419659 GAAAAAAGAAAGAAATAGAAAAAAA-
1 GAAAAAAGAAA-AAACAGAAAAAAAG
*
419684 -ACAAAA-AAAAAA-AGAAAAAA
1 GAAAAAAGAAAAAACAGAAAAAA
419704 TTAAATCAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
21 8 0.13
22 3 0.05
23 3 0.05
24 5 0.08
25 17 0.27
26 13 0.21
27 13 0.21
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.02
Consensus pattern (25 bp):
GAAAAAAGAAAAAACAGAAAAAAAG
Found at i:422113 original size:113 final size:113
Alignment explanation
Indices: 421912--422252 Score: 556
Period size: 113 Copynumber: 3.0 Consensus size: 113
421902 AGCAAGTTCC
*
421912 ATGTGATCATAGTAGAAATAAGGAGCCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
1 ATGTGATCATAGTAGAAATAAGGAGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
421977 TCTGGTTTGATATGAACCTCAAAACCAATCATTGGATTTGAAAGATGA
66 TCTGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGA
*
422025 ATGTGATCATAGTAGAAATAAGGAGCCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGA
1 ATGTGATCATAGTAGAAATAAGGAGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
422090 TCTGGTTTGGTATGAACCCCAAAACTAATCATTAGATTTGAAAGATGA
66 TCTGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGA
* * * *
422138 ATTTGCTCATAGTAGAAATAAAGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGTGATCATAGTAGAAATAAGGA-GCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* * *
422203 ATCTGGTTTGGTATGAACCCCAGAACCAATCATTGTAATTGAAAGATGA
65 ATCTGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGA
422252 A
1 A
422253 CTGCATGATC
Statistics
Matches: 211, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
113 128 0.61
114 83 0.39
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (113 bp):
ATGTGATCATAGTAGAAATAAGGAGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
TCTGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGA
Found at i:424379 original size:54 final size:52
Alignment explanation
Indices: 424229--424430 Score: 205
Period size: 54 Copynumber: 3.8 Consensus size: 52
424219 AGAAATCTTG
* * * *
424229 GCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTACGAACGTCTAA
1 GCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTAC-AAC-TCTGA
* * * * *
424283 GTAGAAACCACA-AGAAAGGATGAATGTGTTCTCAAATATTTTACAAACATCTGA
1 GCAGAAGCCACAGA-AAAAGATGAATGTGTTGTCAAATGTTTTAC-AAC-TCTGA
* *
424337 GCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAGTGTTTTACATCTC-GA
1 GCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTACAACTCTGA
* *
424388 -CAGATA-ACACAGAAAAAGATGAATGTATTGTCAAATGTTTTAC
1 GCAGA-AGCCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTAC
424431 GAATCTGCTA
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
50 38 0.30
51 3 0.02
52 2 0.02
53 3 0.02
54 79 0.63
55 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (52 bp):
GCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGTTTTACAACTCTGA
Found at i:424809 original size:22 final size:22
Alignment explanation
Indices: 424783--424862 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
424773 TACATCTACA
424783 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
424805 CTCTTCAAAGATGATAAATTCT
1 CTCTTCAAAGATGATAGATTCT
* * *
424827 ATTTTTAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
424849 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
424863 AAGCTTTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:425424 original size:17 final size:16
Alignment explanation
Indices: 425402--425461 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
425392 CAGCTTTTCC
425402 AGAAGAAGTTCATAATG
1 AGAAGAA-TTCATAATG
* *
425419 AGAAGAACTCAT-CTG
1 AGAAGAATTCATAATG
425434 AAAGAAGAAATTCATAATG
1 --AGAAG-AATTCATAATG
425453 AGAAGAATT
1 AGAAGAATT
425462 TGTTCAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.06
16 8 0.23
17 17 0.49
18 6 0.17
19 2 0.06
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (16 bp):
AGAAGAATTCATAATG
Found at i:425569 original size:24 final size:23
Alignment explanation
Indices: 425526--425570 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
425516 GTTCGTAATG
*
425526 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
425549 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
425571 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:425600 original size:113 final size:113
Alignment explanation
Indices: 425259--426610 Score: 2075
Period size: 113 Copynumber: 12.0 Consensus size: 113
425249 GCAAAGATTA
* * * * *
425259 AAATCCATCATTTGATGGATTAGCTTTTCCAGAGGAAGTTCGTAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425324 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
425372 AAATCCATCATTTGATGGATCAGCTTTTCCAGA-AGAAGTTCATAATGAGAAGAACTCATCT---
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAA
* *
425433 G-A--AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTC
65 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * *
425479 AAAACCATCACTTGATGGATCAAAC-TTTCCAGAGGAAGTTCGTAATGAGAAGAATTCATCTGAA
1 AAATCCATCATTTGATGGATC-AACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
425543 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
425592 AAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425657 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
425705 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
425770 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * *
425818 AAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCT
* *
425882 AAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
62 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
425934 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425999 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
426047 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
426112 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * *
426160 AAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCT
426224 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
62 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
426276 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
426341 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
426389 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
426454 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAACTTTTGTTT
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * * *
426502 AAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT-C
1 AAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATC-TGA
*
426565 TGAA-GAAGAAGAAATTCATAATGAGAAGAA-TTGTTCAACCTTTTGC
64 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
426611 AACCTTTTGA
Statistics
Matches: 1141, Mismatches: 76, Indels: 46
0.90 0.06 0.04
Matches are distributed among these distances:
107 93 0.08
108 2 0.00
109 1 0.00
110 2 0.00
111 15 0.01
112 30 0.03
113 791 0.69
114 3 0.00
115 2 0.00
116 200 0.18
117 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:426000 original size:342 final size:342
Alignment explanation
Indices: 425259--426610 Score: 2387
Period size: 342 Copynumber: 4.0 Consensus size: 342
425249 GCAAAGATTA
* * * *
425259 AAATCCATCATTTGATGGATTAGCTTTTCCAGAGGAAGTTCGTAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425324 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
*
425389 GATCAGCTTTTCCAGA-AGAAGTTCATAATGAGAAGAACTCATCTG-A-AA-GAAG-A-AA-TTC
131 GATCAACTTTTCCAGAGA-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
* * ** * * *
425447 ATAATGAGAAGAATTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAA-ACTTTCCAG
195 ATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACA-TTGCCAG
* *
425511 AGGA-AGTTCGTAATGAGAAGAA-T--TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
259 -GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
425572 ATTTGTTCAACCTTTTGCTC
323 ATTTGTTCAACCTTTTGCTC
*
425592 AAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425657 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
425722 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
131 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
425787 TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
196 TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
*
425852 AGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
261 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
*
425917 TGTTCAATCTTTTGCTC
326 TGTTCAACCTTTTGCTC
425934 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425999 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
426064 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
131 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
426129 TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
196 TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
426194 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
261 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
426259 TGTTCAACCTTTTGCTC
326 TGTTCAACCTTTTGCTC
426276 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
426341 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
*
426406 GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
131 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
426471 TAATGAGAAGAATTTGTTCAAACTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
196 TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
426536 AGAGTTCATAATGAGAAGAACTCGTCATCT---GAA-GAAGAAGAAATTCATAATGAGAAGAA-T
261 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
426596 TGTTCAACCTTTTGC
326 TGTTCAACCTTTTGC
426611 AACCTTTTGA
Statistics
Matches: 985, Mismatches: 22, Indels: 20
0.96 0.02 0.02
Matches are distributed among these distances:
333 167 0.17
334 2 0.00
335 2 0.00
336 4 0.00
337 17 0.02
338 30 0.03
339 78 0.08
340 2 0.00
342 683 0.69
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (342 bp):
AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGT
AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
TGTTCAACCTTTTGCTC
Found at i:426101 original size:455 final size:449
Alignment explanation
Indices: 425259--426610 Score: 2087
Period size: 455 Copynumber: 3.0 Consensus size: 449
425249 GCAAAGATTA
* * * *
425259 AAATCCATCATTTGATGGATTAGCTTTTCCAGAGGAAGTTCGTAATGAGAAGAACTCGTCTGAAG
1 AAATCCATCATTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
425324 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
*
425389 GATCAGCTTTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCT--G-A--AAGAAGAAATTCAT
131 GATCAGCTTTTCCAGGAG-AGTTCATAATGAGAAGAACTCATCTAAGAAGGAAGAAGAAATTCAT
* * * *
425449 AATGAGAAGAATTTGTTCAACTTTTTGTTCAAAACCATCACTTGATGGATCAAAC-TTTCCAGAG
195 AATGAGAAGAATTTGTTCAAC-TTTTGCTCAAATCCATCATTTGATGGATC-AGCTTTTCCAGAG
* * *
425513 GAAGTTCGTAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
258 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
*
425578 TCAACCTTTTGCTCAAATCCATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAA
323 TCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAA
425643 GAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
388 GAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
425705 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
425770 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
* * * *
425835 GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTAAAGAAGGAAGAAGAAAT
131 GATCAGCTTTTCCAGG-AGAGTTCATAATGAGAAGAA--C-TCATCT-AAGAAGGAAGAAGAAAT
425900 TCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
191 TCATAATGAGAAGAATTTGTTCAA-CTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
425965 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
255 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
426030 TGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGA
320 TGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGA
* * *
426095 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
385 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * *
426160 AAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATCCATCATTTGATGGATTAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCT
426224 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
62 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
*
426289 GATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
127 GATGGATCAGCTTTTCCAG-GAGAGTTCATAATGAGAAGAACTCATCT-AAGAAGGAAGAAGAAA
426354 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
190 TTCATAATGAGAAGAATTTGTTCAA-CTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
*
426419 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
254 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
* * * * * * * *
426484 TTGTTCAAACTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAAT
319 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAAT
* **
426548 GAGAAGAACTCGTCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAA-TTGTTCAACCTTTTG
383 GAGAAGAACTCATC-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
426610 C
447 C
426611 AACCTTTTGA
Statistics
Matches: 832, Mismatches: 55, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
446 150 0.18
447 2 0.00
448 1 0.00
449 6 0.01
452 1 0.00
453 16 0.02
454 29 0.03
455 521 0.63
456 3 0.00
457 1 0.00
458 101 0.12
459 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (449 bp):
AAATCCATCATTTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
GATCAGCTTTTCCAGGAGAGTTCATAATGAGAAGAACTCATCTAAGAAGGAAGAAGAAATTCATA
ATGAGAAGAATTTGTTCAACTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAA
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:426889 original size:3 final size:3
Alignment explanation
Indices: 426881--426950 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
426871 ATATTGTTTA
* *
426881 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAA TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
426927 TAA TAT TAT TAT TAAA TAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TAT TA
426951 CAAGCCCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
3 52 0.91
4 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:428225 original size:18 final size:18
Alignment explanation
Indices: 428202--428237 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
428192 TATAATTTTA
*
428202 CATTTTAATCATTAATTT
1 CATTTTAATCACTAATTT
428220 CATTTTAATCACTAATTT
1 CATTTTAATCACTAATTT
428238 TTATTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (18 bp):
CATTTTAATCACTAATTT
Found at i:428313 original size:48 final size:49
Alignment explanation
Indices: 428203--428313 Score: 108
Period size: 48 Copynumber: 2.3 Consensus size: 49
428193 ATAATTTTAC
*
428203 ATTTTAATCATTAATTTCATTTTAATCACTAATTTTTATTTTTGACTATG
1 ATTTTAATCATTATTTTCATTTTAATCACTAATTTTTA-TTTTGACTATG
* * * *
428253 ATTTTTAAT-A-T-TTTACATTTTAAT-ACTATATTTTTA-TTT-CCTTTT
1 A-TTTTAATCATTATTTTCATTTTAATCACTA-ATTTTTATTTTGACTATG
428298 ATTTTAATCATTATTT
1 ATTTTAATCATTATTT
428314 GTAATATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
44 7 0.14
45 5 0.10
46 4 0.08
47 7 0.14
48 18 0.35
49 1 0.02
50 2 0.04
51 7 0.14
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (49 bp):
ATTTTAATCATTATTTTCATTTTAATCACTAATTTTTATTTTGACTATG
Found at i:428330 original size:3 final size:3
Alignment explanation
Indices: 428318--428379 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
428308 TTATTTGTAA
* *
428318 TAT T-T TAT TAT TAT TAT TAT TAT T-T TTT TAT T-T GTTT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT T-AT TAT
428362 TAT T-T TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
428380 TATATAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
2 7 0.14
3 41 0.80
4 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:431263 original size:37 final size:37
Alignment explanation
Indices: 431220--431294 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
431210 CAACTAATTC
* *
431220 ATCATATATACATGTACTCA-TATAACTCATATCATAT
1 ATCATATATACATATAATCACT-TAACTCATATCATAT
* * *
431257 ATCATATGTGCATATAATCACTTATCTCATATCATAT
1 ATCATATATACATATAATCACTTAACTCATATCATAT
431294 A
1 A
431295 GTTTATGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (37 bp):
ATCATATATACATATAATCACTTAACTCATATCATAT
Found at i:433582 original size:9 final size:9
Alignment explanation
Indices: 433570--433599 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
433560 GAGCTTATGG
433570 GGAGAAGAA
1 GGAGAAGAA
433579 GGAGAAGAA
1 GGAGAAGAA
*
433588 GAAGAAGAA
1 GGAGAAGAA
433597 GGA
1 GGA
433600 AATAAGCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (9 bp):
GGAGAAGAA
Found at i:441164 original size:60 final size:60
Alignment explanation
Indices: 441048--441169 Score: 142
Period size: 60 Copynumber: 2.0 Consensus size: 60
441038 CCTAGTTTGA
** * * *
441048 GATGAAATTAGAATGTTCAAAAGTTTTGGGATCAATTTAAAATGAAAGTCATAGTTTAAG
1 GATGAAATTAGAATGTTCAAAAGTTTAAGGATCAATTCAAAATGAAAATCACAGTTTAAG
*
441108 GATGAAATT-GAAATGCTT-AAAAGTTTAAGGATCAATTCAAAAT-AAATATCACAGTTTGAG
1 GATGAAATTAG-AATG-TTCAAAAGTTTAAGGATCAATTCAAAATGAAA-ATCACAGTTTAAG
441168 GA
1 GA
441170 CATGATGTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.08
60 47 0.89
61 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (60 bp):
GATGAAATTAGAATGTTCAAAAGTTTAAGGATCAATTCAAAATGAAAATCACAGTTTAAG
Found at i:441473 original size:16 final size:16
Alignment explanation
Indices: 441410--441482 Score: 107
Period size: 15 Copynumber: 4.8 Consensus size: 16
441400 GTTTATTTCA
441410 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
*
441425 GAATGATT-AAACGTT
1 GAATGATTCAAACGCT
441440 GAATGATTC-AACGCT
1 GAATGATTCAAACGCT
*
441455 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
441471 GAATGATTCAAA
1 GAATGATTCAAA
441483 GGCTTTGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 36 0.68
16 17 0.32
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:441586 original size:23 final size:23
Alignment explanation
Indices: 441559--441621 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
441549 ACTTCTGTGT
*
441559 TGAATCATTTAGCACTGTTTTGC
1 TGAATCATTCAGCACTGTTTTGC
441582 TGAATCATTCAGCACTGTTTTGC
1 TGAATCATTCAGCACTGTTTTGC
* *
441605 TGAATCAATCAACACTG
1 TGAATCATTCAGCACTG
441622 AATCATTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (23 bp):
TGAATCATTCAGCACTGTTTTGC
Found at i:442158 original size:15 final size:15
Alignment explanation
Indices: 442138--442166 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
442128 GTTTCGGTTT
442138 TAAAAAAACCGATTA
1 TAAAAAAACCGATTA
442153 TAAAAAAACCGATT
1 TAAAAAAACCGATT
442167 TTAATATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (15 bp):
TAAAAAAACCGATTA
Found at i:442312 original size:32 final size:32
Alignment explanation
Indices: 442212--442314 Score: 154
Period size: 33 Copynumber: 3.2 Consensus size: 32
442202 ACAAAGTTTA
* *
442212 CGAT-AATTGAAATACTTAAATACTTCTAAGTT
1 CGATAAATTCAAATACTTAAAAACTTC-AAGTT
*
442244 TGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTT-CAAGTT
442277 CGATAAATTCAAATACTTAAAAACTTCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCAAGTT
442309 CGATAA
1 CGATAA
442315 TTGAAACAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
32 15 0.23
33 49 0.75
34 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.33
Consensus pattern (32 bp):
CGATAAATTCAAATACTTAAAAACTTCAAGTT
Found at i:442333 original size:21 final size:21
Alignment explanation
Indices: 442309--442350 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
442299 ACTTCAAGTT
442309 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
442330 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
442351 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:457974 original size:31 final size:31
Alignment explanation
Indices: 457932--457994 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
457922 TTATTATGGT
*
457932 TGTTATGTGCTATGTTACAGCAGCTTAACAG
1 TGTTATATGCTATGTTACAGCAGCTTAACAG
457963 TGTTATATGCTATGTTACAGCAGCTTAACAG
1 TGTTATATGCTATGTTACAGCAGCTTAACAG
457994 T
1 T
457995 TTCAGTCACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (31 bp):
TGTTATATGCTATGTTACAGCAGCTTAACAG
Found at i:464720 original size:29 final size:27
Alignment explanation
Indices: 464675--464742 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
464665 CTTGCTTCTG
*
464675 TTTTGATCAACTAACTTTAAAAATATTT-A
1 TTTTTATC-ACTAACTTT-AAAAT-TTTGA
* *
464704 TTTTTATCACTATACTTTCAAATTTTGC
1 TTTTTATCACTA-ACTTTAAAATTTTGA
464732 TTTTTATCACT
1 TTTTTATCACT
464743 CATTTTTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.09
28 19 0.56
29 12 0.35
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (27 bp):
TTTTTATCACTAACTTTAAAATTTTGA
Found at i:465898 original size:20 final size:20
Alignment explanation
Indices: 465870--465911 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
465860 ACACAGAATG
*
465870 TCATAAGGGTACTGATACCC
1 TCATAAGGGTACCGATACCC
*
465890 TCATTAGGGTACCGATACCC
1 TCATAAGGGTACCGATACCC
465910 TC
1 TC
465912 CTGAAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (20 bp):
TCATAAGGGTACCGATACCC
Found at i:467167 original size:22 final size:22
Alignment explanation
Indices: 467137--467197 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
467127 GGGTCTAAAC
467137 GGTCATTCGGGAGAAATACATA
1 GGTCATTCGGGAGAAATACATA
*
467159 GGTCCTTCGGGAGAAATACATA
1 GGTCATTCGGGAGAAATACATA
*
467181 GGTCATTCGGGACAAAT
1 GGTCATTCGGGAGAAAT
467198 TTCATATGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (22 bp):
GGTCATTCGGGAGAAATACATA
Found at i:467635 original size:2 final size:2
Alignment explanation
Indices: 467630--467689 Score: 104
Period size: 2 Copynumber: 30.5 Consensus size: 2
467620 TGGTATGAAG
467630 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
467671 TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
467690 TTATGTACTG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:471371 original size:21 final size:21
Alignment explanation
Indices: 471345--471491 Score: 102
Period size: 21 Copynumber: 6.9 Consensus size: 21
471335 CATATAAAAT
471345 TGTCCCGAATGACCACATATA
1 TGTCCCGAATGACCACATATA
* *
471366 TGTCCCGAATAACCACATAGAA
1 TGTCCCGAATGACCACATA-TA
*
471388 T-TCTCCTTAATGACCACATATA
1 TGTC-CC-GAATGACCACATATA
* * * *
471410 TATTCC-AATGGACCAAATATG
1 TGTCCCGAAT-GACCACATATA
**
471431 TGTCCCGAA-GTACTGCATATA
1 TGTCCCGAATG-ACCACATATA
* * * **
471452 TGTTCCAAAGGATTACATATA
1 TGTCCCGAATGACCACATATA
471473 TGTCCCGAATGACCACATA
1 TGTCCCGAATGACCACATA
471492 GAACCCTCGA
Statistics
Matches: 95, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.04
21 68 0.72
22 11 0.12
23 12 0.13
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (21 bp):
TGTCCCGAATGACCACATATA
Found at i:476664 original size:55 final size:54
Alignment explanation
Indices: 476593--476820 Score: 199
Period size: 55 Copynumber: 4.4 Consensus size: 54
476583 ATAATAAGTG
* * **
476593 AGACTTGAAAAATCTTCAAATGGCGTGTCTGCTCCCTATTCATTCAGGGAGTATA
1 AGACTCGAACAATCTTCAAATAACG-GTCTGCTCCCTATTCATTCAGGGAGTATA
476648 AGACTCGAACAATCTTC-AATAAACGGGTCTGCTCCCTATTCATTC----AGTAT-
1 AGACTCGAACAATCTTCAAAT-AAC-GGTCTGCTCCCTATTCATTCAGGGAGTATA
* * * * * *
476698 AGAACTCGAACAATCTTCATAGAACGGTTTGCTCCCTATCCGTTCAAGGAGTATA
1 AG-ACTCGAACAATCTTCAAATAACGGTCTGCTCCCTATTCATTCAGGGAGTATA
* * * *
476753 AGACTCG----ATCTTCAATTAAC-GTCCGCTCCCTATTCCTTCAGAGAGTATA
1 AGACTCGAACAATCTTCAAATAACGGTCTGCTCCCTATTCATTCAGGGAGTATA
* *
476802 GGACTCAAACAATCTTCAA
1 AGACTCGAACAATCTTCAA
476821 CGAACTTGTC
Statistics
Matches: 140, Mismatches: 20, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
49 28 0.20
50 29 0.21
51 23 0.16
52 1 0.01
53 8 0.06
54 13 0.09
55 37 0.26
56 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (54 bp):
AGACTCGAACAATCTTCAAATAACGGTCTGCTCCCTATTCATTCAGGGAGTATA
Found at i:476710 original size:51 final size:51
Alignment explanation
Indices: 476619--476760 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
476609 CAAATGGCGT
476619 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAACAATCTTCAATA-AACGG
1 GTCTGCTCCCTATTCATTC---GAGTATAAGACTCGAACAATCTTC-ATAGAAC-G
476674 GTCTGCTCCCTATTCATTC-AGTAT-AGAACTCGAACAATCTTCATAGAACG
1 GTCTGCTCCCTATTCATTCGAGTATAAG-ACTCGAACAATCTTCATAGAACG
* * *
476724 GTTTGCTCCCTATCCGTTCAAGGAGTATAAGACTCGA
1 GTCTGCTCCCTATTCATTC---GAGTATAAGACTCGA
476761 TCTTCAATTA
Statistics
Matches: 77, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
50 22 0.29
51 23 0.30
54 11 0.14
55 21 0.27
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (51 bp):
GTCTGCTCCCTATTCATTCGAGTATAAGACTCGAACAATCTTCATAGAACG
Found at i:476913 original size:51 final size:51
Alignment explanation
Indices: 476728--477019 Score: 415
Period size: 51 Copynumber: 5.8 Consensus size: 51
476718 AGAACGGTTT
* * **
476728 GCTCCCTA-TCCGTTCA-AGGAGTATAAGACTCGATCTTCAATTAAC--GTCC
1 GCTCCCTATTCC-TTCAGA-GAGTATAGGACTCAATCTTCAACGAACTTGTCC
476777 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAAACAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
476832 GCT-CC-ATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
476881 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
476932 GCTCCCTATTCCTTCA-AGAGTATA-GACTC-ATCTTC-ACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
*
476979 ACTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAAC
477020 AACGAGTTTG
Statistics
Matches: 224, Mismatches: 5, Indels: 26
0.88 0.02 0.10
Matches are distributed among these distances:
47 27 0.12
48 14 0.06
49 57 0.25
50 20 0.09
51 62 0.28
53 35 0.16
54 2 0.01
55 7 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
Found at i:477004 original size:98 final size:100
Alignment explanation
Indices: 476728--477019 Score: 418
Period size: 98 Copynumber: 2.9 Consensus size: 100
476718 AGAACGGTTT
* **
476728 GCTCCCTA-TCCGTTCAAGGAGTATAAGACTCGATCTTCAATTAAC--GTCCGCTCCCTATTCCT
1 GCTCCCTATTCC-TTCAA-GAGTAT-AGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCT
476790 TCAGAGAGTATAGGACTCAAACAATCTTCAACGAACTTGTCC
63 TCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCC
476832 GCT-CC-ATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTT
1 GCTCCCTATTCCTTCA-AGAGTATA-GACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTT
476895 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
64 CAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
*
476932 GCTCCCTATTCCTTCAAGAGTATAGACTC-ATCTTC-ACGAACTTGTCCACTCCCTATTCCTTCA
1 GCTCCCTATTCCTTCAAGAGTATAGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCA
476995 GAGAGTATAGGACTCAATCTTCAAC
66 GAGAGTATAGGACTCAATCTTCAAC
477020 AACGAGTTTG
Statistics
Matches: 177, Mismatches: 4, Indels: 20
0.88 0.02 0.10
Matches are distributed among these distances:
98 52 0.29
99 6 0.03
100 29 0.16
101 11 0.06
102 36 0.20
103 6 0.03
104 37 0.21
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (100 bp):
GCTCCCTATTCCTTCAAGAGTATAGACTCAATCTTCAACGAACTTGTCCGCTCCCTATTCCTTCA
GAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
Found at i:478218 original size:19 final size:19
Alignment explanation
Indices: 478135--478218 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 19
478125 CCTCCTTTTA
478135 TTTC-TCTTTTTTTCAATTT
1 TTTCTTCTTTTTTTC-ATTT
* *
478154 TCTCTTTTTTTTTTCATTT
1 TTTCTTCTTTTTTTCATTT
478173 TTTCTTCCCTTTTCCATTTTCCATTT
1 TTTCTT--C-TTT---TTTT-CATTT
*
478199 TTTCTTCTTTTTTTCCTTT
1 TTTCTTCTTTTTTTCATTT
478218 T
1 T
478219 CGTTTTTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
19 17 0.33
20 13 0.25
22 3 0.06
23 3 0.06
24 1 0.02
25 4 0.08
26 11 0.21
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCTTCTTTTTTTCATTT
Found at i:478224 original size:25 final size:25
Alignment explanation
Indices: 478164--478227 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 25
478154 TCTCTTTTTT
478164 TTTTCATTTTTTCTTCCCTTTTCCA
1 TTTTCATTTTTTCTTCCCTTTTCCA
**
478189 TTTTCCATTTTTTCTTCTTTTTTTCC-
1 TTTT-CATTTTTTCTTC-CCTTTTCCA
*
478215 TTTTCGTTTTTTC
1 TTTTCATTTTTTC
478228 CATCATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.35
26 16 0.47
27 6 0.18
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTCATTTTTTCTTCCCTTTTCCA
Found at i:478249 original size:16 final size:17
Alignment explanation
Indices: 478215--478259 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
478205 CTTTTTTTCC
*
478215 TTTTCGTTTTTTCCATCAT
1 TTTTCATTTTTT-C-TCAT
478234 TTTTC-TTTTTTCTCAT
1 TTTTCATTTTTTCTCAT
478250 TTTTCATTTT
1 TTTTCATTTT
478260 ATTTTCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.36
17 5 0.20
18 6 0.24
19 5 0.20
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (17 bp):
TTTTCATTTTTTCTCAT
Found at i:486241 original size:25 final size:23
Alignment explanation
Indices: 486195--486241 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
486185 GAAGTTGCTT
*
486195 CTCTACTTTTTCAATTCGATCTG
1 CTCTACTTTTTCAATTCAATCTG
*
486218 CTCTACTCTTTTGAATGTCAATCT
1 CTCTACT-TTTTCAAT-TCAATCT
486242 CCAATCCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (23 bp):
CTCTACTTTTTCAATTCAATCTG
Found at i:489408 original size:24 final size:24
Alignment explanation
Indices: 489381--489426 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
489371 ATAGGTCGAG
489381 TTATGC-AAATGAATATCATGCATA
1 TTATGCAAAAT-AATATCATGCATA
*
489405 TTATGCAAAATAATGTCATGCA
1 TTATGCAAAATAATATCATGCA
489427 AAAACAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (24 bp):
TTATGCAAAATAATATCATGCATA
Found at i:497462 original size:15 final size:17
Alignment explanation
Indices: 497444--497518 Score: 68
Period size: 15 Copynumber: 4.4 Consensus size: 17
497434 ACGTAAATCG
497444 GCGAT-TAAATCGC-AT
1 GCGATATAAATCGCAAT
497459 GCGATACGTAAATCGCAAT
1 GCGATA--TAAATCGCAAT
497478 GCGAATACGTAAATCGC-AT
1 GCG-ATA--TAAATCGCAAT
*
497497 GC-ATTTAAATCGCAAT
1 GCGATATAAATCGCAAT
497513 GCGATA
1 GCGATA
497519 CGTAAATATG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
15 13 0.25
16 4 0.08
17 4 0.08
18 8 0.16
19 9 0.18
20 13 0.25
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (17 bp):
GCGATATAAATCGCAAT
Found at i:497487 original size:20 final size:18
Alignment explanation
Indices: 497449--497525 Score: 97
Period size: 19 Copynumber: 4.3 Consensus size: 18
497439 AATCGGCGAT
497449 TAAATCGCATGCGATACG
1 TAAATCGCATGCGATACG
497467 TAAATCGCAATGCGAATACG
1 TAAATCGC-ATGCG-ATACG
*
497487 TAAATCGCATGC-AT--T
1 TAAATCGCATGCGATACG
497502 TAAATCGCAATGCGATACG
1 TAAATCGC-ATGCGATACG
497521 TAAAT
1 TAAAT
497526 ATGCGATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.16
16 4 0.08
17 4 0.08
18 8 0.16
19 14 0.27
20 13 0.25
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (18 bp):
TAAATCGCATGCGATACG
Found at i:497513 original size:35 final size:36
Alignment explanation
Indices: 497449--497525 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 36
497439 AATCGGCGAT
497449 TAAATCGCATGCGATACGTAAATCGCAATGCGAATACG
1 TAAATCGCATGCGATA-GTAAATCGCAATGCG-ATACG
*
497487 TAAATCGCATGC-AT-TTAAATCGCAATGCGATACG
1 TAAATCGCATGCGATAGTAAATCGCAATGCGATACG
497521 TAAAT
1 TAAAT
497526 ATGCGATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
34 10 0.26
35 14 0.37
37 2 0.05
38 12 0.32
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (36 bp):
TAAATCGCATGCGATAGTAAATCGCAATGCGATACG
Found at i:497669 original size:27 final size:27
Alignment explanation
Indices: 497631--497696 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
497621 AGTATATCGT
*
497631 AATCGCAACTCATAATCTAAAACCCTA
1 AATCGCAACTCATAACCTAAAACCCTA
*
497658 AATCGCAACTCATAACCTAAACCCCTA
1 AATCGCAACTCATAACCTAAAACCCTA
*
497685 AATCACAACTCA
1 AATCGCAACTCA
497697 ATCTCATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (27 bp):
AATCGCAACTCATAACCTAAAACCCTA
Found at i:497759 original size:22 final size:22
Alignment explanation
Indices: 497734--497799 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
497724 GGCGACATCC
497734 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
497756 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
497778 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
497800 TTCACGTCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:498171 original size:20 final size:20
Alignment explanation
Indices: 498131--498218 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
498121 GCGATTCTGT
**
498131 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
**
498150 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
498170 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
498190 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
498210 TGTTGCGAT
1 CGTTGCGAT
498219 TTAAAGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
19 12 0.19
20 50 0.81
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:500085 original size:20 final size:20
Alignment explanation
Indices: 500060--500183 Score: 143
Period size: 20 Copynumber: 6.5 Consensus size: 20
500050 AGAATAGTTT
500060 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
500080 ACTATCGCAACGCGAAAATT
1 ACTATCGCAATGCGAAAATG
*
500100 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
500116 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
500134 ATTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
500154 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
500174 ACTATCGCAA
1 ACTATCGCAA
500184 CGAAAGAATC
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.08
16 3 0.03
17 4 0.04
18 4 0.04
20 71 0.80
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:500126 original size:34 final size:34
Alignment explanation
Indices: 500083--500204 Score: 120
Period size: 34 Copynumber: 3.4 Consensus size: 34
500073 GAAAATGACT
*
500083 ATCGCAACGCGAAAATTACTATCGCAACGAGAGA
1 ATCGCAACGCGAAAATTACTATCGCAACGAAAGA
* *
500117 ATCGCAACGCGAAAATGATTATCGCAATGCGAAAATGA
1 ATCGCAACGCGAAAATTACTATCGCAA--CG-AAA-GA
* *
500155 CTATCGCAATGCG-AATTTGACTATCGCAACGAAAGA
1 --ATCGCAACGCGAAAATT-ACTATCGCAACGAAAGA
*
500191 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
500205 TGAAAACCGC
Statistics
Matches: 73, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
34 36 0.49
35 2 0.03
36 4 0.05
37 5 0.07
38 4 0.05
39 3 0.04
40 19 0.26
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.18
Consensus pattern (34 bp):
ATCGCAACGCGAAAATTACTATCGCAACGAAAGA
Found at i:500183 original size:74 final size:74
Alignment explanation
Indices: 500062--500204 Score: 234
Period size: 74 Copynumber: 1.9 Consensus size: 74
500052 AATAGTTTAC
*
500062 TATCGCAATGCGAAAATGACTATCGCAACGCGAAAATTACTATCGCAACGAGAGAATCGCAACGC
1 TATCGCAATGCGAAAATGACTATCGCAACGCGAAAATTACTATCGCAACGAAAGAATCGCAACGC
500127 GAAAATGAT
66 GAAAATGAT
* * *
500136 TATCGCAATGCGAAAATGACTATCGCAATGCG-AATTTGACTATCGCAACGAAAGAATCGCAATG
1 TATCGCAATGCGAAAATGACTATCGCAACGCGAAAATT-ACTATCGCAACGAAAGAATCGCAACG
500200 CGAAA
65 CGAAA
500205 TGAAAACCGC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 4 0.06
74 60 0.94
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (74 bp):
TATCGCAATGCGAAAATGACTATCGCAACGCGAAAATTACTATCGCAACGAAAGAATCGCAACGC
GAAAATGAT
Found at i:500275 original size:19 final size:20
Alignment explanation
Indices: 500228--500275 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
500218 GCGATTCTCT
*
500228 CGTTTCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
500248 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
500268 CG-TGCGAT
1 CGTTGCGAT
500276 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:500842 original size:21 final size:21
Alignment explanation
Indices: 500747--500848 Score: 73
Period size: 21 Copynumber: 4.9 Consensus size: 21
500737 GCCCGACTCA
*
500747 CCTGTAATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
**
500768 TCCCCT-ATCGTTCAAGAGGCC
1 -CCTGTCATCGTTCAAGAGGCC
* ** *
500789 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
* *
500810 CCT-CCTACCGTTCAAGAGGCC
1 CCTGTC-ATCGTTCAAGAGGCC
* *
500831 ACTGTCATCGTTGAAGAG
1 CCTGTCATCGTTCAAGAG
500849 ATCCCTCCCA
Statistics
Matches: 61, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
20 4 0.07
21 53 0.87
22 4 0.07
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.24
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:500848 original size:42 final size:41
Alignment explanation
Indices: 500748--500853 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 41
500738 CCCGACTCAC
* * * *
500748 CTGTAATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCCCTACCGTTCAAGAGGCCA
* **
500790 CTATCATCCCTCAAGAGTCCCCTCCTACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCC-CCTACCGTTCAAGAGGCCA
*
500832 CTGTCATCGTTGAAGAGATCCC
1 CTGTCATCGTTCAAGAG-TCCC
500854 TCCCAACATT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.04
42 45 0.88
43 4 0.08
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.24
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGTCCCCCCTACCGTTCAAGAGGCCA
Found at i:502459 original size:33 final size:33
Alignment explanation
Indices: 502398--502482 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
502388 GCAACTTTCG
* *
502398 CGTTGCAATTTTCATTTTTGCATTGTGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGTGATTCACT
*
502432 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGTGATTCACT
**
502465 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
502483 CGCGTTGCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 33 0.72
34 13 0.28
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGTGATTCACT
Found at i:502490 original size:20 final size:20
Alignment explanation
Indices: 502465--502553 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
502455 GTGATTCTCT
502465 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
502485 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
502505 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
502525 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
502545 CGTTGCGAT
1 CGTTGCGAT
502554 TTCCGCGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:504999 original size:23 final size:24
Alignment explanation
Indices: 504949--505001 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
504939 CTGAAAAATC
504949 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
504973 ATCAAAGTCCGGGTATTGA-CAAG
1 ATCAAAATCCGAGTATTGACCAAG
504996 ATCAAA
1 ATCAAA
505002 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:505866 original size:20 final size:20
Alignment explanation
Indices: 505841--505970 Score: 115
Period size: 20 Copynumber: 6.3 Consensus size: 20
505831 GTCAGAATCG
505841 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
505861 TTGCGATAGT-CAGAATCTCG--
1 TTGCGAT-TTAC-GTAT-TCGCA
505881 TTGCGATTTACGT-TTCGCA
1 TTGCGATTTACGTATTCGCA
*
505900 TTGCGATTTACGTTCCAAATTCGCG
1 TTGCGATTTACG-T----ATTCGCA
*
505925 TTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCA
*
505945 TTGCGATTTATGTATTCGCA
1 TTGCGATTTACGTATTCGCA
505965 TTGCGA
1 TTGCGA
505971 ATTAGGAAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 24
0.75 0.06 0.20
Matches are distributed among these distances:
17 3 0.03
18 1 0.01
19 14 0.15
20 48 0.53
21 4 0.04
22 3 0.03
24 1 0.01
25 17 0.19
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:505991 original size:21 final size:21
Alignment explanation
Indices: 505967--506012 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
505957 TATTCGCATT
505967 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
505988 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
506009 GCGA
1 GCGA
506013 TGTCAGTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:510391 original size:28 final size:28
Alignment explanation
Indices: 510351--510406 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
510341 CATTGGTAAA
510351 ATCCTTATTACAGGCTGATAAAAAACGT
1 ATCCTTATTACAGGCTGATAAAAAACGT
510379 ATCCTTATTACAGGCTGATAAAAAACGT
1 ATCCTTATTACAGGCTGATAAAAAACGT
510407 TGCAACTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (28 bp):
ATCCTTATTACAGGCTGATAAAAAACGT
Found at i:512591 original size:33 final size:35
Alignment explanation
Indices: 512540--512609 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
512530 CACTCTCCAG
*
512540 CTGTGGGGGAAAAAACACTCAATGAAAACACCTAA
1 CTGTGGGGGAAAAAACACTCAATAAAAACACCTAA
512575 CTGT-GGGG-AAAAACACTCAATAAAAACACCTAA
1 CTGTGGGGGAAAAAACACTCAATAAAAACACCTAA
512608 CT
1 CT
512610 ATGTGCCTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 26 0.76
34 4 0.12
35 4 0.12
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.16
Consensus pattern (35 bp):
CTGTGGGGGAAAAAACACTCAATAAAAACACCTAA
Found at i:517011 original size:214 final size:214
Alignment explanation
Indices: 516642--517071 Score: 769
Period size: 214 Copynumber: 2.0 Consensus size: 214
516632 AATCATACTA
*
516642 TTTAGAAAAATATTAATTAATCATAATTCAATCATACCCGACTATTCGTATTATAAAAATCGTCA
1 TTTAGAAAAATATTAATTAATCATAATTCAATCATACCCGACTATTCGTATTATAAAAATCATCA
516707 TTTTTTTGTTAAAAGATTAGTAGTCATATAGCTAGACATTAACCGACTGATTAAGATATAATAAA
66 TTTTTTTGTTAAAAGATTAGTAGTCATATAGCTAGACATTAACCGACTGATTAAGATATAATAAA
516772 ATCATATTTTAATAATATCTATTGGCACTGACGTTGCTTTCAAGCACTAGTTCGACAG-TAATCT
131 ATCATATTTTAATAATATCTATTGGCACTGACGTTGCTTTCAAGCACTAG-TCGACAGATAATCT
516836 TTCAAGCACTAACTCGACAG
195 TTCAAGCACTAACTCGACAG
516856 TTTAGAAAAATATTAATTAATCATAATTCAATCATACCCGACTATTCGTATGT-TATAAAATCAT
1 TTTAGAAAAATATTAATTAATCATAATTCAATCATACCCGACTATTCGTAT-TATA-AAAATCAT
*
516920 CA-TTTTTTGTTAAAAGATTAGTAGT-ATCTAAGCTAGACATTAACCGACTGATTAAGATATAAT
64 CATTTTTTTGTTAAAAGATTAGTAGTCATAT-AGCTAGACATTAACCGACTGATTAAGATATAAT
516983 AAAATCATATTTTAATAATATCTATTGGCACTGACGTTGCTTTCAAGCACTAGTCGACAGTATAA
128 AAAATCATATTTTAATAATATCTATTGGCACTGACGTTGCTTTCAAGCACTAGTCGACAG-ATAA
517048 TCTTTCAAGCACTAACTCGACAG
192 TCTTTCAAGCACTAACTCGACAG
517071 T
1 T
517072 ATAATCTTTC
Statistics
Matches: 209, Mismatches: 2, Indels: 9
0.95 0.01 0.04
Matches are distributed among these distances:
213 10 0.05
214 162 0.78
215 37 0.18
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (214 bp):
TTTAGAAAAATATTAATTAATCATAATTCAATCATACCCGACTATTCGTATTATAAAAATCATCA
TTTTTTTGTTAAAAGATTAGTAGTCATATAGCTAGACATTAACCGACTGATTAAGATATAATAAA
ATCATATTTTAATAATATCTATTGGCACTGACGTTGCTTTCAAGCACTAGTCGACAGATAATCTT
TCAAGCACTAACTCGACAG
Found at i:517076 original size:28 final size:28
Alignment explanation
Indices: 517022--517089 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
517012 ACTGACGTTG
*
517022 CTTTCAAGCACT-AGTCGACAGTATAAT
1 CTTTCAAGCACTAACTCGACAGTATAAT
517049 CTTTCAAGCACTAACTCGACAGTATAAT
1 CTTTCAAGCACTAACTCGACAGTATAAT
517077 CTTTCAAGCACTA
1 CTTTCAAGCACTA
517090 TCTCCACAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 12 0.31
28 27 0.69
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (28 bp):
CTTTCAAGCACTAACTCGACAGTATAAT
Done.