Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007762.1 Hibiscus syriacus cultivar Beakdansim tig00110032_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: 314764
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:8680 original size:45 final size:44
Alignment explanation
Indices: 8614--8919 Score: 328
Period size: 45 Copynumber: 6.8 Consensus size: 44
8604 TTATAACATT
* *
8614 TTTTCTGTTGATAGTGCACCCATATGCATTTCAACTATAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTA-AGCATAC
* * * *
8659 TTTTCTGTTGATAATGTACCCATATACATTTCAACCAAGTATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAGCATAC
* * * *
8703 TTTTCTGTTGATAATGTACCCATATACATTTCAACTTTAGCATGC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAAC-TAAGCATAC
* * * *
8748 TCTTCTGTTGATAATACACCCATATGTATTTCAACTCAAACATAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACT-AAGCATAC
8793 TTTTC-GATTGATAATGCACCCATATGCATTTCAACTCAAGCATAC
1 TTTTCTG-TTGATAATGCACCCATATGCATTTCAACT-AAGCATAC
* * * * ** *
8838 TTTTCTGTGGATAATGCACCCATATGCATTCCCACGAAATTATGC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAAC-TAAGCATAC
* *
8883 TTTT-TCGTTGATAATGTACCCATATACATTTCAACTA
1 TTTTCT-GTTGATAATGCACCCATATGCATTTCAACTA
8920 GGGCATCCTT
Statistics
Matches: 222, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
44 46 0.21
45 175 0.79
46 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (44 bp):
TTTTCTGTTGATAATGCACCCATATGCATTTCAACTAAGCATAC
Found at i:8823 original size:134 final size:135
Alignment explanation
Indices: 8616--8867 Score: 366
Period size: 134 Copynumber: 1.9 Consensus size: 135
8606 ATAACATTTT
* * ** *
8616 TTCTGTTGATAGTGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTACCCA
1 TTCTGTTGATAATACACCCATATGCATTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
* * *
8681 TATACATTTCAAC-CAAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTTTAGCA
66 TATACATTTCAACTCAAGCATACTTTTCTGTGGATAATGCACCCATATACATTTCAACTTTAGCA
8745 TGCTC
131 TGCTC
*
8750 TTCTGTTGATAATACACCCATATGTATTTCAACTCA-AACATACTTTTC-GATTGATAATGCACC
1 TTCTGTTGATAATACACCCATATGCATTTCAACT-ATAACATACTTTTCTG-TTGATAATGCACC
* *
8813 CATATGCATTTCAACTCAAGCATACTTTTCTGTGGATAATGCACCCATATGCATT
64 CATATACATTTCAACTCAAGCATACTTTTCTGTGGATAATGCACCCATATACATT
8868 CCCACGAAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
133 1 0.01
134 67 0.64
135 36 0.35
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (135 bp):
TTCTGTTGATAATACACCCATATGCATTTCAACTATAACATACTTTTCTGTTGATAATGCACCCA
TATACATTTCAACTCAAGCATACTTTTCTGTGGATAATGCACCCATATACATTTCAACTTTAGCA
TGCTC
Found at i:8827 original size:90 final size:88
Alignment explanation
Indices: 8614--8919 Score: 362
Period size: 90 Copynumber: 3.4 Consensus size: 88
8604 TTATAACATT
* * * *
8614 TTTTCTGTTGATAGTGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTACC
1 TTTTC-GTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACC
* *
8679 CATATACATTTCAACCAAGTATAC
65 CATATGCATTTCAACCAAATATAC
* * * * *
8703 TTTTCTGTTGATAATGTACCCATATACATTTCAACTTTAGCATGCTCTTCTGTTGATAATACACC
1 TTTTC-GTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACC
* *
8768 CATATGTATTTCAACTCAAACATAC
65 CATATGCATTTCAAC-CAAATATAC
* *
8793 TTTTCGATTGATAATGCACCCATATGCATTTCAACTCA-AGCATACTTTTCTGTGGATAATGCAC
1 TTTTCG-TTGATAATGCACCCATATACATTTCAACT-ATAGCATACTTTTCTGTTGATAATGCAC
* * * *
8857 CCATATGCATTCCCACGAAATTATGC
64 CCATATGCATTTCAACCAAA-TATAC
*
8883 TTTTTCGTTGATAATGTACCCATATACATTTCAACTA
1 -TTTTCGTTGATAATGCACCCATATACATTTCAACTA
8920 GGGCATCCTT
Statistics
Matches: 184, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
89 74 0.40
90 104 0.57
91 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (88 bp):
TTTTCGTTGATAATGCACCCATATACATTTCAACTATAGCATACTTTTCTGTTGATAATGCACCC
ATATGCATTTCAACCAAATATAC
Found at i:8944 original size:90 final size:91
Alignment explanation
Indices: 8793--8957 Score: 210
Period size: 90 Copynumber: 1.8 Consensus size: 91
8783 TCAAACATAC
* * *** *
8793 TTTTCGATTGATAATGCACCCATATGCATTTCAACTCAAGCATACTTTTCTGTGGATAATGCACC
1 TTTTCGATTGATAATGCACCCATATACATTTCAACTCAAGCATACCTTTCTGCAAACAATGCACC
8858 CATATGCATTCCCACGAAATTATGCT
66 CATATGCATTCCCACGAAATTATGCT
* *
8884 TTTTCG-TTGATAATGTACCCATATACATTTCAACT-AGGGCAT-CCTTTCATGCAAACAATGCA
1 TTTTCGATTGATAATGCACCCATATACATTTCAACTCA-AGCATACCTTTC-TGCAAACAATGCA
*
8946 TCCATATGCATT
64 CCCATATGCATT
8958 AGTATTTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
89 6 0.10
90 51 0.81
91 6 0.10
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (91 bp):
TTTTCGATTGATAATGCACCCATATACATTTCAACTCAAGCATACCTTTCTGCAAACAATGCACC
CATATGCATTCCCACGAAATTATGCT
Found at i:9035 original size:18 final size:17
Alignment explanation
Indices: 9004--9053 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
8994 TATCATTTCA
9004 ATATATTA-AATAAA-C
1 ATATATTACAATAAAGC
9019 ATAGTAATTACAATAAAGC
1 ATA-T-ATTACAATAAAGC
9038 ATATATTAACAATAAA
1 ATATATT-ACAATAAA
9054 ACAAATCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 7 0.23
18 15 0.50
19 4 0.13
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (17 bp):
ATATATTACAATAAAGC
Found at i:15308 original size:45 final size:45
Alignment explanation
Indices: 15258--15610 Score: 341
Period size: 45 Copynumber: 7.8 Consensus size: 45
15248 GCTATAACAT
* *
15258 CTTTTCTATTGATAATGCACCCATATTCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * * * * * *
15303 TTTTTCTGTTGATAATGTACCCATATATATGTCTACCATAATATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * * * * * *
15348 CATTTATGTTGATAATGTACCAATATACATTTCTACCATATTATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * * *
15393 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTTTAGCATG
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* * ** * *
15438 GTCTTCTGTTGATAATGCACCCATATGTATTTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
* *
15483 CTTTTCTGTTGATAATGCACCCATATGA-ATTTCGACTCA-AGCATA
1 CTTTTCTGTTGATAATGCACCCATAT-ACATTTCAACT-ATAGTATA
* * * * * * * *
15528 CTTTTCTGTGGATAATGCACCCATATGCATTCCCACCAAATTATG
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
*
15573 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTA
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTA
15611 GGGCATCATT
Statistics
Matches: 253, Mismatches: 51, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.00
45 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATA
Found at i:15363 original size:135 final size:134
Alignment explanation
Indices: 15213--15609 Score: 347
Period size: 135 Copynumber: 2.9 Consensus size: 134
15203 TTGTAACCTT
* * *
15213 CATTTATGTTTATAATACACCATTATGTACTTTAAGCTATAACAT-CTTTTCTATTGATAATGCA
1 CATTTATGTTGATAATGCACCA-TATGTACTTT-AGCTATAACATACTTTTCTGTTGATAATGCA
* ** *
15277 CCCATATTCATTTCAACTATAGTATATTTTTCTGTTGATAATGTACCCATATATATGTCTAC-CA
64 CCCATATACATTTCAACTATAGTATGCTTTTCTGTTGATAATGTACCCATATATATGTCAACTC-
*
15341 TAATATA
128 TAACATA
* * * ** *
15348 CATTTATGTTGATAATGTACCA-ATATACATTTCTA-CCATATTATACTTTTCTGTTGATAATGT
1 CATTTATGTTGATAATGCACCATATGTAC--TT-TAGCTATAACATACTTTTCTGTTGATAATGC
* * * * * * *
15411 ACCCATATACATTTCAACTTTAGCATGGTCTTCTGTTGATAATGCACCCATATGTATTTCAACTC
63 ACCCATATACATTTCAACTATAGTATGCTTTTCTGTTGATAATGTACCCATATATATGTCAACTC
*
15476 TAGCATA
128 TAACATA
* * * * * *
15483 CTTTTCTGTTGATAATGCACCCATATG-AATTTCGACTCA-AGCATACTTTTCTGTGGATAATGC
1 CATTTATGTTGATAATGCA-CCATATGTACTTTAG-CT-ATAACATACTTTTCTGTTGATAATGC
* * * * * * * *
15546 ACCCATATGCATTCCCACCAAATTATGCTTTTCTGTTGATAATGTACCCATATACATTTCAACT
63 ACCCATATACATTTCAACTATAGTATGCTTTTCTGTTGATAATGTACCCATATATATGTCAACT
15610 AGGGCATCAT
Statistics
Matches: 207, Mismatches: 45, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
133 6 0.03
134 8 0.04
135 184 0.89
136 7 0.03
137 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (134 bp):
CATTTATGTTGATAATGCACCATATGTACTTTAGCTATAACATACTTTTCTGTTGATAATGCACC
CATATACATTTCAACTATAGTATGCTTTTCTGTTGATAATGTACCCATATATATGTCAACTCTAA
CATA
Found at i:21277 original size:15 final size:15
Alignment explanation
Indices: 21257--21292 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21247 ACATTACTAA
21257 AATATATCTATAGTT
1 AATATATCTATAGTT
* *
21272 AATATATGTATATTT
1 AATATATCTATAGTT
21287 AATATA
1 AATATA
21293 AATATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (15 bp):
AATATATCTATAGTT
Found at i:42289 original size:61 final size:61
Alignment explanation
Indices: 42218--42342 Score: 232
Period size: 61 Copynumber: 2.0 Consensus size: 61
42208 GATGATGTTC
* *
42218 AATGATGATAGTTTTTATGGCTATTGTGAATTAAATGTACATGACTGATTGAGAATGATAA
1 AATGATGATAGTTTTTATGGATATTGTGAATTAAATGTACATGACTAATTGAGAATGATAA
42279 AATGATGATAGTTTTTATGGATATTGTGAATTAAATGTACATGACTAATTGAGAATGATAA
1 AATGATGATAGTTTTTATGGATATTGTGAATTAAATGTACATGACTAATTGAGAATGATAA
42340 AAT
1 AAT
42343 TAACTCTAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (61 bp):
AATGATGATAGTTTTTATGGATATTGTGAATTAAATGTACATGACTAATTGAGAATGATAA
Found at i:42660 original size:11 final size:11
Alignment explanation
Indices: 42646--42671 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42636 CTAATTCCTG
42646 ATAAAATAAGA
1 ATAAAATAAGA
42657 ATAAAATAAGA
1 ATAAAATAAGA
42668 ATAA
1 ATAA
42672 TGTTTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
ATAAAATAAGA
Found at i:44354 original size:437 final size:436
Alignment explanation
Indices: 43530--44384 Score: 1211
Period size: 437 Copynumber: 2.0 Consensus size: 436
43520 TACAATATGT
*
43530 TTTTAAAAATGGATTATATGTTATATATAGTGAAGATATTAAGGATGTGTATCGTCGTACATAAT
1 TTTTAAAAATGGATTATATGTTATATATAGTGAAGATATTAAGGATGTGTATCGTCGAACATAAT
* *
43595 CAACGACGAAAAGGTCTATATACTAGTCATTTTAGTTTTAAAATTTTCCCCTTAATTTTTATTAT
66 CAACGAAGAAAAGGTCTATATACTAGTCATTTTAGTTTTAAAATTTTCCCCTTAATTTTTATTAA
* * *
43660 CATAATTGATTTACATTAATTGTGTTTGCCATGATTCAAACCCAGGTCTATTGTTTGGAAGGCAA
131 CATAATTAATTTACATTAATTGTGTTTGCCATGAGTCAAACCCAGGTCTATTGTTTGGAAGACAA
* * *
43725 TTATCCTAATCATTGGACTACAAATGCTTCTACATTATCAGTTTTGGTTGATATATTGATGCGTA
196 TTATCCTAATCATTGGACTACAAACGCCTCTACATTATCAGTTTTGGTTGATATACTGATGCGTA
* * *** *
43790 TTAATTTCAATAACAAAGACATGCTAATAGTTCCATTAAGGGTGTAAAGCAAGCAGCAAATTGAA
261 TTAATTTCAATAACAAAGACATACTAATAGTTCCATTAAAGACATAAAACAAGCAGCAAATTGAA
* * *
43855 GGTATCAATCTCTAACAAAATATGGGTTTACAAGTCTAACAACTCCCTTAGTGTTGATCATGGTT
326 GGTATCAATCTCTAACAAAAAATGGGTATACAAGTCTAACAACTCCCTTAGTGCTGATCATGGTT
*
43920 AGCAAACTTGGCAAGTTTTTTTATATATGTTGGTTTGAAAATATAA
391 AACAAACTTGGCAAGTTTTTTTATATATGTTGGTTTGAAAATATAA
* * *
43966 TTTTCAAAATTGATTATATGTTATATATAGTGAAGATATTAAGGATTTGTATCGTCGAACATAAT
1 TTTTAAAAATGGATTATATGTTATATATAGTGAAGATATTAAGGATGTGTATCGTCGAACATAAT
* * * **
44031 CAATGAAGAAAATGTCTATATACTATTTGTTTTAG-TTTACAAA-TTTCCCCTTAATTTTTTTAT
66 CAACGAAGAAAAGGTCTATATACTAGTCATTTTAGTTTTA-AAATTTTCCCCTTAA--TTTTTAT
* *
44094 TAACGTAATTAATTTACATTAATTGTGTTTGCCGA-GAGTCTAACCC-GAGTCTATTGTTTGGAA
128 TAACATAATTAATTTACATTAATTGTGTTTGCC-ATGAGTCAAACCCAG-GTCTATTGTTTGGAA
** * *
44157 GACAATTATCCTAATTGTTGGACTACAAACGCCTCTACATTATCTA-TTTTGGTTGGTCTACTGA
191 GACAATTATCCTAATCATTGGACTACAAACGCCTCTACATTATC-AGTTTTGGTTGATATACTGA
* * * *
44221 TG-GTTATTAATTTCAATAACATAGATATACTAATAGTTTCGTTAAAGACATAAAACACA-CAGC
255 TGCG-TATTAATTTCAATAACAAAGACATACTAATAGTTCCATTAAAGACATAAAACA-AGCAGC
* * * **
44284 AAATTGAAGGTATCAATGTCTAACAAAAAATGGGTATATAGGTCTAACCGCTCCCTTAGTGCTGA
318 AAATTGAAGGTATCAATCTCTAACAAAAAATGGGTATACAAGTCTAACAACTCCCTTAGTGCTGA
44349 TCATGGTTAACAAACTTGGCAAGTTTTTTTATATAT
383 TCATGGTTAACAAACTTGGCAAGTTTTTTTATATAT
44385 ATGATAGTTT
Statistics
Matches: 369, Mismatches: 42, Indels: 15
0.87 0.10 0.04
Matches are distributed among these distances:
435 15 0.04
436 95 0.26
437 256 0.69
438 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (436 bp):
TTTTAAAAATGGATTATATGTTATATATAGTGAAGATATTAAGGATGTGTATCGTCGAACATAAT
CAACGAAGAAAAGGTCTATATACTAGTCATTTTAGTTTTAAAATTTTCCCCTTAATTTTTATTAA
CATAATTAATTTACATTAATTGTGTTTGCCATGAGTCAAACCCAGGTCTATTGTTTGGAAGACAA
TTATCCTAATCATTGGACTACAAACGCCTCTACATTATCAGTTTTGGTTGATATACTGATGCGTA
TTAATTTCAATAACAAAGACATACTAATAGTTCCATTAAAGACATAAAACAAGCAGCAAATTGAA
GGTATCAATCTCTAACAAAAAATGGGTATACAAGTCTAACAACTCCCTTAGTGCTGATCATGGTT
AACAAACTTGGCAAGTTTTTTTATATATGTTGGTTTGAAAATATAA
Found at i:44527 original size:26 final size:26
Alignment explanation
Indices: 44472--44533 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
44462 CACATTCCGT
* *
44472 AACATACCACTAAAACAATGTACAGC
1 AACATACCACTAAAACAATATACAGA
* *
44498 AACATACCACTAAAACAATATGCCGA
1 AACATACCACTAAAACAATATACAGA
*
44524 AACACACCAC
1 AACATACCAC
44534 AAGAAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.13
Consensus pattern (26 bp):
AACATACCACTAAAACAATATACAGA
Found at i:44605 original size:17 final size:18
Alignment explanation
Indices: 44577--44610 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
44567 AAGTATAAGG
44577 ATTTATTTAAAATTAATC
1 ATTTATTTAAAATTAATC
44595 ATTTA-TTAAAATTAAT
1 ATTTATTTAAAATTAAT
44611 TATAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTATTTAAAATTAATC
Found at i:45418 original size:10 final size:11
Alignment explanation
Indices: 45402--45431 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
45392 TAAACCTAAA
45402 TTTTTGTTTTG
1 TTTTTGTTTTG
45413 -TTTTGTTTTG
1 TTTTTGTTTTG
45423 TTTTTGTTT
1 TTTTTGTTT
45432 CATACTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:46825 original size:443 final size:451
Alignment explanation
Indices: 46009--46905 Score: 1111
Period size: 443 Copynumber: 2.0 Consensus size: 451
45999 CAAAAAAATT
* *
46009 ATATATGATAGTTTCAAAACCATTTTGAAAATATATTTTTACAAAATGGATTATATGTTATATAT
1 ATATATGATAGTTTCAAAACCATTTTGAAAATATATTTTTACAAAATAGATTATATGTTATATAC
*
46074 AGTGAAGATATTAAGGATGTGTATAGTCGAAAATAATCAACAACGAAAAGGTATATATATCCCTA
66 AGTGAAGATATTAAGGATGTGTATAGTCGAAAATAATCAACAACAAAAAGGTATATATAT-CCTA
* * * *
46139 TTTTTTTTAGTTTCCAAACTTTTCCCTTTATTTTTCATTATCATAATTCTTTTACATTTATTTTG
130 ---TTATTAGTTTCCAAACTTTTCCCTTAATTTTTCATTATCATAATTCATTTACATTTATATTG
* * * * * **
46204 CGTTTTCCAGGAGTCGAACCCTGGTCTCTTGATTGGAAGGCAATTATCCTAATCGTTGGACTACA
192 CGTTTGCCAGGAATCAAACCCTGGTCTATTGATTAGAAGAAAATTATCCTAATCGTTGGACTACA
*
46269 AATGCCTATACATTATAAATTTTGGTTGATCTACTGATGCGTATTAATTGCAATAACAAAGACAT
257 AACGCCTATACATTATAAATTTTGGTTGATCTACTGATGCGTATTAATTGCAATAACAAAGACAT
* * *
46334 GCTAATAGTTCCATTAAGAACGTAAAACAAGCAGCAAATTGAAGGTATCAATATCTAACAAAAGA
322 GCTAATAGTTCCATTAAGAACGCAAAACAAGAAGCAAATTAAAGGTATCAATATCTAACAAAAGA
** *
46399 TGGTTTTACAAGTCCAA-CACTC-CTTTAATGCTGATCATGGTTAGCAAACTTGGCAAGTTTTTT
387 TGGGCTAACAAGTCCAACCACTCTC-TTAATGCTGATCATGGTTAGCAAACTTGGCAAGTTTTTT
46462 A
451 A
* * *
46463 ATATATGATAGTTTTAAAATCATTTTGATAATATATTTTTA-AAAATTAGATTATATGTTATATA
1 ATATATGATAGTTTCAAAACCATTTTGAAAATATATTTTTACAAAA-TAGATTATATGTTATATA
* * *** * *
46527 CAGTGAAGATATTAAGGTTGTGTATGGTCGTCCATAATCAACGACAAAAAGGTA-CTAT-T-C-A
65 CAGTGAAGATATTAAGGATGTGTATAGTCGAAAATAATCAACAACAAAAAGGTATATATATCCTA
* * * ** * *
46588 -TATTAGTTTTCAAA-TTTTCCTCTTAATTTTTTATTTTTGTTATTCATTTACA-TTA-ATTGTG
130 TTATTAGTTTCCAAACTTTTCC-CTTAATTTTTCATTATCATAATTCATTTACATTTATATTGCG
** * *
46649 TTTGCTGGGAATCAAACCC-GAGTCTATTGCTTAGTAGAAAATTATCCTAA-CTGTTGGACTACA
194 TTTGCCAGGAATCAAACCCTG-GTCTATTGATTAGAAGAAAATTATCCTAATC-GTTGGACTACA
* * * *
46712 AACGCCTCTACATTATCAGA-TTTGGTTGATCTACTGATGTGTATTAATTTCAATAACAAAGACA
257 AACGCCTATACATTAT-AAATTTTGGTTGATCTACTGATGCGTATTAATTGCAATAACAAAGACA
* * *
46776 TGCTAATAGTTCCATTAAGGACGCAAAGCAAGAAGCAAATTAAAGGTATCAATGTCTAACAAAAG
321 TGCTAATAGTTCCATTAAGAACGCAAAACAAGAAGCAAATTAAAGGTATCAATATCTAACAAAAG
* ** * * *
46841 CTGGGCTAACAAGTTTAACCACTCTCTTAGTGTTGATCATGGTTAGCAAAGTTGGCAAGTTTTTT
386 ATGGGCTAACAAGTCCAACCACTCTCTTAATGCTGATCATGGTTAGCAAACTTGGCAAGTTTTTT
46906 TGTACATATG
Statistics
Matches: 381, Mismatches: 55, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
442 2 0.01
443 179 0.47
444 52 0.14
445 37 0.10
449 1 0.00
450 1 0.00
452 1 0.00
453 7 0.02
454 101 0.27
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (451 bp):
ATATATGATAGTTTCAAAACCATTTTGAAAATATATTTTTACAAAATAGATTATATGTTATATAC
AGTGAAGATATTAAGGATGTGTATAGTCGAAAATAATCAACAACAAAAAGGTATATATATCCTAT
TATTAGTTTCCAAACTTTTCCCTTAATTTTTCATTATCATAATTCATTTACATTTATATTGCGTT
TGCCAGGAATCAAACCCTGGTCTATTGATTAGAAGAAAATTATCCTAATCGTTGGACTACAAACG
CCTATACATTATAAATTTTGGTTGATCTACTGATGCGTATTAATTGCAATAACAAAGACATGCTA
ATAGTTCCATTAAGAACGCAAAACAAGAAGCAAATTAAAGGTATCAATATCTAACAAAAGATGGG
CTAACAAGTCCAACCACTCTCTTAATGCTGATCATGGTTAGCAAACTTGGCAAGTTTTTTA
Found at i:51874 original size:32 final size:33
Alignment explanation
Indices: 51833--51899 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
51823 TTGATAACAT
*
51833 TTCTATCCAT-TTCC-TTTCTTATCATTTCCTTTC
1 TTCTATCCATATTCCATTT-TAATCATTT-CTTTC
51866 TTCT-TCCATATTCCATTTTAATCATTTCTTTC
1 TTCTATCCATATTCCATTTTAATCATTTCTTTC
51898 TT
1 TT
51900 TTAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
32 12 0.39
33 16 0.52
34 3 0.10
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (33 bp):
TTCTATCCATATTCCATTTTAATCATTTCTTTC
Found at i:51879 original size:18 final size:17
Alignment explanation
Indices: 51833--51879 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
51823 TTGATAACAT
51833 TTCTATCCATTTCCTTTC
1 TTCT-TCCATTTCCTTTC
*
51851 TT-AT-CATTTCCTTTC
1 TTCTTCCATTTCCTTTC
51866 TTCTTCCATATTCC
1 TTCTTCCAT-TTCC
51880 ATTTTAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 3 0.12
18 6 0.25
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (17 bp):
TTCTTCCATTTCCTTTC
Found at i:55326 original size:35 final size:35
Alignment explanation
Indices: 55280--55407 Score: 150
Period size: 35 Copynumber: 3.6 Consensus size: 35
55270 CTTAGATATG
* *
55280 TAAGGAATTACCAACTCGATCGGTCTGAACCTATA
1 TAAGGAATTACCAATTTGATCGGTCTGAACCTATA
* * *
55315 TAAGGAATTACCAATTTGAGCGAGT-TGAACCTGTCG
1 TAAGGAATTACCAATTTGATCG-GTCTGAACCTAT-A
* * *
55351 TAAGGAATTACCAGTTTGATCTGTCTTAACCTATA
1 TAAGGAATTACCAATTTGATCGGTCTGAACCTATA
*
55386 TAAGGAATTACCAGTTTGATCG
1 TAAGGAATTACCAATTTGATCG
55408 AGTTGAATCT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
35 50 0.64
36 28 0.36
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (35 bp):
TAAGGAATTACCAATTTGATCGGTCTGAACCTATA
Found at i:55395 original size:71 final size:71
Alignment explanation
Indices: 55279--55414 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 71
55269 CCTTAGATAT
55279 GTAAGGAATTACCAACTCGATCGGTCTGAACCTATATAAGGAATTACCAATTTGAGCGAGTTGAA
1 GTAAGGAATTACCAACTCGATCGGTCTGAACCTATATAAGGAATTACCAATTTGAGCGAGTTGAA
55344 CCTGTC
66 CCTGTC
** * * * * *
55350 GTAAGGAATTACCAGTTTGATCTGTCTTAACCTATATAAGGAATTACCAGTTTGATCGAGTTGAA
1 GTAAGGAATTACCAACTCGATCGGTCTGAACCTATATAAGGAATTACCAATTTGAGCGAGTTGAA
55415 TCTGCAGAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (71 bp):
GTAAGGAATTACCAACTCGATCGGTCTGAACCTATATAAGGAATTACCAATTTGAGCGAGTTGAA
CCTGTC
Found at i:56523 original size:28 final size:27
Alignment explanation
Indices: 56492--56553 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
56482 ATTCTTGTCC
*
56492 TTTTTACAACATGAGGGTATTTTCATAA
1 TTTTTAC-ACATAAGGGTATTTTCATAA
* *
56520 TTTTAACCCATAAGGGTATTTTCATAA
1 TTTTTACACATAAGGGTATTTTCATAA
56547 TTTTTAC
1 TTTTTAC
56554 CTAACAGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (27 bp):
TTTTTACACATAAGGGTATTTTCATAA
Found at i:58046 original size:31 final size:30
Alignment explanation
Indices: 58011--58107 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 30
58001 TAGGAAAGAA
58011 AGTGCTTTGGGGGTTTATTTAGCTTTTGTGT
1 AGTGCTTTGGGGGTTTATTT-GCTTTTGTGT
* *
58042 AGTGCTTTGCGGGTTTATTTGGTTTTGGTGT
1 AGTGCTTTGGGGGTTTATTTGCTTTT-GTGT
*
58073 AGTGCTTTGGGGGTTTATTTGGCTTTGGTGT
1 AGTGCTTTGGGGGTTTATTT-GCTTTTGTGT
58104 AGTG
1 AGTG
58108 TATCGACCAC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
30 5 0.08
31 50 0.85
32 4 0.07
ACGTcount: A:0.08, C:0.06, G:0.36, T:0.49
Consensus pattern (30 bp):
AGTGCTTTGGGGGTTTATTTGCTTTTGTGT
Found at i:66247 original size:2 final size:2
Alignment explanation
Indices: 66240--66282 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
66230 AAAGATGAGT
* * *
66240 TA TA TA TA TA TA TA TA TT TA TT TA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66282 T
1 T
66283 GTTTGAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:68358 original size:24 final size:24
Alignment explanation
Indices: 68243--68361 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
68233 AAACATAATT
*
68243 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* *
68267 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* *
68291 CAAGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
68315 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
*
68339 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
68362 TTAAATTGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:70075 original size:17 final size:18
Alignment explanation
Indices: 70053--70089 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
70043 TCTTATGCAC
70053 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
70070 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
70088 AT
1 AT
70090 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:72821 original size:24 final size:24
Alignment explanation
Indices: 72743--72857 Score: 99
Period size: 24 Copynumber: 4.8 Consensus size: 24
72733 AAACATAATT
* * *
72743 CATGTCAATTATTATATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* * * *
72767 CAGGCCTAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAAAATC
*
72791 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
*
72815 CATGTC-AGATATCA-ATTCAGAATC
1 CATGTCAAG-TATCAGA-TCAAAATC
* *
72839 CATGTCAAATATCATATCA
1 CATGTCAAGTATCAGATCA
72858 GAATTCAAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
23 3 0.04
24 68 0.93
25 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAAAATC
Found at i:72828 original size:48 final size:48
Alignment explanation
Indices: 72758--72857 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
72748 CAATTATTAT
*
72758 ATCAAAATCCAGGCCTAGTATCAGA-TCAGAATCCAAGTCAAGTATCAG
1 ATCAAAATCCAGGCCTAGTATCA-ATTCAGAATCCAAGTCAAATATCAG
* * * *
72806 ATCAAAATCCATGTC-AGATATCAATTCAGAATCCATGTCAAATATCAT
1 ATCAAAATCCAGGCCTAG-TATCAATTCAGAATCCAAGTCAAATATCAG
72854 ATCA
1 ATCA
72858 GAATTCAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
47 3 0.07
48 42 0.93
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (48 bp):
ATCAAAATCCAGGCCTAGTATCAATTCAGAATCCAAGTCAAATATCAG
Found at i:72858 original size:24 final size:24
Alignment explanation
Indices: 72776--72861 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
72766 CCAGGCCTAG
* *
72776 TATCAGATCAGAATCCAAGTCAAG
1 TATCAGATCAGAATCCATGTCAAA
* *
72800 TATCAGATCAAAATCCATGTCAGA
1 TATCAGATCAGAATCCATGTCAAA
72824 TATCA-ATTCAGAATCCATGTCAAA
1 TATCAGA-TCAGAATCCATGTCAAA
*
72848 TATCATATCAGAAT
1 TATCAGATCAGAAT
72862 TCAAATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.02
24 52 0.96
25 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (24 bp):
TATCAGATCAGAATCCATGTCAAA
Found at i:73940 original size:17 final size:18
Alignment explanation
Indices: 73918--73954 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
73908 TCTTATGCAC
73918 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
73935 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
73953 AT
1 AT
73955 TTATTAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:74640 original size:17 final size:17
Alignment explanation
Indices: 74618--74658 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
74608 GGTAAATAGT
*
74618 GGTCAACGCCTGTCAAC
1 GGTCAACGCATGTCAAC
*
74635 GGTCAATGCATGTCAAC
1 GGTCAACGCATGTCAAC
74652 GGTCAAC
1 GGTCAAC
74659 AGTCGATCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (17 bp):
GGTCAACGCATGTCAAC
Found at i:76904 original size:24 final size:24
Alignment explanation
Indices: 76857--76974 Score: 157
Period size: 24 Copynumber: 5.0 Consensus size: 24
76847 AAACATAATT
* * *
76857 CATGTCAATTATTATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
* *
76881 CAGGCCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* * *
76905 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
76929 CATGTCAA-TATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
76952 CATGTCAAGTATCATATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
76975 TCAAATATAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
23 21 0.26
24 60 0.74
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:76952 original size:47 final size:48
Alignment explanation
Indices: 76872--76970 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 48
76862 CAATTATTAT
76872 ATCAAAATCCAGGCCAAGTATCATATCAGAATCCAAGTCAAGTATCAG
1 ATCAAAATCCAGGCCAAGTATCATATCAGAATCCAAGTCAAGTATCAG
* * * *
76920 ATCAAAATCCATGTCAA-TATCATATCAGAATCCATGTCAAGTATCAT
1 ATCAAAATCCAGGCCAAGTATCATATCAGAATCCAAGTCAAGTATCAG
76967 ATCA
1 ATCA
76971 GAATTCAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 32 0.68
48 15 0.32
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.25
Consensus pattern (48 bp):
ATCAAAATCCAGGCCAAGTATCATATCAGAATCCAAGTCAAGTATCAG
Found at i:76990 original size:71 final size:72
Alignment explanation
Indices: 76836--76992 Score: 183
Period size: 71 Copynumber: 2.2 Consensus size: 72
76826 AAATAGATAT
* * * * *
76836 ATCAAAAATCAAAACATAATTCATGTCAATTATTATATCAAAATCCAGGCCAAGTATCATATCAG
1 ATCAAAAATCAGATCAAAATCCATGTCAATTATCATATCAAAATCCAGGCCAAGTATCATATCAG
76901 AATCCAA
66 AATCCAA
* ** * * *
76908 GTCAAGTATCAGATCAAAATCCATGTCAA-TATCATATCAGAATCCATGTCAAGTATCATATCAG
1 ATCAAAAATCAGATCAAAATCCATGTCAATTATCATATCAAAATCCAGGCCAAGTATCATATCAG
*
76972 AATTCAA
66 AATCCAA
76979 AT-ATAAAATCAGAT
1 ATCA-AAAATCAGAT
76993 AAATTATTCA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
70 1 0.01
71 46 0.67
72 22 0.32
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (72 bp):
ATCAAAAATCAGATCAAAATCCATGTCAATTATCATATCAAAATCCAGGCCAAGTATCATATCAG
AATCCAA
Found at i:78687 original size:17 final size:18
Alignment explanation
Indices: 78665--78701 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
78655 TCTTATGCAC
78665 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
78682 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
78700 AT
1 AT
78702 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:81506 original size:35 final size:35
Alignment explanation
Indices: 81460--81526 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
81450 CGTCACGTCC
*
81460 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTACA
1 AGTAAGGCCCTGAGCACAAAGCCGAGAAGCCTACA
*
81495 AGTAAGGCCCTGAGCATAAAGCCGAGAAGCCT
1 AGTAAGGCCCTGAGCACAAAGCCGAGAAGCCT
81527 CCAGGTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.27, G:0.28, T:0.10
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGAAGCCTACA
Found at i:81656 original size:24 final size:24
Alignment explanation
Indices: 81609--81723 Score: 133
Period size: 24 Copynumber: 4.8 Consensus size: 24
81599 AAACATAATT
* * *
81609 CATGTCGAGTTTCATATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* *
81633 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAAAATC
*
81657 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCAGATCAAAATC
* *
81681 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCAGATCAAAATC
*
81705 CATGTCAAGTATCAAATCA
1 CATGTCAAGTATCAGATCA
81724 TAATTCAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.03
24 74 0.95
25 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAAAATC
Found at i:81694 original size:48 final size:48
Alignment explanation
Indices: 81624--81723 Score: 148
Period size: 48 Copynumber: 2.1 Consensus size: 48
81614 CGAGTTTCAT
*
81624 ATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTCAAGTATCAG
1 ATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTCAAGTATCAA
* * *
81672 ATCAAAATCCATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAA
1 ATCAAAATCCAGGTCAAG-TATCAGATCAGAATCCAAGTCAAGTATCAA
81720 ATCA
1 ATCA
81724 TAATTCAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
47 2 0.04
48 45 0.96
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (48 bp):
ATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTCAAGTATCAA
Found at i:81743 original size:48 final size:48
Alignment explanation
Indices: 81643--81745 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
81633 CAGGTCAAGT
* * ** *
81643 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCCATGTCAGAT
1 ATCATATCAGAATCCAAGTCAAGTATCAAATCAAAATCCAAATCAGAA
* * *
81691 ATCATATCAGAATCCATGTCAAGTATCAAATCATAATTCAAATC-GAAA
1 ATCATATCAGAATCCAAGTCAAGTATCAAATCAAAATCCAAATCAG-AA
81739 ATCATAT
1 ATCATAT
81746 AAAATATTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (48 bp):
ATCATATCAGAATCCAAGTCAAGTATCAAATCAAAATCCAAATCAGAA
Found at i:82790 original size:26 final size:26
Alignment explanation
Indices: 82726--82781 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
82716 TTCATTTCAG
82726 AGCTCGAGGATATCCACTCATTCCTC
1 AGCTCGAGGATATCCACTCATTCCTC
*
82752 AGCTCGAGGATATCCACTCATTCCTT
1 AGCTCGAGGATATCCACTCATTCCTC
82778 AGCT
1 AGCT
82782 TGGTGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (26 bp):
AGCTCGAGGATATCCACTCATTCCTC
Found at i:86205 original size:15 final size:15
Alignment explanation
Indices: 86185--86221 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
86175 AGTCGAGAAG
86185 CCTCCAAGTATTCTT
1 CCTCCAAGTATTCTT
*
86200 CCTCCAGGTATTCTT
1 CCTCCAAGTATTCTT
86215 CCTCCAA
1 CCTCCAA
86222 CAATACCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.38, G:0.08, T:0.35
Consensus pattern (15 bp):
CCTCCAAGTATTCTT
Found at i:86298 original size:24 final size:24
Alignment explanation
Indices: 86285--86399 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
86275 AAACATAATT
86285 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAAAATC
* * *
86309 CAGGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAAAATC
* *
86333 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCATATCAAAATC
*
86357 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAAAATC
*
86381 CATGTAAAGTATCATATCA
1 CATGTCAAGTATCATATCA
86400 TAATTCAAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.03
24 76 0.95
25 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAAAATC
Found at i:86419 original size:72 final size:71
Alignment explanation
Indices: 86285--86426 Score: 162
Period size: 72 Copynumber: 2.0 Consensus size: 71
86275 AAACATAATT
* * *
86285 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCAGGTAAAGTATCAGATCAGAATCAAAGTCAAGAATCAGAT
86350 CAAAATC
66 -AAAATC
* * * * * *
86357 CATGTC-AGATATCATATCAGAATCCATGTAAAGTATCATATCATAATTCAAATTGAA-AATCAG
1 CATGTCAAG-TATCATATCAAAATCCAGGTAAAGTATCAGATCAGAA-TCAAAGTCAAGAATCAG
86420 ATAAAAT
64 ATAAAAT
86427 ATTCATGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
71 7 0.12
72 45 0.76
73 7 0.12
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (71 bp):
CATGTCAAGTATCATATCAAAATCCAGGTAAAGTATCAGATCAGAATCAAAGTCAAGAATCAGAT
AAAATC
Found at i:90817 original size:35 final size:35
Alignment explanation
Indices: 90778--90844 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
90768 TTTAGTAAAA
* * * *
90778 CCCTGAGCACACAGTCGAGGAGCCTGCAAGTAAGG
1 CCCTGAGCACAAAGCCGAGAAGCCTCCAAGTAAGG
90813 CCCTGAGCACAAAGCCGAGAAGCCTCCAAGTA
1 CCCTGAGCACAAAGCCGAGAAGCCTCCAAGTA
90845 TTCTTCCTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.10
Consensus pattern (35 bp):
CCCTGAGCACAAAGCCGAGAAGCCTCCAAGTAAGG
Found at i:90855 original size:15 final size:15
Alignment explanation
Indices: 90835--90871 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
90825 AGCCGAGAAG
90835 CCTCCAAGTATTCTT
1 CCTCCAAGTATTCTT
*
90850 CCTCCAGGTATTCTT
1 CCTCCAAGTATTCTT
90865 CCTCCAA
1 CCTCCAA
90872 CAATACCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.38, G:0.08, T:0.35
Consensus pattern (15 bp):
CCTCCAAGTATTCTT
Found at i:91050 original size:24 final size:24
Alignment explanation
Indices: 90935--91053 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
90925 AAACATAATT
*
90935 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
*
90959 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* * *
90983 CAAGTCAAGTATCAGATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
91007 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
*
91031 CATGTAAAGTATCATATCAGAAT
1 CATGTCAAGTATCATATCAGAAT
91054 TCAAATTGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:91069 original size:72 final size:71
Alignment explanation
Indices: 90935--91076 Score: 180
Period size: 72 Copynumber: 2.0 Consensus size: 71
90925 AAACATAATT
* * *
90935 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCAGGTAAAGTATCATATCAGAATCAAAGTCAAGAATCAGAT
91000 CAAAATC
66 -AAAATC
* * * *
91007 CATGTC-AGATATCATATCAGAATCCATGTAAAGTATCATATCAGAATTCAAATTGAA-AATCAG
1 CATGTCAAG-TATCATATCAAAATCCAGGTAAAGTATCATATCAGAA-TCAAAGTCAAGAATCAG
91070 ATAAAAT
64 ATAAAAT
91077 ATTCATGTGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
71 7 0.11
72 47 0.77
73 7 0.11
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (71 bp):
CATGTCAAGTATCATATCAAAATCCAGGTAAAGTATCATATCAGAATCAAAGTCAAGAATCAGAT
AAAATC
Found at i:92765 original size:17 final size:18
Alignment explanation
Indices: 92743--92779 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
92733 TCTTATGCAC
92743 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
92760 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
92778 AT
1 AT
92780 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:93475 original size:17 final size:17
Alignment explanation
Indices: 93441--93477 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
93431 CTCTGGTCAA
*
93441 CAATGGTCAATGCCGGT
1 CAATGGTCAATGCAGGT
*
93458 CAATGGTCAATGTAGGT
1 CAATGGTCAATGCAGGT
93475 CAA
1 CAA
93478 CAGTCAACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (17 bp):
CAATGGTCAATGCAGGT
Found at i:98312 original size:18 final size:18
Alignment explanation
Indices: 98277--98312 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
98267 TGTACATATA
*
98277 TATTTTATGTGATTATTT
1 TATTTTATGTGATGATTT
*
98295 TATTTTATGTGGTGATTT
1 TATTTTATGTGATGATTT
98313 CTCTATGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (18 bp):
TATTTTATGTGATGATTT
Found at i:102996 original size:5 final size:5
Alignment explanation
Indices: 102986--103013 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
102976 GTGATTCAAC
102986 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
103014 TCTTCCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:107737 original size:17 final size:14
Alignment explanation
Indices: 107730--107763 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
107720 CTATTCTCTA
107730 TCTTCTTCATTTCT
1 TCTTCTTCATTTCT
107744 TCTTCTTTCA-TTCT
1 TCTTC-TTCATTTCT
107758 TCTTCT
1 TCTTCT
107764 AGCTTCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 14 0.74
15 4 0.21
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (14 bp):
TCTTCTTCATTTCT
Found at i:108441 original size:21 final size:20
Alignment explanation
Indices: 108415--108460 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
108405 CAAGGTTATC
108415 GATACCATAAGCTTGAATATA
1 GATACCATAAGCTT-AATATA
* *
108436 GATACCCTCAGCTTAATATA
1 GATACCATAAGCTTAATATA
*
108456 AATAC
1 GATAC
108461 TCCATGCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (20 bp):
GATACCATAAGCTTAATATA
Found at i:109526 original size:16 final size:16
Alignment explanation
Indices: 109501--109557 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
109491 TAACTCAATC
*
109501 CAAAAGTAACCTGAAT
1 CAAAAATAACCTGAAT
* * * *
109517 CGAAATTAACTTGAAC
1 CAAAAATAACCTGAAT
* *
109533 CAAAACTAACCTAAAT
1 CAAAAATAACCTGAAT
109549 CAAAAATAA
1 CAAAAATAA
109558 TTTGAATCGA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.54, C:0.19, G:0.07, T:0.19
Consensus pattern (16 bp):
CAAAAATAACCTGAAT
Found at i:109575 original size:32 final size:32
Alignment explanation
Indices: 109456--109575 Score: 100
Period size: 32 Copynumber: 3.8 Consensus size: 32
109446 ACTCAAATTG
**
109456 AAATAACCAGAACCAAAAGTAACCTAAAAT-AA
1 AAATAACTTGAACCAAAAGTAACCT-AAATCAA
** * * *
109488 ATTTAAC-TCAATCCAAAAGTAACCTGAATCGA
1 AAATAACTTGAA-CCAAAAGTAACCTAAATCAA
* *
109520 AATTAACTTGAACCAAAACTAACCTAAATCAA
1 AAATAACTTGAACCAAAAGTAACCTAAATCAA
* * *
109552 AAATAATTTGAATCGAAAGTAACC
1 AAATAACTTGAACCAAAAGTAACC
109576 CAAACTAAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
31 5 0.07
32 61 0.88
33 3 0.04
ACGTcount: A:0.53, C:0.19, G:0.07, T:0.21
Consensus pattern (32 bp):
AAATAACTTGAACCAAAAGTAACCTAAATCAA
Found at i:109874 original size:34 final size:34
Alignment explanation
Indices: 109828--109958 Score: 104
Period size: 34 Copynumber: 3.6 Consensus size: 34
109818 TATGAAACTA
109828 TGGGA-ATGCTCGGCGTCTTCAAGCAATTGGCCTG
1 TGGGATAT-CTCGGCGTCTTCAAGCAATTGGCCTG
* ** *
109862 TGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGCCAAG
1 TGGGATATCTCGGCGTC-T-T-CAAGC-A-ATTG---GCC-TG
*
109905 -GTGGATCTCTCGGCGTCTTCAAGCAATTGGCCTG
1 TG-GGATATCTCGGCGTCTTCAAGCAATTGGCCTG
109939 TGGGATATCTCGGCGTCTTC
1 TGGGATATCTCGGCGTCTTC
109959 TGCATGCTAC
Statistics
Matches: 75, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
34 32 0.43
35 7 0.09
36 1 0.01
37 4 0.05
38 3 0.04
39 3 0.04
40 4 0.05
41 1 0.01
42 5 0.07
43 15 0.20
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (34 bp):
TGGGATATCTCGGCGTCTTCAAGCAATTGGCCTG
Found at i:109963 original size:77 final size:77
Alignment explanation
Indices: 109836--110002 Score: 334
Period size: 77 Copynumber: 2.2 Consensus size: 77
109826 TATGGGAATG
109836 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
1 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
109901 CAAGGTGGATCT
66 CAAGGTGGATCT
109913 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
1 CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
109978 CAAGGTGGATCT
66 CAAGGTGGATCT
109990 CTCGGCGTCTTCA
1 CTCGGCGTCTTCA
110003 CCTGTCGTCT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 90 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (77 bp):
CTCGGCGTCTTCAAGCAATTGGCCTGTGGGATATCTCGGCGTCTTCTGCATGCTACAAGGAATGC
CAAGGTGGATCT
Found at i:113782 original size:172 final size:173
Alignment explanation
Indices: 113487--113845 Score: 560
Period size: 172 Copynumber: 2.1 Consensus size: 173
113477 CATCAAATAT
*
113487 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTTGCAATTTAATCACTAAATT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
*
113552 TATAAATTCTTTCAAATTTAACCAATTAAGCATATTAATACTAAATTCAAGCATAGTATACCAAC
66 TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
* * *
113617 TTTTTATAATTTACACTAATTTCTTAAATTCCTCAAATTTTGC
131 TTTTAATAATTTACACTAATTCCTTAAATTCCTCAAATTTTAC
* * *
113660 AAAACGATCCCTAATTACTATTTGGTTCTCAACATTTTCAAAGTTAGCAATTTAATC-CATAAAT
1 AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCAC-TAAAT
* * *
113724 TT-TAAATTCTTTCTAATTTAACCAATTAAGCATACTAATACTAAATTCCAGCATAGTATAGCAA
65 TTATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAA
* * *
113788 CTTTTAATAATTTACTCTTATTCCTTAAATTCCTTAAATTTTAC
130 CTTTTAATAATTTACACTAATTCCTTAAATTCCTCAAATTTTAC
*
113832 AAAATGGTCCCTAA
1 AAAATGATCCCTAA
113846 AACTTTACAA
Statistics
Matches: 169, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
172 109 0.64
173 60 0.36
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (173 bp):
AAAATGATCCCTAATTACTATTTGCTTCTCAACATTTTCAAACTTAGCAATTTAATCACTAAATT
TATAAATTCTTTCAAATTTAACCAATTAAGCATACTAATACTAAATTCAAGCATAGTATACCAAC
TTTTAATAATTTACACTAATTCCTTAAATTCCTCAAATTTTAC
Found at i:114324 original size:23 final size:23
Alignment explanation
Indices: 114298--114341 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
114288 AGTTGCATGC
114298 CCCCCACATGCAGACGTGCAGGA
1 CCCCCACATGCAGACGTGCAGGA
114321 CCCCCACATGCAGACGTGCAG
1 CCCCCACATGCAGACGTGCAG
114342 CCTTGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.25, T:0.09
Consensus pattern (23 bp):
CCCCCACATGCAGACGTGCAGGA
Found at i:114386 original size:22 final size:22
Alignment explanation
Indices: 114358--114411 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
114348 AGGACCCAGG
114358 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
114380 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
114402 ACCCGTGATT
1 ACCCGTGATT
114412 CCCATCAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:119908 original size:23 final size:23
Alignment explanation
Indices: 119836--119900 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
119826 AATAACATAT
119836 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
119859 TAGGGAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
119882 TAGGTAGCGTTTATATAAT
1 TAGGTAGCGCTTATATAAT
119901 AAAATAGGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:120405 original size:199 final size:200
Alignment explanation
Indices: 119986--120676 Score: 704
Period size: 199 Copynumber: 3.4 Consensus size: 200
119976 CGCTTATATT
* * * *
119986 GACCTATTTTCT-AAATAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTATT--ATT
1 GACCTATTTTCTCATA-AAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATT
* * * * * * * *
120048 ATTATTATATGTTTCGATATTTTTTAGATCAATACAATTT-TAAATATATCGACACCTTATGCTT
65 ATAATTATAGGTTTCGAT-GTTTTTGGATCGATACATTTTATAAATATATCGACACTTTATGATT
* * * * *
120112 GCACCTCGTTGGGCATTAATATTTCATTCTGGAAAAAAATATCGACACAAA-TTAACAAAGTGTC
129 GCACCTCGTT----TTTGACA-TTCATTCTGGACAAAAGTATCGACACAAATTTAAC-AAGTGTC
* *
120176 GATACATGATTTA
188 GATACATTATGTA
* *
120189 GACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTA
1 GACCTATTTTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
* * * ** *
120254 TACTTATGGGGTTCGATGTTTCCGGATCGATACATTTTATAAATATATCGACACTTTATGGTTGC
66 TAATTATAGGTTTCGATGTTTTTGGATCGATACATTTTATAAATATATCGACACTTTATGATTGC
*
120319 ACC-C-TTTTTGACATTCATTCTGGACCAAAAGTATCGACACAAATTTAACAAGTGTCGATACTT
131 ACCTCGTTTTTGACATTCATTCTGGA-CAAAAGTATCGACACAAATTTAACAAGTGTCGATACAT
**
120382 TATGCC
195 TATGTA
* * **
120388 GACCTATTTTATCATAAAATCGGTATATTTATATCGGTTACATTGTAAATTTACCTAAAACATTA
1 GACCTATTTTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
* * *
120453 TAATTATCGATTTCGATGTTTTTTGGATCGATAC-TTTTAATAAATGTATCGACACTTTAT-ATG
66 TAATTATAGGTTTCGATG-TTTTTGGATCGATACATTTT-ATAAATATATCGACACTTTATGAT-
* * **
120516 TGCACCTCGTTTGTG-CATTCATCCTGGACAATAAGTATCGACACAAAATTCCACAAGTGTCGAT
128 TGCACCTCGTTTTTGACATTCATTCTGGACAA-AAGTATCGACAC-AAATTTAACAAGTGTCGAT
*
120580 ACATTATGTT
191 ACATTATGTA
* * * * * * * *
120590 GACATGTTTTCTAAT-TAACCGGTATATTTATACCAGTTACTTTGTTAATTTACCTATTACATTA
1 GACCTATTTTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
*
120654 TAATTATTA-GTTTTGATGTTTTT
66 TAATTA-TAGGTTTCGATGTTTTT
120677 TGGGACGATA
Statistics
Matches: 410, Mismatches: 64, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
198 11 0.03
199 113 0.28
200 52 0.13
201 79 0.19
202 41 0.10
203 53 0.13
204 18 0.04
205 43 0.10
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (200 bp):
GACCTATTTTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTA
TAATTATAGGTTTCGATGTTTTTGGATCGATACATTTTATAAATATATCGACACTTTATGATTGC
ACCTCGTTTTTGACATTCATTCTGGACAAAAGTATCGACACAAATTTAACAAGTGTCGATACATT
ATGTA
Found at i:123689 original size:200 final size:200
Alignment explanation
Indices: 123232--123977 Score: 1231
Period size: 200 Copynumber: 3.7 Consensus size: 200
123222 TTTAAATTAA
*
123232 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTAAA
* * *
123297 TTTATACCAGTTACATTGAAAATTTACCTATTACATTATACTTATGAGTTTTGATGTTTCTGGGA
66 TTTATACCAGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
* *
123362 TCGATACTTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGGATTCATTATGGAC
131 TCGATAC-TTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGAC
123427 CAAAAG
195 CAAAAG
* *
123433 TATCGACACAAAATTAAAAAGTGTCAATACATGTTGTAGACCTATTCTCACATAAAACCGGTAAA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTAAA
* * *
123498 TTTATATCGGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGAGA
66 TTTATACCAGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
* *
123563 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCAATCATTCTGGACC
131 TCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACC
123628 AAAAG
196 AAAAG
* *
123633 TATCGACACAAAATTAAAAAGTGTCGATACATGTTATATACCTATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTAAA
* * *
123698 TTTATACCGGTTACATTGAAAAATTACATATTACATTATACTTATAGGTTTCGATGTTTCTGGGA
66 TTTATACCAGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
* * *
123763 TCGATACTTTTTATAAATGGATTGACACTTTATGGTTGTACCCTTTTTGGCATTCATTCTAGACC
131 TCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACC
123828 AAAAG
196 AAAAG
* * * *
123833 TATCAAGACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATA
1 TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTAAA
*
123898 TTTATACCAGTTACATTGAAAAATTACCTATTACTTTATACTTATGGGTTTCGATGTTTCTGGGA
66 TTTATACCAGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
**
123963 TCGATAAATTTTATA
131 TCGATACTTTTTATA
123978 TATAAATCGA
Statistics
Matches: 507, Mismatches: 38, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
200 379 0.75
201 128 0.25
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTAAA
TTTATACCAGTTACATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
TCGATACTTTTTATAAATGGATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGACC
AAAAG
Found at i:124256 original size:19 final size:19
Alignment explanation
Indices: 124232--124280 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
124222 TTACATTCAC
124232 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
124251 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
124270 ATACAACATTA
1 ATACAAAATTA
124281 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:125873 original size:21 final size:21
Alignment explanation
Indices: 125847--125887 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
125837 CCTCCTTATT
125847 TCCTCCATCTTTTCTTCTTCC
1 TCCTCCATCTTTTCTTCTTCC
*
125868 TCCTCCCTCTTTTCTTCTTC
1 TCCTCCATCTTTTCTTCTTC
125888 ATATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.44, G:0.00, T:0.54
Consensus pattern (21 bp):
TCCTCCATCTTTTCTTCTTCC
Found at i:126100 original size:33 final size:33
Alignment explanation
Indices: 126063--126126 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
126053 TCTTAAGATT
*
126063 ACCCCTTAACACCTCAACTTCTTTCACCACTTC
1 ACCCCTCAACACCTCAACTTCTTTCACCACTTC
*
126096 ACCCCTCAACACCTCTACTTCTTTCACCACT
1 ACCCCTCAACACCTCAACTTCTTTCACCACT
126127 CCATCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
ACCCCTCAACACCTCAACTTCTTTCACCACTTC
Found at i:126185 original size:21 final size:21
Alignment explanation
Indices: 126160--126203 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
126150 CCCCTTATGC
126160 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
126181 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
126202 CT
1 CT
126204 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:126308 original size:15 final size:15
Alignment explanation
Indices: 126288--126317 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
126278 CTATTTTCCC
126288 TCACCGTCATCCCCT
1 TCACCGTCATCCCCT
126303 TCACCGTCATCCCCT
1 TCACCGTCATCCCCT
126318 AATACAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.53, G:0.07, T:0.27
Consensus pattern (15 bp):
TCACCGTCATCCCCT
Found at i:128617 original size:20 final size:19
Alignment explanation
Indices: 128572--128617 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
128562 CTGGTAGCGC
128572 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
* *
128591 TCATACCGGTTTTGTCATATT
1 T-TTACCGGTTTTATCAT-TT
128612 TTTACC
1 TTTACC
128618 TATTATATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.17, C:0.20, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:128719 original size:182 final size:181
Alignment explanation
Indices: 128412--128830 Score: 577
Period size: 182 Copynumber: 2.3 Consensus size: 181
128402 GGTAGCGCTT
* * *
128412 TACCGGTTTTATCATATTTTTACCTGTTATATCATTGTGGATCGATACATTTTTATAAATTATCG
1 TACCGGTTTTATCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCG
* * *
128477 AAACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAG
66 AAACTTTATAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGCCGATACTTATATTAAAG
* * * ** *
128542 TATTGACACTTTAAATATATCTGGTAGCGCTTTACCGGTTTTATCATTTTCA
131 TATCGACACGTTAAATATATCCGGTAGCGCTTTACCAATATTATC-TTTTCA
* **
128594 TACCGGTTTTGTCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATTT
1 TACCGGTTTTATCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCG
* * * *
128659 ACACTTTATAGGTGCTAAAACTGATTCTTTTTTAAATTAACAAAGTGCCGATCCTTATATTAAAG
66 AAACTTTATAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGCCGATACTTATATTAAAG
* * * *
128724 TATCGACACGTTCAATATATCCGGTAGGGCTTTACCAATATTGTCTTTTCG
131 TATCGACACGTTAAATATATCCGGTAGCGCTTTACCAATATTATCTTTTCA
* * * *
128775 TGACCGGTTTTATCATATTTTTACCTATTATATTGATATTGATCGATACATTTTTA
1 T-ACCGGTTTTATCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTA
128831 ATTTGGATCG
Statistics
Matches: 208, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
181 6 0.03
182 202 0.97
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (181 bp):
TACCGGTTTTATCATATTTTTACCTATTATATCGTTGTGGATCGATACATTTTTATAAAGTATCG
AAACTTTATAGGCGCTAAAACTGATTCTCTTTTAAATTAACAAAGTGCCGATACTTATATTAAAG
TATCGACACGTTAAATATATCCGGTAGCGCTTTACCAATATTATCTTTTCA
Found at i:131126 original size:440 final size:429
Alignment explanation
Indices: 130316--131184 Score: 1623
Period size: 440 Copynumber: 2.0 Consensus size: 429
130306 GTATTTTATT
130316 ATTACTATCATGTTCTTTAAGGCTTCTCCTTTTTTTCCTTCGGAAAAGCAATTTTTAAAACTATT
1 ATTACTATCATGTTCTTTAAGGCTTCTCCTTTTTTTCCTTCGGAAAAGCAATTTTTAAAACTATT
130381 TTTATATAAGAAATATCAAATAAATTACGAGAGTCCATGTTTGTATCCTAAATATACCTGTGTTT
66 TTTATATAAGAAATATCAAATAAATTACGAGAGTCCATGTTTGTATCCTAAATATACCTGTGTTT
130446 ACAATATCTATGTATTTGGTTGGCTTGTTTAAGAAATTCTCGAACTATCAAAAATAAATCATTTT
131 ACAATATCTATGTATTTGGTTGGCTTGTTTAAGAAATTCTCGAACTATCAAAAATAAATCATTTT
130511 GATCGTTTGATTCTTAAGTTGATGCTCATGAGAATCTCTTTGAATTTCTGAGGTGCTTAGATTAA
196 GATCGTTTGATTCTTAAGTTGATGCTCATGAGAATCTCTTTGAATTTCTGAGGTGCTTAGATTAA
130576 TTAATTTTATTTTATGGTAAACTACATCAGATACCAATAAACTTTAGGTGTTATATCGTTTATAC
261 TTAATTTTATTTTATGGTAAACTACATCAGATACCAATAAACTTTAGGTGTTATATCGTTTATAC
130641 CATTAAACTATTAATTTTACCAATTATAGTAACGAAATTTTATTTTCATTTCAATTATACCATTG
326 CATTAAACTATTAATTTTACCAATTATAGTAACGAAATTTTATTTTCATTTCAATTATACCATTG
130706 GGCCGTTAAATCGTTAACAACTGGATCAAAAAGATGATG
391 GGCCGTTAAATCGTTAACAACTGGATCAAAAAGATGATG
130745 ATTACTATCATGTTCTTTAAGGCTTCTCCTTTTTTTCCTTCGGAAAAGCAATTTTTAAAACTATT
1 ATTACTATCATGTTCTTTAAGGCTTCTCCTTTTTTTCCTTCGGAAAAGCAATTTTTAAAACTATT
130810 TTTATATAAGAAATATCAAATAAATTACGAGAGTCCATGTTTGTATCCTAAAATATACCTGTTGT
66 TTTATATAAGAAATATCAAATAAATTACGAGAGTCCATGTTTGTATCCT-AAATATACCTG-TGT
130875 TTACAATATCTATGTATTTGGTTGGCTTGTTTAATGAAATTCTCGAACTATCAAAAGAAATATAA
129 TTACAATATCTATGTATTTGGTTGGCTTGTTTAA-GAAATTCTCGAACTATC--AA-AAATA-AA
130940 TCATTTTGATCG-TTGATTCTTAAGTTGATGCTCATGAGAATACTCTTTGAATTTCCTAGTGAGG
189 TCATTTTGATCGTTTGATTCTTAAGTTGATGCTCATGAGAAT-CTCTTTGAATTT-C---TGAGG
131004 TGCTTAGATTAATTAATTTTATTTTATGGTAAACTACATCAGATACCAATAAACTTTAGGTGTTA
249 TGCTTAGATTAATTAATTTTATTTTATGGTAAACTACATCAGATACCAATAAACTTTAGGTGTTA
131069 TATCGTTTATACCATTAAACTATTAATTTTACCAATTATAGTAACGAAATTTTATTTTCATTTCA
314 TATCGTTTATACCATTAAACTATTAATTTTACCAATTATAGTAACGAAATTTTATTTTCATTTCA
131134 ATTATACCATTGGGCCGTTAAATCGTTAACAACTGGATCAAAAAGATGATG
379 ATTATACCATTGGGCCGTTAAATCGTTAACAACTGGATCAAAAAGATGATG
131185 TTTTAGTGAG
Statistics
Matches: 428, Mismatches: 0, Indels: 13
0.97 0.00 0.03
Matches are distributed among these distances:
429 114 0.27
430 11 0.03
431 37 0.09
432 17 0.04
434 2 0.00
435 34 0.08
436 26 0.06
437 1 0.00
440 186 0.43
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (429 bp):
ATTACTATCATGTTCTTTAAGGCTTCTCCTTTTTTTCCTTCGGAAAAGCAATTTTTAAAACTATT
TTTATATAAGAAATATCAAATAAATTACGAGAGTCCATGTTTGTATCCTAAATATACCTGTGTTT
ACAATATCTATGTATTTGGTTGGCTTGTTTAAGAAATTCTCGAACTATCAAAAATAAATCATTTT
GATCGTTTGATTCTTAAGTTGATGCTCATGAGAATCTCTTTGAATTTCTGAGGTGCTTAGATTAA
TTAATTTTATTTTATGGTAAACTACATCAGATACCAATAAACTTTAGGTGTTATATCGTTTATAC
CATTAAACTATTAATTTTACCAATTATAGTAACGAAATTTTATTTTCATTTCAATTATACCATTG
GGCCGTTAAATCGTTAACAACTGGATCAAAAAGATGATG
Found at i:135800 original size:31 final size:31
Alignment explanation
Indices: 135765--135831 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
135755 TACAATACAA
* **
135765 TCCCCTAACATTTAGTCTATTTGTAATATGG
1 TCCCCCAACATTTAGTCTATTTACAATATGG
* *
135796 TCCCCCGACATTTAGTCTGTTTACAATATGG
1 TCCCCCAACATTTAGTCTATTTACAATATGG
135827 TCCCC
1 TCCCC
135832 GACCGTTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCTATTTACAATATGG
Found at i:135834 original size:30 final size:31
Alignment explanation
Indices: 135772--135831 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
135762 CAATCCCCTA
**
135772 ACATTTAGTCTATTTGTAATATGGTCCCCCG
1 ACATTTAGTCTATTTACAATATGGTCCCCCG
*
135803 ACATTTAGTCTGTTTACAATATGGTCCCC
1 ACATTTAGTCTATTTACAATATGGTCCCC
135832 GACCGTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (31 bp):
ACATTTAGTCTATTTACAATATGGTCCCCCG
Found at i:139889 original size:18 final size:18
Alignment explanation
Indices: 139866--139915 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
139856 TTCGAACCGG
*
139866 GTTGACCCGACCCGACCT
1 GTTGACCCGACCCGACCC
*
139884 GTTGACCCGACCCGGCCC
1 GTTGACCCGACCCGACCC
139902 GTTGA-CCGACCCGA
1 GTTGACCCGACCCGA
139916 TGATATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (18 bp):
GTTGACCCGACCCGACCC
Found at i:139958 original size:29 final size:29
Alignment explanation
Indices: 139916--140128 Score: 319
Period size: 29 Copynumber: 7.5 Consensus size: 29
139906 ACCGACCCGA
* *
139916 TGATATTTTGGTAATTATTTTTCAAACGC
1 TGATATTTTGGTAATTATTTTTAAAACGG
*
139945 TGATATTTTGGTAATTATTTTTAAAATGG
1 TGATATTTTGGTAATTATTTTTAAAACGG
139974 TGATATTTTGGTAATTATTTTTAAAACGG
1 TGATATTTTGGTAATTATTTTTAAAACGG
*
140003 TGATATTTTGGTAATTATTTTTAAAACAG
1 TGATATTTTGGTAATTATTTTTAAAACGG
*
140032 TTATATTTTGGTAATTATTTTTAAAACGG
1 TGATATTTTGGTAATTATTTTTAAAACGG
* *
140061 TTATATTTTGGTAATTA----T-AAACAG
1 TGATATTTTGGTAATTATTTTTAAAACGG
*
140085 TGATATTTTGGTAATTATTTTTAAAACGA
1 TGATATTTTGGTAATTATTTTTAAAACGG
140114 TGATATTTTGGTAAT
1 TGATATTTTGGTAAT
140129 AGTTGATTGT
Statistics
Matches: 168, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
24 21 0.12
25 1 0.01
28 1 0.01
29 145 0.86
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (29 bp):
TGATATTTTGGTAATTATTTTTAAAACGG
Found at i:145842 original size:19 final size:19
Alignment explanation
Indices: 145814--145858 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
145804 CGGCTTGACT
145814 GGTT-ACCGATCTGAACCG
1 GGTTGACCGATCTGAACCG
*
145832 GTTTGACCGATCTGAACCG
1 GGTTGACCGATCTGAACCG
145851 GGTTGACC
1 GGTTGACC
145859 CGACCCGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (19 bp):
GGTTGACCGATCTGAACCG
Found at i:145876 original size:18 final size:18
Alignment explanation
Indices: 145853--145887 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
145843 CTGAACCGGG
145853 TTGACCCGACCCGACCCT
1 TTGACCCGACCCGACCCT
145871 TTGACCCGACCCGACCC
1 TTGACCCGACCCGACCC
145888 GACCTGACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.51, G:0.17, T:0.14
Consensus pattern (18 bp):
TTGACCCGACCCGACCCT
Found at i:145940 original size:29 final size:29
Alignment explanation
Indices: 145898--146029 Score: 237
Period size: 29 Copynumber: 4.6 Consensus size: 29
145888 GACCTGACCT
145898 GGTGATATTTTGGTAATTATTTTTAAAAC
1 GGTGATATTTTGGTAATTATTTTTAAAAC
*
145927 GGTGATATTTTGGTAAATATTTTTAAAAC
1 GGTGATATTTTGGTAATTATTTTTAAAAC
*
145956 GATGATATTTTGGTAATTATTTTTAAAAC
1 GGTGATATTTTGGTAATTATTTTTAAAAC
*
145985 GATGATATTTTGGTAATTATTTTTAAAAC
1 GGTGATATTTTGGTAATTATTTTTAAAAC
146014 GGTGATATTTTGGTAA
1 GGTGATATTTTGGTAA
146030 CAGTTGACTG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 99 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTTTTAAAAC
Found at i:150829 original size:24 final size:24
Alignment explanation
Indices: 150801--150853 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
150791 GGGCTTTTTG
* ** *
150801 TTTTAGGTTGAATTGGTTTAGGGT
1 TTTTAGGTTAAAAAGGTTTAGAGT
150825 TTTTAGGTTAAAAAGGTTTAGAGT
1 TTTTAGGTTAAAAAGGTTTAGAGT
150849 TTTTA
1 TTTTA
150854 CATTTAGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (24 bp):
TTTTAGGTTAAAAAGGTTTAGAGT
Found at i:150914 original size:47 final size:48
Alignment explanation
Indices: 150857--151031 Score: 144
Period size: 49 Copynumber: 3.5 Consensus size: 48
150847 GTTTTTACAT
*
150857 TTAGAGTTTAAG-ATTTTTTTATGTTAACTCATAAAGTGGTTTAGGGA
1 TTAGGGTTTAAGTATTTTTTTATGTTAACTCATAAAGTGGTTTAGGGA
* * ** * *
150904 TCAGGGTTTAAAGT-TTTTTATGT-TTTTAGGTTA-AAAG-GGTTTAGGGTTT
1 TTAGGGTTT-AAGTATTTTT-T-TATGTTAACTCATAAAGTGGTTTAGGG--A
*
150953 TTAGGGTTTAGGGTTTAATTTTTTTATGTTAACTCATAAAGTGGTTTAGGGA
1 TTAGGGTTTA-AG--T-ATTTTTTTATGTTAACTCATAAAGTGGTTTAGGGA
*
151005 TTAGGGTTTAAAGTTTTTTTTTATGTT
1 TTAGGGTTT-AAGTATTTTTTTATGTT
151032 TTTAGGTTGA
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
47 16 0.16
48 13 0.13
49 28 0.29
50 2 0.02
51 2 0.02
52 17 0.18
53 10 0.10
54 9 0.09
ACGTcount: A:0.25, C:0.03, G:0.23, T:0.49
Consensus pattern (48 bp):
TTAGGGTTTAAGTATTTTTTTATGTTAACTCATAAAGTGGTTTAGGGA
Found at i:150999 original size:101 final size:103
Alignment explanation
Indices: 150823--151058 Score: 336
Period size: 101 Copynumber: 2.3 Consensus size: 103
150813 TTGGTTTAGG
* *
150823 GTTTTTAGGTTAAAAAGGTTTAGAGTTTTTACATTTAGAGTTTAAGATTTTTTTATGTTAACTCA
1 GTTTTTAGGTTAAAAGGGTTTAGGGTTTTTACATTTAGAGTTTAAGATTTTTTTATGTTAACTCA
150888 TAAAGTGGTTTAGGGATCAGGGTTTAAAG-TTTTTTAT
66 TAAAGTGGTTTAGGGATCAGGGTTTAAAGTTTTTTTAT
** *
150925 GTTTTTAGGTTAAAAGGGTTTAGGGTTTTTAGGGTTTAGGGTTT-A-ATTTTTTTATGTTAACTC
1 GTTTTTAGGTTAAAAGGGTTTAGGGTTTTTA-CATTTAGAGTTTAAGATTTTTTTATGTTAACTC
*
150988 ATAAAGTGGTTTAGGGATTAGGGTTTAAAGTTTTTTTTTAT
65 ATAAAGTGGTTTAGGGATCAGGGTTTAAAG--TTTTTTTAT
* *
151029 GTTTTTAGGTT-GAAGTGATTTAGGGTTTTT
1 GTTTTTAGGTTAAAAG-GGTTTAGGGTTTTT
151059 TAGGTTAAAG
Statistics
Matches: 121, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
101 47 0.39
102 30 0.25
103 12 0.10
104 32 0.26
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.49
Consensus pattern (103 bp):
GTTTTTAGGTTAAAAGGGTTTAGGGTTTTTACATTTAGAGTTTAAGATTTTTTTATGTTAACTCA
TAAAGTGGTTTAGGGATCAGGGTTTAAAGTTTTTTTAT
Found at i:151050 original size:23 final size:24
Alignment explanation
Indices: 151029--151106 Score: 104
Period size: 23 Copynumber: 3.2 Consensus size: 24
151019 TTTTTTTTAT
* *
151029 GTTTTTAGGTTGAAGTGATTTAGG
1 GTTTTTAGGTTAAAGTGATTTAGA
*
151053 GTTTTTTAGGTTAAAGTGGTTTAGA
1 G-TTTTTAGGTTAAAGTGATTTAGA
*
151078 GTTTTT-GGTTAAAGTGATTTAGG
1 GTTTTTAGGTTAAAGTGATTTAGA
151101 GTTTTT
1 GTTTTT
151107 TAAAACTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
23 21 0.44
24 6 0.12
25 21 0.44
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (24 bp):
GTTTTTAGGTTAAAGTGATTTAGA
Found at i:151062 original size:25 final size:25
Alignment explanation
Indices: 151030--151108 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
151020 TTTTTTTATG
*
151030 TTTTTAGGTTGAAGTGATTTAGGGT
1 TTTTTAGGTTAAAGTGATTTAGGGT
* *
151055 TTTTTAGGTTAAAGTGGTTTAGAG-
1 TTTTTAGGTTAAAGTGATTTAGGGT
151079 TTTTT-GGTTAAAGTGATTTAGGGT
1 TTTTTAGGTTAAAGTGATTTAGGGT
151103 TTTTTA
1 TTTTTA
151109 AAACTAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 16 0.34
24 10 0.21
25 21 0.45
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.51
Consensus pattern (25 bp):
TTTTTAGGTTAAAGTGATTTAGGGT
Found at i:160096 original size:17 final size:17
Alignment explanation
Indices: 160074--160132 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
160064 ATTTTTCTTA
*
160074 TTTCTTTTGAACTCAAT
1 TTTCTTTTGAATTCAAT
*
160091 TTTC-TTT-CATTCAGTACT
1 TTTCTTTTGAATTCA--A-T
160109 TTTCTTTTGAATTCAAT
1 TTTCTTTTGAATTCAAT
160126 TTTCTTT
1 TTTCTTT
160133 CGTTCAATAC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 13 0.38
18 6 0.18
19 3 0.09
20 5 0.15
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTCTTTTGAATTCAAT
Found at i:160125 original size:35 final size:35
Alignment explanation
Indices: 160074--160144 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
160064 ATTTTTCTTA
*
160074 TTTCTTTTGAACTCAATTTTCTTTCATTCAGTACT
1 TTTCTTTTGAACTCAATTTTCTTTCATTCAATACT
* *
160109 TTTCTTTTGAATTCAATTTTCTTTCGTTCAATACT
1 TTTCTTTTGAACTCAATTTTCTTTCATTCAATACT
160144 T
1 T
160145 CATTTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.56
Consensus pattern (35 bp):
TTTCTTTTGAACTCAATTTTCTTTCATTCAATACT
Found at i:167141 original size:37 final size:38
Alignment explanation
Indices: 167092--167198 Score: 153
Period size: 37 Copynumber: 2.8 Consensus size: 38
167082 AGTAAATGAG
*
167092 TATATATAATATATAGTTTTTAAAAACATTTTG-AAAA
1 TATATATAATATATAGTTTTTGAAAACATTTTGAAAAA
*
167129 TATATATAATATATAGTTTTTGACAACATTTTGAAAAAA
1 TATATATAATATATAGTTTTTGAAAACATTTTG-AAAAA
* * *
167168 TATATATAATGTATAATTTTTGAAAATATTT
1 TATATATAATATATAGTTTTTGAAAACATTT
167199 ATTATATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
37 31 0.50
39 31 0.50
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TATATATAATATATAGTTTTTGAAAACATTTTGAAAAA
Found at i:168375 original size:14 final size:14
Alignment explanation
Indices: 168358--168397 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
168348 TTTTATACAA
168358 TATTTTTATTTATT
1 TATTTTTATTTATT
*
168372 TATTTTTATTTTTT
1 TATTTTTATTTATT
* *
168386 TGTTTTAATTTA
1 TATTTTTATTTA
168398 ATTAATTTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:171972 original size:12 final size:12
Alignment explanation
Indices: 171957--172017 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
171947 TGAATTATGT
171957 TCTGATTTCTGA
1 TCTGATTTCTGA
*
171969 TCTGGA-TTCTGT
1 TCT-GATTTCTGA
* *
171981 TATGATATCTGA
1 TCTGATTTCTGA
* *
171993 TCTGAATTCTGT
1 TCTGATTTCTGA
*
172005 TTTGATTTCTGA
1 TCTGATTTCTGA
172017 T
1 T
172018 ATCTCCGTTT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
11 2 0.06
12 32 0.89
13 2 0.06
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (12 bp):
TCTGATTTCTGA
Found at i:171978 original size:48 final size:48
Alignment explanation
Indices: 171926--172017 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
171916 TCCGACTTGA
* *
171926 ATTCTGTTCTGATA-CATTACCTGAATTATGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATATC-TGACCTGAATTATGTTCTGATTTCTGATCTGG
* * *
171974 ATTCTGTTATGATATCTGATCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATATCTGACCTGAATTATGTTCTGATTTCTGAT
172018 ATCTCCGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (48 bp):
ATTCTGTTATGATATCTGACCTGAATTATGTTCTGATTTCTGATCTGG
Found at i:171981 original size:24 final size:24
Alignment explanation
Indices: 171946--172017 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
171936 GATACATTAC
* *
171946 CTGAATTATGTTCTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
* *
171970 CTGGATTCTGTTATGATATCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
*
171994 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTATGATTTCTGAT
172018 ATCTCCGTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTTCTGAT
Found at i:184731 original size:14 final size:15
Alignment explanation
Indices: 184712--184753 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
184702 TCATGTACCG
*
184712 AGAAAAATAAATGA-
1 AGAAAAATAAAGGAC
*
184726 AGAAAAATTAAGGAC
1 AGAAAAATAAAGGAC
184741 AGTAAAAATAAAG
1 AG-AAAAATAAAG
184754 CTAACTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.14
Consensus pattern (15 bp):
AGAAAAATAAAGGAC
Found at i:188338 original size:31 final size:31
Alignment explanation
Indices: 188298--188357 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
188288 AGTTACGTCG
* *
188298 GGGATCATATTACAAACTGACTAAATGTTAA
1 GGGACCATATTACAAACAGACTAAATGTTAA
*
188329 GGGACCATATTGCAAACAGACTAAATGTT
1 GGGACCATATTACAAACAGACTAAATGTT
188358 GGGGGATTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (31 bp):
GGGACCATATTACAAACAGACTAAATGTTAA
Found at i:200915 original size:17 final size:18
Alignment explanation
Indices: 200880--200916 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
200870 GGATTAGTTA
200880 ATCTGAAAATACATATTG
1 ATCTGAAAATACATATTG
200898 ATCTGATAAAT-C-TATTG
1 ATCTGA-AAATACATATTG
200915 AT
1 AT
200917 GTGCATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 7 0.39
19 4 0.22
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
ATCTGAAAATACATATTG
Found at i:202959 original size:84 final size:85
Alignment explanation
Indices: 202802--203025 Score: 278
Period size: 84 Copynumber: 2.7 Consensus size: 85
202792 TTAATTACCG
* *
202802 TTACAGTTCCCCCAGGTCCCTTTGCTGTATGCAAGGGTAAGCCTTACAG--TTCCTCCAAGACAT
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCC-CCAAGA-AT
**
202865 TTGTTGTGTGCAAGGGT-AGCC
64 TCCTTGTGTGCAAGGGTAAGCC
* * * * *
202886 TTACAGTTCCCCCGGGTCCCTTTGTTGTGTACAAGGGTAAACCTTACAGTTTTCCCCCAG-GTTC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCCAAGAATTC
202950 CTTGCTGTGCAAGGGTAAGCC
66 CTTG-TGTGCAAGGGTAAGCC
* * *
202971 TTACAGTT-TCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCATACAGTTTTCCC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCC
203026 AGGCTCTTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
83 5 0.04
84 96 0.79
85 16 0.13
86 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (85 bp):
TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCCAAGAATTC
CTTGTGTGCAAGGGTAAGCC
Found at i:203021 original size:42 final size:42
Alignment explanation
Indices: 202802--203020 Score: 232
Period size: 42 Copynumber: 5.2 Consensus size: 42
202792 TTAATTACCG
* *
202802 TTACAGTTCCCCCAGGTCCCTTTGCTGTATGCAAGGGTAAGCC
1 TTACAGTT-CCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* * *
202845 TTACAGTTCCTCCAAG-ACATTTGTTGTGTGCAAGGGT-AGCC
1 TTACAGTTCC-CCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* * *
202886 TTACAGTTCCCCCGGGTCCCTTTGTTGTGTACAAGGGTAAACC
1 TTACAGTT-CCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* *
202929 TTACAGTTTTCCCCCAGGTTCC-TTG--CTGTGCAAGGGTAAGCC
1 TTACAG--TT-CCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* *
202971 TTACAGTTTCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
*
203013 ATACAGTT
1 TTACAGTT
203021 TTCCCAGGCT
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
39 10 0.07
40 5 0.03
41 15 0.10
42 82 0.55
43 21 0.14
44 3 0.02
45 12 0.08
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACAGTTCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
Found at i:203044 original size:43 final size:42
Alignment explanation
Indices: 202955--203048 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 42
202945 GGTTCCTTGC
* * ** *
202955 TGTGCAAGGGTAAGCCTTACAGTTTCCCAGGTTCCTTTGTTG
1 TGTGCAAGGGTAAGCCATACAGTTTCCCAGGCTCCTTTACTA
*
202997 TGTGCAAGGGTAAGCCATACAGTTTTCCCAGGCTCTTTTACTA
1 TGTGCAAGGGTAAGCCATACAG-TTTCCCAGGCTCCTTTACTA
203040 TGTGCAAGG
1 TGTGCAAGG
203049 AAGACCTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 21 0.47
43 24 0.53
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTGCAAGGGTAAGCCATACAGTTTCCCAGGCTCCTTTACTA
Found at i:203057 original size:84 final size:83
Alignment explanation
Indices: 202802--203057 Score: 252
Period size: 84 Copynumber: 3.0 Consensus size: 83
202792 TTAATTACCG
* * * * *
202802 TTACAGTTCCCCCAGGTCCCTTTGCTGTATGCAAGGGTAAGCCTTACAGTTCCTCCAAGACAT-T
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTT-TTCCCAGGC-TCT
* *
202866 TGTT-GTGTGCAAGGGTAGCC
64 T-TTCTTGTGCAAGGGAAGCC
* * * * *
202886 TTACAGTTCCCCCGGGTCCCTTTGTTGTGTACAAGGGTAAACCTTACAGTTTTCCCCCAGGTTCC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTT--CCCAGGCTCT
*
202951 TTGC-TGTGCAAGGGTAAGCC
64 TTTCTTGTGCAAGGG-AAGCC
* * *
202971 TTACAGTT-TCCCAGGTTCCTTTGTTGTGTGCAAGGGTAAGCCATACAGTTTTCCCAGGCTCTTT
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCAGGCTCTTT
203035 TACTATGTGCAA-GGAAGACC
66 T-CT-TGTGCAAGGGAAG-CC
203055 TTA
1 TTA
203058 TCGTTTTTGC
Statistics
Matches: 142, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
82 10 0.07
83 5 0.04
84 103 0.73
85 24 0.17
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (83 bp):
TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCCTTACAGTTTTCCCAGGCTCTTT
TCTTGTGCAAGGGAAGCC
Found at i:207546 original size:43 final size:43
Alignment explanation
Indices: 207485--207747 Score: 287
Period size: 43 Copynumber: 6.1 Consensus size: 43
207475 TTAATTATCG
** * *
207485 TTACAGTTCCCCCAGGTCCCTTTACTGTGTGCAAGTGTAAGTC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
207528 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* *
207571 TTAAAGTTCCCCCAGGTCCCTTTGTTGTGTACAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* * * **
207614 TTATAGTTTTCCCCTAGGTTCCTTTGTTGTGTTAAAGGGTAAGCC
1 TTACAG--TTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* * * *
207659 TTACAGTT-TCTCAGGTTCCTTTGTTGTGTGTAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
* * * * * *
207701 ATACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAGGATAAGACC
1 TTACAGTTCCCCCAGGTC-CCTTTGTTGTGTGCAAGGGTAAG-CC
207745 TTA
1 TTA
207748 TCGTTTTTGC
Statistics
Matches: 188, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
42 36 0.19
43 110 0.59
44 4 0.02
45 38 0.20
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGTTGTGTGCAAGGGTAAGCC
Found at i:209218 original size:330 final size:324
Alignment explanation
Indices: 208604--209273 Score: 1162
Period size: 330 Copynumber: 2.0 Consensus size: 324
208594 AACCCAACCC
208604 AACTCGACCCATGTGATCCCTAATATTATATGATACATTATTGGGAATTACGTTAACTTATTTAT
1 AACTCGACCCATGTGATCCCTAATATTATATGATACATTATTGGGAATTACGTTAACTTATTTAT
208669 TTATTGTTAAGAATGTAAAATTATAGTATTTGATTATTAGAATATAAGATTATTTAAAATTTTAT
66 TTATTGTTAAGAATGTAAAATTATAGTATTTGATTATTAGAATATAAGATTATTTAAAATTTTAT
208734 TAAATTGCGCCTGTAATATTTTTGATAAATTTTAAATAATTTTTAATGTTTGTGTGAGTATTCGG
131 TAAATTGCGCCTGTAATATTTTTGATAAATTTTAAATAATTTTTAATGTTTGTGTGAGTATTCGG
208799 TTGGACGTTGGTCACTTAAACTAATTGGGTGGGATCGGCAAATGCCTTTGACCAACATTTCTTTC
196 TTGGACGTTGGTCACTTAAACTAATTGGGTGGGATCGGCAAATGCCTTTGACCAACATTTCTTTC
208864 TGGCTGCCCCAATC-AATAAATAAATAAATAAATAATAAATAACATGCTTTATTTTTTTATGCAC
261 TGGCTGCCCCAATCAAATAAATAAATAAAT--A-AATAAATAACATGCTTTATTTTTTTATGCAC
208928 CA
323 CA
208930 AACTCGACCCATGTTGATCCCTAATATTATATGATACATTATTGGGAATATTACGTTAACTTATT
1 AACTCGACCCATG-TGATCCCTAATATTATATGATACATTATTGGG-A-ATTACGTTAACTTATT
208995 TATTTATTTGTTAAGAATGTAAAATTATAGTATTTGATTATTAGAATATAAGATTATTTAAAATT
63 TATTTA-TTGTTAAGAATGTAAAATTATAGTATTTGATTATTAGAATATAAGATTATTTAAAATT
209060 TTATTAAATTGCGCCTGTAATATATTTTTGATAAATTTTAAATAATTTTTAATGTTTGTGTGAGT
127 TTATTAAATTGCGCCTGT-A-ATATTTTTGATAAATTTTAAATAATTTTTAATGTTTGTGTGAGT
209125 ATTCGGTTGGACGTTGGTCACTTAAACTAATTGGGGATGGGATCGGCAAATGCCTTTGACCAACA
190 ATTCGGTTGGACGTTGGTCACTTAAACTAATT-GGG-TGGGATCGGCAAATGCCTTTGACCAACA
209190 TTTCTTTCTGGCTGCCCCAATCAATAAATAAATAAATAAATAAATAAATAAAATAACATGCTTTA
253 TTTCTTTCTGGCTGCCCCAATC-------AAATAAATAAATAAATAAAT-AAATAACATGCTTTA
209255 TTTTTTTATGCACCA
310 TTTTTTTATGCACCA
209270 AACT
1 AACT
209274 ACGATTCTAG
Statistics
Matches: 327, Mismatches: 0, Indels: 20
0.94 0.00 0.06
Matches are distributed among these distances:
326 13 0.04
327 32 0.10
328 1 0.00
329 22 0.07
330 76 0.23
331 1 0.00
332 76 0.23
333 3 0.01
334 50 0.15
339 3 0.01
340 35 0.11
342 15 0.05
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (324 bp):
AACTCGACCCATGTGATCCCTAATATTATATGATACATTATTGGGAATTACGTTAACTTATTTAT
TTATTGTTAAGAATGTAAAATTATAGTATTTGATTATTAGAATATAAGATTATTTAAAATTTTAT
TAAATTGCGCCTGTAATATTTTTGATAAATTTTAAATAATTTTTAATGTTTGTGTGAGTATTCGG
TTGGACGTTGGTCACTTAAACTAATTGGGTGGGATCGGCAAATGCCTTTGACCAACATTTCTTTC
TGGCTGCCCCAATCAAATAAATAAATAAATAAATAAATAACATGCTTTATTTTTTTATGCACCA
Found at i:209219 original size:4 final size:4
Alignment explanation
Indices: 209212--209241 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
209202 TGCCCCAATC
209212 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
209242 ATAACATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:213668 original size:28 final size:29
Alignment explanation
Indices: 213607--213742 Score: 130
Period size: 29 Copynumber: 4.7 Consensus size: 29
213597 CTTTTTAAAA
* * *
213607 TAATTACCAAAATAGCAACCTTTTCGAAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
*
213636 TAATTCCCAAAATAGCA-CAATTTCGAAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
* * ** * *
213664 TAATTCCCAGAATATCACCTTTTTCAAAAAA
1 TAATTCCCAAAATAGCACCCATTTC--GAAT
* *
213695 AAATTACCAAAATAGCACCCATTTCGAAT
1 TAATTCCCAAAATAGCACCCATTTCGAAT
*
213724 TAATTCCCAAAATAACACC
1 TAATTCCCAAAATAGCACC
213743 GGTCAACTGT
Statistics
Matches: 84, Mismatches: 20, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
28 24 0.29
29 39 0.46
31 21 0.25
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (29 bp):
TAATTCCCAAAATAGCACCCATTTCGAAT
Found at i:213772 original size:13 final size:13
Alignment explanation
Indices: 213754--213779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213744 GTCAACTGTT
213754 AACGGGTCGGGTC
1 AACGGGTCGGGTC
213767 AACGGGTCGGGTC
1 AACGGGTCGGGTC
213780 GGGTCAACGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
AACGGGTCGGGTC
Found at i:213779 original size:18 final size:17
Alignment explanation
Indices: 213756--213796 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
213746 CAACTGTTAA
213756 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAAC-GGT
213774 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
213791 CGGGTC
1 CGGGTC
213797 AACGGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.10, C:0.24, G:0.49, T:0.17
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:213793 original size:12 final size:12
Alignment explanation
Indices: 213776--213801 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
213766 CAACGGGTCG
213776 GGTCGGGTCAAC
1 GGTCGGGTCAAC
213788 GGTCGGGTCAAC
1 GGTCGGGTCAAC
213800 GG
1 GG
213802 GTAAACGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:213846 original size:11 final size:11
Alignment explanation
Indices: 213823--213853 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
213813 GTGACCGGTC
213823 AAACCGG-TTA
1 AAACCGGTTTA
213833 AAACCGGTTTA
1 AAACCGGTTTA
213844 AAACCGGTTT
1 AAACCGGTTT
213854 TCAGGGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (11 bp):
AAACCGGTTTA
Found at i:220838 original size:29 final size:29
Alignment explanation
Indices: 220812--220934 Score: 106
Period size: 29 Copynumber: 4.3 Consensus size: 29
220802 CTTTTTTTTT
220812 AAATAATTACCAAAATAGCACCCTTTTCG
1 AAATAATTACCAAAATAGCACCCTTTTCG
* * **
220841 AATTAATTCCCAAAATAGCACCAATTTCG
1 AAATAATTACCAAAATAGCACCCTTTTCG
* * * * * *
220870 AATTAATTCCCAGAATATCACCTTTTTCA
1 AAATAATTACCAAAATAGCACCCTTTTCG
* *
220899 AAAAAAATACCAAAA-AGCA-CCTATTTCG
1 AAATAATTACCAAAATAGCACCCT-TTTCG
*
220927 AATTAATT
1 AAATAATT
220935 CCCCGAATAG
Statistics
Matches: 73, Mismatches: 20, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
27 2 0.03
28 12 0.16
29 59 0.81
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (29 bp):
AAATAATTACCAAAATAGCACCCTTTTCG
Found at i:220895 original size:57 final size:57
Alignment explanation
Indices: 220815--220976 Score: 157
Period size: 57 Copynumber: 2.8 Consensus size: 57
220805 TTTTTTTAAA
* *
220815 TAATTACCAAAATAGCACCCTTTTCGAATTAATTCCCAAAATAGCACCAATTTCGAAT
1 TAATTCCCAGAATAGCA-CCTTTTCGAATTAATTCCCAAAATAGCACCAATTTCGAAT
* * ** * * *
220873 TAATTCCCAGAATATCACCTTTTTCAAAAAAAATACCAAAA-AGCACCTATTTCGAAT
1 TAATTCCCAGAATAGCACC-TTTTCGAATTAATTCCCAAAATAGCACCAATTTCGAAT
* ** * *
220930 TAATTCCCCGAATAGCA-CTAAATCGAATTAATTCTCAAAATAACACC
1 TAATTCCCAGAATAGCACCT-TTTCGAATTAATTCCCAAAATAGCACC
220977 GGTCAACGGT
Statistics
Matches: 81, Mismatches: 20, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
55 1 0.01
56 13 0.16
57 37 0.46
58 30 0.37
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.28
Consensus pattern (57 bp):
TAATTCCCAGAATAGCACCTTTTCGAATTAATTCCCAAAATAGCACCAATTTCGAAT
Found at i:221002 original size:13 final size:13
Alignment explanation
Indices: 220984--221013 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
220974 ACCGGTCAAC
220984 GGTCAACGGATCG
1 GGTCAACGGATCG
*
220997 GGTCAACGGGTCG
1 GGTCAACGGATCG
221010 GGTC
1 GGTC
221014 GGGTCAACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGGATCG
Found at i:221027 original size:12 final size:12
Alignment explanation
Indices: 221010--221035 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
221000 CAACGGGTCG
221010 GGTCGGGTCAAC
1 GGTCGGGTCAAC
221022 GGTCGGGTCAAC
1 GGTCGGGTCAAC
221034 GG
1 GG
221036 GTAAACGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:221027 original size:17 final size:18
Alignment explanation
Indices: 220994--221030 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
220984 GGTCAACGGA
220994 TCGGGTCAACGGGTCGGG
1 TCGGGTCAACGGGTCGGG
221012 TCGGGTCAAC-GGTCGGG
1 TCGGGTCAACGGGTCGGG
221029 TC
1 TC
221031 AACGGGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.11, C:0.24, G:0.46, T:0.19
Consensus pattern (18 bp):
TCGGGTCAACGGGTCGGG
Found at i:222238 original size:20 final size:20
Alignment explanation
Indices: 222213--222261 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
222203 CAACGAGTGA
222213 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
222233 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
222253 ATCGCAACG
1 ATCGCAACG
222262 AGAGAATCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:222328 original size:20 final size:20
Alignment explanation
Indices: 222303--222352 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
222293 TGCGATTCTT
222303 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
222323 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
222343 GTGTTGCGAT
1 GCGTTGCGAT
222353 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:222358 original size:20 final size:20
Alignment explanation
Indices: 222320--222374 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
222310 GATAGTCAAA
* **
222320 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
222340 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
222360 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
222375 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:222382 original size:20 final size:20
Alignment explanation
Indices: 222339--222382 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
222329 CGATAGTCAT
** *
222339 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
222359 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
222379 TTTC
1 TTTC
222383 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:224267 original size:20 final size:20
Alignment explanation
Indices: 224242--224381 Score: 193
Period size: 20 Copynumber: 7.3 Consensus size: 20
224232 AGAATAGTTT
224242 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
224262 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
224282 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
224298 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
224316 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
224336 ACTATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
224356 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
224376 ACTATC
1 ACTATC
224382 ACAACGAAAG
Statistics
Matches: 107, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
14 7 0.07
16 4 0.04
17 4 0.04
18 4 0.04
20 88 0.82
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:224358 original size:40 final size:40
Alignment explanation
Indices: 224242--224406 Score: 192
Period size: 40 Copynumber: 4.4 Consensus size: 40
224232 AGAATAGTTT
* *
224242 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCACAATGCGAAAATG
* *
224282 ACTATCGCAA--CG-AGA-GA--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCACAATGCGAAAATG
224316 ACTATCGCAATGCGAAAATGACTATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCACAATGCGAAAATG
**
224356 ACTATCGCAATGCGAATTTGACTATCACAA--CG-AAA-G
1 ACTATCGCAATGCGAAAATGACTATCACAATGCGAAAATG
224392 A--ATCGCAATGCGAAA
1 ACTATCGCAATGCGAAA
224407 TGAAAATCGC
Statistics
Matches: 112, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
34 39 0.35
36 6 0.05
37 7 0.06
38 6 0.05
40 54 0.48
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.18
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCACAATGCGAAAATG
Found at i:224475 original size:20 final size:20
Alignment explanation
Indices: 224430--224478 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
224420 GCGATTCTCT
*
224430 CGTTGCAATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTTG
* *
224450 CATTGCGATAGTC-ATTTTCG
1 CGTTGCGATAGTCAAATTT-G
224470 CGTTGCGAT
1 CGTTGCGAT
224479 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTTG
Found at i:224509 original size:33 final size:34
Alignment explanation
Indices: 224452--224545 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 34
224442 CAAATTTGCA
* * *
224452 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTTG
**
224486 TTGCGATTTTCA-TTTCGCATTGCGATTCTCTTG
1 TTGCGATAGTCATTTTCGCATTGCGATTCTCTTG
224519 TTGCGATAGTCATTTTCGCATTGCGAT
1 TTGCGATAGTCATTTTCGCATTGCGAT
224546 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 28 0.54
34 24 0.46
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCATTGCGATTCTCTTG
Found at i:224544 original size:20 final size:20
Alignment explanation
Indices: 224519--224565 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
224509 GATTCTCTTG
224519 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
224539 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTCGCA
224559 TTGCGAT
1 TTGCGAT
224566 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:224581 original size:87 final size:87
Alignment explanation
Indices: 224413--224582 Score: 245
Period size: 87 Copynumber: 2.0 Consensus size: 87
224403 GAAATGAAAA
224413 TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTTGCATTGCGATAGTCATTTTCGCGTTGCGA
1 TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTTGCATTGCGATAGTCATTTTCGCGTTGCGA
**
224478 TTTTGTTGTTGCGATTTTCATT
66 TTTTGAAGTTGCGATTTTCATT
* * * *
224500 TCGCATTGCGATTCTCTTGTTGCGATAGTC-ATTTTCGCATTGCGATAGTCATTTTTGCGTTGCG
1 TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTT-GCATTGCGATAGTCATTTTCGCGTTGCG
*
224564 ATTTT-AAGTTTCAGATTTT
65 ATTTTGAAGTTGC-GATTTT
224583 ATTCTTCTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 8 0.11
87 66 0.89
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.45
Consensus pattern (87 bp):
TCGCATTGCGATTCTCTCGTTGCAATAGTCAAATTTGCATTGCGATAGTCATTTTCGCGTTGCGA
TTTTGAAGTTGCGATTTTCATT
Found at i:226556 original size:13 final size:13
Alignment explanation
Indices: 226509--226561 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
226499 TTGATTGTTT
226509 AATTGATTTGTAA
1 AATTGATTTGTAA
*
226522 AAGATGATTTGTAA
1 AA-TTGATTTGTAA
**
226536 ATATTGATTTGTTT
1 A-ATTGATTTGTAA
*
226550 AATTGATGTGTA
1 AATTGATTTGTA
226562 CATAATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 11 0.34
14 20 0.62
15 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:226659 original size:20 final size:20
Alignment explanation
Indices: 226634--226675 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
226624 CATTATGTTG
226634 AATGCA-AAACAGACTATCGC
1 AATGCAGAAA-AGACTATCGC
*
226654 AATGCAGAAATGACTATCGC
1 AATGCAGAAAAGACTATCGC
226674 AA
1 AA
226676 CGAGAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (20 bp):
AATGCAGAAAAGACTATCGC
Done.