Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold175
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: 1254584
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 3 of 8
Found at i:347100 original size:26 final size:26
Alignment explanation
Indices: 347068--347154 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
347058 GTTGGTGGCA
*
347068 CCTTTCAGTCCTTAAAGAGTAGGACG
1 CCTTTCAGTCCTCAAAGAGTAGGACG
* * * *
347094 CCTTTCAAAGCCCACAAAGTTGGT-GG-CA
1 CCTTTC--AGTCCTCAAAG--AGTAGGACG
347122 CCTTTCAGTCCTCAAAGAGTAGGACG
1 CCTTTCAGTCCTCAAAGAGTAGGACG
347148 CCTTTCA
1 CCTTTCA
347155 AAGCCTACAC
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
24 2 0.04
25 2 0.04
26 23 0.50
28 15 0.33
29 2 0.04
30 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGTAGGACG
Found at i:347476 original size:177 final size:169
Alignment explanation
Indices: 347008--347495 Score: 598
Period size: 177 Copynumber: 2.9 Consensus size: 169
346998 CTTCTTTCAC
* **
347008 TTTT-CAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTCAAAGTGCACACAAGTTGGTGGCACCTT
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTCAAAGCCCACACAAGTTGGTGG-ACCTT
* * * * *
347072 TCAGTCCTTAAAGAGTAGGACGCCTTTCAAAGCCCACA-AAGTTGGTGGCACCTTTCAGTCCTCA
64 TTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCA
* * * *
347136 AAGAGTAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCA
129 AAGAGCAGGATGCCTTTCAAAGCCCACACAAATTGGTGGCA
* * *
347177 TTTTCCAGTCCTCAAAAAGCAGGACGCC---T-TTT-AAAGCCCACACAAGTTAGTGG-CATTTT
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGACCTTTT
347236 CCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
66 --AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTC
*
347300 AAAGAGCAGGATGTTTTTTTCTTTTCAAAGCCCACACAAATTGGTGGCA
128 AAAGAGCAGGATG-------CCTTTCAAAGCCCACACAAATTGGTGGCA
**
347349 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACATGAGTTGGTGGTACCTTT
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGG-ACCTTT
* * *
347414 TAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGATGGCACTTTTTAGTCCTCAA
65 TAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAA
347479 AGAGCAGGATGCACTTT
130 AGAGCAGGATGC-CTTT
347496 ATTTTCCTCT
Statistics
Matches: 273, Mismatches: 25, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
162 4 0.01
164 54 0.20
165 34 0.12
167 1 0.00
169 4 0.01
170 22 0.08
171 3 0.01
172 53 0.19
175 1 0.00
176 3 0.01
177 85 0.31
178 4 0.01
179 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (169 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGACCTTTT
AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAA
GAGCAGGATGCCTTTCAAAGCCCACACAAATTGGTGGCA
Found at i:347490 original size:55 final size:55
Alignment explanation
Indices: 347039--347487 Score: 505
Period size: 55 Copynumber: 8.0 Consensus size: 55
347029 GACGCCTTTT
** * * *
347039 CCTTTCAAAGTGCACACAAGTTGGTGGCACCTTT-CAGTCCTTAAAGAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACG
* *
347094 CCTTTCAAAGCCCACA-AAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACG
* *
347148 CCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
* * *
347203 CCTTTTAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
*
347258 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
* *
347313 TTTTTTTCTTTTCAAAGCCCACACAAATTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 -------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
** * *
347375 CCTTTTCTTTCAAAGCCCACATGAGTTGGTGGTACCTTTT--AGTCCTCAAAGAGCAGGATG
1 -C----CTTTCAAAGCCCACACAAGTTGGTGG--CATTTTCCAGTCCTCAAAGAGCAGGACG
* * *
347435 CCTTTCAAAGCCCACACGAGTTGATGGCACTTTT-TAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
347488 TGCACTTTAT
Statistics
Matches: 350, Mismatches: 27, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
53 1 0.00
54 59 0.17
55 190 0.54
56 1 0.00
59 1 0.00
60 41 0.12
62 57 0.16
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
Found at i:347492 original size:28 final size:28
Alignment explanation
Indices: 347411--347495 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
347401 TGGTGGTACC
347411 TTTTAGTCCTCAAAGAGCAGGATGC-CT
1 TTTTAGTCCTCAAAGAGCAGGATGCACT
** * **
347438 TTCAAAG-CC-CACACGAG-TTGATGGCACT
1 TT-TTAGTCCTCA-AAGAGCAGGAT-GCACT
347466 TTTTAGTCCTCAAAGAGCAGGATGCACT
1 TTTTAGTCCTCAAAGAGCAGGATGCACT
347494 TT
1 TT
347496 ATTTTCCTCT
Statistics
Matches: 41, Mismatches: 10, Indels: 13
0.64 0.16 0.20
Matches are distributed among these distances:
26 5 0.12
27 12 0.29
28 19 0.46
29 5 0.12
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
TTTTAGTCCTCAAAGAGCAGGATGCACT
Found at i:348376 original size:19 final size:18
Alignment explanation
Indices: 348329--348414 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
348319 ATTTCAAAAA
*
348329 TTTGTATCGATACAAACAG
1 TTTGTATCGATACATA-AG
*
348348 TAAATGTATCGATACATAAG
1 T--TTGTATCGATACATAAG
348368 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
348384 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
348400 TTTTGTATCGATACA
1 -TTTGTATCGATACA
348415 ATGTATCGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 24 0.44
20 3 0.05
21 13 0.24
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:348389 original size:13 final size:13
Alignment explanation
Indices: 348371--348428 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
348361 ACATAAGTGT
348371 TGTATCGATACAA
1 TGTATCGATACAA
348384 TGTATCGATACATAA
1 TGTATCGATAC--AA
348399 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
348416 TGTATCGCTACAA
1 TGTATCGATACAA
348429 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:348391 original size:32 final size:32
Alignment explanation
Indices: 348350--348427 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
348340 ACAAACAGTA
348350 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
348382 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
348414 AATGTATCGCTACA
1 AATGTATCGATACA
348428 AAGCTACTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:348522 original size:20 final size:21
Alignment explanation
Indices: 348489--348531 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
348479 TCCAAAAATT
348489 TTACCCAGATGTATCGATACA
1 TTACCCAGATGTATCGATACA
348510 TTACCCA-ATGTATCGATACA
1 TTACCCAGATGTATCGATACA
348530 TT
1 TT
348532 TAGGCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
TTACCCAGATGTATCGATACA
Found at i:350896 original size:51 final size:49
Alignment explanation
Indices: 350825--350997 Score: 148
Period size: 51 Copynumber: 3.4 Consensus size: 49
350815 ATTTTTCATC
* * * * *
350825 TCGGGAATACCCCAATCCCGGTTTCATTTCTAATACATCAATTTTTCATAA
1 TCGGGGATACTCCAACCCCGGTTTTATTTCTAA-ACA-CAATTTTTCACAA
* * *
350876 TCGGGGATACTCCAACCCCGGTTTTATTTCTGAAACACCAATTCTCCGCAA
1 TCGGGGATACTCCAACCCCGGTTTTATTTCT-AAACA-CAATTTTTCACAA
* * * * * * *
350927 TCAGGGATATTCCAACTCCGATTTTATTTCAAAAACACTGACTTTTCACAA
1 TCGGGGATACTCCAACCCCGGTTTTATTTC-TAAACAC-AATTTTTCACAA
*
350978 TCGGGGATACTCTAACCCCG
1 TCGGGGATACTCCAACCCCG
350998 TTATTTTCGA
Statistics
Matches: 96, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
50 1 0.01
51 93 0.97
52 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (49 bp):
TCGGGGATACTCCAACCCCGGTTTTATTTCTAAACACAATTTTTCACAA
Found at i:351083 original size:76 final size:79
Alignment explanation
Indices: 350944--351093 Score: 216
Period size: 76 Copynumber: 1.9 Consensus size: 79
350934 TATTCCAACT
* * *
350944 CCGATTTTATTTCAAAAACACTGACTTTTCACAATCGGGGATACTCTAACCCCGTTATTTTCGAG
1 CCGATTTTATTTCAAAAACACTCAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
351009 GGGACACTCTAACC
66 GGGACACTCTAACC
* * *
351023 CCGATTTTATTTCTAAAACA-TCAATTTT-TC-ATCGGGGATACTCCAACCTCGTTATTTTCGAG
1 CCGATTTTATTTCAAAAACACTCAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
*
351085 GGGATACTC
66 GGGACACTC
351094 CAACTCCGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
76 38 0.59
77 1 0.02
78 6 0.09
79 19 0.30
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
CCGATTTTATTTCAAAAACACTCAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAG
GGGACACTCTAACC
Found at i:351088 original size:28 final size:29
Alignment explanation
Indices: 351056--351126 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
351046 ATTTTTCATC
351056 GGGGATACTCCAACCT-CGTTATTTTCGA
1 GGGGATACTCCAACCTCCGTTATTTTCGA
351084 GGGGATACTCCAA-CTCCGTTATTTTCGA
1 GGGGATACTCCAACCTCCGTTATTTTCGA
*
351112 GGGGATACCCCAACC
1 GGGGATACTCCAACC
351127 CCGACTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 37 0.93
29 1 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (29 bp):
GGGGATACTCCAACCTCCGTTATTTTCGA
Found at i:351215 original size:79 final size:79
Alignment explanation
Indices: 351084--351382 Score: 320
Period size: 79 Copynumber: 3.8 Consensus size: 79
351074 TTATTTTCGA
* * * *
351084 GGGGATACTCCAACTCCGTTATTTTCGAGGGGATACCCCAACCCCGACTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATC
351149 AATTTCTCATAATC
66 AATTTCTCATAATC
* * * *
351163 GGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCAAACCCCGGTTTTATTTCTAAAACATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATC
* * * *
351228 AATTTTTTATAGTT
66 AATTTCTCATAATC
* * * * * *
351242 GGGGATACTTCAACACCGTTA-TTTCTGAAGGGATGCTCTAATCCCGATTTTATTTCT-AAATCA
1 GGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT-A
* *
351305 TCGATTT-TCTTAA-C
64 TCAATTTCTCATAATC
* * * *
351319 CGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG-TTATTATCTCCAAAATAT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT-TTATTTCTAAAATAT
351383 TAAATTTCGC
Statistics
Matches: 179, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
76 2 0.01
77 41 0.23
78 18 0.10
79 118 0.66
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATC
AATTTCTCATAATC
Found at i:353337 original size:20 final size:20
Alignment explanation
Indices: 353308--353346 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
353298 GGAGTAAATT
*
353308 AATTCTTAGTTTTAACTTGA
1 AATTCCTAGTTTTAACTTGA
353328 AATTCCTAGTTTTAACTTG
1 AATTCCTAGTTTTAACTTG
353347 CAAACTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (20 bp):
AATTCCTAGTTTTAACTTGA
Found at i:358272 original size:14 final size:14
Alignment explanation
Indices: 358253--358279 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
358243 CATCAATTAT
358253 TTATTTATTTTTCA
1 TTATTTATTTTTCA
358267 TTATTTATTTTTC
1 TTATTTATTTTTC
358280 TGTTTTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTATTTTTCA
Found at i:358569 original size:2 final size:2
Alignment explanation
Indices: 358529--358558 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
358519 AATAGTTTTC
*
358529 AT AT AT AC 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
358559 TTACGTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:358825 original size:2 final size:2
Alignment explanation
Indices: 358818--358846 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
358808 GAGGATGATT
358818 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
358847 TTGAGGCTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:360091 original size:2 final size:2
Alignment explanation
Indices: 360078--360112 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
360068 GATGTTAGAC
* *
360078 AT AT AA AT AT AT AT CT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
360113 AAATATAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:362396 original size:23 final size:23
Alignment explanation
Indices: 362370--362415 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
362360 ACAATTCACT
362370 ACATGAATTGTTTACCTTTCAGG
1 ACATGAATTGTTTACCTTTCAGG
362393 ACATGAATTGTTTACCTTTCAGG
1 ACATGAATTGTTTACCTTTCAGG
362416 CAAAGGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (23 bp):
ACATGAATTGTTTACCTTTCAGG
Found at i:363868 original size:20 final size:18
Alignment explanation
Indices: 363836--363886 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 18
363826 TTTCAAAATA
*
363836 TTTCTCCCCTTTTTCATC
1 TTTCTCCCTTTTTTCATC
363854 TTTCCCTCCCTTTTTTCATC
1 TTT--CTCCCTTTTTTCATC
363874 TTTCTCCCTTTTT
1 TTTCTCCCTTTTT
363887 ACAAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 13 0.43
20 17 0.57
ACGTcount: A:0.04, C:0.37, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTCTCCCTTTTTTCATC
Found at i:364436 original size:118 final size:117
Alignment explanation
Indices: 364228--364462 Score: 389
Period size: 118 Copynumber: 2.0 Consensus size: 117
364218 GCTGGTTTAA
* *
364228 AAAAGGGAAGTGTTGATCTACGTGCTGAAAGAGTGATGTGATCAACTCTTGAATCGATGGTGAAA
1 AAAAGGGAAGTGTTGATCTACGCGCTGAAAGAGTGATGCGATCAACTCTTGAATCGATGGTGAAA
* * * * *
364293 AAGTAACTTAGATGCATTGCGTGAATGATCGATTGATCCTCTTTAAAGGTTGC
66 AAGTAACTCAGATGCATTACGTGAATAATCG-GTGATCCTCCTTAAAGGTTGC
364346 AAAAGGGAAGTGTTGATCTACGCGCTGAAAGAGTGATGCGATCAACTCTTGAATCGATGGTGAAA
1 AAAAGGGAAGTGTTGATCTACGCGCTGAAAGAGTGATGCGATCAACTCTTGAATCGATGGTGAAA
*
364411 AAGTAACTCAGATGCATTACGTGAATAATTGGTGATCCTCCTTAAAGGTTGC
66 AAGTAACTCAGATGCATTACGTGAATAATCGGTGATCCTCCTTAAAGGTTGC
364463 GGACGATGTC
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
117 19 0.17
118 90 0.83
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (117 bp):
AAAAGGGAAGTGTTGATCTACGCGCTGAAAGAGTGATGCGATCAACTCTTGAATCGATGGTGAAA
AAGTAACTCAGATGCATTACGTGAATAATCGGTGATCCTCCTTAAAGGTTGC
Found at i:365657 original size:33 final size:33
Alignment explanation
Indices: 365620--365683 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
365610 AATAGTACCC
*
365620 ATGTATCAATACAAAGAACGTAGTATCGATACA
1 ATGTATCAATACAAAGAACGCAGTATCGATACA
* * * *
365653 ATGTATCGATGCTAAGAATGCAGTATCGATA
1 ATGTATCAATACAAAGAACGCAGTATCGATA
365684 AATCTAGGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (33 bp):
ATGTATCAATACAAAGAACGCAGTATCGATACA
Found at i:367865 original size:42 final size:42
Alignment explanation
Indices: 367812--367954 Score: 137
Period size: 42 Copynumber: 3.3 Consensus size: 42
367802 GGACAAAGGA
367812 AAAAAAGGAAAACGAAATGTGTCCTGCTCTTTGAGGATAAAAG
1 AAAAAAGGAAAA-GAAATGTGTCCTGCTCTTTGAGGATAAAAG
* *
367855 -AAAAAGGAAAATAAA-GTGCATCCTGCTCTTTGAGAACTAAAAGAG
1 AAAAAAGGAAAAGAAATGTG--TCCTGCTCTTTGAGGA-T-AAA-AG
* * * * * *
367900 AAAATAAGGAAATGAAGTGCGTCCTGTTCTTTGAGGACAAAGG
1 AAAA-AAGGAAAAGAAATGTGTCCTGCTCTTTGAGGATAAAAG
367943 AAAAAAGGAAAA
1 AAAAAAGGAAAA
367955 AGCATCCTGC
Statistics
Matches: 81, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
42 33 0.41
43 6 0.07
44 6 0.07
45 2 0.02
46 17 0.21
47 9 0.11
48 2 0.02
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (42 bp):
AAAAAAGGAAAAGAAATGTGTCCTGCTCTTTGAGGATAAAAG
Found at i:367931 original size:46 final size:42
Alignment explanation
Indices: 367833--367972 Score: 137
Period size: 46 Copynumber: 3.3 Consensus size: 42
367823 ACGAAATGTG
* * *
367833 TCCTGCTCTTTGAGGATAAAAG-AAAAAGGAAAATAAAGTGCA
1 TCCTGCTCTTTGAGAACAAAGGAAAAAAGG-AAATAAAGTGCA
* *
367875 TCCTGCTCTTTGAGAACTAAAAGAGAAAATAAGGAAATGAAGTGCG
1 TCCTGCTCTTTGAGAAC--AAAG-GAAAA-AAGGAAATAAAGTGCA
* *
367921 TCCTGTTCTTTGAGGACAAAGGAAAAAAGG-AA-AAA--GCA
1 TCCTGCTCTTTGAGAACAAAGGAAAAAAGGAAATAAAGTGCA
367959 TCCTGCTCTTTGAG
1 TCCTGCTCTTTGAG
367973 GACTAAAAAG
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
38 15 0.18
40 2 0.02
41 2 0.02
42 19 0.23
43 5 0.06
44 7 0.08
45 1 0.01
46 28 0.34
47 4 0.05
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (42 bp):
TCCTGCTCTTTGAGAACAAAGGAAAAAAGGAAATAAAGTGCA
Found at i:367932 original size:88 final size:84
Alignment explanation
Indices: 367806--367980 Score: 210
Period size: 88 Copynumber: 2.0 Consensus size: 84
367796 TTTCGAGGAC
* *
367806 AAAGGAAAAAAAGGAAAACGAAATGTGTCCTGCTCTTTGAGGATAAAAG-AAAAAGGAAAATAAA
1 AAAGGAAAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAAAAGG--AA-AAA
367870 GTGCATCCTGCTCTTTGAGAACTA
63 --GCATCCTGCTCTTTGAGAACTA
* * * * *
367894 AAAGAGAAAATAAGG-AAATGAAGTGCGTCCTGTTCTTTGAGGACAAAGGAAAAAAGGAAAAAGC
1 AAAG-GAAAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAAAGC
*
367958 ATCCTGCTCTTTGAGGACTA
65 ATCCTGCTCTTTGAGAACTA
367978 AAA
1 AAA
367981 AGTGCCACCA
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
84 24 0.31
86 3 0.04
87 2 0.03
88 32 0.42
89 16 0.21
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (84 bp):
AAAGGAAAAAAAGGAAAACGAAATGCGTCCTGCTCTTTGAGGACAAAAGAAAAAAGGAAAAAGCA
TCCTGCTCTTTGAGAACTA
Found at i:368029 original size:61 final size:61
Alignment explanation
Indices: 367945--368517 Score: 721
Period size: 61 Copynumber: 9.6 Consensus size: 61
367935 GACAAAGGAA
* * *
367945 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
368006 AAAAGGAAAATGCGTCCTACTCTTTGAGGACT-GAAGGTGCCATCAGCTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
368066 AAAAGAAAAAGGCGTCCTGCT-TTTCAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTT-GAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
368127 ------AAAAGGCATCCTGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
368182 AAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
*
368243 AAAAGGAAAAAGCGTCC-GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG-TTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT
*
368303 -----TAAAAGGCGTCCTGCTCTTTGAGGACTGAGAAA-TGCCACCAACTTGTGTGGGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
368359 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACTAACTTATGTGAGCTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
368420 AAAAGGAAAAGGTGTCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTT
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
368481 AAAAGGAAAAAGTGTCCTGCTCTTTGAGGACTAGAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAA
368518 AGTGAAAGGA
Statistics
Matches: 448, Mismatches: 43, Indels: 42
0.84 0.08 0.08
Matches are distributed among these distances:
55 72 0.16
56 28 0.06
57 2 0.00
59 3 0.01
60 74 0.17
61 269 0.60
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (61 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:368223 original size:116 final size:116
Alignment explanation
Indices: 367945--368486 Score: 557
Period size: 116 Copynumber: 4.6 Consensus size: 116
367935 GACAAAGGAA
* * *
367945 AAAAGGAAAAAGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* * * *
368010 GGAAAATGCGTCCTACTCTTTGAGGACT-GAAGGTGCCATCAGCTTGTGTGGGCTTT
66 -G-----GCGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTT
* * *
368066 AAAAGAAAAAGGCGTCCTGCT-TTTCAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTT-GAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAA
*
368130 AGGCATCCTGCTCTTTGAGGACTGGGAA-ATGCCACCAACTTGTGTGGGCTTT
65 AGGCGTCCTGCTCTTTGAGGACT-GGAAGATGCCACCAACTTGTGTGGGCTTT
* * * *
368182 AAAAGGAAAAGGCATCTTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* *
368247 GGAAAAAGCGTCC-GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGG-TTT
66 -G-----GCGTCCTGCTCTTTGAGGACTGGAAGA-TGCCACCAACTTGTGTGGGCTTT
*
368303 -----TAAAAGGCGTCCTGCTCTTTGAGGACTGAGAAA-TGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTT---
* * * * *
368362 AGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACTAACTTATGTGAGCTTT
62 ---AAAAGGCGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTT
* * * * *
368420 AAAAGGAAAAGGTGTCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAAAA
1 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
368485 GG
66 GG
368487 AAAAAGTGTC
Statistics
Matches: 358, Mismatches: 36, Indels: 59
0.79 0.08 0.13
Matches are distributed among these distances:
115 19 0.05
116 149 0.42
117 32 0.09
120 7 0.02
121 77 0.22
122 74 0.21
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (116 bp):
AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA
GGCGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTT
Found at i:368318 original size:177 final size:176
Alignment explanation
Indices: 367951--368486 Score: 803
Period size: 177 Copynumber: 3.0 Consensus size: 176
367941 GGAAAAAAGG
* *
367951 AAAAAGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTGAGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
* * *
368015 ATGCGTCCTACTCTTTGAGGACT-GAAGGTGCCATCAGCTTGTGTGGGCTTTAAAA-GAAAAAGG
65 AGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAA-G
*
368078 CGTCCTGCT-TTTCAAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
129 CGTCC-GCTCTTT-GAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
*
368127 AAAAGGCATCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTGAGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* *
368192 GGCATCTTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAAGCG
66 GGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAAGCG
* *
368257 TCCGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGTTTT
131 TCCGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT
*
368304 AAAAGGCGTCCTGCTCTTTGAGGACTGAGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 AAAAGGCATCCTGCTCTTTGAGGACTGAGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * * *
368369 GGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCA-CTAACTTATGTGAGCTTTAAAAGGAAAAGGT
66 GGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCATC-AACTTGTGTGGGCTTTAAAAGGAAAAAGC
* * *
368433 GTCATGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTT
130 GTC-CGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
368481 AAAAGG
1 AAAAGG
368487 AAAAAGTGTC
Statistics
Matches: 329, Mismatches: 24, Indels: 13
0.90 0.07 0.04
Matches are distributed among these distances:
176 86 0.26
177 223 0.68
178 20 0.06
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (176 bp):
AAAAGGCATCCTGCTCTTTGAGGACTGAGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
GGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAAGCG
TCCGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:369498 original size:8 final size:8
Alignment explanation
Indices: 369487--369535 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
369477 TCATTTTTCA
369487 TTTTTTGT
1 TTTTTTGT
*
369495 TTTTTTAT
1 TTTTTTGT
369503 TTTTTTGTT
1 TTTTTTG-T
*
369512 TTTTTATTT
1 TTTTT-TGT
369521 ATTTTTTGT
1 -TTTTTTGT
369530 TTTTTT
1 TTTTTT
369536 TAAAAAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 19 0.56
9 9 0.26
10 6 0.18
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (8 bp):
TTTTTTGT
Found at i:369523 original size:20 final size:18
Alignment explanation
Indices: 369480--369536 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
369470 TTTTCTCTCA
*
369480 TTTTTCATTTTTTG-TTT
1 TTTTTTATTTTTTGTTTT
*
369497 TTTTAT-TTTTTTGTTTT
1 TTTTTTATTTTTTGTTTT
369514 TTTATTTATTTTTTGTTTT
1 TTT-TTTATTTTTTGTTTT
369533 TTTT
1 TTTT
369537 AAAAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 7 0.21
17 10 0.29
18 3 0.09
19 14 0.41
ACGTcount: A:0.07, C:0.02, G:0.05, T:0.86
Consensus pattern (18 bp):
TTTTTTATTTTTTGTTTT
Found at i:369537 original size:16 final size:16
Alignment explanation
Indices: 369480--369537 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
369470 TTTTCTCTCA
*
369480 TTTTTCATTTTTTG-T
1 TTTTTTATTTTTTGTT
369495 TTTTTTATTTTTTTGTTTT
1 TTTTTTA-TTTTTTG--TT
369514 TTTATTTATTTTTTGTT
1 TTT-TTTATTTTTTGTT
369531 TTTTTTA
1 TTTTTTA
369538 AAAAAAGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.16
16 11 0.30
17 5 0.14
19 11 0.30
20 4 0.11
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (16 bp):
TTTTTTATTTTTTGTT
Found at i:369537 original size:20 final size:17
Alignment explanation
Indices: 369486--369535 Score: 75
Period size: 16 Copynumber: 2.9 Consensus size: 17
369476 CTCATTTTTC
369486 ATTTTTTGTTTTTTTAT
1 ATTTTTTGTTTTTTTAT
369503 -TTTTTTGTTTTTTTATTT
1 ATTTTTTGTTTTTTTA--T
369521 ATTTTTTGTTTTTTT
1 ATTTTTTGTTTTTTT
369536 TAAAAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.50
18 1 0.03
19 14 0.47
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (17 bp):
ATTTTTTGTTTTTTTAT
Found at i:382038 original size:78 final size:79
Alignment explanation
Indices: 381907--382079 Score: 249
Period size: 78 Copynumber: 2.2 Consensus size: 79
381897 ACAACGGGAC
* * * * * * *
381907 TAGAGTATCCCTAATTATGGAAAATCTGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCTCTC
1 TAGAGTATCCCTGATTATAGAAAATCGGTATTCTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
381972 GAAAATAAC-AGGT
66 GAAAATAACGAGGT
* *
381985 TGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
1 TAGAGTATCCCTGATTATAGAAAATCGGTATTCTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
382050 GAAAATAACGAGGT
66 GAAAATAACGAGGT
*
382064 TAGAGTATCCTTGATT
1 TAGAGTATCCCTGATT
382080 GTGAAAAATT
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 65 0.78
79 18 0.22
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (79 bp):
TAGAGTATCCCTGATTATAGAAAATCGGTATTCTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
GAAAATAACGAGGT
Found at i:382116 original size:79 final size:78
Alignment explanation
Indices: 381907--382126 Score: 214
Period size: 78 Copynumber: 2.8 Consensus size: 78
381897 ACAACGGGAC
* * * * * *
381907 TAGAGTATCCCTAATTATGGAAAATCTG-TGTTCT-GGAAATAAAATCGGGGTTGGAGTATCCTC
1 TAGAGTATCCCTGATTATAGAAAATC-GATATT-TAGAAAATAAAACCGGGGTTGGAGTATCCCC
381970 TCGAAAATAACAGGT
64 TCGAAAATAACAGGT
* * * * *
381985 TGGAGTATCCCTGATTATAGAAAATCGGTATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
1 TAGAGTATCCCTGATTATAGAAAATCGATATTTAGAAAATAAAACCGGGGTTGGAGTATCCCCTC
382050 GAAAATAACGAGGT
66 GAAAATAAC-AGGT
* * * * **
382064 TAGAGTATCCTTGATTGT-GAAAAATTGATGCTTTAG-AAATAAGGCCGGGGTTGGAGTATCCCC
1 TAGAGTATCCCTGATTATAG-AAAATCGAT-ATTTAGAAAATAAAACCGGGGTTGGAGTATCCCC
382127 GATTATGAGA
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
77 2 0.02
78 64 0.54
79 49 0.41
80 4 0.03
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (78 bp):
TAGAGTATCCCTGATTATAGAAAATCGATATTTAGAAAATAAAACCGGGGTTGGAGTATCCCCTC
GAAAATAACAGGT
Found at i:382251 original size:79 final size:79
Alignment explanation
Indices: 382109--382259 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 79
382099 GAAATAAGGC
* * * * * * *
382109 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATGAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGAAAATAAAATCAGAGTTAGAGTAT
382174 CCCCGATGAAATAA
66 CCCCGATGAAATAA
** *
382188 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAATCAGAGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGAAAATAAAATCAGAGTTAGAGTAT
*
382253 CCTCGAT
66 CCCCGAT
382260 TGTGAAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGAAAATAAAATCAGAGTTAGAGTAT
CCCCGATGAAATAA
Found at i:382252 original size:51 final size:51
Alignment explanation
Indices: 382196--382307 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
382186 AACGGGGTTG
*
382196 GAGTATCCCCGATTATGAAAAATTGATGTTTT-GAAAATAAAATCAGAGTTA
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTAG-AAATAAAACCAGAGTTA
* * * * *
382247 GAGTATCCTCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTG
1 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGAGTTA
382298 GAGTATCCCC
1 GAGTATCCCC
382308 TTGGAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGAGTTA
Found at i:382397 original size:51 final size:51
Alignment explanation
Indices: 382318--382436 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
382308 TTGGAAATAA
**
382318 CGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTT-GAAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGACGAAAAATCGATGTTTTAG-AAATAAAAC
* * * *
382369 CGGGGTTGGAGTATCCTCGATTACGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATGACGAAAAATCGATGTTTTAGAAATAAAAC
* *
382420 CGAGGTTTGAGTATCCC
1 CGGGGTTAGAGTATCCC
382437 TTGGAAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATGACGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:382498 original size:130 final size:130
Alignment explanation
Indices: 381982--382496 Score: 572
Period size: 130 Copynumber: 4.0 Consensus size: 130
381972 GAAAATAACA
* * * *
381982 GGTTGGAGTATCC-CTGATTAT-AGAAAATCGGTATTTT-GAAAATAAAATCGAGGTTGGAGTAT
1 GGTTGGAGTATCCTC-GATTATGA-AAAATTGATGTTTTAG-AAATAAAACCGAGGTTGGAGTAT
* * ** * **
382044 CCCCTCGAAAATAACGAGGTTAGAGTATCCTTGATTGTGAAAAATTGATGCTTT-AGAAATAAGG
63 CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGA-AAATAAAA
382108 CCGG
127 CCGG
* * ** * * * ** *
382112 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATGAAGTCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
*** * * * *
382177 CGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAATCAG
66 CTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGG
* * * *
382242 AGTTAGAGTATCCTCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
* * *
382307 CTTGGAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTGAAAATAAAACCGG
66 CTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGG
* *
382372 GGTTGGAGTATCCTCGATTACGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTTGAGTAT-CC
1 GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
* * * * * *
382436 CTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAGTAAAA
66 CTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAA
382497 ACATAAATGA
Statistics
Matches: 327, Mismatches: 54, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
129 56 0.17
130 267 0.82
131 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (130 bp):
GGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
CTCGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGG
Found at i:384912 original size:29 final size:30
Alignment explanation
Indices: 384867--384943 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
384857 CGATACATTG
*
384867 CAAAATGTATCGATACATCTGGGT-AAACC
1 CAAAATGTATCGATACATCTAGGTAAAACC
* *
384896 CAGAATGTATCGATACATCTAGGTAAAACT
1 CAAAATGTATCGATACATCTAGGTAAAACC
*
384926 CAAAATATATCGATACAT
1 CAAAATGTATCGATACAT
384944 TAAGGGCATG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 22 0.52
30 20 0.48
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (30 bp):
CAAAATGTATCGATACATCTAGGTAAAACC
Found at i:384959 original size:21 final size:21
Alignment explanation
Indices: 384933--384986 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
384923 ACTCAAAATA
384933 TATCGATACATTAAGGGCATG
1 TATCGATACATTAAGGGCATG
384954 TATCGATACATTAAGGGCATG
1 TATCGATACATTAAGGGCATG
*
384975 TATTGATACATT
1 TATCGATACATT
384987 TTAGCAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (21 bp):
TATCGATACATTAAGGGCATG
Found at i:385500 original size:23 final size:25
Alignment explanation
Indices: 385474--385529 Score: 80
Period size: 23 Copynumber: 2.3 Consensus size: 25
385464 TTTTATGTAC
385474 AAATTAAAAAAATTAT-AAT-TTAA
1 AAATTAAAAAAATTATAAATATTAA
*
385497 AAATAAAAAAAATTATAAATATTAA
1 AAATTAAAAAAATTATAAATATTAA
*
385522 AATTTAAA
1 AAATTAAA
385530 TTTAAATCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 3 0.11
25 10 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATTAAAAAAATTATAAATATTAA
Found at i:386782 original size:19 final size:19
Alignment explanation
Indices: 386760--386798 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
386750 TTTTGGTAAG
386760 CTAACTGTGTTAATTGAAT
1 CTAACTGTGTTAATTGAAT
386779 CTAACTGTGTTAATTGAAT
1 CTAACTGTGTTAATTGAAT
386798 C
1 C
386799 AATTTGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (19 bp):
CTAACTGTGTTAATTGAAT
Found at i:388394 original size:20 final size:19
Alignment explanation
Indices: 388347--388394 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
388337 TATATTTTAA
*
388347 ATTT-AAATTAAATTAATT
1 ATTTAAAATTAAAATAATT
*
388365 -TTTAATATTAAAATAATAT
1 ATTTAAAATTAAAATAAT-T
388384 ATTTAAAATTA
1 ATTTAAAATTA
388395 TTTACTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 1 0.04
20 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTAAAATTAAAATAATT
Found at i:388486 original size:10 final size:9
Alignment explanation
Indices: 388454--388490 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
388444 TTTTAATGTA
388454 TTTTTAT-T
1 TTTTTATAT
388462 TTTTTATAT
1 TTTTTATAT
388471 TTTTTATAT
1 TTTTTATAT
388480 ATTTTTA-AT
1 -TTTTTATAT
388489 TT
1 TT
388491 ACGATTACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 9 0.33
9 12 0.44
10 6 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTATAT
Found at i:390133 original size:21 final size:22
Alignment explanation
Indices: 390107--390164 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
390097 CACGTATAAG
390107 AATGTATCGATACAATTTCAA-
1 AATGTATCGATACAATTTCAAT
*
390128 AATGTATCAATAC-A--TCAAT
1 AATGTATCGATACAATTTCAAT
390147 AATTGTATCGATACAATT
1 AA-TGTATCGATACAATT
390165 AGCCCAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
19 2 0.07
20 11 0.37
21 13 0.43
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
AATGTATCGATACAATTTCAAT
Found at i:395646 original size:14 final size:14
Alignment explanation
Indices: 395627--395653 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
395617 CTTAAGTCAT
395627 GGACGTCCAAACAA
1 GGACGTCCAAACAA
395641 GGACGTCCAAACA
1 GGACGTCCAAACA
395654 TCTGTGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.22, T:0.07
Consensus pattern (14 bp):
GGACGTCCAAACAA
Found at i:397147 original size:485 final size:485
Alignment explanation
Indices: 396238--397213 Score: 1898
Period size: 485 Copynumber: 2.0 Consensus size: 485
396228 AACATAGCAA
*
396238 AAAAAGGCATAAGTATGGGCTGCTAGATGATGAGGATGAAACACGGTATTTTAATCACACAAATG
1 AAAAAGGCATAAGTATGGGCTGCTAGATGATGAGAATGAAACACGGTATTTTAATCACACAAATG
396303 GCATGAAAACATTGAAACAATCCTAAAACTACCACATCCAAGGCCACAATAATGCATGATTATTT
66 GCATGAAAACATTGAAACAATCCTAAAACTACCACATCCAAGGCCACAATAATGCATGATTATTT
396368 TAGGAGGGTCATGAAAACATGTTAAGATCACTAAAATGATAATAAACACATAAACAGAAAATAAA
131 TAGGAGGGTCATGAAAACATGTTAAGATCACTAAAATGATAATAAACACATAAACAGAAAATAAA
396433 AGGATAAAGTCTAAAAAATATACCAACACAAGCAAGCTAGACTGATTTGCTAGTTTGGAAAGATA
196 AGGATAAAGTCTAAAAAATATACCAACACAAGCAAGCTAGACTGATTTGCTAGTTTGGAAAGATA
*
396498 AAGCAGCTTGTTTAACACCTTCTTGGGTCTGTAAGCAAGCTAAAAAGGGGAAAAGGAGTTATTTG
261 AAGCAGCTTGTTTAACACCTTCTTAGGTCTGTAAGCAAGCTAAAAAGGGGAAAAGGAGTTATTTG
*
396563 AGTTATGGTATGAGGGGAAATAGTTTGGAGCTGTGTATGGGCTAAGGAGCAAGTGTTTTAAGTTG
326 AGTTATGGTATGAGGGGAAATAGTTTGGAGCTGTGTATGGGCTAAGGAGCAAGTGTTTTAAGGTG
396628 TTTTTATAGAAAGAAATGAGAAGCTACGGGATTTGGTGTTTGCTAGAATGAAGAAGTGTTTTTGG
391 TTTTTATAGAAAGAAATGAGAAGCTACGGGATTTGGTGTTTGCTAGAATGAAGAAGTGTTTTTGG
396693 GAGTTGGAAGGTGCTAAAGAAGTGTTCAGC
456 GAGTTGGAAGGTGCTAAAGAAGTGTTCAGC
*
396723 AAAAAGGCATAAGTATGGGCTGCTGGATGATGAGAATGAAACACGGTATTTTAATCACACAAATG
1 AAAAAGGCATAAGTATGGGCTGCTAGATGATGAGAATGAAACACGGTATTTTAATCACACAAATG
396788 GCATGAAAACATTGAAACAATCCTAAAACTACCACATCCAAGGCCACAATAATGCATGATTATTT
66 GCATGAAAACATTGAAACAATCCTAAAACTACCACATCCAAGGCCACAATAATGCATGATTATTT
396853 TAGGAGGGTCATGAAAACATGTTAAGATCACTAAAATGATAATAAACACATAAACAGAAAATAAA
131 TAGGAGGGTCATGAAAACATGTTAAGATCACTAAAATGATAATAAACACATAAACAGAAAATAAA
396918 AGGATAAAGTCTAAAAAATATACCAACACAAGCAAGCTAGACTGATTTGCTAGTTTGGAAAGATA
196 AGGATAAAGTCTAAAAAATATACCAACACAAGCAAGCTAGACTGATTTGCTAGTTTGGAAAGATA
* *
396983 AAGCAGCTTGTTTAACACCTTTTTAGGTCTGTAAGCAAGCTAAAAAGGGGAAAATGAGTTATTTG
261 AAGCAGCTTGTTTAACACCTTCTTAGGTCTGTAAGCAAGCTAAAAAGGGGAAAAGGAGTTATTTG
397048 AGTTATGGTATGAGGGGAAATAGTTTGGAGCTGTGTATGGGCTAAGGAGCAAGTGTTTTAAGGTG
326 AGTTATGGTATGAGGGGAAATAGTTTGGAGCTGTGTATGGGCTAAGGAGCAAGTGTTTTAAGGTG
397113 TTTTTATAGAAAGAAATGAGAAGCTACGGGATTTGGTGTTTGCTAGAATGAAGAAGTGTTTTTGG
391 TTTTTATAGAAAGAAATGAGAAGCTACGGGATTTGGTGTTTGCTAGAATGAAGAAGTGTTTTTGG
397178 GAGTTGGAAGGTGCTAAAGAAGTGTTCAGC
456 GAGTTGGAAGGTGCTAAAGAAGTGTTCAGC
397208 AAAAAG
1 AAAAAG
397214 TCTTTTGCTA
Statistics
Matches: 485, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
485 485 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (485 bp):
AAAAAGGCATAAGTATGGGCTGCTAGATGATGAGAATGAAACACGGTATTTTAATCACACAAATG
GCATGAAAACATTGAAACAATCCTAAAACTACCACATCCAAGGCCACAATAATGCATGATTATTT
TAGGAGGGTCATGAAAACATGTTAAGATCACTAAAATGATAATAAACACATAAACAGAAAATAAA
AGGATAAAGTCTAAAAAATATACCAACACAAGCAAGCTAGACTGATTTGCTAGTTTGGAAAGATA
AAGCAGCTTGTTTAACACCTTCTTAGGTCTGTAAGCAAGCTAAAAAGGGGAAAAGGAGTTATTTG
AGTTATGGTATGAGGGGAAATAGTTTGGAGCTGTGTATGGGCTAAGGAGCAAGTGTTTTAAGGTG
TTTTTATAGAAAGAAATGAGAAGCTACGGGATTTGGTGTTTGCTAGAATGAAGAAGTGTTTTTGG
GAGTTGGAAGGTGCTAAAGAAGTGTTCAGC
Found at i:397548 original size:10 final size:10
Alignment explanation
Indices: 397533--397558 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
397523 CAAAGGAAGA
397533 AAATGTCACG
1 AAATGTCACG
397543 AAATGTCACG
1 AAATGTCACG
397553 AAATGT
1 AAATGT
397559 GAAAATTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (10 bp):
AAATGTCACG
Found at i:402743 original size:20 final size:20
Alignment explanation
Indices: 402718--402758 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
402708 TCTAAGTATA
*
402718 AATACTGCAAGTATCGATAC
1 AATACTACAAGTATCGATAC
**
402738 AATACTACTTGTATCGATAC
1 AATACTACAAGTATCGATAC
402758 A
1 A
402759 TATGGTTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (20 bp):
AATACTACAAGTATCGATAC
Found at i:402875 original size:33 final size:33
Alignment explanation
Indices: 402818--402884 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
402808 CACATGAAAA
* * * *
402818 TGTATCGATACATATTGCACTGTATGGATACAT
1 TGTATCGATACACAGTGCAATGTATCGATACAT
* *
402851 TGTATCGATACACCGTGCAATGTATCTATACAT
1 TGTATCGATACACAGTGCAATGTATCGATACAT
402884 T
1 T
402885 ATGTGAAAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACACAGTGCAATGTATCGATACAT
Found at i:402976 original size:21 final size:21
Alignment explanation
Indices: 402931--403008 Score: 88
Period size: 22 Copynumber: 3.7 Consensus size: 21
402921 ACCCTTCATG
* **
402931 TGTATCGATACAAATATAGGAA
1 TGTATCGATACAATTCCA-GAA
402953 TGTATCGATACAATTCCAGAA
1 TGTATCGATACAATTCCAGAA
*
402974 TGTATCGATAC-A-TCCAAAA
1 TGTATCGATACAATTCCAGAA
402993 TTGTATCGATACAATT
1 -TGTATCGATACAATT
403009 AGCCCAACGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.12
20 12 0.24
21 15 0.31
22 16 0.33
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATTCCAGAA
Found at i:402999 original size:20 final size:20
Alignment explanation
Indices: 402951--403005 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
402941 CAAATATAGG
*
402951 AATGTATCGATACAATTCCAG
1 AATGTATCGATAC-ATTCCAA
402972 AATGTATCGATACA-TCCAA
1 AATGTATCGATACATTCCAA
402991 AATTGTATCGATACA
1 AA-TGTATCGATACA
403006 ATTAGCCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 6 0.19
20 13 0.41
21 13 0.41
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTCCAA
Found at i:403165 original size:27 final size:28
Alignment explanation
Indices: 403134--403199 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 28
403124 CCATTTGTTA
403134 TTATTCATTTCTAAGCTCTTTTGTGCCTT
1 TTATTCATTTCTAAGCTCTTTTGTGCC-T
403163 ATTATTCATTTCTAAGCTCTTTTGTGCCT
1 -TTATTCATTTCTAAGCTCTTTTGTGCCT
403192 TT-TTCATT
1 TTATTCATT
403200 ATTTGTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 6 0.17
28 2 0.06
29 1 0.03
30 27 0.75
ACGTcount: A:0.15, C:0.20, G:0.09, T:0.56
Consensus pattern (28 bp):
TTATTCATTTCTAAGCTCTTTTGTGCCT
Found at i:403167 original size:30 final size:30
Alignment explanation
Indices: 403131--403192 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
403121 TCTCCATTTG
403131 TTATTATTCATTTCTAAGCTCTTTTGTGCC
1 TTATTATTCATTTCTAAGCTCTTTTGTGCC
403161 TTATTATTCATTTCTAAGCTCTTTTGTGCC
1 TTATTATTCATTTCTAAGCTCTTTTGTGCC
403191 TT
1 TT
403193 TTTCATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.16, C:0.19, G:0.10, T:0.55
Consensus pattern (30 bp):
TTATTATTCATTTCTAAGCTCTTTTGTGCC
Found at i:408252 original size:24 final size:25
Alignment explanation
Indices: 408225--408274 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
408215 AAGCCTTGCA
*
408225 CATTAAGTACTTGTGT-CTTTATTT
1 CATTAAGTACTTGTGTCCTTCATTT
408249 CATTAAGTACTTGTGTCCTTCATTT
1 CATTAAGTACTTGTGTCCTTCATTT
408274 C
1 C
408275 GTAATCAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (25 bp):
CATTAAGTACTTGTGTCCTTCATTT
Found at i:409193 original size:7 final size:7
Alignment explanation
Indices: 409181--409212 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
409171 GATGGAGCTC
409181 TTTCTTT
1 TTTCTTT
409188 TTTCTTT
1 TTTCTTT
409195 TTTCTTT
1 TTTCTTT
*
409202 TTTTTTT
1 TTTCTTT
409209 TTTC
1 TTTC
409213 CATTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTCTTT
Found at i:421051 original size:3 final size:3
Alignment explanation
Indices: 421043--421074 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
421033 TAATTGAAGA
421043 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
421075 AAGGCCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:421256 original size:13 final size:13
Alignment explanation
Indices: 421238--421264 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
421228 TTTCGACCAG
421238 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
421251 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
421264 A
1 A
421265 GGCTCTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:424282 original size:22 final size:21
Alignment explanation
Indices: 424246--424287 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
424236 TATTAATTTA
424246 ATTCTAAAAGTAATACTATTAT
1 ATTCTAAAAGTAATA-TATTAT
424268 ATTCTAAAA-TAAATATATTA
1 ATTCTAAAAGT-AATATATTA
424288 ATAAAATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTCTAAAAGTAATATATTAT
Found at i:424298 original size:25 final size:23
Alignment explanation
Indices: 424227--424307 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 23
424217 TAATATTAAT
*
424227 AAATAAAAATATTAATTTAATTCTA
1 AAATAAATATATTAA--TAATTCTA
424252 AAAGT-AATACTATT-AT-ATTCTA
1 AAA-TAAATA-TATTAATAATTCTA
424274 AAATAAATATATTAATAAAATTCTA
1 AAATAAATATATTAAT--AATTCTA
*
424299 AAATTAATA
1 AAATAAATA
424308 GTACAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
21 5 0.11
22 15 0.32
23 1 0.02
25 21 0.45
26 5 0.11
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (23 bp):
AAATAAATATATTAATAATTCTA
Found at i:424315 original size:25 final size:25
Alignment explanation
Indices: 424268--424316 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
424258 ATACTATTAT
*
424268 ATTCTAAAATAAATATATTAATAAA
1 ATTCTAAAATAAATATATCAATAAA
*
424293 ATTCTAAAATTAATAGTA-CAATAA
1 ATTCTAAAATAAATA-TATCAATAA
424317 TATTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (25 bp):
ATTCTAAAATAAATATATCAATAAA
Found at i:424325 original size:47 final size:47
Alignment explanation
Indices: 424226--424325 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
424216 GTAATATTAA
** ** * *
424226 TAAATAAAAATATTAATTTAATTCTAAAAGTAATACTATTATATTCT
1 TAAATAAAAATATTAATAAAATTCTAAAAGTAATACTACAATAATAT
* * * *
424273 AAAATAAATATATTAATAAAATTCTAAAATTAATAGTACAATAATAT
1 TAAATAAAAATATTAATAAAATTCTAAAAGTAATACTACAATAATAT
424320 TAAATA
1 TAAATA
424326 TATAAAATAG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (47 bp):
TAAATAAAAATATTAATAAAATTCTAAAAGTAATACTACAATAATAT
Found at i:425494 original size:23 final size:23
Alignment explanation
Indices: 425468--425512 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
425458 GATATAAACC
425468 TAATATGAAAAATAAT-TAAAATA
1 TAATAT-AAAAATAATATAAAATA
425491 TAATATAAAAATAATATAAAAT
1 TAATATAAAAATAATATAAAAT
425513 TATTAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TAATATAAAAATAATATAAAATA
Found at i:425504 original size:11 final size:11
Alignment explanation
Indices: 425468--425511 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
425458 GATATAAACC
425468 TAATATGAAAAA
1 TAATAT-AAAAA
425480 TAAT-TAAAATA
1 TAATATAAAA-A
425491 TAATATAAAAA
1 TAATATAAAAA
425502 TAATATAAAA
1 TAATATAAAA
425512 TTATTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.13
11 17 0.57
12 9 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:426154 original size:24 final size:25
Alignment explanation
Indices: 426112--426158 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
426102 TGTGAAAAAT
*
426112 AAAATCATTAAAGTAAATAAACAAC
1 AAAATCATAAAAGTAAATAAACAAC
*
426137 AAAATCATAAAAG-CAATAAACA
1 AAAATCATAAAAGTAAATAAACA
426159 TATTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.66, C:0.13, G:0.04, T:0.17
Consensus pattern (25 bp):
AAAATCATAAAAGTAAATAAACAAC
Found at i:427588 original size:13 final size:13
Alignment explanation
Indices: 427564--427601 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
427554 CCAACCATAT
427564 CTCAATCAAAAACA
1 CTCAA-CAAAAACA
427578 -TCAACACAAAACA
1 CTCAACA-AAAACA
427591 CTCAACAAAAA
1 CTCAACAAAAA
427602 TCTATTCCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.09
13 14 0.64
14 6 0.27
ACGTcount: A:0.61, C:0.29, G:0.00, T:0.11
Consensus pattern (13 bp):
CTCAACAAAAACA
Found at i:428974 original size:22 final size:22
Alignment explanation
Indices: 428943--428984 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
428933 ATTATATGAT
* *
428943 TTTTTTTCAAAATTTTCAAACA
1 TTTTTCTCAAAAATTTCAAACA
428965 TTTTTCTCAAAAATTTCAAA
1 TTTTTCTCAAAAATTTCAAA
428985 TTCTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTTCTCAAAAATTTCAAACA
Found at i:429727 original size:96 final size:97
Alignment explanation
Indices: 429447--429733 Score: 274
Period size: 96 Copynumber: 3.0 Consensus size: 97
429437 ATTTATAAAG
* * ** *
429447 GATACTACAACCCCTATTTTTAAACTTGTCAAT-ATTTAAATCTTATTTTGGCTTAAA-TGTCAT
1 GATACTCCAA-CCCTATTTTTAAACTTATC-ATGATTTAAATCTTATTTTCACCTAAATTGTCAT
* * **
429510 CATCAAGGATACTTCAATCCCCTTCTTCCGAGAA
64 CATCGAGGATACTCCAATCCTATTCTTCCGAGAA
* * * * * * * *
429544 GATACTCTAACCCTATTTTTAAAATTATCAAGATTTAAATTTTATTCTCTCCTAAATTGTAATTA
1 GATACTCCAACCCTATTTTTAAACTTATCATGATTTAAATCTTATTTTCACCTAAATTGTCATCA
* * * * * **
429609 CCGGGGACACTCTAACCCTATTCTTTTGAG-A
66 TCGAGGATACTCCAATCCTATTCTTCCGAGAA
* * *
429640 GATTCTCCAACCCTATTTTTTAACTTATCATGATTTAAATCTTATTTTCACCAAAATTGTCATCA
1 GATACTCCAACCCTATTTTTAAACTTATCATGATTTAAATCTTATTTTCACCTAAATTGTCATCA
* *
429705 TCGAGGATACTCCAATCATATTCCTCCGA
66 TCGAGGATACTCCAATCCTATTCTTCCGA
429734 ATTTCAACCA
Statistics
Matches: 145, Mismatches: 43, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
95 1 0.01
96 111 0.77
97 33 0.23
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (97 bp):
GATACTCCAACCCTATTTTTAAACTTATCATGATTTAAATCTTATTTTCACCTAAATTGTCATCA
TCGAGGATACTCCAATCCTATTCTTCCGAGAA
Found at i:430793 original size:26 final size:26
Alignment explanation
Indices: 430763--430814 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
430753 TCCCCCTTAG
430763 TGCAAACTTACTATCAACAACCCCAA
1 TGCAAACTTACTATCAACAACCCCAA
430789 TGCAAACTTACTATCAACAACCCCAA
1 TGCAAACTTACTATCAACAACCCCAA
430815 AAGCCTTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (26 bp):
TGCAAACTTACTATCAACAACCCCAA
Found at i:437196 original size:12 final size:12
Alignment explanation
Indices: 437179--437208 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
437169 AAAAATGGTA
437179 GAAGATAAAGAT
1 GAAGATAAAGAT
437191 GAAGATAAAGAT
1 GAAGATAAAGAT
437203 GAAGAT
1 GAAGAT
437209 GAATGGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
GAAGATAAAGAT
Found at i:437249 original size:2 final size:2
Alignment explanation
Indices: 437244--437275 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
437234 AAGGAAAACT
437244 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
437276 CTCTTGCTTG
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):
TA
Found at i:438154 original size:2 final size:2
Alignment explanation
Indices: 438147--438201 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
438137 AAGTAATGTA
438147 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
438188 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
438202 GGAGATTCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:442616 original size:13 final size:13
Alignment explanation
Indices: 442598--442622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
442588 ATTTTGGTAA
442598 GTATCGATACATT
1 GTATCGATACATT
442611 GTATCGATACAT
1 GTATCGATACAT
442623 AGCATTGGCA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:442696 original size:22 final size:22
Alignment explanation
Indices: 442650--442718 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
442640 AATCTCATTT
* *
442650 TCACTGTTCAT-TA-CTATTCA
1 TCACTGTTCATGTATCGATACA
*
442670 TCACTGTTTATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
442692 TCACTGTTCATGTATCGATACA
1 TCACTGTTCATGTATCGATACA
442714 TCACT
1 TCACT
442719 TTACATTGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.23
21 2 0.05
22 31 0.72
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (22 bp):
TCACTGTTCATGTATCGATACA
Found at i:442779 original size:22 final size:22
Alignment explanation
Indices: 442754--442813 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
442744 TTTCACTGTT
*
442754 CATCACTATTCATCACTCGATA
1 CATCACTGTTCATCACTCGATA
*
442776 CATCACTGTTCATGTA-TCGATA
1 CATCACTGTTCAT-CACTCGATA
442798 CATCACTGTTCA-CACT
1 CATCACTGTTCATCACT
442814 ATTTAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 30 0.91
23 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (22 bp):
CATCACTGTTCATCACTCGATA
Found at i:445002 original size:84 final size:84
Alignment explanation
Indices: 444842--445002 Score: 182
Period size: 84 Copynumber: 1.9 Consensus size: 84
444832 ACTCAAAGAA
* * * * * *
444842 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
**
444907 TATGAAAGAGTTACAAAAT
66 TAAAAAAGAGTTACAAAAT
* * * *
444926 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATATAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
444990 A-AAAAAATGAGTT
65 ATAAAAAA-GAGTT
445003 GCAAGTGGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 4 0.06
84 57 0.90
85 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.26
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAAAAAGAGTTACAAAAT
Found at i:448137 original size:13 final size:13
Alignment explanation
Indices: 448119--448143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
448109 ATTTTGGTAA
448119 GTATCGATACATT
1 GTATCGATACATT
448132 GTATCGATACAT
1 GTATCGATACAT
448144 AGCATTGGCA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:448217 original size:22 final size:20
Alignment explanation
Indices: 448171--448222 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
448161 AATCTCATTT
* *
448171 TCACTGTTCATTACTATTCA
1 TCACTGTTCATTACGATACA
448191 TCACTGTTCATGTATCGATACA
1 TCACTGTTCAT-TA-CGATACA
448213 TCACTGTTCA
1 TCACTGTTCA
448223 CACTATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.39
21 2 0.07
22 15 0.54
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (20 bp):
TCACTGTTCATTACGATACA
Found at i:449225 original size:2 final size:2
Alignment explanation
Indices: 449218--449243 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
449208 GTCATAGCTT
449218 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
449244 ACACTCACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:450022 original size:113 final size:110
Alignment explanation
Indices: 449876--450198 Score: 338
Period size: 106 Copynumber: 2.9 Consensus size: 110
449866 GGCTCAACAT
* *
449876 AATTAAATAAAATAGACTCCAAATAAATTAATTAAATATGCAAGTAAGCTCTATTTTATCTAATG
1 AATTAAATAAAATAG-CTCCAAATAAATTAATTAAATATGCACGTAAGCTCTATTTTATCTAATA
449941 TATATTTTTAAAAAGCTTGGCCTTAATTAAATAATTTATGACTTAATAG
65 TATATTTTTAAAAA-CTT-G-CTTAATTAAATAATTTATGACTTAATAG
* ** * *
449990 AATTAAATAAAATAAGC-CCAAATAAATTAATTAAATAAGCACGCGAGAC-CTATTTTGTATAAT
1 AATTAAATAAAAT-AGCTCCAAATAAATTAATTAAATATGCACGTAAG-CTCTATTTTATCTAAT
* * * * * *
450053 ATATATTCTTT--ATAC-T--TAAATCAAATAATATATGATTTAATAT
64 ATATATT-TTTAAAAACTTGCTTAATTAAATAATTTATGACTTAATAG
* * *
450096 AATTAAATAATATAGCTCCAAATAAATTAATTAAGTATGCACGTGAAACT-TATTTTATCTAATA
1 AATTAAATAAAATAGCTCCAAATAAATTAATTAAATATGCACGT-AAGCTCTATTTTATCTAATA
450160 TATATTTTTATAAAACTTGATCTTAAGTTAAATAATTTA
65 TATATTTTTA-AAAACTTG--CTTAA-TTAAATAATTTA
450199 CGATCTTACT
Statistics
Matches: 169, Mismatches: 25, Indels: 30
0.75 0.11 0.13
Matches are distributed among these distances:
105 6 0.04
106 77 0.46
107 1 0.01
108 3 0.02
109 1 0.01
110 1 0.01
111 1 0.01
112 2 0.01
113 47 0.28
114 28 0.17
115 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (110 bp):
AATTAAATAAAATAGCTCCAAATAAATTAATTAAATATGCACGTAAGCTCTATTTTATCTAATAT
ATATTTTTAAAAACTTGCTTAATTAAATAATTTATGACTTAATAG
Found at i:452153 original size:521 final size:517
Alignment explanation
Indices: 450855--452404 Score: 2293
Period size: 520 Copynumber: 3.0 Consensus size: 517
450845 AATTTAATTT
* * *
450855 TTTATAAAAATGATACTTTACTTTTTATTATATTACTTGTTAACAATATATGTACTTATATAATT
1 TTTATAAAAATGATACTATACTTTTTATTATATTACTTGTTAACAATATATGCATTTATATAATT
* * * * *
450920 AAATCTTACAAGACTTTTTAACGAGTGACTTCGAACAAAAGAAATCAAGATAGTCCATTGAGAAC
66 AAATCTTACAAGACTTTTTAGCGAATGGCTTCGAACAAAAGAAATCAAGATGGTCCATTAAGAAC
* *
450985 GAAAAGTCACCCACCCTCAAACATTATTGGTACAAAACAAAAAGATCATAG-TTGATTCATCAAA
131 GAAAAGTCACCCACCCTCAAACATTATTGGTACAAAACAAAAAGATCATAGCTGGA-TCATCAAG
451049 GATACGAAATCAACCACCCACTGGTCCATCAACAATCCAACATCAAACACCCATTGGTGAAGTGA
195 GATACGAAATCAACCACCCACTGGTCCATCAACAATCCAACATCAAACACCCATTGGTGAAGTGA
451114 TTGAAGAGATGAAGATAATCAAATCATCAGTTTGAGTGCAACATGATCTTCTAAGCTATGAATTC
260 TTGAAGAGATGAAGAT-ATCAAATCATCAGTTTGAGTGCAACATGATCTTCTAAGCTATGAATTC
*
451179 ACCTTATCCTTGAAAATAAATTAGGCATACATTCATCACCATTTCTTTCTCCATCATTGCAATTT
324 ACCTTATCCTTGGAAATAAATTAGGCATACATTCATCACCATTTCTTTCTCCATCATTGCAATTT
* *
451244 TAGTTACTCATTGTATTATTTGATTCAACATATTCCAAGAAGGTTTGCATATTGGAATTGCCTCA
389 TATTTACTCATTGCATTATTTGATTCAACATATTCCAAGAAGGTTTGC-TATTGGAATTGCCTCA
* * *
451309 CCATGGAACAACACCAATTTTATCAGTTCGTAAGCAATAAAAAAAATGACCAAGTATGTATGTAT
453 CCATGGAACACCACCAATTTTATCAGTTCGT-AGCAAAAAAAAAAATGGCCAAGTATGTATGTAT
451374 G
517 G
* * * *
451375 TTTATAAAAATGATACTCTATTTTTTATTATATTATTTATTAACAATATATGCATTTATATAATT
1 TTTATAAAAATGATACTATACTTTTTATTATATTACTTGTTAACAATATATGCATTTATATAATT
* * * *
451440 AAATCTTACAAGACTTTTTAG-TAAGTGGTTTCAAACAAAAGAAATCAAGATGGTACATTAAGAA
66 AAATCTTACAAGACTTTTTAGCGAA-TGGCTTCGAACAAAAGAAATCAAGATGGTCCATTAAGAA
* * * * *
451504 CGAAAATTCACCTACCTTCAAACATTATTAGTACAAAACAAAAAGATCATAACT-GATCCATCAA
130 CGAAAAGTCACCCACCCTCAAACATTATTGGTACAAAACAAAAAGATCATAGCTGGAT-CATCAA
* * * *
451568 GGATACGAAATCAACTACCCATTGGTCCATCAACAATCCAACATCAAACACCTATTGTTGAAGTG
194 GGATACGAAATCAACCACCCACTGGTCCATCAACAATCCAACATCAAACACCCATTGGTGAAGTG
*
451633 ATTGAAGAGATGAAGATACTCAAATCATCAGTTTGAGTGCAACATGATCTTCTAAACTATGAATT
259 ATTGAAGAGATGAAGATA-TCAAATCATCAGTTTGAGTGCAACATGATCTTCTAAGCTATGAATT
451698 CACCTTATCCTTGGAAATAAATTAGGCATACATTCATCACCATTTCTTTCTCCATCATTGCAATT
323 CACCTTATCCTTGGAAATAAATTAGGCATACATTCATCACCATTTCTTTCTCCATCATTGCAATT
*
451763 TTATTTACTCATTGCATTATTTGATTCAACATATTCCAAGAAGGTTTGCTCGTTGGAATTGCCTC
388 TTATTTACTCATTGCATTATTTGATTCAACATATTCCAAGAAGGTTTGCT-ATTGGAATTGCCTC
* * * *
451828 ACCATGCAACACCACTAATTATATC-GATTCGTAGCCAACAAAAAAAAATGGCCAAGTATGTACG
452 ACCATGGAACACCACCAATTTTATCAG-TTCGTAG-CAA-AAAAAAAAATGGCCAAGTATGTATG
451892 TATG
514 TATG
* * *
451896 TTTATAAAAAAGATACTATACTTTTTATTATGTTACTTGTTAACAATACATGCATTTATATAATT
1 TTTATAAAAATGATACTATACTTTTTATTATATTACTTGTTAACAATATATGCATTTATATAATT
* *
451961 AAATCTTATAGGACTTTTTAGCGAATGGCTTCGAACAAAAGAAATCAAGATGGTCCATTAAGAAC
66 AAATCTTACAAGACTTTTTAGCGAATGGCTTCGAACAAAAGAAATCAAGATGGTCCATTAAGAAC
* *
452026 GAAAAG-CTACCCACCCTCAAACATTGTTGGTACAAAACAAAAAGATCATAGCTGGCTCATCAAG
131 GAAAAGTC-ACCCACCCTCAAACATTATTGGTACAAAACAAAAAGATCATAGCTGGATCATCAAG
* *
452090 GATATGAAATCAACCACCTACTGGTCCATCAACAATCCAACATCAAACACCCATTGGTGAAGTGA
195 GATACGAAATCAACCACCCACTGGTCCATCAACAATCCAACATCAAACACCCATTGGTGAAGTGA
* * *
452155 TTAAAGAGATGAAG--AT--AATCA--A--AT-AGTGCAACATGTTCTTCTAAGCTATGAATTCA
260 TTGAAGAGATGAAGATATCAAATCATCAGTTTGAGTGCAACATGATCTTCTAAGCTATGAATTCA
* * * * **
452211 CCTTATCTTTGGTAATCAATTAAGTGTACATTCATCACCATTTCTTTCTCCATCATTGCAATTTT
325 CCTTATCCTTGGAAATAAATTAGGCATACATTCATCACCATTTCTTTCTCCATCATTGCAATTTT
* * * *
452276 ATTTACTCATTGCATTATTTGATTCAACATATTCCAAAAAAGTTGGCTTATTGGAATTTCCTCAC
390 ATTTACTCATTGCATTATTTGATTCAACATATTCCAAGAAGGTTTGC-TATTGGAATTGCCTCAC
* * *
452341 AATGGAACACCACCAATTTTATCAGTTCGTAGGC-AAAAAAAAAGTGGCGAAGTATGTATGTATG
454 CATGGAACACCACCAATTTTATCAGTTCGTA-GCAAAAAAAAAAATGGCCAAGTATGTATGTATG
452405 AGTGTGTGTA
Statistics
Matches: 931, Mismatches: 85, Indels: 39
0.88 0.08 0.04
Matches are distributed among these distances:
509 26 0.03
510 1 0.00
511 173 0.19
512 4 0.00
514 1 0.00
516 5 0.01
518 1 0.00
519 8 0.01
520 443 0.48
521 265 0.28
522 4 0.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (517 bp):
TTTATAAAAATGATACTATACTTTTTATTATATTACTTGTTAACAATATATGCATTTATATAATT
AAATCTTACAAGACTTTTTAGCGAATGGCTTCGAACAAAAGAAATCAAGATGGTCCATTAAGAAC
GAAAAGTCACCCACCCTCAAACATTATTGGTACAAAACAAAAAGATCATAGCTGGATCATCAAGG
ATACGAAATCAACCACCCACTGGTCCATCAACAATCCAACATCAAACACCCATTGGTGAAGTGAT
TGAAGAGATGAAGATATCAAATCATCAGTTTGAGTGCAACATGATCTTCTAAGCTATGAATTCAC
CTTATCCTTGGAAATAAATTAGGCATACATTCATCACCATTTCTTTCTCCATCATTGCAATTTTA
TTTACTCATTGCATTATTTGATTCAACATATTCCAAGAAGGTTTGCTATTGGAATTGCCTCACCA
TGGAACACCACCAATTTTATCAGTTCGTAGCAAAAAAAAAAATGGCCAAGTATGTATGTATG
Found at i:452634 original size:21 final size:20
Alignment explanation
Indices: 452604--452642 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
452594 TCACATTTTG
452604 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
452624 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
452643 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:452719 original size:13 final size:13
Alignment explanation
Indices: 452701--452758 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
452691 AAACAGTAAC
452701 TGTATCGATACAA
1 TGTATCGATACAA
452714 TGTATCGATACATAA
1 TGTATCGATAC--AA
452729 GTGTTATATCGATACAA
1 -TG---TATCGATACAA
*
452746 TGTATCGCTACAA
1 TGTATCGATACAA
452759 ATCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
15 2 0.05
16 4 0.11
17 2 0.05
19 9 0.24
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:452814 original size:13 final size:13
Alignment explanation
Indices: 452796--452823 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
452786 TATTATTCAA
452796 TGTATCGATACAT
1 TGTATCGATACAT
452809 TGTATCGATACAT
1 TGTATCGATACAT
452822 TG
1 TG
452824 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:452818 original size:33 final size:33
Alignment explanation
Indices: 452776--452841 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
452766 GCCAAGGAAA
*
452776 TGTATCGATATATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
452809 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
452842 GCAGGCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:456644 original size:15 final size:17
Alignment explanation
Indices: 456614--456655 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
456604 AACTCAAAAG
456614 CAAAAAGAATTTTAAA-T
1 CAAAAA-AATTTTAAATT
456631 CAAAAAAA-TTTAAATT
1 CAAAAAAATTTTAAATT
456647 CTAAAAAAA
1 C-AAAAAAA
456656 ATCCAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 13 0.57
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (17 bp):
CAAAAAAATTTTAAATT
Found at i:456859 original size:20 final size:20
Alignment explanation
Indices: 456836--456880 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
456826 AATATTTTTG
456836 GAAAA-TAATTTCTTGCAAAA
1 GAAAAGTAATTT-TTGCAAAA
**
456856 GAAAAGTAATTTTTTTAAAA
1 GAAAAGTAATTTTTGCAAAA
456876 GAAAA
1 GAAAA
456881 ATGCATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.31
Consensus pattern (20 bp):
GAAAAGTAATTTTTGCAAAA
Found at i:457241 original size:5 final size:6
Alignment explanation
Indices: 457209--457243 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
457199 CATATTGATG
457209 ATGCCC ATGCCC ATGCCC ATGCCC ATG-CC ATGCCC
1 ATGCCC ATGCCC ATGCCC ATGCCC ATGCCC ATGCCC
457244 TCAGTTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.17, C:0.49, G:0.17, T:0.17
Consensus pattern (6 bp):
ATGCCC
Found at i:464735 original size:21 final size:21
Alignment explanation
Indices: 464710--464766 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
464700 AAATCAGGAT
*
464710 TTAATTTATTGATTCTAGGCAA
1 TTAATTTATTGATTCTA-GAAA
* *
464732 -TAATTTACTGATTTTAGAAA
1 TTAATTTATTGATTCTAGAAA
464752 TTTAATTTATTGATT
1 -TTAATTTATTGATT
464767 TTAAAGCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 12 0.41
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (21 bp):
TTAATTTATTGATTCTAGAAA
Found at i:464908 original size:3 final size:3
Alignment explanation
Indices: 464895--464928 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
464885 GCTTTGTGAG
*
464895 TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
464929 TTGTAACACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:465642 original size:22 final size:23
Alignment explanation
Indices: 465584--465642 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
465574 TAACGTACAG
**
465584 ATTATATATTGTAATTATTTTTAGG
1 ATTATATATT-T-ATTATTTTTAAA
* *
465609 ATTTTATTTTTATT-TTTTTAAA
1 ATTATATATTTATTATTTTTAAA
465631 ATTATATATTTA
1 ATTATATATTTA
465643 AATTAACTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 16 0.57
23 3 0.11
24 1 0.04
25 8 0.29
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (23 bp):
ATTATATATTTATTATTTTTAAA
Found at i:466144 original size:16 final size:16
Alignment explanation
Indices: 466123--466168 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
466113 TTTTAAAATT
*
466123 TTAAAATTAATTTGAA
1 TTAAAATTAATTTAAA
*
466139 TTAAAATTATTTTAAA
1 TTAAAATTAATTTAAA
466155 TTAAAATT-ATTTAA
1 TTAAAATTAATTTAA
466169 TTTGATTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 5 0.19
16 22 0.81
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TTAAAATTAATTTAAA
Found at i:474506 original size:32 final size:32
Alignment explanation
Indices: 474467--474538 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
474457 CCGACTTGCA
*
474467 TGAGCTTTAAAAAAAGGTGCCACTAACTTATG
1 TGAGCTTTAAAAAAAGGTGCCACCAACTTATG
* * * * *
474499 TGGGCTTTGAAATAAGTTGCCACCAACTTGTG
1 TGAGCTTTAAAAAAAGGTGCCACCAACTTATG
474531 TGAGCTTT
1 TGAGCTTT
474539 GAAAGGGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (32 bp):
TGAGCTTTAAAAAAAGGTGCCACCAACTTATG
Found at i:476221 original size:28 final size:28
Alignment explanation
Indices: 474479--476217 Score: 1959
Period size: 28 Copynumber: 61.6 Consensus size: 28
474469 AGCTTTAAAA
*
474479 AAAGG-TGCCACTAACTTATGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* * **
474508 AAATAAGTTGCCACCAACTTGTGTGAGCTTTG
1 -AA-AGGATGCCACTGACTTGTG-G-GCTTTG
* * *
474540 AAAGGGTGTCACTGACTTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474568 AAAAGAGTTACCA-TCGACTTGTGTGGGCTTTG
1 -AAAG-GATGCCACT-GAC-T-TGTGGGCTTTG
* * *
474600 AAAGGGTGCCACCGACTTGTGGGTTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474628 AAAGAGGTTCCA-TCGACTTGTGTGGGCTTTG
1 AAAG-GATGCCACT-GAC-T-TGTGGGCTTTG
* *
474659 AAAAGAGTGCCACCGACTTGTGGGCTTTG
1 AAAGGA-TGCCACTGACTTGTGGGCTTTG
*
474688 AAAGGGTATGCCACTGACTTGTGGGTTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTG
* * *
474718 AAATGG-TGCCATTGGCTTGTGGGCTTTA
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
* * *
474746 AAATGATGCCATTGACTCGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
474774 AAATGATGCCATTTACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
474802 AAAGGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
474830 AATGGGTGCCACTAACTTATGCGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
474858 AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474886 AAAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474914 AAATGATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474942 TAAGGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474970 AAATGATGCCACTGACTTGTTGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
474998 AAAGGGTGCCACTGACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475026 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475054 AAAGGGTGCCACTGACTTGTGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
475082 AAAGGGTGCCACTAACTTGTGTGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
475110 AAAGAATGCCACTAACTTGTGGGATTCG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
475138 AAAAGG-TTCCACTAACTTGTGAGCTTTG
1 -AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475166 AAATGATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475194 AAAAGATGCCACTGACTTGTGAGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
475222 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
** *
475250 AAATAATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
475278 AGAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475306 AAAGGATGCCACTGACTTGTGGACTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475334 AAAGGATGCCACTAACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475362 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
475390 AATGGGTGCCACTAACTTATGCGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475418 AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475446 AAAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475474 AAATGATGCCATTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475502 TAAGGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
475530 AAATGATGTCACTGACTTGTTGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475558 AAAGGGTGCCACTGACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475586 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475614 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475642 AAATGAT-CCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475669 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475697 AAATGAT-CCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475724 AAA-GAGTGCCACTAACTTGTGGGCTTTG
1 AAAGGA-TGCCACTGACTTGTGGGCTTTG
* *
475752 AAAAGATGCCACTGACTTGT-AGCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
* *
475780 AAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
475808 AAATGATGCCACTGACCTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
475836 AAATGATGCCACTAACCTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475864 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
475892 AAAGGATGCCACTAACCTGTAGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
475920 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
475948 AAAGGATGCCACTAACTTGTGGGCTTCG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
475976 AAAGGGTGCCACTAACTTGTGGGCTTCG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
476004 AAATGATACCACTGACTTGTCGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
476032 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
** * *
476060 AAAGGATGTTAGTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
476088 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
476116 AAATGG-TGCCACTCACTTGTGAGCTTTA
1 AAA-GGATGCCACTGACTTGTGGGCTTTG
*
476144 AAATGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
476172 AAATGATGCCATTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
476200 AAATGATTCCATTGACTT
1 AAAGGATGCCACTGACTT
476218 ATGGACTTAA
Statistics
Matches: 1467, Mismatches: 213, Indels: 60
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.00
27 55 0.04
28 1250 0.85
29 40 0.03
30 63 0.04
31 32 0.02
32 25 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:476258 original size:28 final size:27
Alignment explanation
Indices: 476217--476289 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
476207 TCCATTGACT
476217 TATGGACTTAAAAGGGTGCCACGGAGC
1 TATGGACTTAAAAGGGTGCCACGGAGC
* *
476244 TGTGGACTTTAAAAGGGCTGCCACGGAGT
1 TATGGAC-TTAAAAGGG-TGCCACGGAGC
*
476273 TATGGACTTGAAAGGGT
1 TATGGACTTAAAAGGGT
476290 TGTCGCAACG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 7 0.17
28 17 0.43
29 16 0.40
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
TATGGACTTAAAAGGGTGCCACGGAGC
Found at i:478306 original size:10 final size:11
Alignment explanation
Indices: 478283--478311 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
478273 GAAGATTTTA
478283 TGAAAAATATT
1 TGAAAAATATT
478294 TGAAAAATA-T
1 TGAAAAATATT
478304 TGAAAAAT
1 TGAAAAAT
478312 CATCTAGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (11 bp):
TGAAAAATATT
Found at i:486561 original size:17 final size:17
Alignment explanation
Indices: 486516--486562 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
486506 TTCATATTTT
* **
486516 TTCTTTTTTTCTTTTTC
1 TTCTTTCTTTCTTCATC
486533 TTCCTTTC-TTCTTCATC
1 TT-CTTTCTTTCTTCATC
486550 TTCTTTCTTTCTT
1 TTCTTTCTTTCTT
486563 ACCTATAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 5 0.20
17 16 0.64
18 4 0.16
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (17 bp):
TTCTTTCTTTCTTCATC
Found at i:486944 original size:23 final size:23
Alignment explanation
Indices: 486914--486958 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
486904 TTGATTTTGG
486914 TTTTTTTTCAACCTCTCCCTTCT
1 TTTTTTTTCAACCTCTCCCTTCT
**
486937 TTTTTTTTCTTCCTCTCCCTTC
1 TTTTTTTTCAACCTCTCCCTTC
486959 CCATTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.04, C:0.36, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTTTTCAACCTCTCCCTTCT
Found at i:486965 original size:23 final size:23
Alignment explanation
Indices: 486916--486970 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
486906 GATTTTGGTT
***
486916 TTTTTTCAACCTCTCCCTTCTTT
1 TTTTTTCAACCTCTCCCTTCCCA
**
486939 TTTTTTCTTCCTCTCCCTTCCCA
1 TTTTTTCAACCTCTCCCTTCCCA
*
486962 TTTTATCAA
1 TTTTTTCAA
486971 ACATTTTCGT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.11, C:0.35, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTTTCAACCTCTCCCTTCCCA
Found at i:488006 original size:9 final size:9
Alignment explanation
Indices: 487976--488046 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
487966 TTTTTTAAAA
487976 TTTGATTTT
1 TTTGATTTT
487985 TTTGAATTATTT
1 TTTG-A-T-TTT
487997 TTTGATTTT
1 TTTGATTTT
488006 TTTGA-TTT
1 TTTGATTTT
*
488014 TAT-A-TTT
1 TTTGATTTT
*
488021 TTTGACTTT
1 TTTGATTTT
*
488030 TTT-ATTAT
1 TTTGATTTT
488038 TTT-ATTTT
1 TTTGATTTT
488046 T
1 T
488047 ATCAAAGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
7 6 0.12
8 17 0.33
9 18 0.35
10 2 0.04
11 2 0.04
12 7 0.13
ACGTcount: A:0.17, C:0.01, G:0.07, T:0.75
Consensus pattern (9 bp):
TTTGATTTT
Found at i:488014 original size:15 final size:16
Alignment explanation
Indices: 488003--488040 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
487993 ATTTTTTGAT
488003 TTTTTTGA-TTTTATA
1 TTTTTTGACTTTTATA
*
488018 TTTTTTGACTTTTTTA
1 TTTTTTGACTTTTATA
488034 TTATTTT
1 TT-TTTT
488041 ATTTTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 8 0.40
17 4 0.20
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTTTTGACTTTTATA
Found at i:488019 original size:24 final size:23
Alignment explanation
Indices: 487976--488046 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
487966 TTTTTTAAAA
*
487976 TTTGATTTTTTTGA--ATTATTT
1 TTTGATTTTTTTGATTTTTATTT
487997 TTTGATTTTTTTGATTTTATATTT
1 TTTGATTTTTTTGATTTT-TATTT
*
488021 TTTGACTTTTTT-ATTATTTTATTT
1 TTTGATTTTTTTGA-T-TTTTATTT
488045 TT
1 TT
488047 ATCAAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
21 14 0.33
23 2 0.05
24 24 0.56
25 3 0.07
ACGTcount: A:0.17, C:0.01, G:0.07, T:0.75
Consensus pattern (23 bp):
TTTGATTTTTTTGATTTTTATTT
Found at i:488046 original size:16 final size:16
Alignment explanation
Indices: 487991--488046 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
487981 TTTTTTTGAA
487991 TTATTTTTTGATTTTT
1 TTATTTTTTGATTTTT
*
488007 TTGATTTTAT-ATTTTT
1 TT-ATTTTTTGATTTTT
* *
488023 TGACTTTTTT-ATTATT
1 TTA-TTTTTTGATTTTT
488039 TTATTTTT
1 TTATTTTT
488047 ATCAAAGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.18
16 21 0.64
17 6 0.18
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (16 bp):
TTATTTTTTGATTTTT
Found at i:491299 original size:20 final size:22
Alignment explanation
Indices: 491271--491326 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 22
491261 CTGTTGGGCT
491271 AATTGTATTGATACAATTCTGG
1 AATTGTATTGATACAATTCTGG
491293 -A-TGTATTGATAC-ATTCTGG
1 AATTGTATTGATACAATTCTGG
*
491312 AATTGTATCGATACA
1 AATTGTATTGATACA
491327 TTCCTATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 12 0.40
21 11 0.37
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (22 bp):
AATTGTATTGATACAATTCTGG
Found at i:491324 original size:21 final size:21
Alignment explanation
Indices: 491271--491329 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
491261 CTGTTGGGCT
491271 AATTGTATTGATACAATTCTGG
1 AATTGTATTGATAC-ATTCTGG
491293 -A-TGTATTGATACATTCTGG
1 AATTGTATTGATACATTCTGG
*
491312 AATTGTATCGATACATTC
1 AATTGTATTGATACATTC
491330 CTATGTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.21
20 12 0.35
21 15 0.44
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.41
Consensus pattern (21 bp):
AATTGTATTGATACATTCTGG
Found at i:491440 original size:20 final size:18
Alignment explanation
Indices: 491376--491466 Score: 58
Period size: 20 Copynumber: 4.6 Consensus size: 18
491366 GCCAATGACT
*
491376 TGTATCGATACATTCACA
1 TGTATCGATACATTCATA
491394 TGATATCTTGATACATTGCA-A
1 TG-TATC--GATACATT-CATA
491415 GTTGTATCGATACATTACAATA
1 --TGTATCGATACATT-C-ATA
* *
491437 TGTATTGATATATTTTCATA
1 TGTATCGATACA--TTCATA
491457 TGTATCGATA
1 TGTATCGATA
491467 GAAATAAGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.03
19 4 0.07
20 31 0.53
21 11 0.19
22 9 0.15
23 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (18 bp):
TGTATCGATACATTCATA
Found at i:495028 original size:20 final size:20
Alignment explanation
Indices: 495005--495054 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
494995 AACATGCTGT
495005 AAATGCATGAAACATAGCCA
1 AAATGCATGAAACATAGCCA
495025 AAATGCATGAAACATAGCCA
1 AAATGCATGAAACATAGCCA
495045 AAATGCATGA
1 AAATGCATGA
495055 TCAAGGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (20 bp):
AAATGCATGAAACATAGCCA
Found at i:495984 original size:52 final size:52
Alignment explanation
Indices: 495914--496034 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
495904 GAAAATTTAT
*
495914 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
495966 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
496018 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
496035 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:496047 original size:52 final size:52
Alignment explanation
Indices: 495914--496054 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
495904 GAAAATTTAT
*
495914 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
495966 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
496018 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
496055 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:496061 original size:13 final size:13
Alignment explanation
Indices: 496043--496067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
496033 CAAAGATCGG
496043 TGTATCGATACAA
1 TGTATCGATACAA
496056 TGTATCGATACA
1 TGTATCGATACA
496068 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:496148 original size:13 final size:13
Alignment explanation
Indices: 496130--496154 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
496120 ACAAAAAATA
496130 TGTATCGATACAT
1 TGTATCGATACAT
496143 TGTATCGATACA
1 TGTATCGATACA
496155 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:496150 original size:32 final size:33
Alignment explanation
Indices: 496109--496174 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
496099 AGTAGCTTAA
496109 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
496141 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
496174 A
1 A
496175 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:497892 original size:18 final size:18
Alignment explanation
Indices: 497869--497904 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
497859 TTAATGACAC
497869 CACTTAATTAATTTAATT
1 CACTTAATTAATTTAATT
497887 CACTTAATTAATTTAATT
1 CACTTAATTAATTTAATT
497905 TCTCTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
CACTTAATTAATTTAATT
Found at i:499316 original size:13 final size:13
Alignment explanation
Indices: 499298--499324 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
499288 ACATTATGCT
499298 TTGTATCGATACA
1 TTGTATCGATACA
499311 TTGTATCGATACA
1 TTGTATCGATACA
499324 T
1 T
499325 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:499333 original size:19 final size:18
Alignment explanation
Indices: 499308--499365 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
499298 TTGTATCGAT
499308 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
*
499326 TTCATTGTATCGATACATAG
1 -ACATTGTATCGATACAT-G
499346 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
499365 A
1 A
499366 GACTGGTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:499451 original size:33 final size:33
Alignment explanation
Indices: 499393--499461 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
499383 CTACCACTGT
*
499393 TTGTATCGATACATGGTACAATGTATCAATACA
1 TTGTATCGATACATGATACAATGTATCAATACA
* *
499426 TTGTATCGATACATGATGA-ATTGTATCGATACA
1 TTGTATCGATACATGAT-ACAATGTATCAATACA
499459 TTG
1 TTG
499462 CTTGTAATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCAATACA
Found at i:503227 original size:78 final size:78
Alignment explanation
Indices: 503098--503332 Score: 461
Period size: 78 Copynumber: 3.0 Consensus size: 78
503088 ACCATGCTTT
503098 GCGAAAATAACTTACCAAGATATTTTTGGGTGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
1 GCGAAAATAACTTACCAAGATATTTTTGGGTGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
503163 CGAGCTATGATTA
66 CGAGCTATGATTA
503176 GCGAAAATAACTTACCAAGATATTTTTGGGTGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
1 GCGAAAATAACTTACCAAGATATTTTTGGGTGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
503241 CGAGCTATGATTA
66 CGAGCTATGATTA
*
503254 GCGAAAATAACTTACCAAGATATTTTTGGGCGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
1 GCGAAAATAACTTACCAAGATATTTTTGGGTGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
503319 CGAGCTATGATTA
66 CGAGCTATGATTA
503332 G
1 G
503333 GCCAATTTTA
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 156 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (78 bp):
GCGAAAATAACTTACCAAGATATTTTTGGGTGGAAGCCATTAATACTGCTTGTTATATTTTAAAC
CGAGCTATGATTA
Found at i:503372 original size:26 final size:26
Alignment explanation
Indices: 503342--503401 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
503332 GGCCAATTTT
503342 AAAGAAAACTTCTTACGAACTTTACA
1 AAAGAAAACTTCTTACGAACTTTACA
*
503368 AAAGAAAACTTCTTATGAACTTTACA
1 AAAGAAAACTTCTTACGAACTTTACA
503394 AAAGAAAA
1 AAAGAAAA
503402 AGGCCTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (26 bp):
AAAGAAAACTTCTTACGAACTTTACA
Found at i:507729 original size:22 final size:21
Alignment explanation
Indices: 507704--507744 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
507694 ATTTTTCAGA
507704 CTTGACAAAGGGGGAGAAATGC
1 CTTGACAAA-GGGGAGAAATGC
**
507726 CTTGATTAAGGGGAGAAAT
1 CTTGACAAAGGGGAGAAAT
507745 TTTTTGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (21 bp):
CTTGACAAAGGGGAGAAATGC
Found at i:507758 original size:22 final size:21
Alignment explanation
Indices: 507714--507787 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 21
507704 CTTGACAAAG
* *
507714 GGGGAGAAATGCCTTGATTAA
1 GGGGAGAAATTCTTTGATTAA
*
507735 GGGGAGAAATTTTTTGATTAAA
1 GGGGAGAAATTCTTTGATT-AA
*
507757 GGGGAGAAATTCTTTAATTAA
1 GGGGAGAAATTCTTTGATTAA
507778 GAGGGAGAAA
1 G-GGGAGAAA
507788 AAGGGGAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
21 19 0.41
22 27 0.59
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (21 bp):
GGGGAGAAATTCTTTGATTAA
Found at i:507796 original size:33 final size:33
Alignment explanation
Indices: 507754--507822 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
507744 TTTTTTGATT
507754 AAAGGGGAGAAATTCTTTAATTAAGAGGGAGAA
1 AAAGGGGAGAAATTCTTTAATTAAGAGGGAGAA
*
507787 AAAGGGGAGAAATTCTTTAATTAAGGGGGAGAA
1 AAAGGGGAGAAATTCTTTAATTAAGAGGGAGAA
507820 AAA
1 AAA
507823 CGAAACTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAGGGGAGAAATTCTTTAATTAAGAGGGAGAA
Done.