Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:624068 original size:7 final size:7
Alignment explanation
Indices: 624056--624083 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
624046 TTCGACAAGT
624056 GCCGAAA
1 GCCGAAA
624063 GCCGAAA
1 GCCGAAA
624070 GCCGAAA
1 GCCGAAA
624077 GCCGAAA
1 GCCGAAA
624084 ACCAAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.29, T:0.00
Consensus pattern (7 bp):
GCCGAAA
Found at i:626417 original size:2 final size:2
Alignment explanation
Indices: 626410--626447 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
626400 ATGCGTGCGT
626410 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
626448 TGGGGTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:626951 original size:58 final size:58
Alignment explanation
Indices: 626889--627007 Score: 132
Period size: 59 Copynumber: 2.0 Consensus size: 58
626879 CACATGTCCT
* * * * * **
626889 CAAAATAT-AATACTTATTTTAAATTGGTTCTTAAAATTTTAAATGTTTCAATTTCATC
1 CAAAATATGAATA-TAATTCTAAATTAGTCCTCAAAATTTTAAACATTTCAATTTCATC
* *
626947 CAAAAATATGATTATAATTCTAAATTAGTCCTCAAATTTTTAAACATTTCAATTTCATC
1 C-AAAATATGAATATAATTCTAAATTAGTCCTCAAAATTTTAAACATTTCAATTTCATC
627006 CA
1 CA
627008 TAAACTATTG
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
58 2 0.04
59 45 0.90
60 3 0.06
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (58 bp):
CAAAATATGAATATAATTCTAAATTAGTCCTCAAAATTTTAAACATTTCAATTTCATC
Found at i:627907 original size:34 final size:34
Alignment explanation
Indices: 627864--627931 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
627854 CCCTTGCTTT
627864 CTTACCACGTTTAGGCTATACCGATAAATCCGAA
1 CTTACCACGTTTAGGCTATACCGATAAATCCGAA
627898 CTTACCACGTTTAGGCTATACCGATAAATCCGAA
1 CTTACCACGTTTAGGCTATACCGATAAATCCGAA
627932 GAGCTGGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (34 bp):
CTTACCACGTTTAGGCTATACCGATAAATCCGAA
Found at i:630274 original size:15 final size:15
Alignment explanation
Indices: 630254--630283 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
630244 TATAAAAAAA
630254 CGTAATATTTTTTGT
1 CGTAATATTTTTTGT
630269 CGTAATATTTTTTGT
1 CGTAATATTTTTTGT
630284 TTCAACCTGA
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:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
CGTAATATTTTTTGT
Found at i:632014 original size:31 final size:30
Alignment explanation
Indices: 631927--632016 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 30
631917 GATATTATTT
*
631927 TGTTGAGTCCCCCAACTATTAAAAGTTACA
1 TGTTGAGTCCCTCAACTATTAAAAGTTACA
** ** * *
631957 TCATGA-TCCCTTTACTA-TAGAGAGTTACT
1 TGTTGAGTCCCTCAACTATTA-AAAGTTACA
*
631986 TGGTTGAGTCCCTCGACTATTAAAAGTTACA
1 T-GTTGAGTCCCTCAACTATTAAAAGTTACA
632017 AAATAGTCAT
Statistics
Matches: 43, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
28 2 0.05
29 16 0.37
30 7 0.16
31 16 0.37
32 2 0.05
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (30 bp):
TGTTGAGTCCCTCAACTATTAAAAGTTACA
Found at i:633212 original size:14 final size:14
Alignment explanation
Indices: 633193--633224 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
633183 GTAAAACAAT
*
633193 TTTTATGTAATTTA
1 TTTTATGTAAATTA
633207 TTTTATGTAAATTA
1 TTTTATGTAAATTA
633221 TTTT
1 TTTT
633225 TCATAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (14 bp):
TTTTATGTAAATTA
Found at i:634990 original size:14 final size:14
Alignment explanation
Indices: 634971--634998 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
634961 TGTGACTAAT
634971 TAATGAATTTTCAA
1 TAATGAATTTTCAA
634985 TAATGAATTTTCAA
1 TAATGAATTTTCAA
634999 GTAAATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATGAATTTTCAA
Found at i:635953 original size:17 final size:17
Alignment explanation
Indices: 635933--635967 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
635923 TTAATTATAG
635933 TTATATAATATATTTTA
1 TTATATAATATATTTTA
* *
635950 TTATTTAATATGTTTTA
1 TTATATAATATATTTTA
635967 T
1 T
635968 CTTAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTATATAATATATTTTA
Found at i:636180 original size:17 final size:18
Alignment explanation
Indices: 636147--636182 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
636137 GTCCGGTTCT
636147 TTTGACCGGTCAAACCGA
1 TTTGACCGGTCAAACCGA
636165 TTTGACCGGT-AAACCGA
1 TTTGACCGGTCAAACCGA
636182 T
1 T
636183 AACATGGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (18 bp):
TTTGACCGGTCAAACCGA
Found at i:636308 original size:32 final size:32
Alignment explanation
Indices: 636269--636329 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
636259 AACCTAAGAA
*
636269 AAAAGGTAATTACCCTAGTGATATATATTGAG
1 AAAAGGTAATTACCATAGTGATATATATTGAG
*
636301 AAAAGGTAATTACCATAGTGATTTATATT
1 AAAAGGTAATTACCATAGTGATATATATT
636330 AATATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (32 bp):
AAAAGGTAATTACCATAGTGATATATATTGAG
Found at i:637867 original size:22 final size:22
Alignment explanation
Indices: 637832--637882 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
637822 CTGAGTGGCA
* **
637832 TATGAGATTTGTCCCGAAGGACC
1 TATGA-ATATGTCCCGAAAAACC
637855 TATGAATATGTCCCGAAAAACC
1 TATGAATATGTCCCGAAAAACC
637877 TATGAA
1 TATGAA
637883 ACCCTCGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (22 bp):
TATGAATATGTCCCGAAAAACC
Found at i:638743 original size:21 final size:22
Alignment explanation
Indices: 638673--638744 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
638663 CTGAGTGGCA
* *
638673 TATGAGATTTGTCCCGAAAGACC
1 TATGA-ATATGTCCCGAAGGACC
*
638696 TATGAATATGTCCCAAAGGACC
1 TATGAATATGTCCCGAAGGACC
638718 TATGAATATGTCCCGAAGGA-C
1 TATGAATATGTCCCGAAGGACC
638739 TATGAA
1 TATGAA
638745 ACCCTCAACT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.16
22 33 0.73
23 5 0.11
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (22 bp):
TATGAATATGTCCCGAAGGACC
Found at i:639599 original size:20 final size:21
Alignment explanation
Indices: 639562--639600 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
639552 ACTCATTCCT
639562 ACTCAATAATCACTTCCTTAA
1 ACTCAATAATCACTTCCTTAA
639583 ACTCAA-AATC-CTATCCTT
1 ACTCAATAATCACT-TCCTT
639601 TATATGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 9 0.53
21 6 0.35
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTCAATAATCACTTCCTTAA
Found at i:645432 original size:29 final size:29
Alignment explanation
Indices: 645376--645432 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
645366 AAAATCGGGA
* * *
645376 TTAGTGACTAAATTGAAAGATTCTAAAAT
1 TTAGTGACCAAATTGAAAAATTCGAAAAT
645405 TTAGTGACCAAATTAGAAAAATT-GAAAA
1 TTAGTGACCAAATT-GAAAAATTCGAAAA
645433 GTTCAAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (29 bp):
TTAGTGACCAAATTGAAAAATTCGAAAAT
Found at i:646572 original size:2 final size:2
Alignment explanation
Indices: 646561--646590 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
646551 CCGATATAAG
646561 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
646591 TTACATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:646624 original size:10 final size:10
Alignment explanation
Indices: 646597--646637 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
646587 ATATTTACAT
646597 AAATTATATG
1 AAATTATATG
*
646607 ATGA-TATATG
1 A-AATTATATG
646617 AAATTATATG
1 AAATTATATG
646627 AAATTATATG
1 AAATTATATG
646637 A
1 A
646638 GTATAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 1 0.04
10 25 0.93
11 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (10 bp):
AAATTATATG
Found at i:647785 original size:23 final size:23
Alignment explanation
Indices: 647718--647785 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
647708 AGGATCATCT
* * *
647718 TATATGGCACTTTGGTGCATTTT
1 TATATGGCACTTCGGTGCAATTC
** * *
647741 TATGCGGCACTACGGTACAATTC
1 TATATGGCACTTCGGTGCAATTC
*
647764 TATATGGCACTTCGGTGTAATT
1 TATATGGCACTTCGGTGCAATT
647786 ACACGAGTTG
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (23 bp):
TATATGGCACTTCGGTGCAATTC
Found at i:662192 original size:38 final size:35
Alignment explanation
Indices: 662146--662439 Score: 270
Period size: 38 Copynumber: 7.9 Consensus size: 35
662136 TTAAATTTTT
*
662146 TTTTGAAAAAATATATAATATATGATTTTTCAAAAATA
1 TTTTGAAAAAATATATAATATAT-ATTTTT--AAAACA
** *
662184 TTTTGAAAACTTATATAATATATAGTTTTAAAACA
1 TTTTGAAAAAATATATAATATATATTTTTAAAACA
662219 TTTTGAAAATACATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAA-A-ATATATAATATATA-TTTTTAAAACA
* *
662257 TTTTGAAAACATATATATTATATAATTTTTTTAAAACA
1 TTTTGAAAA-A-ATATATAATAT-ATATTTTTAAAACA
* *
662295 TTTTGAAAACTTATATATATTATATAGTTTTTAAAACA
1 TTTTGAAAA--AATATATAATATATA-TTTTTAAAACA
*
662333 TTTTGAAAACATATATATAATATATAGTTTTGAAAACA
1 TTTTGAAAA-A-ATATATAATATATA-TTTTTAAAACA
* *
662371 TTTTTGAAAACATATAGT-ATATAGT-TTTTTGAAAATA
1 -TTTTGAAAAAATATA-TAATATA-TATTTTT-AAAACA
* * *
662408 TTTT-TAAATATATATAATATATAGTTTTAAAA
1 TTTTGAAAAAATATATAATATATATTTTTAAAA
662440 ATGTTTTTGA
Statistics
Matches: 217, Mismatches: 26, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
34 6 0.03
35 31 0.14
36 8 0.04
37 35 0.16
38 126 0.58
39 11 0.05
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
TTTTGAAAAAATATATAATATATATTTTTAAAACA
Found at i:662319 original size:76 final size:75
Alignment explanation
Indices: 662156--662439 Score: 311
Period size: 76 Copynumber: 3.8 Consensus size: 75
662146 TTTTGAAAAA
* *
662156 ATATATAATATAT-GATTTTTCAAAAATATTTTGAAAAC-T-TATATAATATATAGTTTTAAAAC
1 ATATATAATATATAG-TTTTT--AAAACATTTTGAAAACATATATATAATATATATTTTTAAAAC
*
662218 ATTTTGAAAA-TAC
63 ATTTTGAAAACT-T
* *
662231 ATATATAATATATAGTTTTTAAAACATTTTGAAAACATATATATTATATAATTTTTTTAAAACAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACATATATATAATAT-ATATTTTTAAAACAT
662296 TTTGAAAACTT
65 TTTGAAAACTT
* *
662307 ATATATATTATATAGTTTTTAAAACATTTTGAAAACATATATATAATATATAGTTTTGAAAACAT
1 ATATATAATATATAGTTTTTAAAACATTTTGAAAACATATATATAATATATA-TTTTTAAAACA-
662372 TTTTGAAAAC--
64 TTTTGAAAACTT
* * * *
662382 --ATATAGTATATAGTTTTTTGAAAATATTTT--TAA-ATATATATAATATATAGTTTTAAAA
1 ATATATAATATATAG-TTTTT-AAAACATTTTGAAAACATATATATAATATATATTTTTAAAA
662440 ATGTTTTTGA
Statistics
Matches: 186, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
71 7 0.04
72 16 0.09
73 29 0.16
74 6 0.03
75 38 0.20
76 79 0.42
77 11 0.06
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (75 bp):
ATATATAATATATAGTTTTTAAAACATTTTGAAAACATATATATAATATATATTTTTAAAACATT
TTGAAAACTT
Found at i:662572 original size:17 final size:17
Alignment explanation
Indices: 662550--662594 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
662540 CGAGTCCAAT
662550 TCCAAGTCCAACAAGGG
1 TCCAAGTCCAACAAGGG
* *
662567 TCCAAGTCTAGCAAGGG
1 TCCAAGTCCAACAAGGG
662584 TCCAAGTCCAA
1 TCCAAGTCCAA
662595 TATGCCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (17 bp):
TCCAAGTCCAACAAGGG
Found at i:663789 original size:23 final size:23
Alignment explanation
Indices: 663739--663781 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
663729 AGTTATTCAT
663739 TTTTTCCATTTTCAATTTTAGCA
1 TTTTTCCATTTTCAATTTTAGCA
*
663762 TTTTTCCCTTTT-AATTTTAG
1 TTTTTCCATTTTCAATTTTAG
663782 TATGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.19, C:0.16, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTTCCATTTTCAATTTTAGCA
Found at i:663895 original size:26 final size:27
Alignment explanation
Indices: 663859--663910 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
663849 TACTTAACAT
*
663859 TTTTATATTTTTCCTTTTGATTTATTG
1 TTTTATATTTTTCCCTTTGATTTATTG
663886 TTTTAT-TTTTTCCCTTTGATTTATT
1 TTTTATATTTTTCCCTTTGATTTATT
663911 TAATATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (27 bp):
TTTTATATTTTTCCCTTTGATTTATTG
Found at i:663952 original size:29 final size:29
Alignment explanation
Indices: 663866--663944 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 29
663856 CATTTTTATA
* * *
663866 TTTTTCCTTTTGATTTA-TT-GT-TTTAT
1 TTTTTCCCTTTGATTTATTTAATATTTCT
663892 TTTTTCCCTTTGATTTATTTAATATTTCT
1 TTTTTCCCTTTGATTTATTTAATATTTCT
*
663921 TTTTTTCC-TTGATTTATTTAATAT
1 TTTTTCCCTTTGATTTATTTAATAT
663945 CTATTTTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.35
27 2 0.04
28 17 0.37
29 11 0.24
ACGTcount: A:0.16, C:0.10, G:0.05, T:0.68
Consensus pattern (29 bp):
TTTTTCCCTTTGATTTATTTAATATTTCT
Found at i:664371 original size:25 final size:25
Alignment explanation
Indices: 664340--664401 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
664330 TTGTTTACTA
*
664340 TTTTTTGAATAGTTATTCGATGATT
1 TTTTTTGAATAGTTATTCGATAATT
664365 TTTTTTGAATAGTTATTCGATAATT
1 TTTTTTGAATAGTTATTCGATAATT
664390 TTTTTTGAATAG
1 TTTTTTGAATAG
664402 AAATATCGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (25 bp):
TTTTTTGAATAGTTATTCGATAATT
Found at i:668555 original size:30 final size:30
Alignment explanation
Indices: 668521--668666 Score: 148
Period size: 31 Copynumber: 4.7 Consensus size: 30
668511 CCTGAGAGCG
* * *
668521 TACCCGAGAAGGTCTTAGGGCCACGGGGCC
1 TACCCAAGAAGATCTCAGGGCCACGGGGCC
* *
668551 TACCCAAGAAAGCTCTCAGGGCCACAGGGCC
1 TACCCAAG-AAGATCTCAGGGCCACGGGGCC
*
668582 TACCCAATAATGATCTCAGGGCCACGGGGCC
1 TACCCAAGAA-GATCTCAGGGCCACGGGGCC
* * ***
668613 TACCCAAGAAAAATCTCAAGGCCGTAGGGCC
1 TACCCAAG-AAGATCTCAGGGCCACGGGGCC
*
668644 TACCCAAGAATGATCTCGGGGCC
1 TACCCAAGAA-GATCTCAGGGCC
668667 GCAGAGTCAC
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
30 11 0.11
31 83 0.86
32 2 0.02
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (30 bp):
TACCCAAGAAGATCTCAGGGCCACGGGGCC
Found at i:668609 original size:62 final size:62
Alignment explanation
Indices: 668537--668666 Score: 197
Period size: 62 Copynumber: 2.1 Consensus size: 62
668527 AGAAGGTCTT
** * *
668537 AGGGCCACGGGGCCTACCCAAGAAAGCTCTCAGGGCCACAGGGCCTACCCAATAATGATCTC
1 AGGGCCACGGGGCCTACCCAAGAAAAATCTCAAGGCCACAGGGCCTACCCAAGAATGATCTC
**
668599 AGGGCCACGGGGCCTACCCAAGAAAAATCTCAAGGCCGTAGGGCCTACCCAAGAATGATCTC
1 AGGGCCACGGGGCCTACCCAAGAAAAATCTCAAGGCCACAGGGCCTACCCAAGAATGATCTC
*
668661 GGGGCC
1 AGGGCC
668667 GCAGAGTCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.28, C:0.32, G:0.28, T:0.12
Consensus pattern (62 bp):
AGGGCCACGGGGCCTACCCAAGAAAAATCTCAAGGCCACAGGGCCTACCCAAGAATGATCTC
Found at i:668667 original size:31 final size:31
Alignment explanation
Indices: 668537--668666 Score: 161
Period size: 31 Copynumber: 4.2 Consensus size: 31
668527 AGAAGGTCTT
* *
668537 AGGGCCACGGGGCCTACCCAAGAAAGCTCTC
1 AGGGCCACAGGGCCTACCCAAGAAAGATCTC
* *
668568 AGGGCCACAGGGCCTACCCAATAATGATCTC
1 AGGGCCACAGGGCCTACCCAAGAAAGATCTC
* *
668599 AGGGCCACGGGGCCTACCCAAGAAAAATCTC
1 AGGGCCACAGGGCCTACCCAAGAAAGATCTC
* ** *
668630 AAGGCCGTAGGGCCTACCCAAGAATGATCTC
1 AGGGCCACAGGGCCTACCCAAGAAAGATCTC
*
668661 GGGGCC
1 AGGGCC
668667 GCAGAGTCAC
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.28, C:0.32, G:0.28, T:0.12
Consensus pattern (31 bp):
AGGGCCACAGGGCCTACCCAAGAAAGATCTC
Found at i:671174 original size:16 final size:16
Alignment explanation
Indices: 671153--671184 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
671143 CCGATCAGCG
671153 GCGGTCAACAGTCAAC
1 GCGGTCAACAGTCAAC
*
671169 GCGGTCAACTGTCAAC
1 GCGGTCAACAGTCAAC
671185 AGGTCAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.31, G:0.25, T:0.16
Consensus pattern (16 bp):
GCGGTCAACAGTCAAC
Found at i:672650 original size:14 final size:14
Alignment explanation
Indices: 672632--672668 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
672622 TTGACTCGAT
672632 CGAGTTAACTCATC
1 CGAGTTAACTCATC
* *
672646 TGAGTCAACTCATC
1 CGAGTTAACTCATC
672660 CGAGTTAAC
1 CGAGTTAAC
672669 CCGTTGACTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (14 bp):
CGAGTTAACTCATC
Found at i:687417 original size:21 final size:21
Alignment explanation
Indices: 687391--687436 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
687381 TATCTTCGAA
687391 GCCTTTGCATATTTCTATAGT
1 GCCTTTGCATATTTCTATAGT
687412 GCCTTTGCATATTTCTATAGT
1 GCCTTTGCATATTTCTATAGT
687433 GCCT
1 GCCT
687437 ATTTCATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (21 bp):
GCCTTTGCATATTTCTATAGT
Found at i:690273 original size:21 final size:21
Alignment explanation
Indices: 690235--690276 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
690225 TAAAAATGGG
*
690235 TTTTGATTTTATGATTGATTT
1 TTTTGATTTGATGATTGATTT
* *
690256 TTTTGATTTGGTGTTTGATTT
1 TTTTGATTTGATGATTGATTT
690277 GGGTAATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.67
Consensus pattern (21 bp):
TTTTGATTTGATGATTGATTT
Found at i:690653 original size:3 final size:3
Alignment explanation
Indices: 690645--690710 Score: 80
Period size: 3 Copynumber: 21.3 Consensus size: 3
690635 CTGTAAAATG
* *
690645 ATA ATA ATA A-A ATTA GATA ATA ATA ATA CTA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA A-TA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
690691 ATAA ATA ATA ATA ATA ATA A
1 AT-A ATA ATA ATA ATA ATA A
690711 AAACTCGGGC
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 46 0.84
4 6 0.11
5 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:690687 original size:28 final size:28
Alignment explanation
Indices: 690645--690712 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
690635 CTGTAAAATG
690645 ATAATAATAAAATTAGATAAT-AATAATA
1 ATAATAATAAAATTA-ATAATAAATAATA
* *
690673 CTAATAATAATATTAATAATAAATAATA
1 ATAATAATAAAATTAATAATAAATAATA
690701 ATAATAATAAAA
1 ATAATAATAAAA
690713 ACTCGGGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
ATAATAATAAAATTAATAATAAATAATA
Found at i:691208 original size:137 final size:137
Alignment explanation
Indices: 690994--691276 Score: 345
Period size: 137 Copynumber: 2.1 Consensus size: 137
690984 GAAGTCTGGC
* *
690994 TATCTAAGGGTGACACGACTCATACATGATGAGGAGATATGGTCGGTGGATGACACAGTTCTTAC
1 TATCTAAGGGTGACACGACTCATACATGATGAGGAGATATGGTCAGTGGATGACACAGTTCCTAC
* * * * * *
691059 GTGATGAGGATGA-TAGGCCATATTTAGGGATAATGGTGATAACACATTTCTTACG-CCTCGAGG
66 ATGATGAAGATGACT-GACCATATTTAGGGATAATGGTGATAACACAATTCCTACGTCAT-GAGG
691122 ACGGTTGGT
129 ACGGTTGGT
* * * * * * ** *
691131 TATCTAAGGTTGACAGGGCTCCTACGTGATGAGGAGATCTGGTCAGTGGATGACATGGTTCCTAT
1 TATCTAAGGGTGACACGACTCATACATGATGAGGAGATATGGTCAGTGGATGACACAGTTCCTAC
* * * *
691196 ATGATGAAGATGACTGACCATCTTTAGGGATAATGGTGATAACACAATTCCTATGTGATGAGGAT
66 ATGATGAAGATGACTGACCATATTTAGGGATAATGGTGATAACACAATTCCTACGTCATGAGGAC
691261 GGTTGGT
131 GGTTGGT
691268 TATCTAAGG
1 TATCTAAGG
691277 ATGATGTGGT
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
137 121 0.98
138 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (137 bp):
TATCTAAGGGTGACACGACTCATACATGATGAGGAGATATGGTCAGTGGATGACACAGTTCCTAC
ATGATGAAGATGACTGACCATATTTAGGGATAATGGTGATAACACAATTCCTACGTCATGAGGAC
GGTTGGT
Found at i:692340 original size:19 final size:19
Alignment explanation
Indices: 692299--692357 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
692289 ATTTATTTAT
*
692299 TTATTTTTCTTTATTTCTTTC
1 TTATTTTTC-CTATTT-TTTC
* *
692320 TTATTTTTTCTCTTTTTTC
1 TTATTTTTCCTATTTTTTC
*
692339 TTGTTTTTCCTATTTTTTC
1 TTATTTTTCCTATTTTTTC
692358 CATTTTCTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 20 0.62
20 4 0.12
21 8 0.25
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTCCTATTTTTTC
Found at i:699121 original size:7 final size:7
Alignment explanation
Indices: 699088--699138 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
699078 ATCTTTTGAG
699088 AATG-AA
1 AATGCAA
699094 AATGCAAA
1 AATGC-AA
699102 AATGCAA
1 AATGCAA
*
699109 TGATGCAA
1 -AATGCAA
*
699117 AATGCAT
1 AATGCAA
699124 AATGC-A
1 AATGCAA
699130 AATGCAA
1 AATGCAA
699137 AA
1 AA
699139 GGTATTGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
6 9 0.24
7 15 0.41
8 13 0.35
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.18
Consensus pattern (7 bp):
AATGCAA
Found at i:699122 original size:23 final size:20
Alignment explanation
Indices: 699088--699138 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
699078 ATCTTTTGAG
699088 AATG-AAAATGCAAAAATGCA
1 AATGCAAAATGC-AAAATGCA
*
699108 ATGATGCAAAATGCATAATGCA
1 A--ATGCAAAATGCAAAATGCA
699130 AATGCAAAA
1 AATGCAAAA
699139 GGTATTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 9 0.33
22 11 0.41
23 7 0.26
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.18
Consensus pattern (20 bp):
AATGCAAAATGCAAAATGCA
Found at i:702795 original size:44 final size:46
Alignment explanation
Indices: 702736--702826 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 46
702726 TGTCACATAG
* * * * *
702736 AATGTCCCGAAGGACCACACAG-A-TGTCCCGAAGGACCGCGTAGA
1 AATGTACCGAAGGACCACAAAGTATTATCCCAAAGGACCACGTAGA
702780 AATGTACCGAAGGACCACAAAGTATTATCCCAAAGGACCACGTAGA
1 AATGTACCGAAGGACCACAAAGTATTATCCCAAAGGACCACGTAGA
702826 A
1 A
702827 CCCTCAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 20 0.50
45 1 0.03
46 19 0.47
ACGTcount: A:0.37, C:0.26, G:0.23, T:0.13
Consensus pattern (46 bp):
AATGTACCGAAGGACCACAAAGTATTATCCCAAAGGACCACGTAGA
Found at i:702945 original size:28 final size:30
Alignment explanation
Indices: 702914--702970 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
702904 ACAATTTTCA
702914 ATTAT-TCACATAGTTC-AATA-TCACATAT
1 ATTATATCACAT-GTTCAAATAGTCACATAT
*
702942 ATTATATCATATGTTCAAATAGTCACATA
1 ATTATATCACATGTTCAAATAGTCACATA
702971 GACCTTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (30 bp):
ATTATATCACATGTTCAAATAGTCACATAT
Found at i:702990 original size:44 final size:45
Alignment explanation
Indices: 702907--703077 Score: 204
Period size: 45 Copynumber: 3.8 Consensus size: 45
702897 ACATTTCACA
* * *
702907 ATTTTCA-ATTATTCACATAGTTCAATATCACATATATTATATCAT
1 ATTTTCATA-TATTCACGTAGATCAATATCACATAGATTATATCAT
* * * * ** *
702952 ATGTTCAAATAGTCACATAGA-CCTTATCACATAGATTATATCAC
1 ATTTTCATATATTCACGTAGATCAATATCACATAGATTATATCAT
*
702996 ATTTTCATATATTCACGTAGATCAGTATCACATA-ATTTATATCAT
1 ATTTTCATATATTCACGTAGATCAATATCACATAGA-TTATATCAT
703041 ATTTTCATATATTCACGTAGATCAATATCACATAGAT
1 ATTTTCATATATTCACGTAGATCAATATCACATAGAT
703078 CATCACATAG
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
44 37 0.35
45 68 0.64
46 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.39
Consensus pattern (45 bp):
ATTTTCATATATTCACGTAGATCAATATCACATAGATTATATCAT
Found at i:703025 original size:89 final size:91
Alignment explanation
Indices: 702902--703077 Score: 225
Period size: 89 Copynumber: 2.0 Consensus size: 91
702892 TTTACACATT
*
702902 TCACAATTTTCAATTATTCACATAGTTCAATATCACAT-ATATTATATCATATGTTCAAATAGTC
1 TCACAATTTTCAATTATTCACATAGATCAATATCACATAAT-TTATATCATATGTTCAAATAGTC
**
702966 ACATAGA-CCTTATCACATAGATTATA
65 ACATAGATCAATATCACATAGATTATA
* * * * *
702992 TCAC-ATTTTC-ATATATTCACGTAGATCAGTATCACATAATTTATATCATATTTTCATATATTC
1 TCACAATTTTCAAT-TATTCACATAGATCAATATCACATAATTTATATCATATGTTCAAATAGTC
*
703055 ACGTAGATCAATATCACATAGAT
65 ACATAGATCAATATCACATAGAT
703078 CATCACATAG
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
88 2 0.03
89 53 0.72
90 19 0.26
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.39
Consensus pattern (91 bp):
TCACAATTTTCAATTATTCACATAGATCAATATCACATAATTTATATCATATGTTCAAATAGTCA
CATAGATCAATATCACATAGATTATA
Found at i:714089 original size:20 final size:20
Alignment explanation
Indices: 714060--714098 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
714050 ATTTCACCAC
*
714060 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
714080 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
714099 TATGAGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:722850 original size:23 final size:22
Alignment explanation
Indices: 722776--722851 Score: 66
Period size: 23 Copynumber: 3.5 Consensus size: 22
722766 TAGTGAAGTG
* *
722776 CCACATAGAATGTCCCGATGGA
1 CCACATAGAATGTCCCAAAGGA
**
722798 TGACATAG-ATGTCCCGAAA-GA
1 CCACATAGAATGTCCC-AAAGGA
* *
722819 CCGCGTAGAAATGTCCCAAAGGA
1 CCACATAG-AATGTCCCAAAGGA
722842 CCACATAGAA
1 CCACATAGAA
722852 CCCTCGAGTC
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
21 13 0.32
22 12 0.30
23 15 0.38
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (22 bp):
CCACATAGAATGTCCCAAAGGA
Found at i:722995 original size:45 final size:45
Alignment explanation
Indices: 722927--723101 Score: 169
Period size: 45 Copynumber: 3.9 Consensus size: 45
722917 TTTACACATT
*
722927 TCACATTTTCA-ATTATTCACATAGTTCAGTATCACATAGATTAAA
1 TCACATTTTCATA-TATTCACATAGTTCAGTATCACATAGATTATA
* * * * * ** *
722972 TCATATGTTCACATAGTCACATAG-ACCTTATCACATAGCTTATA
1 TCACATTTTCATATATTCACATAGTTCAGTATCACATAGATTATA
* * * * *
723016 TCACCTTTTTATATATTCACGTAGATCAATATCACAT-GATTTATA
1 TCACATTTTCATATATTCACATAGTTCAGTATCACATAGA-TTATA
723061 TCACATTTTCATATATTCACATAGATT-AGTATCACATAGAT
1 TCACATTTTCATATATTCACATAG-TTCAGTATCACATAGAT
723102 CATCATATAG
Statistics
Matches: 101, Mismatches: 24, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
44 33 0.33
45 64 0.63
46 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.38
Consensus pattern (45 bp):
TCACATTTTCATATATTCACATAGTTCAGTATCACATAGATTATA
Found at i:723186 original size:16 final size:16
Alignment explanation
Indices: 723165--723214 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
723155 CTCATATATC
723165 CACATAGATCATGTAA
1 CACATAGATCATGTAA
*
723181 CACATAGAAAAACATGTAA
1 CACATAG---ATCATGTAA
*
723200 CACATAGCTCATGTA
1 CACATAGATCATGTA
723215 TAACAGTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.46
19 15 0.54
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (16 bp):
CACATAGATCATGTAA
Found at i:725621 original size:63 final size:62
Alignment explanation
Indices: 725541--725678 Score: 231
Period size: 63 Copynumber: 2.2 Consensus size: 62
725531 TTGGGAATTA
* *
725541 CAAACTCAAAAATAATATTTAAATTATGATCCTTCTATTTATTCAAATATATTTAAAAAGTTT
1 CAAACTCAAAAACAATATTTAAATTATGATCCTTCTATTTATTCAAATATATTT-AAAAGTGT
725604 CAAACTCAAAAACAATATTTAAATTATGATCCTTCTATTTATTCAAATATATTTAAAAGTGT
1 CAAACTCAAAAACAATATTTAAATTATGATCCTTCTATTTATTCAAATATATTTAAAAGTGT
*
725666 CAATCTCTAAAAA
1 CAAACTC-AAAAA
725679 TAACCTAAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
62 13 0.18
63 58 0.82
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (62 bp):
CAAACTCAAAAACAATATTTAAATTATGATCCTTCTATTTATTCAAATATATTTAAAAGTGT
Found at i:727456 original size:24 final size:25
Alignment explanation
Indices: 727403--727463 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
727393 AAACATAATT
*
727403 CAGGTAAAGTA-TCAGATCAAAATC
1 CAGGTCAAGTATTCAGATCAAAATC
*
727427 CAGGTCAAGTATTC-GATCAGAATC
1 CAGGTCAAGTATTCAGATCAAAATC
*
727451 CAGGTCAGGTATT
1 CAGGTCAAGTATT
727464 ATAATAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 31 0.94
25 2 0.06
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (25 bp):
CAGGTCAAGTATTCAGATCAAAATC
Found at i:733318 original size:23 final size:23
Alignment explanation
Indices: 733292--733339 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
733282 ATATAATAAA
733292 TAATATTAATTA-TTATAAAATAT
1 TAATATT-ATTATTTATAAAATAT
*
733315 TAATATTATTATTTTTAAAATAT
1 TAATATTATTATTTATAAAATAT
733338 TA
1 TA
733340 GAATAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATATTATTATTTATAAAATAT
Found at i:733322 original size:19 final size:18
Alignment explanation
Indices: 733266--733326 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
733256 TACAAACTAT
733266 TTATTAT-AAATATTAAA
1 TTATTATAAAATATTAAA
*
733283 -TATAATAAATAATATT-AA
1 TTATTAT-AA-AATATTAAA
733301 TTATTATAAAATATTAATA
1 TTATTATAAAATATTAA-A
733320 TTATTAT
1 TTATTAT
733327 TTTTAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 6 0.17
18 6 0.17
19 19 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATTATAAAATATTAAA
Found at i:733454 original size:12 final size:12
Alignment explanation
Indices: 733434--733477 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
733424 TAAAATAAGA
*
733434 ATATAATATCAT
1 ATATAATATAAT
*
733446 ATATTATATAAT
1 ATATAATATAAT
733458 ATATAATATAAT
1 ATATAATATAAT
733470 -TA-AATATA
1 ATATAATATA
733478 TTATTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 6 0.21
11 2 0.07
12 21 0.72
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATAATATAAT
Found at i:733465 original size:29 final size:30
Alignment explanation
Indices: 733415--733500 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 30
733405 ATAATTTTTT
*
733415 ATATATTAT-TAAAATAAGAATATAA-TATC
1 ATATATTATATAAAATAAGAATATAATTA-A
* *
733444 ATATATTATATAATAT-ATAATATAATTAA
1 ATATATTATATAAAATAAGAATATAATTAA
*
733473 ATATATTATTATAAACTAA-AAGTATAAT
1 ATATATTA-TATAAAATAAGAA-TATAAT
733501 ATTATCTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
29 25 0.53
30 15 0.32
31 7 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATATTATATAAAATAAGAATATAATTAA
Found at i:733466 original size:17 final size:17
Alignment explanation
Indices: 733434--733485 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
733424 TAAAATAAGA
733434 ATATAATATCAT-ATATT
1 ATATAATAT-ATAATATT
*
733451 ATATAATATATAATATA
1 ATATAATATATAATATT
*
733468 AT-TAA-ATATATTATT
1 ATATAATATATAATATT
733483 ATA
1 ATA
733486 AACTAAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.33
16 5 0.17
17 15 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATATATAATATT
Found at i:734027 original size:32 final size:32
Alignment explanation
Indices: 733986--734049 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
733976 TTAACACTTA
733986 AACTTTAGATAAAATACGAATGATGAGTCTTT
1 AACTTTAGATAAAATACGAATGATGAGTCTTT
* *
734018 AACTTTAGATAAAATATGAATTATGAGTCTTT
1 AACTTTAGATAAAATACGAATGATGAGTCTTT
734050 GTGTAAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (32 bp):
AACTTTAGATAAAATACGAATGATGAGTCTTT
Found at i:736613 original size:35 final size:35
Alignment explanation
Indices: 736567--736638 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
736557 CCAAAAAAGA
* *
736567 AGAGTTGGATTAGGACTTAAATATTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
736602 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
736637 AG
1 AG
736639 GATTTTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (35 bp):
AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
Found at i:737731 original size:18 final size:18
Alignment explanation
Indices: 737666--737733 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
737656 ATTACTTTAC
*
737666 TATTTTTT-TCCTTATCT
1 TATTTTTTATCTTTATCT
737683 TATTTATTTAT-TTTAT-T
1 TATTT-TTTATCTTTATCT
*
737700 TATTTTATTCTCTTTATCT
1 TATTTT-TTATCTTTATCT
737719 TATTTGTTT-TCTTTA
1 TATTT-TTTATCTTTA
737734 CCTTGTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
16 1 0.02
17 14 0.33
18 18 0.42
19 9 0.21
20 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.01, T:0.72
Consensus pattern (18 bp):
TATTTTTTATCTTTATCT
Found at i:746107 original size:106 final size:106
Alignment explanation
Indices: 745874--746717 Score: 1088
Period size: 106 Copynumber: 8.0 Consensus size: 106
745864 ATATCGCGCC
* * * *
745874 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACCACTTT-T
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAA-CAATTTCC
*
745938 CAGTTTCATTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
65 CA--AT--TTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* *
745984 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
746049 AATTTCAGA-CTCAATTTTAACTTCACATCGAAGGATGTTGG
66 AATTTCAGAGC-CAATTTCAACTTCACATCGAAGGATATTGG
* * *
746090 ACTCGGGACAACACAAGTTCAACATCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* *
746155 AATTTCAGAGTCAATTTCAACTTCACATCGAAGGATGTTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * * *
746196 ACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGACGACTAGTTGTCAACAAACAATCTCCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
746261 AATTTCAGAGCCAA--T--A-GT---A---AAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * * *
746291 ACTCGAGACGACACAAGTTAAACTTCACAACGAAGGGACGACGGGTTGTCAACAAACAATTTCCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
746356 AATTTCAGGGTCAATTTCAACTTCACATAGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* *
746397 ACTCGAGAC--CATAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
746460 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* *
746501 ACTCGAGACGACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * *
746566 AATTTCAGGGTCAATTTCAACTTCACATCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
* * * * * * * *
746607 ACTCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGTTGGCTGTCAACAAACAATTTTCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * ** *
746672 AGTTCCAGAGCCAATTTCAACTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
746713 ACTCG
1 ACTCG
746718 GAACAATACA
Statistics
Matches: 652, Mismatches: 66, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
95 81 0.12
97 1 0.00
98 1 0.00
99 1 0.00
100 1 0.00
101 1 0.00
102 1 0.00
103 1 0.00
104 95 0.15
105 1 0.00
106 408 0.63
108 1 0.00
109 5 0.01
110 54 0.08
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
Found at i:746526 original size:305 final size:306
Alignment explanation
Indices: 745973--746573 Score: 943
Period size: 305 Copynumber: 2.0 Consensus size: 306
745963 CTTCACATCG
* * * * *
745973 AAGGATATTGGACTCGGGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACA
1 AAGGATATTGGACTCGAGACAACACAAGTTAAACTTCACAACGAAGGGACGACGGGTTGTCAACA
* * * *
746038 AACAATTTCCCAATTTCAGACTCAATTTTAACTTCACATCGAAGGATGTTGGACTCGGGACAACA
66 AACAATTTCCCAATTTCAGACTCAATTTCAACTTCACATAGAAGGATATTGGACTCGAGAC-ACA
* *
746103 CAAGTTCAACATCACAACGAAGGGATGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGTCA
130 CAAGTTCAACATCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCA
* * *
746168 ATTTCAACTTCACATCGAAGGATGTTGGACTCGGGACAACACAAGTTCAACTTCACAACGAAGGG
195 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
*
746233 ACGACTAGTTGTCAACAAACAATCTCCTAATTTCAGAGCCAATAGTA
260 ACGACTAGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGTA
*
746280 AAGGATATTGGACTCGAGACGACACAAGTTAAACTTCACAACGAAGGGACGACGGGTTGTCAACA
1 AAGGATATTGGACTCGAGACAACACAAGTTAAACTTCACAACGAAGGGACGACGGGTTGTCAACA
* ** *
746345 AACAATTTCCTAATTTCAGGGTCAATTTCAACTTCACATAGAAGGATATTGGACTCGAGAC-CAT
66 AACAATTTCCCAATTTCAGACTCAATTTCAACTTCACATAGAAGGATATTGGACTCGAGACACAC
* *
746409 AAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAA
131 AAGTTCAACATCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAA
* *
746474 TTTCAACTTCACAGCGAAGGATATTGGACTCGAGACGACACAAGTTCAACTTCACAATGAAGGGA
196 TTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA
* * *
746539 CGGCTGGTTGTCAACAAACAATTTCCCAATTTCAG
261 CGACTAGTTGTCAACAAACAATCTCCCAATTTCAG
746574 GGTCAATTTC
Statistics
Matches: 267, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
305 154 0.58
307 113 0.42
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (306 bp):
AAGGATATTGGACTCGAGACAACACAAGTTAAACTTCACAACGAAGGGACGACGGGTTGTCAACA
AACAATTTCCCAATTTCAGACTCAATTTCAACTTCACATAGAAGGATATTGGACTCGAGACACAC
AAGTTCAACATCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAA
TTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA
CGACTAGTTGTCAACAAACAATCTCCCAATTTCAGAGCCAATAGTA
Found at i:747247 original size:35 final size:35
Alignment explanation
Indices: 747201--747270 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
747191 CCAAAAAAGA
*
747201 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAAGACTCAAATACTAGTCTAAAAT
747236 AGAGTTGGATTAAGACTCAAATACTAGTCTAAAAT
1 AGAGTTGGATTAAGACTCAAATACTAGTCTAAAAT
747271 TGGATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (35 bp):
AGAGTTGGATTAAGACTCAAATACTAGTCTAAAAT
Found at i:747673 original size:17 final size:18
Alignment explanation
Indices: 747647--747686 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
747637 ATTATATGGA
747647 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
747663 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
747681 TATTAT
1 TATTAT
747687 ACGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:749044 original size:26 final size:25
Alignment explanation
Indices: 749000--749056 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 25
748990 TTGATCCATT
*
749000 ACAAACTATTTTCCAAAATAGTTAA
1 ACAAAGTATTTTCCAAAATAGTTAA
749025 ACAAAGTATTTTTCCAAAATAGTTAA
1 ACAAAGTA-TTTTCCAAAATAGTTAA
749051 ACAAAG
1 ACAAAG
749057 CTAATAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.30
Consensus pattern (25 bp):
ACAAAGTATTTTCCAAAATAGTTAA
Found at i:749581 original size:55 final size:55
Alignment explanation
Indices: 749451--749855 Score: 564
Period size: 55 Copynumber: 7.4 Consensus size: 55
749441 TTTGTGGGTT
* * * * *
749451 TTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGT-GGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * *
749505 TTGCACACATAGTGTCAATACGGAAATTCATCAACTCATTATGAATTTCATGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
749560 TTGCACACATAGTGCCAATACGG-AATTCATAAACTCATTATGAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * *
749614 TTGCACACATAGTGCCAATACGGAAATTAATAAACTCGTTATGAATATCGTGAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* *
749669 ATGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCCTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* *
749724 TTGCACACATAGTTCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGA
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * ** ***
749779 TTTCGCACAAAGT-AAAATAAACAAATTCATAAACTCATTATGAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
*
749833 TTGCACACATAGTACCAATACGG
1 TTGCACACATAGTGCCAATACGG
749856 TAGTTGCAAC
Statistics
Matches: 308, Mismatches: 40, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
54 142 0.46
55 166 0.54
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (55 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
Found at i:749650 original size:109 final size:110
Alignment explanation
Indices: 749451--749855 Score: 564
Period size: 109 Copynumber: 3.7 Consensus size: 110
749441 TTTGTGGGTT
* * * * *
749451 TTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTACGT-GGGTTGCACACAT
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
* * *
749515 AGTGTCAATACGGAAATTCATCAACTCATTATGAATTTCATGGGG
66 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
749560 TTGCACACATAGTGCCAATACGG-AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
* * * *
749624 AGTGCCAATACGGAAATTAATAAACTCGTTATGAATATCGTGAGG
66 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* *
749669 ATGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCCTGGGGTTGCACACAT
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
* *
749734 AGTTCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGA
66 AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * ** ***
749779 TTTCGCACAAAGT-AAAATAAACAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
*
749843 AGTACCAATACGG
66 AGTGCCAATACGG
749856 TAGTTGCAAC
Statistics
Matches: 264, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
108 25 0.09
109 151 0.57
110 88 0.33
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (110 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACAT
AGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
Found at i:753454 original size:24 final size:24
Alignment explanation
Indices: 753427--753488 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
753417 ACTTGAATTA
*
753427 TGTTCTGATTTCTGATCTGGATTC
1 TGTTTTGATTTCTGATCTGGATTC
753451 TGTTTTGATTTCTGATCTGGATTC
1 TGTTTTGATTTCTGATCTGGATTC
*
753475 TGTTTTGATATCTG
1 TGTTTTGATTTCTG
753489 GAGAAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.53
Consensus pattern (24 bp):
TGTTTTGATTTCTGATCTGGATTC
Found at i:757738 original size:55 final size:55
Alignment explanation
Indices: 757627--757950 Score: 445
Period size: 55 Copynumber: 5.9 Consensus size: 55
757617 TCGATATGGT
* * *
757627 AATTCACAAACTCATTATGAATTGCAT-GGGTTGCACACATAGTGA-CAATACAAA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGT-ACCAATACGAA
* * *
757681 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCATACATAGTACCAATATGAA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATACGAA
* * *
757736 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTGCCAATATGGA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATACGAA
** * * *
757791 AATTCATAAACTCATTATGAATTTTGTGGGGTTGCACAAATAGTGCCAATACGCA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATACGAA
* * * *
757846 AATTCATAAACTCATTATGAATTTCATGTGGTTTCACACATAGTGCCAATACGGA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATACGAA
* *
757901 AATTCATAAACTCATTATGAATTTCGTGGGCTTGCACACATAGTACCAAT
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAAT
757951 GCGGTAATTG
Statistics
Matches: 242, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
54 25 0.10
55 217 0.90
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATACGAA
Found at i:757806 original size:110 final size:110
Alignment explanation
Indices: 757627--757950 Score: 506
Period size: 110 Copynumber: 3.0 Consensus size: 110
757617 TCGATATGGT
* * * **
757627 AATTCACAAACTCATTATGAATTGCAT-GGGTTGCACACATAGTGACAATACAAAAATTCATAAA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAAA
* *
757691 CTCATTATGAATTTCGTGGGGTTGCATACATAGTACCAATATGAA
66 CTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAATACGAA
*
757736 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTGCCAATATGGAAATTCATAAA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAAA
* * * *
757801 CTCATTATGAATTTTGTGGGGTTGCACAAATAGTGCCAATACGCA
66 CTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAATACGAA
* *
757846 AATTCATAAACTCATTATGAATTTCATGTGGTTTCACACATAGTGCCAATACGGAAATTCATAAA
1 AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAAA
*
757911 CTCATTATGAATTTCGTGGGCTTGCACACATAGTACCAAT
66 CTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAAT
757951 GCGGTAATTG
Statistics
Matches: 195, Mismatches: 19, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
109 25 0.13
110 170 0.87
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (110 bp):
AATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTGCCAATACGGAAATTCATAAA
CTCATTATGAATTTCGTGGGGTTGCACACATAGTACCAATACGAA
Found at i:757889 original size:165 final size:164
Alignment explanation
Indices: 757603--757950 Score: 498
Period size: 165 Copynumber: 2.1 Consensus size: 164
757593 TATGTGGGTT
* * * *
757603 TTGCACACATAGTGTCGATATGGTAATTCACAAACTCATTATGAATTGCATGGGTTGCACACATA
1 TTGCACACATAGTGCCAATATGGAAATTCACAAACTCATTATGAATTGCATGGGTTGCACAAATA
* * *
757668 GTGACAATACAAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCATACATAGTACCAATAT
66 GTGACAATACAAAAATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATAC
*
757733 GAAAATTCATAAACTCATTATGAATTTCATGGGG
131 GAAAATTCATAAACTCATTATGAATTTCATGGGC
* ***
757767 TTGCACACATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACAAAT
1 TTGCACACATAGTGCCAATATGGAAATTCACAAACTCATTATGAATTGCAT-GGGTTGCACAAAT
* ** * * *
757832 AGTGCCAATACGCAAATTCATAAACTCATTATGAATTTCATGTGGTTTCACACATAGTGCCAATA
65 AGTGACAATACAAAAATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATA
* *
757897 CGGAAATTCATAAACTCATTATGAATTTCGTGGGC
130 CGAAAATTCATAAACTCATTATGAATTTCATGGGC
*
757932 TTGCACACATAGTACCAAT
1 TTGCACACATAGTGCCAAT
757951 GCGGTAATTG
Statistics
Matches: 162, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
164 44 0.27
165 118 0.73
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (164 bp):
TTGCACACATAGTGCCAATATGGAAATTCACAAACTCATTATGAATTGCATGGGTTGCACAAATA
GTGACAATACAAAAATTCATAAACTCATTATGAATTTCATGGGGTTGCACACATAGTACCAATAC
GAAAATTCATAAACTCATTATGAATTTCATGGGC
Found at i:764114 original size:55 final size:55
Alignment explanation
Indices: 763725--764098 Score: 500
Period size: 55 Copynumber: 6.8 Consensus size: 55
763715 TCGATATGGT
* * * *
763725 AATTCACAAACTTATTATAAATTACGT-GGGTTGCACACATAGTGCCAATACAGA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGA
* *
763779 AATTCATAAACTCATTATGAATTTCGTGGGGGTTGCATACATAGTGCCAATACGGA
1 AATTCATAAACTCATTATGAATTTCGT-GGGGTTGCACACATAGTGCCAATACAGA
* * * *
763835 AATTCATCAACTCATTATGAATTTTGTGGGGTTACACACATAGTGCCAATATAGA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGA
* * *
763890 AATTCATAAATTCATTATGAATTACGTGGGGTTGCACACATAGTGCCAATACGGA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGA
* *
763945 AATTCATAAACTCATTATGAATTTCGTAGGGTTGCACATATAGTGCCAATACAGA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGA
* * * * * *
764000 AGTTCATAAATTAATTATGAATTTCGTTGGGTTGTAGACATAGTGCCAATAC-GAA
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAG-A
* * *
764055 AATTCATAAACTCATTATTAATTTTGTGGGGTTGCATACATAGT
1 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGT
764099 ATTAATACGA
Statistics
Matches: 278, Mismatches: 39, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
54 24 0.09
55 204 0.73
56 50 0.18
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGA
Found at i:765466 original size:15 final size:13
Alignment explanation
Indices: 765437--765464 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
765427 TAGTCATTTT
765437 TAAAATATGTATA
1 TAAAATATGTATA
765450 TAAAATATGTATA
1 TAAAATATGTATA
765463 TA
1 TA
765465 TATTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (13 bp):
TAAAATATGTATA
Found at i:774115 original size:20 final size:20
Alignment explanation
Indices: 774087--774125 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
774077 CAATGTATAT
* *
774087 ATACTAATGTAAAGATGCAC
1 ATACAAATGCAAAGATGCAC
774107 ATACAAATGCAAAGATGCA
1 ATACAAATGCAAAGATGCA
774126 AAAATGGGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (20 bp):
ATACAAATGCAAAGATGCAC
Found at i:774158 original size:13 final size:14
Alignment explanation
Indices: 774122--774156 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
774112 AATGCAAAGA
774122 TGCAAAAATGGGAG
1 TGCAAAAATGGGAG
774136 TGCAAAAATGGGAG
1 TGCAAAAATGGGAG
*
774150 TTCAAAA
1 TGCAAAA
774157 TGCGAGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.29, T:0.17
Consensus pattern (14 bp):
TGCAAAAATGGGAG
Found at i:776425 original size:42 final size:42
Alignment explanation
Indices: 776351--776455 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
776341 GACAGTGACC
* * *
776351 AAAATG-CGTAAAATAAAATAACAGTGGTTAAATCAGAAATA-
1 AAAATGAC-TAAAATAAAATAACAGTAGCTAAATAAGAAATAG
776392 AACAATGACTAAAATAAAATAACAGTAGCTAAATAAGAAATAG
1 AA-AATGACTAAAATAAAATAACAGTAGCTAAATAAGAAATAG
* *
776435 AAAGTGACTAAATTAAAATAA
1 AAAATGACTAAAATAAAATAA
776456 AATAAATCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 2 0.04
42 51 0.91
43 3 0.05
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.21
Consensus pattern (42 bp):
AAAATGACTAAAATAAAATAACAGTAGCTAAATAAGAAATAG
Found at i:776432 original size:21 final size:20
Alignment explanation
Indices: 776366--776447 Score: 51
Period size: 22 Copynumber: 3.9 Consensus size: 20
776356 GCGTAAAATA
* *
776366 AAATAACAGTGGTTAAATCAG
1 AAATAACAGT-GCTAAATAAG
*
776387 AAATAAACAATGACTAAA-ATA-
1 AAAT-AACAGTG-CTAAATA-AG
776408 AAATAACAGTAGCTAAATAAG
1 AAATAACAGT-GCTAAATAAG
*
776429 AAATAGAAAGTGACTAAAT
1 AAATA-ACAGTG-CTAAAT
776448 TAAAATAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
20 11 0.23
21 17 0.35
22 20 0.42
ACGTcount: A:0.57, C:0.09, G:0.13, T:0.21
Consensus pattern (20 bp):
AAATAACAGTGCTAAATAAG
Found at i:776453 original size:21 final size:20
Alignment explanation
Indices: 776359--776457 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
776349 CCAAAATGCG
* * **
776359 TAAAATAAAATAACAGTGGT
1 TAAATTAAAATAAAAGTGAC
* *
776379 TAAATCAGAAATAAACAATGAC
1 TAAATTA-AAATAAA-AGTGAC
* *
776401 TAAAATAAAATAACAGT-AGC
1 TAAATTAAAATAAAAGTGA-C
*
776421 TAAATAAGAAATAGAAAGTGAC
1 TAAATTA-AAATA-AAAGTGAC
776443 TAAATTAAAATAAAA
1 TAAATTAAAATAAAA
776458 TAAATCAGAG
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
19 1 0.02
20 16 0.27
21 22 0.37
22 19 0.32
23 1 0.02
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (20 bp):
TAAATTAAAATAAAAGTGAC
Found at i:778320 original size:19 final size:19
Alignment explanation
Indices: 778293--778333 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
778283 AAAATTGTTG
* *
778293 TTTTAATTAAAATTAATAT
1 TTTTAATTAAAACTAAAAT
*
778312 TTTTTATTAAAACTAAAAT
1 TTTTAATTAAAACTAAAAT
778331 TTT
1 TTT
778334 ATTTTGGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATTAAAACTAAAAT
Found at i:780669 original size:36 final size:37
Alignment explanation
Indices: 780606--780678 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
780596 CATTTAAATC
* * *
780606 ATTTAGTTCATTTAGGGAAGTAGTTCAT-TTATGCAT
1 ATTTAGATCATTTAGGGAAGTACTTCATATCATGCAT
*
780642 ATTTAGATCATTTA-GTAAGCTACTTCATATCATGCAT
1 ATTTAGATCATTTAGGGAAG-TACTTCATATCATGCAT
780679 CTAGATCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 4 0.13
36 20 0.65
37 7 0.23
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (37 bp):
ATTTAGATCATTTAGGGAAGTACTTCATATCATGCAT
Found at i:780750 original size:17 final size:17
Alignment explanation
Indices: 780698--780750 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
780688 TGAATGAAGT
*
780698 TAGTTCATAAATTAAAC
1 TAGTTCATTAATTAAAC
* *
780715 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
* *
780732 TAGTTCATTTATTAGAC
1 TAGTTCATTAATTAAAC
780749 TA
1 TA
780751 ACTTTTAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:781734 original size:17 final size:17
Alignment explanation
Indices: 781694--781750 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
781684 TTCATGCATA
*
781694 TAGTTCATTGAA-TAAAGT
1 TAGTTCATT-AATTAAA-C
781712 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
781729 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
781746 TAGTT
1 TAGTT
781751 TATTTGTTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:787843 original size:15 final size:15
Alignment explanation
Indices: 787824--787879 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
787814 TTCATGGGGT
* *
787824 AAGAAGACAACGTCT
1 AAGAAGAAAACGTCA
*
787839 AAGAAGAAAACATCA
1 AAGAAGAAAACGTCA
787854 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
787869 AAGAAGGAAAA
1 AAGAA-GAAAA
787880 AGAAAGCATC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 31 0.86
16 5 0.14
ACGTcount: A:0.61, C:0.12, G:0.20, T:0.07
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:789277 original size:46 final size:45
Alignment explanation
Indices: 789221--789327 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
789211 TGCACATACC
*
789221 ATGCATCGATGAACT-GAGGAT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGAACTCGA-GATATTT-TG-AAACATCGAATGCACTTG
* * *
789267 ATGCATCGATGCACTCTAGCTATTTTGAAACATCGAATGCACTTG
1 ATGCATCGATGAACTCGAGATATTTTGAAACATCGAATGCACTTG
* *
789312 ATGCATCAATGCACTC
1 ATGCATCGATGAACTC
789328 TTAATGCACC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
45 32 0.59
46 18 0.33
47 4 0.07
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (45 bp):
ATGCATCGATGAACTCGAGATATTTTGAAACATCGAATGCACTTG
Found at i:794455 original size:13 final size:13
Alignment explanation
Indices: 794437--794461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794427 TCGAATATAC
794437 TTAGAAAATCTTT
1 TTAGAAAATCTTT
794450 TTAGAAAATCTT
1 TTAGAAAATCTT
794462 AAAATTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:801385 original size:23 final size:23
Alignment explanation
Indices: 801316--801395 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 23
801306 ACACCTAACA
801316 GTGCATCGATGCATC--CTTGAAT
1 GTGCATCGATGCA-CGACTTGAAT
* * *
801338 GTGCATCGATACATGA--TGAAG
1 GTGCATCGATGCACGACTTGAAT
*
801359 GTGCACCGATGCACGACTTGAAT
1 GTGCATCGATGCACGACTTGAAT
801382 GTGCATCGATGCAC
1 GTGCATCGATGCAC
801396 AAGGCCATGC
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 17 0.37
22 12 0.26
23 17 0.37
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (23 bp):
GTGCATCGATGCACGACTTGAAT
Found at i:801408 original size:20 final size:20
Alignment explanation
Indices: 801383--801434 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
801373 GACTTGAATG
801383 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
801403 TGCATCGATGCACAAGGCCA
1 TGCATCGATGCACAAGGCCA
801423 TGCATCGATGCA
1 TGCATCGATGCA
801435 TCCGTCGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAAGGCCA
Found at i:803360 original size:2 final size:2
Alignment explanation
Indices: 803353--803445 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
803343 CATCTTAAGC
803353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
803395 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
803437 TA TA TA TA T
1 TA TA TA TA T
803446 CAATTGTCAA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:804019 original size:46 final size:46
Alignment explanation
Indices: 803968--804075 Score: 171
Period size: 46 Copynumber: 2.3 Consensus size: 46
803958 ATGCACATAC
* * * *
803968 CATGCATCGATGCCCTGATGATTTTATGAAAACATCGAATGCATTT
1 CATGCATCGATGCACTGAGGATTTTATGAAAACATCAAATGCACTT
804014 CATGCATCGATGCACTGAGGATTTTATGAAAACATCAAATGCACTT
1 CATGCATCGATGCACTGAGGATTTTATGAAAACATCAAATGCACTT
*
804060 GATGCATCGATGCACT
1 CATGCATCGATGCACT
804076 CTTAGTGCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACTGAGGATTTTATGAAAACATCAAATGCACTT
Found at i:804074 original size:17 final size:19
Alignment explanation
Indices: 804052--804094 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
804042 AAAACATCAA
*
804052 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
804069 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
804088 ATGCACT
1 ATGCACT
804095 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:804356 original size:6 final size:6
Alignment explanation
Indices: 804345--805030 Score: 1168
Period size: 6 Copynumber: 117.7 Consensus size: 6
804335 ATCAAAGAGA
804345 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804393 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804441 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804489 ATA-TT -TATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804535 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804583 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804631 ATA-TT ATA-TT -TATTT ATA-TT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804675 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804723 ATA-TT -TATTT ATA-TT -TATTT -TATTT ATA-TT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804765 ATATTT ATA-TT -TATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804811 ATTTATTT ATATTT ATA-TT -TATTT ATATTT ATATTT ATATTT ATATTT
1 A--TATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804859 ATATTT ATA-TT ATATTT ATA-TT ATATTT ATATTT ATATTT ATA-TT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804904 -TATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATA-TT -TATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
804949 -TATTT ATA-TT ATATTT ATATTTAT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATA-TT-T ATATTT ATATTT ATATTT ATATTT
804997 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
805031 AATTTACGAA
Statistics
Matches: 655, Mismatches: 0, Indels: 50
0.93 0.00 0.07
Matches are distributed among these distances:
4 16 0.02
5 72 0.11
6 553 0.84
7 4 0.01
8 10 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATATTT
Found at i:805284 original size:85 final size:85
Alignment explanation
Indices: 805087--805300 Score: 265
Period size: 85 Copynumber: 2.5 Consensus size: 85
805077 AATGATGTGT
* *
805087 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACACTCAATGTAAGTCATTCATGCGTGTCATAAATTTATGACACACAAATGTATGT
805152 CAAGAAGATTTATGACGGAG
66 CAAGAAGATTTATGACGGAG
* * * *
805172 GCTTCAATGAC-GTGCAATGTAAGTCATTCATGCGTGCCATAAATTTATGACGCACAAATGTGTG
1 GCTTCAATGACACT-CAATGTAAGTCATTCATGCGTGTCATAAATTTATGACACACAAATGTATG
* *
805236 TCATCATAA-A-TTATGACGGGG
65 TCA--AGAAGATTTATGACGGAG
* * *
805257 GCTTCAATGACACTCAATG-AACATCATTAATGCGCGTCATAAAT
1 GCTTCAATGACACTCAATGTAA-GTCATTCATGCGTGTCATAAAT
805301 GTGTGTCATA
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
84 2 0.02
85 104 0.94
86 2 0.02
87 3 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (85 bp):
GCTTCAATGACACTCAATGTAAGTCATTCATGCGTGTCATAAATTTATGACACACAAATGTATGT
CAAGAAGATTTATGACGGAG
Found at i:805296 original size:13 final size:13
Alignment explanation
Indices: 805280--805323 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
805270 TCAATGAACA
*
805280 TCATTAATGCGCG
1 TCATAAATGCGCG
* *
805293 TCATAAATGTGTG
1 TCATAAATGCGCG
805306 TCATAAATGCGCG
1 TCATAAATGCGCG
805319 TCATA
1 TCATA
805324 TGCATTTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATAAATGCGCG
Found at i:814470 original size:21 final size:23
Alignment explanation
Indices: 814444--814494 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
814434 AGGGAATCGA
814444 TCCCCCCTTG-A-GGAAACCGAT
1 TCCCCCCTTGAAGGGAAACCGAT
* *
814465 TCCCCCTTTGAAGGGTAACCGAT
1 TCCCCCCTTGAAGGGAAACCGAT
814488 TCCCCCC
1 TCCCCCC
814495 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.36
22 1 0.04
23 15 0.60
ACGTcount: A:0.20, C:0.41, G:0.18, T:0.22
Consensus pattern (23 bp):
TCCCCCCTTGAAGGGAAACCGAT
Found at i:816797 original size:35 final size:35
Alignment explanation
Indices: 816758--816844 Score: 165
Period size: 35 Copynumber: 2.5 Consensus size: 35
816748 AACAAAAAGG
816758 GGGAGAAGTGTTAAAGTTGTTTTTAAATGATAAAT
1 GGGAGAAGTGTTAAAGTTGTTTTTAAATGATAAAT
*
816793 GGGAGAAGTGTTAAAGGTGTTTTTAAATGATAAAT
1 GGGAGAAGTGTTAAAGTTGTTTTTAAATGATAAAT
816828 GGGAGAAGTGTTAAAGT
1 GGGAGAAGTGTTAAAGT
816845 AAGGGGGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (35 bp):
GGGAGAAGTGTTAAAGTTGTTTTTAAATGATAAAT
Found at i:818715 original size:21 final size:21
Alignment explanation
Indices: 818686--818732 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
818676 GATACTTAAG
818686 CTTAAGGAAAGCTTAAGTTAT
1 CTTAAGGAAAGCTTAAGTTAT
*
818707 CTTACGGAAAGCTTAAGTTAT
1 CTTAAGGAAAGCTTAAGTTAT
818728 CTTAA
1 CTTAA
818733 AACTATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (21 bp):
CTTAAGGAAAGCTTAAGTTAT
Found at i:826567 original size:2 final size:2
Alignment explanation
Indices: 826560--826593 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
826550 CGTGCGTAAG
826560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
826594 GTTTGTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:837202 original size:36 final size:36
Alignment explanation
Indices: 837154--837257 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
837144 GGAAACGCCT
* *
837154 CAGATGAATGAGATATTTCGAAGAATAACTATACCC
1 CAGATGCATGAGATATTTCGAAGAATAACTATACCA
* *
837190 CAGATTCTTGAGATATTTCGAAGAATAACTATACCA
1 CAGATGCATGAGATATTTCGAAGAATAACTATACCA
* *
837226 TAGATGCATGAGATATTTAGAAGAATAACTAT
1 CAGATGCATGAGATATTTCGAAGAATAACTAT
837258 CTCCTGCAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.29
Consensus pattern (36 bp):
CAGATGCATGAGATATTTCGAAGAATAACTATACCA
Found at i:841997 original size:13 final size:13
Alignment explanation
Indices: 841979--842023 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
841969 CGCAATACGC
841979 GTCATAAATGCGT
1 GTCATAAATGCGT
841992 GTCATAAATGTC-T
1 GTCATAAATG-CGT
* *
842005 ATCATAAATGCGC
1 GTCATAAATGCGT
842018 GTCATA
1 GTCATA
842024 GATTTATGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:848092 original size:117 final size:117
Alignment explanation
Indices: 847924--848383 Score: 733
Period size: 117 Copynumber: 3.9 Consensus size: 117
847914 CATTATATGT
* *
847924 GATTCGATTCAACATTG-AAGACCTCAACAACCTCAGATGCCTGTGTAAGCTCTGGTTTATTATC
1 GATTCGATTCTACATTGTAAG-CCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATC
* *
847988 AGGATGGGCAGATTCATCGGAGACAGATTGTGCTGAGGATGGTCCCTCTGTGG
65 AGGATGGGCAGATTCATCGAAGACAGCTTGTGCTGAGGATGGTCCCTCTGTGG
*
848041 GAATCGATTCTACATTGTAAGCCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATCA
1 GATTCGATTCTACATTGTAAGCCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATCA
* * *
848106 GGATGGACAAATTCATCGAAGATAGCTTGTGCTGAGGATGGTCCCTCTGTGG
66 GGATGGGCAGATTCATCGAAGACAGCTTGTGCTGAGGATGGTCCCTCTGTGG
* * * * * *
848158 GATTCGATTCTACATTGCAGGCCTTAACAACCTCATATGCCTATGTTAGCTATGGTTTATTATCA
1 GATTCGATTCTACATTGTAAGCCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATCA
* *
848223 GGATGGGTAGATTCATCGAAGATAGCTTGTGCTGAGGATGGTCCCTCTGTGG
66 GGATGGGCAGATTCATCGAAGACAGCTTGTGCTGAGGATGGTCCCTCTGTGG
*
848275 GATTCGATTCTACATTGTAGGCCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATCA
1 GATTCGATTCTACATTGTAAGCCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATCA
* *
848340 GGATGGGCAGATTCATCGGAGACAGTTTGTGCTGAGGATGGTCC
66 GGATGGGCAGATTCATCGAAGACAGCTTGTGCTGAGGATGGTCC
848384 TAAGGGGTCT
Statistics
Matches: 315, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
117 312 0.99
118 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (117 bp):
GATTCGATTCTACATTGTAAGCCTCAACAACCTCAGATGCCTGTGTTAGCTCTGGTTTATTATCA
GGATGGGCAGATTCATCGAAGACAGCTTGTGCTGAGGATGGTCCCTCTGTGG
Found at i:853275 original size:66 final size:66
Alignment explanation
Indices: 853169--853298 Score: 251
Period size: 66 Copynumber: 2.0 Consensus size: 66
853159 CTTTAGAACT
853169 GGACACTTTAGGCTCCATCATAACAGAAGTAGGTGGGACCAAAGCAGCAACATTACAAGCATCAT
1 GGACACTTTAGGCTCCATCATAACAGAAGTAGGTGGGACCAAAGCAGCAACATTACAAGCATCAT
853234 C
66 C
*
853235 GGACACTTTAGGCTCCATCATAACAGAAGTAGGTGGGACCAAAGCAGTAACATTACAAGCATCA
1 GGACACTTTAGGCTCCATCATAACAGAAGTAGGTGGGACCAAAGCAGCAACATTACAAGCATCA
853299 CTGGCTTTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (66 bp):
GGACACTTTAGGCTCCATCATAACAGAAGTAGGTGGGACCAAAGCAGCAACATTACAAGCATCAT
C
Found at i:856023 original size:55 final size:53
Alignment explanation
Indices: 855958--856250 Score: 309
Period size: 54 Copynumber: 5.6 Consensus size: 53
855948 GATGTATACT
* *
855958 GAAATTCATAATAAGTTTATGAATTTTTGTATGGACACTGTGTGTGCAAAACTAT
1 GAAATTCATAATAAGTTTATGAATTTTCGTATGG-CACTGTGTGTGC-AAACTAA
*
856013 GAAATTCATAATAAGTTTATGAATTTCCG--T---A---TG-G-GCAAACTAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTATGGCACTGTGTGTGCAAACTAA
* * * *
856056 GAAATTCATAGTAAGTTTATGAATTTCCATATGGGCACTGTGTGTACAAAACTAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTAT-GGCACTGTGTGTGC-AAACTAA
** * *
856111 GAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTGCATGTACAATCTAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTAT-GGCACTGTGTGTGCAAACTAA
* * *
856165 GAAATTCATAATAAGTTTATGGATTTCCGTATTGGCACTGTGTGTGCAACCTAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTA-TGGCACTGTGTGTGCAAACTAA
* * *
856219 GAAATTCATAATGAGATTATGAATTTTTGTAT
1 GAAATTCATAATAAGTTTATGAATTTTCGTAT
856251 TAGCATTAGG
Statistics
Matches: 202, Mismatches: 23, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
43 33 0.16
44 2 0.01
45 2 0.01
46 2 0.01
49 2 0.01
52 2 0.01
53 3 0.01
54 79 0.39
55 77 0.38
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (53 bp):
GAAATTCATAATAAGTTTATGAATTTTCGTATGGCACTGTGTGTGCAAACTAA
Found at i:856065 original size:43 final size:43
Alignment explanation
Indices: 856006--856092 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
855996 TGTGTGTGCA
* *
856006 AAACTATGAAATTCATAATAAGTTTATGAATTTCCGTATGGGC
1 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGC
*
856049 AAACTAAGAAATTCATAGTAAGTTTATGAATTTCCATATGGGC
1 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGC
856092 A
1 A
856093 CTGTGTGTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (43 bp):
AAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGC
Found at i:856074 original size:98 final size:102
Alignment explanation
Indices: 855958--856244 Score: 352
Period size: 98 Copynumber: 2.8 Consensus size: 102
855948 GATGTATACT
** *
855958 GAAATTCATAATAAGTTTATGAATTTTTGTATGGACACTGTGTGTGCAAAACTATGAAATTCATA
1 GAAATTCATAATAAGTTTATGAATTTCCGTATGG-CACTGTGTGTGCAAAACTAAGAAATTCATA
856023 ATAAGTTTATGAATTTCCGTAT-GG-GC-A-AA-CTAA
65 ATAAGTTTATGAATTTCCGTATGGGCGCTACAATCTAA
* * *
856056 GAAATTCATAGTAAGTTTATGAATTTCCATATGGGCACTGTGTGTACAAAACTAAGAAATTCATA
1 GAAATTCATAATAAGTTTATGAATTTCCGTAT-GGCACTGTGTGTGCAAAACTAAGAAATTCATA
*
856121 ATAAGTTTATGAATTTTCGTATGGGCACTGCATGTACAATCTAA
65 ATAAGTTTATGAATTTCCGTATGGG--C-GC---TACAATCTAA
* *
856165 GAAATTCATAATAAGTTTATGGATTTCCGTATTGGCACTGTGTGTGC-AACCTAAGAAATTCATA
1 GAAATTCATAATAAGTTTATGAATTTCCGTA-TGGCACTGTGTGTGCAAAACTAAGAAATTCATA
* *
856229 ATGAGATTATGAATTT
65 ATAAGTTTATGAATTT
856245 TTGTATTAGC
Statistics
Matches: 162, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
98 77 0.48
99 4 0.02
103 2 0.01
107 1 0.01
108 32 0.20
109 45 0.28
110 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (102 bp):
GAAATTCATAATAAGTTTATGAATTTCCGTATGGCACTGTGTGTGCAAAACTAAGAAATTCATAA
TAAGTTTATGAATTTCCGTATGGGCGCTACAATCTAA
Found at i:856280 original size:109 final size:109
Alignment explanation
Indices: 856054--856255 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 109
856044 TGGGCAAACT
*
856054 AAGAAATTCATAGTAAGTTTATGAATTTCCATATGGGCACTGTGTGTACAAAACTAAGAAATTCA
1 AAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTGTGTGTACAAAACTAAGAAATTCA
* * *
856119 TAATAAGTTTATGAATTTTCGTATGGGCACTGCATGTACAATCT
66 TAATAAGATTATGAATTTTCGTATGAGCACTGCATGTACAATCC
* * * * *
856163 AAGAAATTCATAATAAGTTTATGGATTTCCGTATTGGCACTGTGTGTGC-AACCTAAGAAATTCA
1 AAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTGTGTGTACAAAACTAAGAAATTCA
* * *
856227 TAATGAGATTATGAATTTTTGTATTAGCA
66 TAATAAGATTATGAATTTTCGTATGAGCA
856256 TTAGGTGTGC
Statistics
Matches: 82, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 38 0.46
109 44 0.54
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (109 bp):
AAGAAATTCATAATAAGTTTATGAATTTCCATATGGGCACTGTGTGTACAAAACTAAGAAATTCA
TAATAAGATTATGAATTTTCGTATGAGCACTGCATGTACAATCC
Found at i:860905 original size:24 final size:24
Alignment explanation
Indices: 860878--860968 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
860868 CACAATTCAT
860878 GTCAAGTATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
** * *
860902 GTCATCTATCAGATCATAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
* *
860926 GTC-AGTATTAGATCAGAATTCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
860949 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
860969 TCAAATCGGA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 17 0.33
24 35 0.67
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:865777 original size:24 final size:24
Alignment explanation
Indices: 865750--865841 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
865740 ACATAATTCG
865750 GGTCAAGTATCATATCAGAATCTA
1 GGTCAAGTATCATATCAGAATCTA
* * * * *
865774 GGTCATGTATAAGATCAAAATCCA
1 GGTCAAGTATCATATCAGAATCTA
*
865798 TGTC-AGTATCATATCAGAAT-TCA
1 GGTCAAGTATCATATCAGAATCT-A
* * *
865821 GGTTAGGTATCATAACAGAAT
1 GGTCAAGTATCATATCAGAAT
865842 TCAAATCAGA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
23 15 0.29
24 36 0.71
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (24 bp):
GGTCAAGTATCATATCAGAATCTA
Found at i:871322 original size:54 final size:55
Alignment explanation
Indices: 871162--871397 Score: 285
Period size: 56 Copynumber: 4.3 Consensus size: 55
871152 TACCGAATGA
* * *
871162 GCACTATGTGTACAACCCCTACGAAATTCATAATAAGTTTATGTATTTTTGTATTG
1 GCACTATGTGTGCAACCCC-ACGAAATTCATAATAAGTTTATGAATTTTCGTATTG
*
871218 GCACTATGTGTGCAACCCCCACGAAATTCATAATAAGCTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAA-CCCCACGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * *
871274 GCACTATGTGTGCAA-CCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCCCACGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* * * * * * * * *
871328 ACACTATGTGTACAACCCCATGTACTTCATAATGAGTTTATGAATTATCATATCG
1 GCACTATGTGTGCAACCCCACGAAATTCATAATAAGTTTATGAATTTTCGTATTG
* *
871383 ACACTAAGTGTGCAA
1 GCACTATGTGTGCAA
871398 AATCCATGGA
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
54 48 0.30
55 45 0.28
56 62 0.39
57 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (55 bp):
GCACTATGTGTGCAACCCCACGAAATTCATAATAAGTTTATGAATTTTCGTATTG
Found at i:884772 original size:20 final size:20
Alignment explanation
Indices: 884747--884794 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
884737 GGGGAGAAAA
884747 CCTGAACAGTCCTCGCCATG
1 CCTGAACAGTCCTCGCCATG
884767 CCTGAACAGTCCTCGCCATG
1 CCTGAACAGTCCTCGCCATG
*
884787 CCAGAACA
1 CCTGAACA
884795 AAACCAGACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.40, G:0.19, T:0.17
Consensus pattern (20 bp):
CCTGAACAGTCCTCGCCATG
Found at i:904964 original size:43 final size:43
Alignment explanation
Indices: 904882--904964 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
904872 ATGTGTGCAA
* *
904882 AACTAAGAAATTCAAAATAAGTTTATGAATTTTCGTATGGGCG
1 AACTAAGAAATTCAAAATAAGTTTATGAATTTCCATATGGGCG
* *
904925 AACTAAGAAATTCATAGTAAGTTTATGAATTTCCATATGG
1 AACTAAGAAATTCAAAATAAGTTTATGAATTTCCATATGG
904965 CACTATGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.34
Consensus pattern (43 bp):
AACTAAGAAATTCAAAATAAGTTTATGAATTTCCATATGGGCG
Found at i:905118 original size:109 final size:108
Alignment explanation
Indices: 904927--905125 Score: 292
Period size: 109 Copynumber: 1.8 Consensus size: 108
904917 TATGGGCGAA
*
904927 CTAAGAAATTCATAGTAAGTTTATGAATTTCCATATGGCACTATGTGTGTAAAACTAAGAAATTC
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGCACTATGTGTGTAAAACTAAGAAATTC
*
904992 ATAATAAGTTTATGAATTTTTCGTATAGGCACTGTGCGTGCAAT
66 ATAATAAGATTATGAATTTTT-GTATAGGCACTGTGCGTGCAAT
* ** * * *
905036 CTAAGAAATTCATAATAAGTTTATGGATTTCTGTATTGGCACTGTGTGTG-CAACCTAAGAAATT
1 CTAAGAAATTCATAATAAGTTTATGAATTTCCATA-TGGCACTATGTGTGTAAAACTAAGAAATT
*
905100 CATAATGAGATTATGAATTTTTGTAT
65 CATAATAAGATTATGAATTTTTGTAT
905126 TAGCATTAGG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
108 4 0.05
109 63 0.79
110 13 0.16
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (108 bp):
CTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGCACTATGTGTGTAAAACTAAGAAATTC
ATAATAAGATTATGAATTTTTGTATAGGCACTGTGCGTGCAAT
Found at i:905125 original size:54 final size:54
Alignment explanation
Indices: 904925--905126 Score: 253
Period size: 54 Copynumber: 3.7 Consensus size: 54
904915 CGTATGGGCG
* ** * *
904925 AACTAAGAAATTCATAGTAAGTTTATGAATTTCCATA-TGGCACTATGTGTGTAA
1 AACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTGTGTGTG-CA
* * *
904979 AACTAAGAAATTCATAATAAGTTTATGAATTTTTCGTATAGGCACTGTGCGTGCA
1 AACTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATTGGCACTGTGTGTGCA
* *
905034 ATCTAAGAAATTCATAATAAGTTTATGGATTTCTGTATTGGCACTGTGTGTGCA
1 AACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTGTGTGTGCA
* * * *
905088 ACCTAAGAAATTCATAATGAGATTATGAATTTTTGTATT
1 AACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
905127 AGCATTAGGT
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
54 83 0.65
55 34 0.27
56 11 0.09
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (54 bp):
AACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGCACTGTGTGTGCA
Found at i:911063 original size:54 final size:54
Alignment explanation
Indices: 910992--911313 Score: 358
Period size: 54 Copynumber: 5.9 Consensus size: 54
910982 CAACCCCCAT
* * *
910992 GAAATTCATAATAAGTTTATGTATTTCCGTATTGACACTATGTGTGCAACCTTA
1 GAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACCTAA
* * * *
911046 GAAATACATAATGAGTTTATGAATTTTCGTATTGGCACTATGTATGCAACCTAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACCTAA
* * * *
911100 TAAATTCATAATAAGTTTATGAATTTCCGTATT-AGCACTATGTATGCAACCCCTAC
1 GAAATTCATAATAAGTTTATGAATTTTCGTATTGA-CACTATGTGTGCAA--CCTAA
* * **
911156 GAAATTCATAATAAGTTTATTAATTTTTGTATTGGTACTATGTGTGCAACCTAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACCTAA
* * * *
911210 GAAATTCATAATGAGTTTATGAATTTTCATATTGACACTATGTGTGCAACCCCAT
1 GAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAA-CCTAA
* * * * * * * *
911265 GTACTTTATAATGAGTTTATGAATTATCATATCGACACTAAGTGTGCAA
1 GAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAA
911314 AATCCATGGA
Statistics
Matches: 228, Mismatches: 35, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
54 137 0.60
55 46 0.20
56 45 0.20
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.38
Consensus pattern (54 bp):
GAAATTCATAATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACCTAA
Found at i:911196 original size:110 final size:109
Alignment explanation
Indices: 910992--911262 Score: 393
Period size: 110 Copynumber: 2.5 Consensus size: 109
910982 CAACCCCCAT
* *
910992 GAAATTCATAATAAGTTTATGTATTTCCGTATTGACACTATGTGTGCAA-CCTTAGAAATACATA
1 GAAATTCATAATAAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCTAGAAATACATA
*
911056 ATGAGTTTATGAATTTTCGTATTGGCACTATGTATGCAACCTAA
66 ATAAGTTTATGAATTTTCGTATTGGCACTATGTATGCAACCTAA
* * *
911100 TAAATTCATAATAAGTTTATGAATTTCCGTATT-AGCACTATGTATGCAACCCCTACGAAATTCA
1 GAAATTCATAATAAGTTTATGAATTTCCGTATTGA-CACTATGTGTGCAACCCCTA-GAAATACA
* * * *
911164 TAATAAGTTTATTAATTTTTGTATTGGTACTATGTGTGCAACCTAA
64 TAATAAGTTTATGAATTTTCGTATTGGCACTATGTATGCAACCTAA
* * *
911210 GAAATTCATAATGAGTTTATGAATTTTCATATTGACACTATGTGTGCAACCCC
1 GAAATTCATAATAAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCC
911263 ATGTACTTTA
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 44 0.31
109 4 0.03
110 94 0.65
111 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (109 bp):
GAAATTCATAATAAGTTTATGAATTTCCGTATTGACACTATGTGTGCAACCCCTAGAAATACATA
ATAAGTTTATGAATTTTCGTATTGGCACTATGTATGCAACCTAA
Found at i:940022 original size:39 final size:39
Alignment explanation
Indices: 939963--940042 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
939953 TGTTTTCGTT
*
939963 CATGCTTATATAGTGTTTTTCGCATGAAGTTATTATAAA
1 CATGCTTATATAGTGCTTTTCGCATGAAGTTATTATAAA
940002 CATGCTTATATAGTGCTTTTCGCATGAAGTTATTATAAA
1 CATGCTTATATAGTGCTTTTCGCATGAAGTTATTATAAA
940041 CA
1 CA
940043 ATAAGGTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.41
Consensus pattern (39 bp):
CATGCTTATATAGTGCTTTTCGCATGAAGTTATTATAAA
Found at i:942597 original size:19 final size:18
Alignment explanation
Indices: 942557--942599 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
942547 AACTCAAAAA
*
942557 TTGAATCGATAATTCAAG
1 TTGAATCGATAATTCAAC
*
942575 TTGAATCGAATAATTCGAC
1 TTGAATCG-ATAATTCAAC
942594 TTGAAT
1 TTGAAT
942600 AACTCGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (18 bp):
TTGAATCGATAATTCAAC
Found at i:944729 original size:14 final size:15
Alignment explanation
Indices: 944707--944753 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
944697 TAAAAGGTAA
*
944707 TTTTGTTATAATT-T
1 TTTTATTATAATTAT
*
944721 TTTTATTATACTTAT
1 TTTTATTATAATTAT
*
944736 TGTTTATTATGATTAT
1 T-TTTATTATAATTAT
944752 TT
1 TT
944754 GAAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 13 0.48
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTATAATTAT
Found at i:944797 original size:23 final size:24
Alignment explanation
Indices: 944738--944797 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 24
944728 ATACTTATTG
*
944738 TTTATTATGATTATTTGAAAAAAT
1 TTTATTATGATTATGTGAAAAAAT
* * * *
944762 ATTA-TACGTTTATGTGTAAAAAT
1 TTTATTATGATTATGTGAAAAAAT
944785 TTTATTATG-TTAT
1 TTTATTATGATTAT
944798 ATTTTCATTC
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTATTATGATTATGTGAAAAAAT
Found at i:957298 original size:18 final size:18
Alignment explanation
Indices: 957275--957309 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
957265 AGTCCCCAGA
957275 CTGCTGA-ACGTGAAGAGC
1 CTGCTGATAC-TGAAGAGC
957293 CTGCTGATACTGAAGAG
1 CTGCTGATACTGAAGAG
957310 ACTGATGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (18 bp):
CTGCTGATACTGAAGAGC
Found at i:962115 original size:17 final size:17
Alignment explanation
Indices: 962089--962126 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
962079 AATTAAATAC
*
962089 AATA-TTAAATAATTTA
1 AATACTTAAATAAATTA
962105 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
962122 AATAC
1 AATAC
962127 AAAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:973423 original size:23 final size:23
Alignment explanation
Indices: 973397--973455 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
973387 ATCAAGTTCA
*
973397 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
973420 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
973443 ATAATAAAATAGG
1 ATAACATAATAGG
973456 CATTTAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:973515 original size:87 final size:87
Alignment explanation
Indices: 973369--973531 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
973359 TATGTTATAT
* *
973369 CATTTAACCGGAAATATAATCAAGTTCAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATAATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
973434 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* *
973456 CATTTAACCAGAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATAATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
973521 AGCGCTTATAT
66 AGCGCTTATAT
973532 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCAGAAATATAATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:973519 original size:23 final size:23
Alignment explanation
Indices: 973484--973531 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
973474 ATCAAGTACA
*
973484 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
973507 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
973530 AT
1 AT
973532 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:974027 original size:196 final size:198
Alignment explanation
Indices: 973558--974046 Score: 632
Period size: 198 Copynumber: 2.5 Consensus size: 198
973548 TAAACTGGTT
* * *
973558 TATTTATACCGGTAACATTGCAAATTTACCTATTATATTATAATTATCGGTTTCAATGTTTTTGG
1 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGG
*
973623 GATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGA
66 GATCGATAC-TTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGA
* *
973687 AAAAAGTATCGACACATATTTAAAAAGTATCGATACATTATGTTAACCTATTCTCTCATAAAACC
130 AAAAAGTATCGACACATAATTAAAAAGTATCGATACATTATGTTAACCTATTCTCTAATAAAACC
*
973752 GGTA
195 AGTA
* * *
973756 TATTTATACCGATTACATTGTAAATTTACCTATTACATCATAATTATCGATTTCAATGTTTTTGG
1 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGG
* *
973821 GATTGATACTTTTAATAAATGTATCGGCACTTTATGCGTGCACCTCGTTTGGGCATTCATTCTGG
66 GATCGATACTTTT-ATAAATGTATCGACACTTTATGCGTGCACCTCG-TTGGGCATTCATTCTGG
* ** * * * * *
973886 ACAATAAGTATCGACACA-AATT-CCAAGTGTCGATACATTATGTTTAA-CTGTTTTGTAAT-TA
129 A-AAAAAGTATCGACACATAATTAAAAAGTATCGATACATTATG-TTAACCTATTCTCTAATAAA
973947 ACCAGTA
192 ACCAGTA
* * **
973954 TA-TT-TACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGG
1 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGG
* * *
974017 GGTCGATACTTTTAGAAAATGAATCGACAC
66 GATCGATACTTTTA-TAAATGTATCGACAC
974047 ATCTTTTTAC
Statistics
Matches: 253, Mismatches: 32, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
195 1 0.00
196 75 0.30
197 5 0.02
198 76 0.30
199 56 0.22
200 25 0.10
201 15 0.06
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (198 bp):
TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGG
GATCGATACTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGAA
AAAAGTATCGACACATAATTAAAAAGTATCGATACATTATGTTAACCTATTCTCTAATAAAACCA
GTA
Done.