Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3453450
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 16
Found at i:343153 original size:15 final size:15
Alignment explanation
Indices: 343133--343162 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
343123 GAATAAAATA
*
343133 AAAGATAATTCTTTC
1 AAAGATAATGCTTTC
343148 AAAGATAATGCTTTC
1 AAAGATAATGCTTTC
343163 TAGCCGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (15 bp):
AAAGATAATGCTTTC
Found at i:343353 original size:18 final size:18
Alignment explanation
Indices: 343330--343365 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
343320 GAATGGGGGG
343330 TAACACTCAACAATTGAC
1 TAACACTCAACAATTGAC
343348 TAACACTCAACAATTGAC
1 TAACACTCAACAATTGAC
343366 GTATCTTATC
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:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
TAACACTCAACAATTGAC
Found at i:351325 original size:26 final size:26
Alignment explanation
Indices: 351296--351345 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
351286 TTTCTTTCTT
351296 TTTTAATATGCTTATTTTAGTTTAAA
1 TTTTAATATGCTTATTTTAGTTTAAA
* * *
351322 TTTTAATATTCTTGTTTTATTTTA
1 TTTTAATATGCTTATTTTAGTTTA
351346 CATAGTTTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (26 bp):
TTTTAATATGCTTATTTTAGTTTAAA
Found at i:352357 original size:2 final size:2
Alignment explanation
Indices: 352350--352391 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
352340 TATGTGATTA
352350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
352392 TTACCCTCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:360812 original size:30 final size:30
Alignment explanation
Indices: 360778--360857 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
360768 GAGCAATTCA
* *
360778 AAAGTTCAGTGAGTAAAATAAAAAGAATTG
1 AAAGTACAATGAGTAAAATAAAAAGAATTG
360808 AAAGTACAATGAGTAAAATAAAAAGAATTG
1 AAAGTACAATGAGTAAAATAAAAAGAATTG
360838 AAAGTACAATGAGTAAAATA
1 AAAGTACAATGAGTAAAATA
360858 GGATAGAGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.57, C:0.04, G:0.17, T:0.21
Consensus pattern (30 bp):
AAAGTACAATGAGTAAAATAAAAAGAATTG
Found at i:362172 original size:20 final size:20
Alignment explanation
Indices: 362147--362201 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
362137 TTGGGGCTTG
362147 ATGGTATCGATACTATGACT
1 ATGGTATCGATACTATGACT
362167 ATGGTATCGATACTATGACT
1 ATGGTATCGATACTATGACT
*
362187 ATGGTATCAATACTA
1 ATGGTATCGATACTA
362202 CTATGTAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (20 bp):
ATGGTATCGATACTATGACT
Found at i:362633 original size:19 final size:20
Alignment explanation
Indices: 362596--362633 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
362586 AATATTTAAT
* *
362596 GAAAAAGATGTTAATTGTTG
1 GAAAAAGATGTAAAATGTTG
362616 GAAAAAGATG-AAAATGTT
1 GAAAAAGATGTAAAATGTT
362634 CAGCTCCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
GAAAAAGATGTAAAATGTTG
Found at i:366074 original size:3 final size:3
Alignment explanation
Indices: 366066--366091 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
366056 TCCAGAGTTC
366066 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
366092 AAACGTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:366588 original size:21 final size:21
Alignment explanation
Indices: 366547--366588 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
366537 TTCTAGGCTT
*
366547 GGGGAATCGATACCCATTCAA
1 GGGGAATCGATACCCACTCAA
*
366568 GGGGAATCGATACCCCCTCAA
1 GGGGAATCGATACCCACTCAA
366589 ACGAACATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGGAATCGATACCCACTCAA
Found at i:367316 original size:23 final size:23
Alignment explanation
Indices: 367272--367316 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
367262 ATTATTATAT
*
367272 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTATACGC
* *
367295 GGCACTTCGGTGCATTTATACG
1 GGCACTCCGGTGCAATTATACG
367317 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTATACGC
Found at i:372884 original size:3 final size:3
Alignment explanation
Indices: 372876--372901 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
372866 TCCAGAGTTC
372876 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
372902 AAATGTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:373398 original size:21 final size:21
Alignment explanation
Indices: 373357--373398 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
373347 TTCTGGGCTT
*
373357 GGGGAATCGATACCCATTCAA
1 GGGGAATCGATACCCACTCAA
* *
373378 GGGGAATCGCTACCCCCTCAA
1 GGGGAATCGATACCCACTCAA
373399 ACGAACATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGGAATCGATACCCACTCAA
Found at i:374127 original size:23 final size:23
Alignment explanation
Indices: 374083--374127 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
374073 ATTATTATAT
*
374083 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTATACGC
* *
374106 GGCACTTCGGTGCATTTATACG
1 GGCACTCCGGTGCAATTATACG
374128 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTATACGC
Found at i:374776 original size:21 final size:21
Alignment explanation
Indices: 374752--374791 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
374742 AAGACTCTAT
374752 TTTCAAAA-TACAAAAATGATA
1 TTTCAAAATTA-AAAAATGATA
374773 TTTCAAAATTAAAAAATGA
1 TTTCAAAATTAAAAAATGA
374792 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATTAAAAAATGATA
Found at i:379897 original size:3 final size:3
Alignment explanation
Indices: 379889--379917 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
379879 TCCAGAGTTC
379889 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
379918 AAACGTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:380414 original size:21 final size:21
Alignment explanation
Indices: 380373--380414 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
380363 TTCTGGGCTT
*
380373 GGGGAATCGATACCCATTCAA
1 GGGGAATCGATACCCACTCAA
*
380394 GGGGAATCGATACCCCCTCAA
1 GGGGAATCGATACCCACTCAA
380415 ACGAACATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.17
Consensus pattern (21 bp):
GGGGAATCGATACCCACTCAA
Found at i:381141 original size:23 final size:23
Alignment explanation
Indices: 381097--381141 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
381087 ATTATTATAT
*
381097 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTATACGC
* *
381120 GGCACTTCGGTGCATTTATACG
1 GGCACTCCGGTGCAATTATACG
381142 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTATACGC
Found at i:381790 original size:21 final size:21
Alignment explanation
Indices: 381766--381805 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
381756 AAGACTCTAT
381766 TTTCAAAATAAAAAAATGATA
1 TTTCAAAATAAAAAAATGATA
*
381787 TTTCAAAATTAAAAAATGA
1 TTTCAAAATAAAAAAATGA
381806 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATAAAAAAATGATA
Found at i:391328 original size:22 final size:21
Alignment explanation
Indices: 391302--391351 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
391292 TGTATGAACA
391302 GTATCGACACCGTATG-GAAGAG
1 GTATCGACACC-TATGTGAAG-G
* *
391324 GTATCGATACCTATGTGGAGG
1 GTATCGACACCTATGTGAAGG
391345 GTATCGA
1 GTATCGA
391352 TACCCGGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (21 bp):
GTATCGACACCTATGTGAAGG
Found at i:392206 original size:24 final size:26
Alignment explanation
Indices: 392146--392206 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 26
392136 GAGTCGAGGG
*
392146 TTCTATGTGGTCCTTCGGGACATATGTG
1 TTCTATGTGGTCCTTCGGGACATA--TA
392174 TTCTATGTGGTCCTTCGGGACA-A-A
1 TTCTATGTGGTCCTTCGGGACATATA
392198 TTCTATGTG
1 TTCTATGTG
392207 CCCCTAGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 9 0.28
27 1 0.03
28 22 0.69
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.39
Consensus pattern (26 bp):
TTCTATGTGGTCCTTCGGGACATATA
Found at i:397005 original size:3 final size:3
Alignment explanation
Indices: 396987--397026 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
396977 TTAGAAGTTT
396987 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
397027 AGAAAAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:398516 original size:45 final size:45
Alignment explanation
Indices: 398465--398554 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
398455 GCTGGTCAAT
*
398465 TCCTCAAAACATTTCCACAAGCTACTTTTAATTCATAGGTACACA
1 TCCTCAAAACATTTCCACAAGATACTTTTAATTCATAGGTACACA
398510 TCCTCAAAACATTTCCACAAGATACTTTTAATTCATAGGTACACA
1 TCCTCAAAACATTTCCACAAGATACTTTTAATTCATAGGTACACA
398555 ATATGATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.31
Consensus pattern (45 bp):
TCCTCAAAACATTTCCACAAGATACTTTTAATTCATAGGTACACA
Found at i:399896 original size:15 final size:15
Alignment explanation
Indices: 399876--399916 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
399866 AGAGGTCGGC
**
399876 AAGAGGGAAGTTGGA
1 AAGAGGGAAGACGGA
399891 AAGAGGGAAGACGGA
1 AAGAGGGAAGACGGA
399906 AAGAGGGAAGA
1 AAGAGGGAAGA
399917 ATCTGATTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.46, T:0.05
Consensus pattern (15 bp):
AAGAGGGAAGACGGA
Found at i:409068 original size:13 final size:13
Alignment explanation
Indices: 409050--409078 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
409040 ATCCTAATTC
409050 AATGTGGTTGGGA
1 AATGTGGTTGGGA
409063 AATGTGGTTGGGA
1 AATGTGGTTGGGA
409076 AAT
1 AAT
409079 TCGGCCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.41, T:0.31
Consensus pattern (13 bp):
AATGTGGTTGGGA
Found at i:413706 original size:24 final size:25
Alignment explanation
Indices: 413679--413755 Score: 95
Period size: 24 Copynumber: 3.1 Consensus size: 25
413669 TACTTCTCAG
*
413679 CCGCCACAGTCTCAGCCTCCA-CAT
1 CCGCCACAGTCTCAGCCTCCAGCAA
413703 CCGCCACAGTCTCAGCCT-CAGCAA
1 CCGCCACAGTCTCAGCCTCCAGCAA
* *
413727 CAGCCACAATCTCAGCCTCAGCAGCAA
1 CCGCCACAGTCTCAGCCTC--CAGCAA
413754 CC
1 CC
413756 AACCACTGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
23 2 0.04
24 36 0.80
27 7 0.16
ACGTcount: A:0.26, C:0.47, G:0.14, T:0.13
Consensus pattern (25 bp):
CCGCCACAGTCTCAGCCTCCAGCAA
Found at i:415178 original size:2 final size:2
Alignment explanation
Indices: 415173--415204 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
415163 TTAAATTTTA
415173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
415205 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:415246 original size:23 final size:21
Alignment explanation
Indices: 415200--415258 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
415190 TATATATATA
415200 TATATTTAATTTTTTAGTAATT
1 TATATTTAA-TTTTTAGTAATT
*
415222 TA-ATTTTAATTTTTAGTATTTTT
1 TATA-TTTAATTTTTAGTA--ATT
415245 TATATTTAATTTTT
1 TATATTTAATTTTT
415259 TTGAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 10 0.31
22 7 0.22
23 14 0.44
24 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TATATTTAATTTTTAGTAATT
Found at i:416859 original size:20 final size:19
Alignment explanation
Indices: 416835--416873 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
416825 ATGTGAGTAT
*
416835 AATATATATATAATAA-AA
1 AATATATAAATAATAAGAA
416853 AATATATAAATAATAAGAA
1 AATATATAAATAATAAGAA
416872 AA
1 AA
416874 AGGATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AATATATAAATAATAAGAA
Found at i:417962 original size:32 final size:32
Alignment explanation
Indices: 417923--417983 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
417913 ATGTAAATAC
* *
417923 ATTATATAATGTAACGACATTAAAGGACATAT
1 ATTATATAATGCAACAACATTAAAGGACATAT
417955 ATTATATAATGCAACAACATTAAAGGACA
1 ATTATATAATGCAACAACATTAAAGGACA
417984 AAATTTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (32 bp):
ATTATATAATGCAACAACATTAAAGGACATAT
Found at i:418566 original size:105 final size:105
Alignment explanation
Indices: 418444--419113 Score: 1243
Period size: 105 Copynumber: 6.4 Consensus size: 105
418434 GTATTGTTCC
418444 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
418509 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
418549 GAGTCCAATATCCTTCGTTGTGAAGTTGTAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
* *
418614 CAACGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
418654 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGGAGAAATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAATGTTTGTTGACAA
*
418718 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
418759 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
418824 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
418864 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
418929 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
418969 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
419034 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
419074 GAGTCCAATAACATTCGTTGTGAAGTTGAAATTGACTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
419114 GGTAAAACCT
Statistics
Matches: 548, Mismatches: 15, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
104 4 0.01
105 540 0.99
106 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:419872 original size:8 final size:7
Alignment explanation
Indices: 419859--419897 Score: 53
Period size: 8 Copynumber: 5.4 Consensus size: 7
419849 TTATTTTCTC
419859 TTCTTTT
1 TTCTTTT
419866 GTTCTTTT
1 -TTCTTTT
419874 TTCTCTTT
1 TTCT-TTT
419882 TTC-TTT
1 TTCTTTT
419888 TTCTTTT
1 TTCTTTT
419895 TTC
1 TTC
419898 AATTTAGGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 10 0.34
8 13 0.45
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:419877 original size:20 final size:21
Alignment explanation
Indices: 419852--419897 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
419842 ACCCCCCTTA
419852 TTTTCTCTTCTT-TTGTTCTT
1 TTTTCTCTTCTTCTTGTTCTT
* *
419872 TTTTCTCTTTTTCTTTTTCTT
1 TTTTCTCTTCTTCTTGTTCTT
419893 TTTTC
1 TTTTC
419898 AATTTAGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTCTCTTCTTCTTGTTCTT
Found at i:419890 original size:14 final size:13
Alignment explanation
Indices: 419859--419897 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
419849 TTATTTTCTC
419859 TTCTTTTGTTCTTTT
1 TTCTTTT-TTC-TTT
419874 TTCTCTTTTTCTTT
1 TTCT-TTTTTCTTT
419888 TTCTTTTTTC
1 TTCTTTTTTC
419898 AATTTAGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.26
14 7 0.30
15 7 0.30
16 3 0.13
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTCTTT
Found at i:419978 original size:60 final size:63
Alignment explanation
Indices: 419871--419990 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 63
419861 CTTTTGTTCT
* * * *
419871 TTTTTCTCTTTTTCTTTTTCTTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTTCTCTTTTTCTGTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
*
419934 TTTTTCTC-TTTT-TGTTT-TTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTCTTTTTCTGTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
419991 GCGAAGTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
60 36 0.69
61 4 0.08
62 4 0.08
63 8 0.15
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (63 bp):
TTTTTCTCTTTTTCTGTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
Found at i:430160 original size:31 final size:29
Alignment explanation
Indices: 430125--430186 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
430115 ATAAGAAATA
*
430125 ATAAAAAGAAAATAAA-AGAATGAAAGTAAAG
1 ATAAAAA-AAAATAAATAAAATG-AAG-AAAG
*
430156 ATAAAAATAAATAAATAAAATGAAGAAAG
1 ATAAAAAAAAATAAATAAAATGAAGAAAG
430185 AT
1 AT
430187 GATAACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 12 0.43
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (29 bp):
ATAAAAAAAAATAAATAAAATGAAGAAAG
Found at i:430413 original size:21 final size:21
Alignment explanation
Indices: 430383--430422 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
430373 TGTGAGTATA
* *
430383 ATATATATAATAATAAAAAAT
1 ATATAAATAATAAGAAAAAAT
430404 ATATAAATAATAAGAAAAA
1 ATATAAATAATAAGAAAAA
430423 GGATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
ATATAAATAATAAGAAAAAAT
Found at i:430414 original size:18 final size:20
Alignment explanation
Indices: 430382--430421 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
430372 ATGTGAGTAT
430382 AATATATATAATAATAA-AA
1 AATATATATAATAATAAGAA
430401 AATATATA-AATAATAAGAA
1 AATATATATAATAATAAGAA
430420 AA
1 AA
430422 AGGATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AATATATATAATAATAAGAA
Found at i:431506 original size:32 final size:32
Alignment explanation
Indices: 431467--431527 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
431457 ATGTAAATAC
* *
431467 ATTATATAATGTAACGACATTAAAGGACATAT
1 ATTATATAATGCAACAACATTAAAGGACATAT
431499 ATTATATAATGCAACAACATTAAAGGACA
1 ATTATATAATGCAACAACATTAAAGGACA
431528 AAATTTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.28
Consensus pattern (32 bp):
ATTATATAATGCAACAACATTAAAGGACATAT
Found at i:432502 original size:56 final size:56
Alignment explanation
Indices: 432435--432548 Score: 194
Period size: 56 Copynumber: 2.0 Consensus size: 56
432425 TATAACATAA
432435 AGGTTGAGGCTTGGGACAATTAAAT-GAGAATAAAGTAAACGCTATCAGTAAAGCTT
1 AGGTTGAGGCTTGGGACAATTAAATAG-GAATAAAGTAAACGCTATCAGTAAAGCTT
* *
432491 AGGTTGAGGCTTGGGATAATTAAATAGGAATAAAGTAAACGCTATTAGTAAAGCTT
1 AGGTTGAGGCTTGGGACAATTAAATAGGAATAAAGTAAACGCTATCAGTAAAGCTT
432547 AG
1 AG
432549 CCTATCCACC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 54 0.98
57 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (56 bp):
AGGTTGAGGCTTGGGACAATTAAATAGGAATAAAGTAAACGCTATCAGTAAAGCTT
Found at i:433883 original size:10 final size:10
Alignment explanation
Indices: 433870--433895 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
433860 AGTGGTCGAA
433870 GGTGGTTCAC
1 GGTGGTTCAC
433880 GGTGGTTCAC
1 GGTGGTTCAC
433890 GGTGGT
1 GGTGGT
433896 CAATGGTGGT
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:0.08, C:0.15, G:0.46, T:0.31
Consensus pattern (10 bp):
GGTGGTTCAC
Found at i:434805 original size:23 final size:22
Alignment explanation
Indices: 434751--434794 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
434741 TGAATTTAAT
434751 AATTTTATCAAAGGGATAAAAA
1 AATTTTATCAAAGGGATAAAAA
*
434773 AAATTTATCAAAGGGATAAAAA
1 AATTTTATCAAAGGGATAAAAA
434795 TTTTTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.25
Consensus pattern (22 bp):
AATTTTATCAAAGGGATAAAAA
Found at i:440735 original size:13 final size:13
Alignment explanation
Indices: 440717--440743 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
440707 ATCTTGTAAT
440717 GTGAAAGAAAGTG
1 GTGAAAGAAAGTG
440730 GTGAAAGAAAGTG
1 GTGAAAGAAAGTG
440743 G
1 G
440744 AGAATGTGCA
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:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (13 bp):
GTGAAAGAAAGTG
Found at i:441547 original size:33 final size:33
Alignment explanation
Indices: 441503--441624 Score: 138
Period size: 33 Copynumber: 3.7 Consensus size: 33
441493 AACTTGGACA
* * * *
441503 TGTCATCTTTTGTAGGTAAACTTGACATTTTGG
1 TGTCATATTTTGTAAGTAAACTTAACATGTTGG
*
441536 TGTCATATTTTGTAAGTAAACTTAACATGTTGT
1 TGTCATATTTTGTAAGTAAACTTAACATGTTGG
* **
441569 TGTCATTTTTTGTAAGTAAACTTAACATG-CAG
1 TGTCATATTTTGTAAGTAAACTTAACATGTTGG
* *
441601 TTTCCATCTTTTGTAAGTAAACTT
1 TGT-CATATTTTGTAAGTAAACTT
441625 GATCATGATA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
32 2 0.03
33 75 0.97
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTCATATTTTGTAAGTAAACTTAACATGTTGG
Found at i:442336 original size:25 final size:26
Alignment explanation
Indices: 442299--442368 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 26
442289 TTAAATTCAT
*
442299 AATATTGTATATATATTAACTTTA-AA
1 AATATT-TTTATATATTAACTTTATAA
*
442325 AATA-TTTT-TATATTAAC-TTATTA
1 AATATTTTTATATATTAACTTTATAA
442348 AATATATTTTAT-TATTAACTT
1 AATAT-TTTTATATATTAACTT
442369 AATTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 3 0.08
23 14 0.38
24 2 0.05
25 12 0.32
26 6 0.16
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (26 bp):
AATATTTTTATATATTAACTTTATAA
Found at i:442340 original size:23 final size:25
Alignment explanation
Indices: 442310--442368 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
442300 ATATTGTATA
442310 TATATTAACTTTA-AAAATAT-TTT
1 TATATTAACTTTATAAAATATATTT
*
442333 TATATTAAC-TTATTAAATATATTT
1 TATATTAACTTTATAAAATATATTT
442357 TATTATTAACTT
1 TA-TATTAACTT
442369 AATTTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 15 0.48
24 5 0.16
25 7 0.23
26 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (25 bp):
TATATTAACTTTATAAAATATATTT
Found at i:442397 original size:27 final size:27
Alignment explanation
Indices: 442314--442408 Score: 99
Period size: 27 Copynumber: 3.6 Consensus size: 27
442304 TGTATATATA
*
442314 TTAACTTTAAAAATATTT-TTATATTAAC
1 TTAA-TTTAAAAATATTTAAT-TATTAAC
* *
442342 TT-A-TTAAATATATTTTATTATTAAC
1 TTAATTTAAAAATATTTAATTATTAAC
*
442367 TTAATTTAAAAATATTTAATT-TTAATT
1 TTAATTTAAAAATATTTAATTATTAA-C
442394 TTAATTTAAAAATAT
1 TTAATTTAAAAATAT
442409 ATATTCTATG
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
25 20 0.34
26 6 0.10
27 30 0.52
28 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAATTTAAAAATATTTAATTATTAAC
Found at i:442510 original size:30 final size:30
Alignment explanation
Indices: 442435--442651 Score: 92
Period size: 30 Copynumber: 7.3 Consensus size: 30
442425 TATTTTGAAG
* * *
442435 TTAAGATAAGAATAAAATATATTTAATAAT
1 TTAAGATAAAAATATAATATATTTAATAAA
** *
442465 TTAA-AGTAATCATATAATATATTTACTAAA
1 TTAAGA-TAAAAATATAATATATTTAATAAA
* *
442495 TTAAGATAAAAATAT-ATACT-TTGAA-AAG
1 TTAAGATAAAAATATAATA-TATTTAATAAA
* * * *
442523 TTAAAATAATAATAAAATATATTTTTAA-AAG
1 TTAAGATAAAAATATAATATA--TTTAATAAA
* * *
442554 TTTAGATAAGAATAATATATATATTT-TTAAA
1 TTAAGATAAAAAT-ATA-ATATATTTAATAAA
* * *
442585 ATAAAATAAAAATA-AA-ATATTT-TTAAA
1 TTAAGATAAAAATATAATATATTTAATAAA
** * * * *
442612 TTAATTTAATAATAAAATATATTTCATAAG
1 TTAAGATAAAAATATAATATATTTAATAAA
*
442642 TTAATATAAA
1 TTAAGATAAA
442652 GAAATATTTC
Statistics
Matches: 142, Mismatches: 32, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
27 21 0.15
28 18 0.13
29 17 0.12
30 47 0.33
31 32 0.23
32 2 0.01
33 5 0.04
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (30 bp):
TTAAGATAAAAATATAATATATTTAATAAA
Found at i:442553 original size:31 final size:30
Alignment explanation
Indices: 442435--442635 Score: 125
Period size: 31 Copynumber: 6.8 Consensus size: 30
442425 TATTTTGAAG
* *
442435 TTAAGATAAGAATAAAATATA--TTTAATAA
1 TTAAAATAATAATAAAATATATTTTTAA-AA
* * * *
442464 TTTAAAGTAATCATATAATATATTTACT-AAA
1 -TTAAAATAATAATAAAATATATTT-TTAAAA
* * * *
442495 TTAAGAT-A-AA-AATATATACTTTGAAAA
1 TTAAAATAATAATAAAATATATTTTTAAAA
442522 GTTAAAATAATAATAAAATATATTTTTAAAA
1 -TTAAAATAATAATAAAATATATTTTTAAAA
* * *
442553 GTTTAGATAAGAATAATATATATATTTTTAAAA
1 -TTAAAATAATAATAA-A-ATATATTTTTAAAA
*
442586 -TAAAATAAAAAT-AAA-ATATTTTT-AAA
1 TTAAAATAATAATAAAATATATTTTTAAAA
**
442612 TTAATTTAATAATAAAATATATTT
1 TTAAAATAATAATAAAATATATTT
442636 CATAAGTTAA
Statistics
Matches: 131, Mismatches: 27, Indels: 27
0.71 0.15 0.15
Matches are distributed among these distances:
26 3 0.02
27 28 0.21
28 11 0.08
29 9 0.07
30 24 0.18
31 38 0.29
32 3 0.02
33 15 0.11
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (30 bp):
TTAAAATAATAATAAAATATATTTTTAAAA
Found at i:442608 original size:27 final size:27
Alignment explanation
Indices: 442574--442631 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
442564 AATAATATAT
442574 ATATTTTTAAAATAAAATAAAAATAAA
1 ATATTTTTAAAATAAAATAAAAATAAA
* ** *
442601 ATATTTTTAAATTAATTTAATAATAAA
1 ATATTTTTAAAATAAAATAAAAATAAA
442628 ATAT
1 ATAT
442632 ATTTCATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATTTTTAAAATAAAATAAAAATAAA
Found at i:442658 original size:25 final size:25
Alignment explanation
Indices: 442617--442675 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
442607 TTAAATTAAT
*
442617 TTAATAATAAAATATATTTC-ATAAG
1 TTAAT-ATAAAAAATATTTCTATAAG
*
442642 TTAATATAAAGAAATATTTCTTTAAG
1 TTAATATAAA-AAATATTTCTATAAG
442668 TTAATATA
1 TTAATATA
442676 TATAAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 5 0.17
25 13 0.43
26 12 0.40
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (25 bp):
TTAATATAAAAAATATTTCTATAAG
Found at i:443057 original size:31 final size:31
Alignment explanation
Indices: 443014--443077 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
443004 TAGTGACCGC
443014 ATCTTAAATAAATAAAAACGAAAATCACCAT
1 ATCTTAAATAAATAAAAACGAAAATCACCAT
* * *
443045 ATCTTAATTAAATAAAAACGAAAGTGACCAT
1 ATCTTAAATAAATAAAAACGAAAATCACCAT
443076 AT
1 AT
443078 ATTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.14, G:0.06, T:0.25
Consensus pattern (31 bp):
ATCTTAAATAAATAAAAACGAAAATCACCAT
Found at i:444417 original size:2 final size:2
Alignment explanation
Indices: 444410--444455 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
444400 TTTATGTTTA
444410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
444452 AT AT
1 AT AT
444456 TCATTAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:445076 original size:2 final size:2
Alignment explanation
Indices: 445069--445173 Score: 210
Period size: 2 Copynumber: 52.5 Consensus size: 2
445059 TGTTTAAATC
445069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
445111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
445153 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
445174 GTGTGTATAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 103 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:447096 original size:46 final size:48
Alignment explanation
Indices: 447005--447098 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
446995 TTAATGAAAT
*
447005 TTTAATTTCTCGAATAAATGTATGCGAACTAGAAATCATGTGGTTAGG
1 TTTAATTTCTCGAATAAATGTATGCGAACTAGAAATCATGAGGTTAGG
* * *
447053 TTTAATTTCTTGGAT-AA-GTATGCGAACTAGACGA-CATGAGGTTAGG
1 TTTAATTTCTCGAATAAATGTATGCGAACTAGA-AATCATGAGGTTAGG
447099 ATGTTCTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
46 25 0.61
47 3 0.07
48 13 0.32
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (48 bp):
TTTAATTTCTCGAATAAATGTATGCGAACTAGAAATCATGAGGTTAGG
Found at i:454016 original size:42 final size:41
Alignment explanation
Indices: 453964--454065 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 41
453954 TTCCAAAATT
*
453964 TTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCATGATG
1 TTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCAAGATG
* * * *
454005 CTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG
1 -TTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCAAGATG
*
454047 ATAAGTCCTTCGGGCCATC
1 TTAAGTCCTTCGGGCCATC
454066 CATGAGACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (41 bp):
TTAAGTCCTTCGGGCCATCAGTAAGTATTTCGAGCAAGATG
Found at i:454252 original size:37 final size:36
Alignment explanation
Indices: 454211--454332 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 36
454201 GTCCTCAGGG
454211 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
1 CAATCTTAAGCCTTCACC-AAGAGTAGTGAAGCAAAT
* *
454248 CAATCTTAAGCCTTCA-C--G-GAAGAGAAGCAAAT
1 CAATCTTAAGCCTTCACCAAGAGTAGTGAAGCAAAT
**
454280 CCAAT-TTAAGCCTTCAATGAAGAGTAGTGAAGCAAA-
1 -CAATCTTAAGCCTTC-ACCAAGAGTAGTGAAGCAAAT
*
454316 CCATCTTAAGCCTTCAC
1 CAATCTTAAGCCTTCAC
454333 GGAAGTGAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
32 22 0.31
33 6 0.08
35 4 0.06
36 12 0.17
37 27 0.38
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (36 bp):
CAATCTTAAGCCTTCACCAAGAGTAGTGAAGCAAAT
Found at i:454280 original size:32 final size:32
Alignment explanation
Indices: 454236--454652 Score: 157
Period size: 32 Copynumber: 11.8 Consensus size: 32
454226 ACCAAAGAGT
454236 AGTGAAGCAAATCAATCTTAAGCCTTCACGGA
1 AGTGAAGCAAATCAATCTTAAGCCTTCACGGA
* *
454268 AGAGAAGCAAATCCAAT-TTAAGCCTTCAATGAAGA
1 AGTGAAGCAAAT-CAATCTTAAGCCTTC-ACG--GA
*
454303 GTAGTGAAGCAAA-CCATCTTAAGCCTTCACGGA
1 --AGTGAAGCAAATCAATCTTAAGCCTTCACGGA
*
454336 AGTGAAGCAAATGC-ATCAGTAAGCCTTC-CGAGCATA
1 AGTGAAGCAAAT-CAATC-TTAAGCCTTCACG-G---A
* **
454372 ATGATTAAGTCCTCATGGCAATCTTAAGCCTTCACTAAAGGGA
1 A-G-TGAAG--CAAAT--CAATCTTAAGCCTTCAC-----GGA
* *
454415 AGTAAAGCAAATCTATCTTAAGCCTTCACGGA
1 AGTGAAGCAAATCAATCTTAAGCCTTCACGGA
* *
454447 AGTGAAGCAAAT-ACATCAGTAAGCCTTCTGAGCATGA
1 AGTGAAGCAAATCA-ATC-TTAAGCCTTC--A-C-GGA
* * *** *
454484 TGATTAAGTTCTCAGGGCAATATTAAGCCTTCACGGA
1 AG-TGAAG----CAAATCAATCTTAAGCCTTCACGGA
*
454521 AGTGAAGCAAAAT-AAACTTAAGCCTTCACGGA
1 AGTGAAGC-AAATCAATCTTAAGCCTTCACGGA
*
454553 AGTAAAGCAAATCCAAT-TTAAGCCTTCACTGAAGA
1 AGTGAAGCAAAT-CAATCTTAAGCCTTCAC-G--GA
*
454588 GCAGTGAAGCAAA-CCATCTTAAGCCTTCAACGAAGA
1 --AGTGAAGCAAATCAATCTTAAGCCTTC-ACG--GA
* *
454624 GTAGTGAAGCAAATCCATCAGTAAGCCTT
1 --AGTGAAGCAAATCAATC-TTAAGCCTT
454653 ATGAGCATGA
Statistics
Matches: 296, Mismatches: 39, Indels: 94
0.69 0.09 0.22
Matches are distributed among these distances:
31 15 0.05
32 80 0.27
33 32 0.11
35 13 0.04
36 44 0.15
37 50 0.17
38 17 0.06
39 4 0.01
40 3 0.01
41 24 0.08
42 9 0.03
43 3 0.01
46 1 0.00
47 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (32 bp):
AGTGAAGCAAATCAATCTTAAGCCTTCACGGA
Found at i:454346 original size:68 final size:70
Alignment explanation
Indices: 454211--454347 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 70
454201 GTCCTCAGGG
*
454211 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGAAGC
1 CAATCTTAAGCCTTCAACAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGAAGC
454276 AAATC
66 AAATC
** * *
454281 CAAT-TTAAGCCTTCAATGAAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCACGGAAGTGAAGC
1 CAATCTTAAGCCTTCAACAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGAAGC
454344 AAAT
66 AAAT
454348 GCATCAGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 30 0.48
69 28 0.45
70 4 0.06
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (70 bp):
CAATCTTAAGCCTTCAACAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGAAGC
AAATC
Found at i:454480 original size:111 final size:109
Alignment explanation
Indices: 454281--454564 Score: 364
Period size: 111 Copynumber: 2.6 Consensus size: 109
454271 GAAGCAAATC
* * * *
454281 CAATTTAAGCCTTCAATGAAGAGTAGTGAAGCAAA-CCATCTTAAGCCTTCACGGAAGTGAAGCA
1 CAATTTAAGCCTTCACT-AAGGGAAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGTGAAGCA
* *
454345 AATGCATCAGTAAGCCTTCCGAGCATAATGATTAAGTCCTCATGG
65 AATACATCAGTAAGCCTTCCGAGCATAATGATTAAGTCCTCAGGG
* *
454390 CAATCTTAAGCCTTCACTAAAGGGAAGTAAAGCAAATCTATCTTAAGCCTTCACGGAAGTGAAGC
1 CAAT-TTAAGCCTTCACT-AAGGGAAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGTGAAGC
* * *
454455 AAATACATCAGTAAGCCTTCTGAGCATGATGATTAAGTTCTCAGGG
64 AAATACATCAGTAAGCCTTCCGAGCATAATGATTAAGTCCTCAGGG
* *
454501 CAATATTAAGCCTTCAC----GGAAGTGAAGCAAAAT-AAACTTAAGCCTTCACGGAAGTAAAGC
1 CAAT-TTAAGCCTTCACTAAGGGAAGTGAAGC-AAATCAATCTTAAGCCTTCACGGAAGTGAAGC
454561 AAAT
64 AAAT
454565 CCAATTTAAG
Statistics
Matches: 156, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
106 38 0.24
107 4 0.03
109 4 0.03
110 26 0.17
111 84 0.54
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (109 bp):
CAATTTAAGCCTTCACTAAGGGAAGTGAAGCAAATCAATCTTAAGCCTTCACGGAAGTGAAGCAA
ATACATCAGTAAGCCTTCCGAGCATAATGATTAAGTCCTCAGGG
Found at i:454612 original size:36 final size:37
Alignment explanation
Indices: 454557--454652 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
454547 CACGGAAGTA
454557 AAGCAAATCCAAT-TTAAGCCTTC-ACTGAAGAGCAGTG
1 AAGCAAATCC-ATCTTAAGCCTTCAAC-GAAGAGCAGTG
*
454594 AAGCAAA-CCATCTTAAGCCTTCAACGAAGAGTAGTG
1 AAGCAAATCCATCTTAAGCCTTCAACGAAGAGCAGTG
*
454630 AAGCAAATCCATCAGTAAGCCTT
1 AAGCAAATCCATC-TTAAGCCTT
454653 ATGAGCATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
35 2 0.04
36 29 0.55
37 14 0.26
38 8 0.15
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (37 bp):
AAGCAAATCCATCTTAAGCCTTCAACGAAGAGCAGTG
Found at i:454894 original size:115 final size:115
Alignment explanation
Indices: 454685--454896 Score: 325
Period size: 115 Copynumber: 1.8 Consensus size: 115
454675 TTAGGTCATC
* *
454685 TATCTGATATTCCCCTCAGAAGAAGCGGAACAAATCCCTATTTTCCAAGGTTTGATATTCCCTGA
1 TATCTGATATTCCCCTCAGAAGAAGCGGAACAAATCCCTATCTTCCAAGATTTGATATTCCCTGA
* * *
454750 GTGACAGCGGAACAAATCTGCCTTAATTCAATGGATCACGTCTCTTTCCA
66 GTGACAACGGAACAAATCTACCCTAATTCAATGGATCACGTCTCTTTCCA
* * * *
454800 TATCTGATATTCCCTTCAGAAGAAGCGGAACAGATTCCTATCTTCCAAGATTTGATATTCCTTGA
1 TATCTGATATTCCCCTCAGAAGAAGCGGAACAAATCCCTATCTTCCAAGATTTGATATTCCCTGA
* *
454865 GTGACAACGGAACAAGTCTACCCTGATTCAAT
66 GTGACAACGGAACAAATCTACCCTAATTCAAT
454897 CTTCCCTGAA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 86 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (115 bp):
TATCTGATATTCCCCTCAGAAGAAGCGGAACAAATCCCTATCTTCCAAGATTTGATATTCCCTGA
GTGACAACGGAACAAATCTACCCTAATTCAATGGATCACGTCTCTTTCCA
Found at i:459348 original size:28 final size:27
Alignment explanation
Indices: 459292--459348 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
459282 ATATTTCACG
**
459292 TACTTAAATAAAAAATAATACTTTGAA
1 TACTTAAATAAAAAATAATACTTCAAA
*
459319 TACTTTAATAAAAAATTAAATA-TTCAAA
1 TACTTAAATAAAAAA-T-AATACTTCAAA
459347 TA
1 TA
459349 AAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 14 0.56
28 7 0.28
29 4 0.16
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (27 bp):
TACTTAAATAAAAAATAATACTTCAAA
Found at i:464324 original size:60 final size:60
Alignment explanation
Indices: 464239--464380 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 60
464229 ATTGGATAAA
* *
464239 ATATACAAATGATCCCCCGATTATA-GAGTGATGTTTTGTTGA-TTCATTCGACTATTAAAAG
1 ATATA-AAATGATCCCCCGACTATAGGA-TGATGTTTTGTTGAGTTC-TCCGACTATTAAAAG
* * * *
464300 ATATAAAATGGTCCCTCGACTATAGGATGTTGTTTTGTTGAGTTCTCCGACTATTACAAG
1 ATATAAAATGATCCCCCGACTATAGGATGATGTTTTGTTGAGTTCTCCGACTATTAAAAG
* * **
464360 CTACAAAATGATTACCCGACT
1 ATATAAAATGATCCCCCGACT
464381 TTTCATATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 57 0.85
61 10 0.15
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (60 bp):
ATATAAAATGATCCCCCGACTATAGGATGATGTTTTGTTGAGTTCTCCGACTATTAAAAG
Found at i:467936 original size:18 final size:19
Alignment explanation
Indices: 467901--467943 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
467891 TTTTAATAAA
467901 AAAAATACATAAAAAATTT
1 AAAAATACATAAAAAATTT
* *
467920 AAAAATATAT-AATAATTT
1 AAAAATACATAAAAAATTT
467938 AAAAAT
1 AAAAAT
467944 TTCTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAATACATAAAAAATTT
Found at i:469575 original size:91 final size:90
Alignment explanation
Indices: 469430--469623 Score: 268
Period size: 91 Copynumber: 2.1 Consensus size: 90
469420 ATAACTTTTA
*
469430 ATAATCGAGG-GACTAAACAAAACACATCTTATAGTCGGAGGACCATTTTGTAACTTTTAATAGT
1 ATAATC-AGGTGACTAAACAAAACACATCTTATAGTCGGAGGACCATTTTGTAACTTTTAATAAT
* *
469494 CAAT-ATACTCGATAAAGTAACTCCCT
65 C-ATGAGACTCAATAAAGTAACTCCCT
* * * *
469520 CTAATCAGGTGACTCAACAAAACAACGTCTTATAGTCGG-GAGATCATTTTGTAACTTTTAATAA
1 ATAATCAGGTGACTAAACAAAAC-ACATCTTATAGTCGGAG-GACCATTTTGTAACTTTTAATAA
469584 TCATGAGACTCAATAAAGTAACTCCCT
64 TCATGAGACTCAATAAAGTAACTCCCT
469611 ATAATCAGGTGAC
1 ATAATCAGGTGAC
469624 CATTTATGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
89 3 0.03
90 20 0.22
91 69 0.75
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (90 bp):
ATAATCAGGTGACTAAACAAAACACATCTTATAGTCGGAGGACCATTTTGTAACTTTTAATAATC
ATGAGACTCAATAAAGTAACTCCCT
Found at i:470311 original size:4 final size:4
Alignment explanation
Indices: 470302--470334 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
470292 CTGAAAACAC
470302 AATA AATA AATA AATA AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
470335 ATGTCAAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:474778 original size:31 final size:31
Alignment explanation
Indices: 474742--474800 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
474732 AACTTAAAAG
474742 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
474773 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
474801 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:474849 original size:22 final size:22
Alignment explanation
Indices: 474824--475584 Score: 1258
Period size: 22 Copynumber: 34.6 Consensus size: 22
474814 ATAATAAATT
474824 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
474846 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
474868 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
474890 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
474912 TTTTAAAATAAATCAATCTATTT
1 TTTTAAAATAAATCAATCCA-TA
*
474935 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
474957 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
474979 TTTTAAAATAAATCAATTCGTA
1 TTTTAAAATAAATCAATCCATA
* *
475001 TTTTAAAATAAATCAATTCGTA
1 TTTTAAAATAAATCAATCCATA
475023 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475045 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475067 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
475089 TTTTTAAA-AAATCAATCCGTA
1 TTTTAAAATAAATCAATCCATA
**
475110 TTTTAAAATAAATCAATCTGTA
1 TTTTAAAATAAATCAATCCATA
*
475132 TTTTAAAATAAATCAATCCGTA
1 TTTTAAAATAAATCAATCCATA
*
475154 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
475176 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
475198 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
475220 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
475242 TTTTAAAATAAATCAATCCGTA
1 TTTTAAAATAAATCAATCCATA
*
475264 TTTTAAAATAAATCAATCCGTA
1 TTTTAAAATAAATCAATCCATA
*
475286 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
475308 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475330 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
475352 TTTTATAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475374 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475396 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
475418 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
475440 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
475462 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475484 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475506 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
475528 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
475550 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
475572 TTTTAAAATAAAT
1 TTTTAAAATAAAT
475585 TTTAAAATAG
Statistics
Matches: 699, Mismatches: 34, Indels: 12
0.94 0.05 0.02
Matches are distributed among these distances:
21 27 0.04
22 643 0.92
23 29 0.04
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:475601 original size:11 final size:12
Alignment explanation
Indices: 475571--475610 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
475561 ATCAATTCAT
475571 ATTTTAAAATAA
1 ATTTTAAAATAA
*
475583 ATTTTAAAATAG
1 ATTTTAAAATAA
475595 A-TTT-AAAT-A
1 ATTTTAAAATAA
475604 ATTTTAA
1 ATTTTAA
475611 TATTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:478677 original size:37 final size:37
Alignment explanation
Indices: 478606--478678 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
478596 TTATAAAAAG
* ** *
478606 CCAGCTGTCTTTGTCTTCATGTGATCTTAACTGCCAA
1 CCAGCTGTCCTTGTCTTCACATGATCTCAACTGCCAA
* *
478643 CCAGCTGTCCTTGTCTTCACATGCTCTCAGCTGCCA
1 CCAGCTGTCCTTGTCTTCACATGATCTCAACTGCCA
478679 TCCACCTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.16, C:0.33, G:0.16, T:0.34
Consensus pattern (37 bp):
CCAGCTGTCCTTGTCTTCACATGATCTCAACTGCCAA
Found at i:481618 original size:20 final size:20
Alignment explanation
Indices: 481569--481622 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
481559 TACCAGAAGG
* *
481569 GGGTATCGGTACCATAGTAT
1 GGGTATCGATACCATAGTAA
*
481589 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
481611 GGGTATCGATAC
1 GGGTATCGATAC
481623 TAGGCAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:481621 original size:95 final size:95
Alignment explanation
Indices: 481478--481693 Score: 330
Period size: 95 Copynumber: 2.3 Consensus size: 95
481468 GATTCAATCA
*
481478 GTATCGATACCA-A-TGA-GGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCG
1 GTATCGATACCATAGT-ATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCG
*
481540 AATCTAAAATTGGTATCGATACCAGAAGGGG
65 AATCTAAAATTGGTATCGATACCAGAAGGAG
* *
481571 GTATCGGTACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACTAGGCAACATCGA
1 GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGA
* *
481636 ATCTAAAATTGGTATCGATACCGGAATGAG
66 ATCTAAAATTGGTATCGATACCAGAAGGAG
* *
481666 GTATCGATACCATAGTATAGAAGTATCG
1 GTATCGATACCATAGTATGGTAGTATCG
481694 GTACTAGGGT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
93 11 0.10
94 2 0.02
95 98 0.88
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (95 bp):
GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGA
ATCTAAAATTGGTATCGATACCAGAAGGAG
Found at i:481712 original size:95 final size:95
Alignment explanation
Indices: 481497--481719 Score: 295
Period size: 95 Copynumber: 2.3 Consensus size: 95
481487 CCAATGAGGT
* * * *
481497 AGTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAATCTAAAATTGGTATCGATAC
1 AGTATCGATACCAGGGTAAGAGTATCGATACTAGGCAACATCGAATCTAAAATTGGTATCGATAC
* * * *
481562 CAGAAGGGGGTATCGGTACCATAGTATGGT
66 CAGAAGGAGGTATCGATACCATAGTATAGA
* *
481592 AGTATCGATACCATGGTAAGGGTATCGATACTAGGCAACATCGAATCTAAAATTGGTATCGATAC
1 AGTATCGATACCAGGGTAAGAGTATCGATACTAGGCAACATCGAATCTAAAATTGGTATCGATAC
* *
481657 CGGAATGAGGTATCGATACCATAGTATAGA
66 CAGAAGGAGGTATCGATACCATAGTATAGA
* * *
481687 AGTATCGGTACTAGGGT-AGTAGTATCAATACTA
1 AGTATCGATACCAGGGTAAG-AGTATCGATACTA
481720 TTGAGTTTCG
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 2 0.02
95 112 0.98
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (95 bp):
AGTATCGATACCAGGGTAAGAGTATCGATACTAGGCAACATCGAATCTAAAATTGGTATCGATAC
CAGAAGGAGGTATCGATACCATAGTATAGA
Found at i:482126 original size:55 final size:55
Alignment explanation
Indices: 482042--482313 Score: 411
Period size: 55 Copynumber: 4.9 Consensus size: 55
482032 TACAAAATAG
* * * **
482042 GCACTATGTATGCAAATCCATGGAATTCATCATGAGTTGATGAATAATTGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
482097 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
**
482152 GCACTATGTGTGCAAATCCACGGGATTCATCATGAGTTGATGAATAACCGTACAT
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
482207 GCACTATGTGTGCAAATCCATGAAATTCACCATGAGTTGATGAATAACCGTACAG
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
* * *
482262 GTACTGTGTGTGCAAATCCACGTAATTCATCATGAGTTGATGAACT-ACCGTA
1 GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAA-TAACCGTA
482314 TAGGCATTAC
Statistics
Matches: 199, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
55 198 0.99
56 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (55 bp):
GCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAT
Found at i:482569 original size:29 final size:29
Alignment explanation
Indices: 482525--482585 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
482515 TATGCCAGTT
482525 AGATGAACGGTCAAACACTGTTGAGTAAA
1 AGATGAACGGTCAAACACTGTTGAGTAAA
*
482554 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTCAAACACTGTTGAGTAAA
482583 AGA
1 AGA
482586 ATAATGGACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (29 bp):
AGATGAACGGTCAAACACTGTTGAGTAAA
Found at i:482731 original size:2 final size:2
Alignment explanation
Indices: 482724--482788 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
482714 TGAAGGGATG
482724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
482766 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
482789 ATGTACAACA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:486636 original size:20 final size:20
Alignment explanation
Indices: 486613--486737 Score: 72
Period size: 20 Copynumber: 6.5 Consensus size: 20
486603 CAACAAGGTA
486613 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
486633 GTATCGATACCA-GGTAA--
1 GTATCGATACCATGGTAAGG
* * ** *
486650 -CATCGA-ATC-T-AAAATTG
1 GTATCGATACCATGGTAA-GG
486667 GTATCGATACC--GG-AAGGGG
1 GTATCGATACCATGGTAA-G-G
* *
486686 GTATCGATACCATAGTATGG
1 GTATCGATACCATGGTAAGG
486706 TAGTATCGATACCATGGTAAGG
1 --GTATCGATACCATGGTAAGG
486728 GTATCGATAC
1 GTATCGATAC
486738 TAGGAAACAT
Statistics
Matches: 79, Mismatches: 13, Indels: 26
0.67 0.11 0.22
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
16 5 0.06
18 7 0.09
19 19 0.24
20 23 0.29
21 2 0.03
22 19 0.24
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:486714 original size:22 final size:20
Alignment explanation
Indices: 486684--486737 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
486674 TACCGGAAGG
*
486684 GGGTATCGATACCATAGTAT
1 GGGTATCGATACCATAGTAA
*
486704 GGTAGTATCGATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
486726 GGGTATCGATAC
1 GGGTATCGATAC
486738 TAGGAAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:486735 original size:95 final size:95
Alignment explanation
Indices: 486593--486798 Score: 326
Period size: 95 Copynumber: 2.2 Consensus size: 95
486583 GATTCAATCA
* * *
486593 GTATCGATACCA-A-CAAGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCGA
1 GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGA
**
486656 ATCTAAAATTGGTATCGATACCGGAAGGGG
66 ATCTAAAATTGGTATCGATACAAGAAGGGG
*
486686 GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGA
1 GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGA
*
486751 ATCTAAAATTGGTATCGATACAAGAATGGG
66 ATCTAAAATTGGTATCGATACAAGAAGGGG
*
486781 GTATCTATACCATAGTAT
1 GTATCGATACCATAGTAT
486799 ATAAGTATCG
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 12 0.12
94 1 0.01
95 90 0.87
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.26
Consensus pattern (95 bp):
GTATCGATACCATAGTATGGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGA
ATCTAAAATTGGTATCGATACAAGAAGGGG
Found at i:486806 original size:95 final size:95
Alignment explanation
Indices: 486611--486834 Score: 317
Period size: 95 Copynumber: 2.4 Consensus size: 95
486601 ACCAACAAGG
* *
486611 TAGTATCGATACCATGGTAAGGGTATCGATACCAGGTAACATCGAATCTAAAATTGGTATCGATA
1 TAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGAATCTAAAATTGGTATCGATA
** *
486676 CCGGAAGGGGGTATCGATACCATAGTATGG
66 CAAGAAGGGGGTATCGATACCATAGTATGA
486706 TAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGAATCTAAAATTGGTATCGATA
1 TAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGAATCTAAAATTGGTATCGATA
* *
486771 CAAGAATGGGGTATCTATACCATAGTAT-A
66 CAAGAAGGGGGTATCGATACCATAGTATGA
* * * *
486800 TAAGTATCGGTACTAGGGT-AGTAGTATCGATACTA
1 T-AGTATCGATACCATGGTAAG-GGTATCGATACTA
486835 TTGAGTTTCG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 3 0.03
95 113 0.97
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (95 bp):
TAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGAATCTAAAATTGGTATCGATA
CAAGAAGGGGGTATCGATACCATAGTATGA
Found at i:487241 original size:55 final size:55
Alignment explanation
Indices: 487155--487607 Score: 649
Period size: 55 Copynumber: 8.2 Consensus size: 55
487145 ATTACCAAAT
* **
487155 AGGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAATTGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
487210 ATGCACTATGTGTGCAAATCCAAGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
487265 ATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCCGTAA
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAA-CCGTAC
* * *
487321 AGGCACTATGTGTGCAAATCTACGAAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
487376 AGGCACTATGTGTGCAAATCCACGGAATTCATCCTGAGTTGATGAATAACCGTGC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
487431 ATGCACTATGTGTGCAAATCCATGAAATTCACCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* *
487486 AGGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTGATGAATAATCGTAC
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
** * ** *
487541 AAACACTATGTGTGC-AACCCACATAATTCATCATGAGTTGATGAACT-ACCGTAT
1 AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAACCGTAC
*
487595 AGGCACTACGTGT
1 AGGCACTATGTGT
487608 ACATCTTAAT
Statistics
Matches: 359, Mismatches: 37, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
54 41 0.11
55 267 0.74
56 51 0.14
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (55 bp):
AGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:487852 original size:29 final size:29
Alignment explanation
Indices: 487804--487862 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
487794 TATGCCAGTT
487804 AGATGAACGATCAAACACTGTTGAGTAAA
1 AGATGAACGATCAAACACTGTTGAGTAAA
* * *
487833 AGATGAACGGTTAAAGACTGTTGAGTAAA
1 AGATGAACGATCAAACACTGTTGAGTAAA
487862 A
1 A
487863 TAATAATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (29 bp):
AGATGAACGATCAAACACTGTTGAGTAAA
Found at i:494039 original size:23 final size:23
Alignment explanation
Indices: 494009--494106 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
493999 GTCGAGGGTT
*
494009 CTATGTGGTCCTTCAGGACAAAC
1 CTATGTGGTCATTCAGGACAAAC
* *
494032 CTATGTGGTCATTCGGGACAATC
1 CTATGTGGTCATTCAGGACAAAC
*
494055 CTATGTGGTCATTC-GAGACAAAA
1 CTATGTGGTCATTCAG-GACAAAC
* * * *
494078 ATTTATGGTCATTCGGGACAAA-
1 CTATGTGGTCATTCAGGACAAAC
494100 -TATGTGG
1 CTATGTGG
494107 CACTTCGGTG
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
21 5 0.08
22 1 0.02
23 56 0.89
24 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCATTCAGGACAAAC
Found at i:494062 original size:46 final size:46
Alignment explanation
Indices: 494009--494098 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
493999 GTCGAGGGTT
* ** *
494009 CTATGTGGTCCTTC-AGGACAAACCTATGTGGTCATTCGGGACAATC
1 CTATGTGGTCATTCGA-GACAAAAATATATGGTCATTCGGGACAATC
*
494055 CTATGTGGTCATTCGAGACAAAAATTTATGGTCATTCGGGACAA
1 CTATGTGGTCATTCGAGACAAAAATATATGGTCATTCGGGACAA
494099 ATATGTGGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (46 bp):
CTATGTGGTCATTCGAGACAAAAATATATGGTCATTCGGGACAATC
Found at i:500667 original size:21 final size:22
Alignment explanation
Indices: 500617--500689 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
500607 GTCGAGGGTT
*
500617 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCATTCGGGAC-AAA
500640 CTATGTGGTCATTCGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
500662 -TATGTGG-CACTTCGGTG-CAAA
1 CTATGTGGTCA-TTCGG-GACAAA
*
500683 TTATGTG
1 CTATGTG
500690 AGTTGTGGTG
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
20 2 0.04
21 16 0.35
22 10 0.22
23 18 0.39
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (22 bp):
CTATGTGGTCATTCGGGACAAA
Found at i:503587 original size:20 final size:20
Alignment explanation
Indices: 503562--503604 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
503552 TCTAAAAGCT
503562 CATATAGG-GTCATATAGATG
1 CATATAGGAG-CATATAGATG
*
503582 CATATAGGAGCATATAGTTG
1 CATATAGGAGCATATAGATG
503602 CAT
1 CAT
503605 GTGGTGGACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
CATATAGGAGCATATAGATG
Found at i:512505 original size:130 final size:130
Alignment explanation
Indices: 512267--512580 Score: 391
Period size: 130 Copynumber: 2.4 Consensus size: 130
512257 ACTTCACTAC
* * * * * * * *
512267 TGAACCGAGGCAGATTTCTTCCACTACTCCTCATGGAAGATTAAATATGAAAAAGGGATACGCTT
1 TGAATCGAGGCTGATTTGTTCCACTTCTCCTCAAGGAAGATCAAATCTGAAAAAAGGATACGCTT
* *
512332 CGCTACTCTTCAGTGTAGATCATATTTGGAAACGTTGATTCACTCCACTACTCTTCAGGAAAGAT
66 CGCTACTCTTCAGTGTAAATCAAATTTGGAAACGTTGATTCACTCCACTACTCTTCAGGAAAGAT
* **
512397 TGAATCGAGGCTGATTTGTTCCACTTCTCCTCACGGAAGATCAAATCTGAAAAAAGGATTTGC-T
1 TGAATCGAGGCTGATTTGTTCCACTTCTCCTCAAGGAAGATCAAATCTGAAAAAAGGATACGCTT
*
512461 CTGCTTCTCTTCAAG-GTAAATCAAATTTGGAAACGTTGATTCACTCCACTACTCTTCAGGAAAG
66 C-GCTACTCTTC-AGTGTAAATCAAATTTGGAAACGTTGATTCACTCCACTACTCTTCAGGAAAG
512525 AT
129 AT
* * ** * * *
512527 TGAATCG-GGTTTGATTTGTTTCTTTTGTCTTCAAGAAAGATCAAATCTGAAAAA
1 TGAATCGAGG-CTGATTTGTTCCACTTCTCCTCAAGGAAGATCAAATCTGAAAAA
512581 GAGACGCAGA
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
129 4 0.03
130 154 0.96
131 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (130 bp):
TGAATCGAGGCTGATTTGTTCCACTTCTCCTCAAGGAAGATCAAATCTGAAAAAAGGATACGCTT
CGCTACTCTTCAGTGTAAATCAAATTTGGAAACGTTGATTCACTCCACTACTCTTCAGGAAAGAT
Found at i:520370 original size:24 final size:24
Alignment explanation
Indices: 520337--520394 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
520327 ATGTCGATAG
*
520337 ATGCATTGGTACGATTCTTTTAAC
1 ATGCAATGGTACGATTCTTTTAAC
* *
520361 CTGCAATGGTACTATTCTTTTAAC
1 ATGCAATGGTACGATTCTTTTAAC
520385 ATGCAATGGT
1 ATGCAATGGT
520395 GAGTAATAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (24 bp):
ATGCAATGGTACGATTCTTTTAAC
Found at i:520831 original size:31 final size:31
Alignment explanation
Indices: 520792--520958 Score: 181
Period size: 31 Copynumber: 5.4 Consensus size: 31
520782 GGGCCTGAGA
* *
520792 GCCTACCCAAGAAAGATCTCAGGGCTACATG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* *
520823 ACCTACCCAAGAAAGATCTGAGGGCCACAGG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* * * *
520854 GCCTACCTAAGAATGATCTCAGAGCCACGGG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* * * *
520885 GCCTACCCAAGAAAAATCTCAGGGTCGCAAG
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
* * ** *
520916 GCCTACCTAAGAATGATCTCAGGGCCGTAGA
1 GCCTACCCAAGAAAGATCTCAGGGCCACAGG
520947 GCCTACCCAAGA
1 GCCTACCCAAGA
520959 GTCACATTAG
Statistics
Matches: 110, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.14
Consensus pattern (31 bp):
GCCTACCCAAGAAAGATCTCAGGGCCACAGG
Found at i:522654 original size:28 final size:28
Alignment explanation
Indices: 522614--522678 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
522604 ACTTATTGAG
522614 TACTTTTCCATTCAGGGTCAATTTGGGC
1 TACTTTTCCATTCAGGGTCAATTTGGGC
522642 TACTTTTCCATTCAGGGTCAATTTGGGC
1 TACTTTTCCATTCAGGGTCAATTTGGGC
522670 TACTTTTCC
1 TACTTTTCC
522679 CTCTCAAGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (28 bp):
TACTTTTCCATTCAGGGTCAATTTGGGC
Found at i:532060 original size:4 final size:4
Alignment explanation
Indices: 532032--532071 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
532022 AATAATAATA
* *
532032 AAAT AACAT AAAA AAAT AGAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
532072 AATAAAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:532568 original size:130 final size:130
Alignment explanation
Indices: 532335--532582 Score: 370
Period size: 130 Copynumber: 1.9 Consensus size: 130
532325 TTCACTACTA
* * * * * *
532335 AATCGAGGCAGATTTCTTCTACTTCTCCTCATGGAAGATTAAATATGAAAAAGGGATCTGCTCAG
1 AATCGAGGCAGATTTCTTCCACTACTCCTCAGGGAAGATCAAATATGAAAAAGGGATATACTCAG
* ** *
532400 CTGCTCTTCATTGTAGATCAGATCTGGAAATGTTGATTCACTCCACTGCTCTTTAGGGAAGATTG
66 CTGCACTTCAAGGTAGATCAGATCTGGAAATGTTGATTCACTCCACTACTCTTTAGGGAAGATTG
* * * *
532465 AATCGAGGCAGATTTGTTCCACTACTCCTTAGGGAAGATCAAATCTGAAAAAGGGATATACTCCG
1 AATCGAGGCAGATTTCTTCCACTACTCCTCAGGGAAGATCAAATATGAAAAAGGGATATACTCAG
532530 CTGCACTTCAAGGTAGATCAGATCTGGAAATGTTGATTCACTCCACTACTCTT
66 CTGCACTTCAAGGTAGATCAGATCTGGAAATGTTGATTCACTCCACTACTCTT
532583 CAAGAAAGAT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 104 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (130 bp):
AATCGAGGCAGATTTCTTCCACTACTCCTCAGGGAAGATCAAATATGAAAAAGGGATATACTCAG
CTGCACTTCAAGGTAGATCAGATCTGGAAATGTTGATTCACTCCACTACTCTTTAGGGAAGATTG
Found at i:532585 original size:45 final size:43
Alignment explanation
Indices: 532482--532681 Score: 159
Period size: 44 Copynumber: 4.5 Consensus size: 43
532472 GCAGATTTGT
* * * *
532482 TCCACTACTCCTT-AGGGAAGATCAAATCTGAAAAAGGGATATAC
1 TCCACTACT-CTTCAAGGAAGATCAGATCTGAAAATGTGAT-TAC
* * * * *
532526 TCCGCTGCACTTCAAGGTAGATCAGATCTGGAAATGTTGATTCAC
1 TCCACTACTCTTCAAGGAAGATCAGATCTGAAAATG-TGATT-AC
* * * * *
532571 TCCACTACTCTTCAAGAAAGATCAAATCTGAAAAAGGGATATGC
1 TCCACTACTCTTCAAGGAAGATCAGATCTGAAAATGTGAT-TAC
* * * *
532615 TCTACTGCTATTCAGGGAAGATCAGATCTGAAAATGATGATTTAC
1 TCCACTACTCTTCAAGGAAGATCAGATCTGAAAATG-TGA-TTAC
*
532660 TCCACTACTCTTCAGGGAAGAT
1 TCCACTACTCTTCAAGGAAGAT
532682 TGAATCTGGT
Statistics
Matches: 119, Mismatches: 31, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
43 3 0.03
44 58 0.49
45 57 0.48
46 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (43 bp):
TCCACTACTCTTCAAGGAAGATCAGATCTGAAAATGTGATTAC
Found at i:532620 original size:130 final size:131
Alignment explanation
Indices: 532367--532648 Score: 302
Period size: 130 Copynumber: 2.1 Consensus size: 131
532357 TTCTCCTCAT
* * * * * **
532367 GGAAGATTAAATATGAAAAAGGGATCTGCTCAGCTGCTCTTCATTGTAGATCAGATCTGGAAATG
1 GGAAGATCAAATCTGAAAAAGGGATATACTCAGCTGCACTTCAAGGTAGATCAGATCTGGAAATG
* * * * ** *** * *
532432 TTGATTCACTCCACTGCTCTTTAGGGAAGATTGAATCGAGGCAGATTTGTTCCACTACT-C-CTT
66 TTGATTCACTCCACTACTCTTCAAGAAAGATCAAATCGAAAAAGATATG-T-CACTACTGCTATT
532495 -AG
129 CAG
*
532497 GGAAGATCAAATCTGAAAAAGGGATATACTCCGCTGCACTTCAAGGTAGATCAGATCTGGAAATG
1 GGAAGATCAAATCTGAAAAAGGGATATACTCAGCTGCACTTCAAGGTAGATCAGATCTGGAAATG
*
532562 TTGATTCACTCCACTACTCTTCAAGAAAGATCAAATCTGAAAAAGGGATATG-CTCTACTGCTAT
66 TTGATTCACTCCACTACTCTTCAAGAAAGATCAAATC-GAAAAA--GATATGTCACTACTGCTAT
532626 TCAG
128 TCAG
*
532630 GGAAGATCAGATCTGAAAA
1 GGAAGATCAAATCTGAAAA
532649 TGATGATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
130 94 0.75
131 4 0.03
132 2 0.02
133 25 0.20
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (131 bp):
GGAAGATCAAATCTGAAAAAGGGATATACTCAGCTGCACTTCAAGGTAGATCAGATCTGGAAATG
TTGATTCACTCCACTACTCTTCAAGAAAGATCAAATCGAAAAAGATATGTCACTACTGCTATTCA
G
Found at i:532644 original size:44 final size:44
Alignment explanation
Indices: 532497--532681 Score: 149
Period size: 45 Copynumber: 4.2 Consensus size: 44
532487 TACTCCTTAG
*
532497 GGAAGATCAAATCTGAAAAAGGGATATACTCCGCTGC-ACTTCAA
1 GGAAGATCAAATCTGAAAAAGGGATATACTCCACTGCTA-TTCAA
* * * * * * *
532541 GGTAGATCAGATCTGGAAATGTTGAT-TCACTCCACTACTCTTCAA
1 GGAAGATCAAATCTGAAAAAG-GGATAT-ACTCCACTGCTATTCAA
* * * *
532586 GAAAGATCAAATCTGAAAAAGGGATATGCTCTACTGCTATTCAG
1 GGAAGATCAAATCTGAAAAAGGGATATACTCCACTGCTATTCAA
* * * * * * *
532630 GGAAGATCAGATCTGAAAATGATGATTTACTCCACTACTCTTCAG
1 GGAAGATCAAATCTGAAAAAG-GGATATACTCCACTGCTATTCAA
532675 GGAAGAT
1 GGAAGAT
532682 TGAATCTGGT
Statistics
Matches: 108, Mismatches: 28, Indels: 9
0.74 0.19 0.06
Matches are distributed among these distances:
44 51 0.47
45 57 0.53
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (44 bp):
GGAAGATCAAATCTGAAAAAGGGATATACTCCACTGCTATTCAA
Found at i:532689 original size:45 final size:44
Alignment explanation
Indices: 532482--532689 Score: 148
Period size: 45 Copynumber: 4.7 Consensus size: 44
532472 GCAGATTTGT
* * * *
532482 TCCACTACTCCTT-AGGGAAGATCAAATCTGAAAAAGGGATATAC
1 TCCACTACT-CTTCAGGGAAGATTAAATCTGAAAATGTGATTTAC
* * * * * * * * *
532526 TCCGCTGCACTTCAAGGTAGATCAGATCTGGAAATGTTGATTCAC
1 TCCACTACTCTTCAGGGAAGATTAAATCTGAAAATG-TGATTTAC
* * * * * * *
532571 TCCACTACTCTTCAAGAAAGATCAAATCTGAAAAAGGGATATGC
1 TCCACTACTCTTCAGGGAAGATTAAATCTGAAAATGTGATTTAC
* * * * *
532615 TCTACTGCTATTCAGGGAAGATCAGATCTGAAAATGATGATTTAC
1 TCCACTACTCTTCAGGGAAGATTAAATCTGAAAATG-TGATTTAC
*
532660 TCCACTACTCTTCAGGGAAGATTGAATCTG
1 TCCACTACTCTTCAGGGAAGATTAAATCTG
532690 GTTTGATTTG
Statistics
Matches: 122, Mismatches: 39, Indels: 5
0.73 0.23 0.03
Matches are distributed among these distances:
43 3 0.02
44 57 0.47
45 62 0.51
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (44 bp):
TCCACTACTCTTCAGGGAAGATTAAATCTGAAAATGTGATTTAC
Found at i:532689 original size:89 final size:89
Alignment explanation
Indices: 532482--532681 Score: 278
Period size: 89 Copynumber: 2.2 Consensus size: 89
532472 GCAGATTTGT
* *
532482 TCCACTACTCCTT-AGGGAAGATCAAATCTGAAAAAGGGATATACTCCGCTGCACTTCAAGGTAG
1 TCCACTACT-CTTCAGGGAAGATCAAATCTGAAAAAGGGATATACTCCACTGCACTTCAAGGAAG
* *
532546 ATCAGATCTGGAAATGTTGATTCAC
65 ATCAGATCTGAAAATGATGATTCAC
* * * * *
532571 TCCACTACTCTTCAAGAAAGATCAAATCTGAAAAAGGGATATGCTCTACTGCTA-TTCAGGGAAG
1 TCCACTACTCTTCAGGGAAGATCAAATCTGAAAAAGGGATATACTCCACTGC-ACTTCAAGGAAG
*
532635 ATCAGATCTGAAAATGATGATTTAC
65 ATCAGATCTGAAAATGATGATTCAC
532660 TCCACTACTCTTCAGGGAAGAT
1 TCCACTACTCTTCAGGGAAGAT
532682 TGAATCTGGT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
88 3 0.03
89 93 0.96
90 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (89 bp):
TCCACTACTCTTCAGGGAAGATCAAATCTGAAAAAGGGATATACTCCACTGCACTTCAAGGAAGA
TCAGATCTGAAAATGATGATTCAC
Found at i:534103 original size:7 final size:7
Alignment explanation
Indices: 534091--534146 Score: 85
Period size: 7 Copynumber: 7.6 Consensus size: 7
534081 TTCCTTTATA
534091 TTTTCTT
1 TTTTCTT
534098 TTTTCTT
1 TTTTCTT
534105 TTTTCTT
1 TTTTCTT
534112 TTTTCTTT
1 TTTTC-TT
534120 TTTTCTT
1 TTTTCTT
534127 TTTTCTT
1 TTTTCTT
534134 CTTCTTCTT
1 -TT-TTCTT
534143 TTTT
1 TTTT
534147 TAGGCAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
7 30 0.65
8 11 0.24
9 5 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:534121 original size:15 final size:15
Alignment explanation
Indices: 534091--534146 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
534081 TTCCTTTATA
534091 TTTTCTTTTTTC-TT
1 TTTTCTTTTTTCTTT
534105 TTTTCTTTTTTCTTT
1 TTTTCTTTTTTCTTT
534120 TTTTCTTTTTTCTTCT
1 TTTTCTTTTTTCTT-T
*
534136 TCTTCTTTTTT
1 TTTTCTTTTTT
534147 TAGGCAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
14 12 0.31
15 16 0.41
16 11 0.28
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTCTTTTTTCTTT
Found at i:540287 original size:12 final size:12
Alignment explanation
Indices: 540267--540304 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
540257 TGGATTCACT
540267 TGAACTTGATTC
1 TGAACTTGATTC
*
540279 TGAATTTGATTC
1 TGAACTTGATTC
*
540291 TGAACTCGATTC
1 TGAACTTGATTC
540303 TG
1 TG
540305 GATCTGATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (12 bp):
TGAACTTGATTC
Found at i:540295 original size:24 final size:24
Alignment explanation
Indices: 540267--540313 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
540257 TGGATTCACT
* *
540267 TGAACTTGATTCTGAATTTGATTC
1 TGAACTCGATTCTGAATCTGATTC
*
540291 TGAACTCGATTCTGGATCTGATT
1 TGAACTCGATTCTGAATCTGATT
540314 GTTGTTGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TGAACTCGATTCTGAATCTGATTC
Found at i:550963 original size:25 final size:24
Alignment explanation
Indices: 550909--550965 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
550899 CTTAGGGTTT
550909 TTAAA-ATTATTTCGAATTAATAAA
1 TTAAATATTATTTC-AATTAATAAA
*
550933 TAAAATATTATTT-AATTAATTGAAA
1 TTAAATATTATTTCAATTAA-T-AAA
550958 TTAAATAT
1 TTAAATAT
550966 ACATTAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 6 0.21
24 5 0.18
25 17 0.61
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (24 bp):
TTAAATATTATTTCAATTAATAAA
Found at i:552680 original size:2 final size:2
Alignment explanation
Indices: 552675--552700 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
552665 AAATATGAAG
552675 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
552701 GGATTTGGAT
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):
AT
Found at i:558085 original size:35 final size:35
Alignment explanation
Indices: 558039--558109 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
558029 TTGTTAGAAG
558039 AAAGACTATTATTCTCAAGATAAGTAAAGTTTGTA
1 AAAGACTATTATTCTCAAGATAAGTAAAGTTTGTA
558074 AAAGACTATTATTCTCAAGATAAGTAAAGTTTGTA
1 AAAGACTATTATTCTCAAGATAAGTAAAGTTTGTA
558109 A
1 A
558110 TAACTAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (35 bp):
AAAGACTATTATTCTCAAGATAAGTAAAGTTTGTA
Found at i:558909 original size:64 final size:64
Alignment explanation
Indices: 558808--558935 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
558798 TGTATATAAA
558808 AATTAGATAACAAAAAATAAGAAAAAAATTGAAAATTTTCAAGTGAGGGTAGATGGCCTGCAAT
1 AATTAGATAACAAAAAATAAGAAAAAAATTGAAAATTTTCAAGTGAGGGTAGATGGCCTGCAAT
558872 AATTAGATAACAAAAAATAAGAAAAAAATTGAAAATTTTCAAGTGAGGGTAGATGGCCTGCAAT
1 AATTAGATAACAAAAAATAAGAAAAAAATTGAAAATTTTCAAGTGAGGGTAGATGGCCTGCAAT
558936 GATAACGTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (64 bp):
AATTAGATAACAAAAAATAAGAAAAAAATTGAAAATTTTCAAGTGAGGGTAGATGGCCTGCAAT
Found at i:560412 original size:23 final size:23
Alignment explanation
Indices: 560386--560429 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
560376 CACATATTCT
*
560386 TCTGCCTTTATGGCATGTTTTTC
1 TCTGCCTCTATGGCATGTTTTTC
560409 TCTGCCTCTATGGCATGTTTT
1 TCTGCCTCTATGGCATGTTTT
560430 CGATTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.23, G:0.18, T:0.50
Consensus pattern (23 bp):
TCTGCCTCTATGGCATGTTTTTC
Found at i:563194 original size:3 final size:3
Alignment explanation
Indices: 563173--563230 Score: 62
Period size: 3 Copynumber: 18.7 Consensus size: 3
563163 GTACGGGTTG
* * *
563173 TTA TTA ATA TTA ATA TTA TTA TTA TTA TTA TTA TTTA TATA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
*
563220 TTT TTA TTA TT
1 TTA TTA TTA TT
563231 TTGCATACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:563708 original size:18 final size:20
Alignment explanation
Indices: 563685--563725 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
563675 TCGATTTTTG
*
563685 AAAGAAAATAAG-GAG-AAA
1 AAAGAAAAGAAGCGAGCAAA
563703 AAAGAAAAGAAGCGAGCAAA
1 AAAGAAAAGAAGCGAGCAAA
563723 AAA
1 AAA
563726 CACTCGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.71, C:0.05, G:0.22, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGAAGCGAGCAAA
Found at i:564297 original size:156 final size:156
Alignment explanation
Indices: 564013--564324 Score: 624
Period size: 156 Copynumber: 2.0 Consensus size: 156
564003 ATCGATCCGA
564013 CTTAATATTGAGACATGTTGAGTTTTAAATAAATAGACAAATTTGGAGTCTCCAATTGACCTTTG
1 CTTAATATTGAGACATGTTGAGTTTTAAATAAATAGACAAATTTGGAGTCTCCAATTGACCTTTG
564078 GGTTAGGTAAGTCGAATACCTAAAAATATCTTTTAAAATAATTTTAAGAAAAATAATTTTAAAAG
66 GGTTAGGTAAGTCGAATACCTAAAAATATCTTTTAAAATAATTTTAAGAAAAATAATTTTAAAAG
564143 ATAAAAATTTTGATCTGCGATTGACC
131 ATAAAAATTTTGATCTGCGATTGACC
564169 CTTAATATTGAGACATGTTGAGTTTTAAATAAATAGACAAATTTGGAGTCTCCAATTGACCTTTG
1 CTTAATATTGAGACATGTTGAGTTTTAAATAAATAGACAAATTTGGAGTCTCCAATTGACCTTTG
564234 GGTTAGGTAAGTCGAATACCTAAAAATATCTTTTAAAATAATTTTAAGAAAAATAATTTTAAAAG
66 GGTTAGGTAAGTCGAATACCTAAAAATATCTTTTAAAATAATTTTAAGAAAAATAATTTTAAAAG
564299 ATAAAAATTTTGATCTGCGATTGACC
131 ATAAAAATTTTGATCTGCGATTGACC
564325 AAAGATTCAT
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (156 bp):
CTTAATATTGAGACATGTTGAGTTTTAAATAAATAGACAAATTTGGAGTCTCCAATTGACCTTTG
GGTTAGGTAAGTCGAATACCTAAAAATATCTTTTAAAATAATTTTAAGAAAAATAATTTTAAAAG
ATAAAAATTTTGATCTGCGATTGACC
Found at i:566383 original size:82 final size:82
Alignment explanation
Indices: 566293--566888 Score: 804
Period size: 82 Copynumber: 7.3 Consensus size: 82
566283 TGTTGTACTC
* * *
566293 TTCTTTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAG
1 TTCTTTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAG
*
566358 ACGTGTCTGCTCCAATA
66 ACGTGTCTGCTCCACTA
* * * * *
566375 TTCTTTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTTCGAGTAGTAAGATAAATTTTGGAA
1 TTCTTTCAGGGGAGATCAGACTTGATCTGTGCCTC-TTTTTCGGGTAGTCAGATCAATTTCGGAA
* *
566440 GACGGGTCAGCTCCACTA
65 GACGTGTCTGCTCCACTA
* ** * * *
566458 TTCATTCAAAGGAGATCAGACTTAATTTGTGCCTATTTTTCGGGTAGTCAGATCAATTTCGGAAG
1 TTCTTTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAG
* *
566523 ATGTGTCTGCTTCACTA
66 ACGTGTCTGCTCCACTA
* *
566540 TTCATTT-AGGGAAGATCAGACTTGATCTGTGCCTCTTTTTCAGGTAGTCAGATCAATTTCGGAA
1 TTC-TTTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAA
* *
566604 GACATGTCTGCTCTACTA
65 GACGTGTCTGCTCCACTA
* * *
566622 TT-TATTCAGAGGAAATTAGACTTGATCTGTGCCT-TTTTTCGGGTAGTCAGATCAATTTCGGAA
1 TTCT-TTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAA
566685 GACGTGTCTGCTCCACTA
65 GACGTGTCTGCTCCACTA
* * *
566703 TT-TATTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGATGAATTTCAGAA
1 TTCT-TTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAA
*
566767 GACGTGTCTACTCCACTA
65 GACGTGTCTGCTCCACTA
* * * *
566785 TTCATTCAGGGGAGATCAGACTTGATTTATGCCTCTTTTTCGGGTAGTCAGATCAATTTCAGAAG
1 TTCTTTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAG
*
566850 ATGTGTCTGCTCCACTA
66 ACGTGTCTGCTCCACTA
*
566867 TTCATTCAGGGGAGATCAGACT
1 TTCTTTCAGGGGAGATCAGACT
566889 GGAGGTTGAT
Statistics
Matches: 453, Mismatches: 55, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 76 0.17
82 305 0.67
83 71 0.16
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (82 bp):
TTCTTTCAGGGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAG
ACGTGTCTGCTCCACTA
Found at i:566694 original size:163 final size:163
Alignment explanation
Indices: 566297--566888 Score: 853
Period size: 163 Copynumber: 3.6 Consensus size: 163
566287 GTACTCTTCT
* *
566297 TTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACGT
1 TTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
* * *
566362 GTCTGCTCCAATATTCTTTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTTCGAGTAGTAAG
66 GTCTGCTCCACTATTCATTCAGGGGAGATCAGACTTGATATGTGCCTC-TTTTTCG-GTAGTCAG
* * *
566427 ATAAATTTTGGAAGACGGGTCAGCTCCACTATTCA
129 ATAAATTTCGGAAGACGTGTCTGCTCCACTATTCA
* * * * *
566462 TTCAAAGGAGATCAGACTTAATTTGTGCCTATTTTTCGGGTAGTCAGATCAATTTCGGAAGATGT
1 TTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
* * * *
566527 GTCTGCTTCACTATTCATTTAGGGAAGATCAGACTTGATCTGTGCCTCTTTTTCAGGTAGTCAGA
66 GTCTGCTCCACTATTCATTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTC-GGTAGTCAGA
* * * *
566592 TCAATTTCGGAAGACATGTCTGCTCTACTATTTA
130 TAAATTTCGGAAGACGTGTCTGCTCCACTATTCA
* *
566626 TTCAGAGGAAATTAGACTTGATCTGTGCCT-TTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
1 TTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
*
566690 GTCTGCTCCACTATTTATTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTCGGGTAGTCAGA
66 GTCTGCTCCACTATTCATTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTC-GGTAGTCAGA
* * *
566755 TGAATTTCAGAAGACGTGTCTACTCCACTATTCA
130 TAAATTTCGGAAGACGTGTCTGCTCCACTATTCA
* * * * *
566789 TTCAGGGGAGATCAGACTTGATTTATGCCTCTTTTTCGGGTAGTCAGATCAATTTCAGAAGATGT
1 TTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
566854 GTCTGCTCCACTATTCATTCAGGGGAGATCAGACT
66 GTCTGCTCCACTATTCATTCAGGGGAGATCAGACT
566889 GGAGGTTGAT
Statistics
Matches: 378, Mismatches: 47, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
163 145 0.38
164 132 0.35
165 101 0.27
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (163 bp):
TTCAGAGGAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
GTCTGCTCCACTATTCATTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTCGGTAGTCAGAT
AAATTTCGGAAGACGTGTCTGCTCCACTATTCA
Found at i:566790 original size:245 final size:247
Alignment explanation
Indices: 566297--566888 Score: 814
Period size: 245 Copynumber: 2.4 Consensus size: 247
566287 GTACTCTTCT
* *
566297 TTCAGAGG-AGATCAGACTTGATCTGTGCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACG
1 TTCAG-GGAAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACG
* * *
566361 TGTCTGCTCCAATATTCT-TTCAGGGGAGATCAGACTTGATATGTGCCTCTTTTTTCGAGTAGTA
65 TGTCTGCTCCACTATT-TATTCAGAGGAAATCAGACTTGATATGTGCCTCTTTTTTCGAGTAGTA
* *
566425 AGATAAATTTTGGAAGACGGGTCAGCTCCACTATTCATTCAAAGGAGATCAGACTTAATTTGTGC
129 AGATAAATTTCGGAAGACGGGTCAGCTCCACTATTCATTCAAAGGAGATCAGACTTAATATGTGC
* * * *
566490 CTATTTTTCGGGTAGTCAGATCAATTTCGGAAGATGTGTCTGCTTCACTATTCA
194 CTATTTTTCGGGTAGTCAGATCAATTTCAGAAGACGTGTCTACTCCACTATTCA
* * *
566544 TTTAGGGAAGATCAGACTTGATCTGTGCCTCTTTTTCAGGTAGTCAGATCAATTTCGGAAGACAT
1 TTCAGGGAAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
* * * * *
566609 GTCTGCTCTACTATTTATTCAGAGGAAATTAGACTTGATCTGTG-C-CTTTTTTCGGGTAGTCAG
66 GTCTGCTCCACTATTTATTCAGAGGAAATCAGACTTGATATGTGCCTCTTTTTTCGAGTAGTAAG
* * * * ** *
566672 ATCAATTTCGGAAGACGTGTCTGCTCCACTATTTATTCAGGGGAGATCAGACTTGATATGTGCCT
131 ATAAATTTCGGAAGACGGGTCAGCTCCACTATTCATTCAAAGGAGATCAGACTTAATATGTGCCT
* *
566737 CTTTTTCGGGTAGTCAGATGAATTTCAGAAGACGTGTCTACTCCACTATTCA
196 ATTTTTCGGGTAGTCAGATCAATTTCAGAAGACGTGTCTACTCCACTATTCA
* * * * *
566789 TTCAGGGGAGATCAGACTTGATTTATGCCTCTTTTTCGGGTAGTCAGATCAATTTCAGAAGATGT
1 TTCAGGGAAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
* * *
566854 GTCTGCTCCACTATTCATTCAGGGGAGATCAGACT
66 GTCTGCTCCACTATTTATTCAGAGGAAATCAGACT
566889 GGAGGTTGAT
Statistics
Matches: 302, Mismatches: 41, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
245 205 0.68
246 4 0.01
247 93 0.31
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (247 bp):
TTCAGGGAAGATCAGACTTGATCTGTGCCTCTTTTTCGGGTAGTCAGATCAATTTCGGAAGACGT
GTCTGCTCCACTATTTATTCAGAGGAAATCAGACTTGATATGTGCCTCTTTTTTCGAGTAGTAAG
ATAAATTTCGGAAGACGGGTCAGCTCCACTATTCATTCAAAGGAGATCAGACTTAATATGTGCCT
ATTTTTCGGGTAGTCAGATCAATTTCAGAAGACGTGTCTACTCCACTATTCA
Found at i:567028 original size:36 final size:36
Alignment explanation
Indices: 566980--567382 Score: 662
Period size: 36 Copynumber: 11.1 Consensus size: 36
566970 ATCAGACTCG
566980 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
*
567016 AGATTGACTTGCTTCACTACTCTTCTGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
* *
567052 ACATTGATTTGCTTCACTACTCTTCTGTCAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
567088 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
* *
567124 AAATTGATTTGCTTCACTACTCTTTTGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
* *
567160 AAATTGATTTGCTTCACTACTCTTCTATGAAGGCTTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGC-TA
* *
567197 AGGATTTATTTGCTTCACTAATCTTCTGTGAAGGCTA
1 A-GATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
* * *
567234 AGATTGATTTTCTTCACTACTATTCTGTGAAGGCTT
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
*
567270 AGATTGATTTGCTTCACTACTCTTATGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
567306 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
*
567342 AGATTGATTTGTTTCACTACTCTTCTGTGAAGGCTA
1 AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
567378 AGATT
1 AGATT
567383 TGAAGTTGAT
Statistics
Matches: 340, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
36 305 0.90
37 6 0.02
38 29 0.09
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (36 bp):
AGATTGATTTGCTTCACTACTCTTCTGTGAAGGCTA
Found at i:567364 original size:218 final size:218
Alignment explanation
Indices: 566981--567378 Score: 688
Period size: 218 Copynumber: 1.8 Consensus size: 218
566971 TCAGACTCGA
* *
566981 GATTGATTTGCTTCACTACTCTTCTGTGAAGGCTAAGATTGACTTGCTTCACTACTCTTCTGTGA
1 GATTGATTTGCTTCACTAATCTTCTGTGAAGGCTAAGATTGACTTGCTTCACTACTATTCTGTGA
*
567046 AGGCTAACATTGATTTGCTTCACTACTCTTCTGTCAAGGCTAAGATTGATTTGCTTCACTACTCT
66 AGGCTAACATTGATTTGCTTCACTACTCTTATGTCAAGGCTAAGATTGATTTGCTTCACTACTCT
*
567111 TCTGTGAAGGCTAAAATTGATTTGCTTCACTACTCTTTTGTGAAGGCTAAAATTGATTTGCTTCA
131 TCTGTGAAGGCTAAAATTGATTTGCTTCACTACTCTTCTGTGAAGGCTAAAATTGATTTGCTTCA
567176 CTACTCTTCTATGAAGGCTTAAG
196 CTACTCTTCTATGAAGGCTTAAG
* * *
567199 GATTTATTTGCTTCACTAATCTTCTGTGAAGGCTAAGATTGATTTTCTTCACTACTATTCTGTGA
1 GATTGATTTGCTTCACTAATCTTCTGTGAAGGCTAAGATTGACTTGCTTCACTACTATTCTGTGA
* * *
567264 AGGCTTAGATTGATTTGCTTCACTACTCTTATGTGAAGGCTAAGATTGATTTGCTTCACTACTCT
66 AGGCTAACATTGATTTGCTTCACTACTCTTATGTCAAGGCTAAGATTGATTTGCTTCACTACTCT
* *
567329 TCTGTGAAGGCTAAGATTGATTTGTTTCACTACTCTTCTGTGAAGGCTAA
131 TCTGTGAAGGCTAAAATTGATTTGCTTCACTACTCTTCTGTGAAGGCTAA
567379 GATTTGAAGT
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 168 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (218 bp):
GATTGATTTGCTTCACTAATCTTCTGTGAAGGCTAAGATTGACTTGCTTCACTACTATTCTGTGA
AGGCTAACATTGATTTGCTTCACTACTCTTATGTCAAGGCTAAGATTGATTTGCTTCACTACTCT
TCTGTGAAGGCTAAAATTGATTTGCTTCACTACTCTTCTGTGAAGGCTAAAATTGATTTGCTTCA
CTACTCTTCTATGAAGGCTTAAG
Found at i:567513 original size:89 final size:89
Alignment explanation
Indices: 567387--567693 Score: 398
Period size: 89 Copynumber: 3.4 Consensus size: 89
567377 AAGATTTGAA
* *
567387 GTTGATTTGATTCGCTGCTTTGACAGGAAGACCAAATCTGGGATGAGAAGAATATGTTCCACTAC
1 GTTGATTTGATTTGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATATGTTCCACTAC
* * * * *
567452 TATTCCGTGGAGCTCAGACTCAAG
66 TCTTACGTGAAGATCAGACTCGAG
* * * * *
567476 GTTGCTTTAATTTGCTGCTTTGCCAAGAAGACCAAATCTGGGATGAGAAGAACATGTTCCATTAC
1 GTTGATTTGATTTGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATATGTTCCACTAC
*
567541 TCTTATGTGAAGATCAGACTCGAG
66 TCTTACGTGAAGATCAGACTCGAG
* * * **
567565 GTTGATTTGATTCGCTGCTTTTCCAGGAAGACCAAATCTGGGATGAGAAGAATCTAATCCACTAC
1 GTTGATTTGATTTGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATATGTTCCACTAC
* * *
567630 TCTTTCGTGAAGATCATACTTGAG
66 TCTTACGTGAAGATCAGACTCGAG
* * *
567654 GTTGATTTGATTTGCTGTTTTGCTAGGAAGAACAAATCTG
1 GTTGATTTGATTTGCTGCTTTGCCAGGAAGACCAAATCTG
567694 ACCTAATTTG
Statistics
Matches: 186, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 186 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (89 bp):
GTTGATTTGATTTGCTGCTTTGCCAGGAAGACCAAATCTGGGATGAGAAGAATATGTTCCACTAC
TCTTACGTGAAGATCAGACTCGAG
Found at i:567856 original size:62 final size:62
Alignment explanation
Indices: 567747--568145 Score: 503
Period size: 62 Copynumber: 6.4 Consensus size: 62
567737 GATTGATTTA
* * * *
567747 TCTTCACGAGGAAGTCAAGGATTGACTCTACCGTGGAATCA-AGAATAACAAAGGTTTACTTC
1 TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGA-AATAACAAAGGTTGACTTC
* ** *
567809 TCTTTACGAGGAAGTCAATTATTGACTCTACTGGGGAGTCATAAATAACAAAGGTTGACTTC
1 TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAGGTTGACTTC
* * * *
567871 TCTTCACGAGAAAGTCAAGGGTTGACTCTACTGGGGAGTCAAAAATAACAAAGGTTGATTTC
1 TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAGGTTGACTTC
* ** *
567933 TCTTCATGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAAATTGACTTT
1 TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAGGTTGACTTC
* * * * *
567995 TCTTTACGAGGAAGTCAATGATTGACTCGACTGGGGAGTCAGGAATAACAAAAGTTGACTTC
1 TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAGGTTGACTTC
* * * * * *
568057 TCTTCACGAGGAAGTTAAGGATTGACTCTACTAGGGAGTCAGAGACAATAAAGATTGACTTC
1 TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAGGTTGACTTC
* * * *
568119 TCCTCATGAGAAAGTCAAAGATTGACT
1 TCTTCACGAGGAAGTCAAGGATTGACT
568146 ATAGGAAACA
Statistics
Matches: 291, Mismatches: 45, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
62 290 1.00
63 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (62 bp):
TCTTCACGAGGAAGTCAAGGATTGACTCTACTGGGGAGTCAGAAATAACAAAGGTTGACTTC
Found at i:568054 original size:186 final size:186
Alignment explanation
Indices: 567734--568145 Score: 565
Period size: 186 Copynumber: 2.2 Consensus size: 186
567724 ATCAAATCAA
* * *
567734 AAAGATTGATTTATCTTCACGAGGAAGTCAAGGATTGACTCTACCGTGGAATCAAGAATAACAAA
1 AAAGATTGATTTCTCTTCATGAGGAAGTCAAGGATTGACTCTACCGGGGAATCAAGAATAACAAA
** * * * * *
567799 GGTTTACTTCTCTTTACGAGGAAGTCAATTATTGACTCTACTGGGGAGTCATAAATAACAAAGGT
66 AATTGACTTCTCTTTACGAGGAAGTCAATGATTGACTCGACTGGGGAGTCAGAAATAACAAAAGT
* * *
567864 TGACTTCTCTTCACGAGAAAGTCAAGGGTTGACTCTACTGGGGAGTCAAAAATAAC
131 TGACTTCTCTTCACGAGAAAGTCAAGGATTGACTCTACTAGGGAGTCAAAAACAAC
* * *
567920 AAAGGTTGATTTCTCTTCATGAGGAAGTCAAGGATTGACTCTACTGGGGAGTC-AGAAATAACAA
1 AAAGATTGATTTCTCTTCATGAGGAAGTCAAGGATTGACTCTACCGGGGAATCAAG-AATAACAA
* *
567984 AAATTGACTTTTCTTTACGAGGAAGTCAATGATTGACTCGACTGGGGAGTCAGGAATAACAAAAG
65 AAATTGACTTCTCTTTACGAGGAAGTCAATGATTGACTCGACTGGGGAGTCAGAAATAACAAAAG
* * * * *
568049 TTGACTTCTCTTCACGAGGAAGTTAAGGATTGACTCTACTAGGGAGTCAGAGACAAT
130 TTGACTTCTCTTCACGAGAAAGTCAAGGATTGACTCTACTAGGGAGTCAAAAACAAC
* * * *
568106 AAAGATTGACTTCTCCTCATGAGAAAGTCAAAGATTGACT
1 AAAGATTGATTTCTCTTCATGAGGAAGTCAAGGATTGACT
568146 ATAGGAAACA
Statistics
Matches: 197, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
185 2 0.01
186 195 0.99
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (186 bp):
AAAGATTGATTTCTCTTCATGAGGAAGTCAAGGATTGACTCTACCGGGGAATCAAGAATAACAAA
AATTGACTTCTCTTTACGAGGAAGTCAATGATTGACTCGACTGGGGAGTCAGAAATAACAAAAGT
TGACTTCTCTTCACGAGAAAGTCAAGGATTGACTCTACTAGGGAGTCAAAAACAAC
Found at i:576836 original size:17 final size:17
Alignment explanation
Indices: 576814--576859 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
576804 TTATTGGGTT
576814 GTCTGGGCTTGGACCGG
1 GTCTGGGCTTGGACCGG
* *
576831 GTCTGGGCCTGGATCGG
1 GTCTGGGCTTGGACCGG
* *
576848 GTTTGAGCTTGG
1 GTCTGGGCTTGG
576860 GTATTTGGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.07, C:0.20, G:0.46, T:0.28
Consensus pattern (17 bp):
GTCTGGGCTTGGACCGG
Found at i:578472 original size:23 final size:23
Alignment explanation
Indices: 578442--578612 Score: 143
Period size: 23 Copynumber: 7.6 Consensus size: 23
578432 AGGACGAATA
578442 GAAGAAGAAGAAATGGGTTTATG
1 GAAGAAGAAGAAATGGGTTTATG
*** *
578465 GAAGAAGAAGAAACCAGTTTATA
1 GAAGAAGAAGAAATGGGTTTATG
*
578488 GAAGAAAAAGAAAT---TATTATG
1 GAAGAAGAAGAAATGGGT-TTATG
*
578509 GAAGAAGAAGAAAAGGGTTTATG
1 GAAGAAGAAGAAATGGGTTTATG
* ***
578532 GAAAAAGAAGAAACATGTTTAT-
1 GAAGAAGAAGAAATGGGTTTATG
* * * *
578554 GTATAAGAAAAAATAGGTTTATG
1 GAAGAAGAAGAAATGGGTTTATG
* * * *
578577 GAAAAAGGAGCAATGAGTTTATG
1 GAAGAAGAAGAAATGGGTTTATG
578600 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
578613 ATATTTATGG
Statistics
Matches: 115, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.01
21 16 0.14
22 17 0.15
23 80 0.70
24 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.26, T:0.20
Consensus pattern (23 bp):
GAAGAAGAAGAAATGGGTTTATG
Found at i:578597 original size:45 final size:47
Alignment explanation
Indices: 578446--578640 Score: 176
Period size: 45 Copynumber: 4.3 Consensus size: 47
578436 CGAATAGAAG
* * ** *
578446 AAGAAGAAATGGGTTTATGGAAGAAGAAGAAACCA-GTTTATAGAAGA
1 AAGAAGCAATGAGTTTATGGAAGAAGAAGAAAATAGGTTTATGGAA-A
* * *
578493 AA-AAGAAATTA--TTATGGAAGAAGAAGAAAA-GGGTTTATGGAAA
1 AAGAAGCAATGAGTTTATGGAAGAAGAAGAAAATAGGTTTATGGAAA
** * *
578536 AAGAAG-AAACATGTTTAT-GTATAAGAA-AAAATAGGTTTATGGAAA
1 AAGAAGCAATGA-GTTTATGGAAGAAGAAGAAAATAGGTTTATGGAAA
* *
578581 AAGGAGCAATGAGTTTATGGAAGAAGAAGAAAATA--TTTATGGAAT
1 AAGAAGCAATGAGTTTATGGAAGAAGAAGAAAATAGGTTTATGGAAA
578626 AAGAAGCAATGAGTT
1 AAGAAGCAATGAGTT
578641 ATTAATTACA
Statistics
Matches: 122, Mismatches: 17, Indels: 20
0.77 0.11 0.13
Matches are distributed among these distances:
43 6 0.05
44 34 0.28
45 53 0.43
46 21 0.17
47 8 0.07
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.23
Consensus pattern (47 bp):
AAGAAGCAATGAGTTTATGGAAGAAGAAGAAAATAGGTTTATGGAAA
Done.