Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007846.1 Hibiscus syriacus cultivar Beakdansim tig00110202_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: 846497
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 3 of 4
Found at i:520728 original size:182 final size:179
Alignment explanation
Indices: 520243--520715 Score: 707
Period size: 179 Copynumber: 2.6 Consensus size: 179
520233 CGTACTTACG
* *
520243 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
** *
520308 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATTTTTTTAAAGTATCAACACATTATAG
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAGTATCGACACATTATAG
*
520373 GTGCTAAAACTGCTTCTCTTTTAAATTTACAAAGTGTCGATCCTTATAT
131 GTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
520422 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
520487 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTT-AAAGTATCGACACATTAT
* *
520552 AGGAT-TTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 AGG-TGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
520604 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
520668 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAA
520716 TTTGGATCGA
Statistics
Matches: 267, Mismatches: 22, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
179 99 0.37
180 7 0.03
181 66 0.25
182 94 0.35
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (179 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAGTATCGACACATTATAG
GTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:524333 original size:27 final size:27
Alignment explanation
Indices: 524289--524356 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
524279 GTGTAGGAAT
*
524289 TATAGAG--ATGATTAGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
*
524314 TATAGAGATATGATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
524341 TATAGAGATATGATTT
1 TATAGAGATATGATTT
524357 TGTAAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 7 0.18
27 32 0.82
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:526925 original size:27 final size:27
Alignment explanation
Indices: 526883--526950 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
526873 ATGTAGGAAT
526883 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
526908 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
526935 TATAGAGATATGATTT
1 TATAGAGATATGATTT
526951 TGTAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 7 0.17
27 34 0.83
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:528912 original size:40 final size:40
Alignment explanation
Indices: 528853--528967 Score: 125
Period size: 37 Copynumber: 3.0 Consensus size: 40
528843 CAACCCAGTA
*
528853 CCAGTAGAA-CGAAACTAATTAGGAAAAATACTGAACAAC
1 CCAGTAGAACCGAAAATAATTAGGAAAAATACTGAACAAC
*
528892 CCAGTAGAACCGAAAATAATTAGGAAAAGTGA-TG---AAC
1 CCAGTAGAACCGAAAATAATTAGGAAAAAT-ACTGAACAAC
* * * *
528929 CCAATAGAACCGAAAACAATTAGG-ACAATGCTGAACAAC
1 CCAGTAGAACCGAAAATAATTAGGAAAAATACTGAACAAC
528968 GTATTTGCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
36 5 0.08
37 25 0.40
39 12 0.19
40 20 0.32
41 1 0.02
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.15
Consensus pattern (40 bp):
CCAGTAGAACCGAAAATAATTAGGAAAAATACTGAACAAC
Found at i:530242 original size:24 final size:25
Alignment explanation
Indices: 530192--530243 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
530182 AAACTTTACG
**
530192 TTATTATATAAAAATGTGGTGTATT
1 TTATTATATAAAAATGTAATGTATT
* *
530217 TTATTAT-TAAAATTGTAATGTTTT
1 TTATTATATAAAAATGTAATGTATT
530241 TTA
1 TTA
530244 ATAAAAAGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
TTATTATATAAAAATGTAATGTATT
Found at i:530311 original size:19 final size:19
Alignment explanation
Indices: 530275--530313 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
530265 TATAAAGATA
*
530275 AAATATTTAAAATAATAAT
1 AAATAGTTAAAATAATAAT
* *
530294 AAATAGTTATAATTATAAT
1 AAATAGTTAAAATAATAAT
530313 A
1 A
530314 GTAAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATAGTTAAAATAATAAT
Found at i:531726 original size:20 final size:20
Alignment explanation
Indices: 531691--531744 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
531681 TAATTATGTG
* * *
531691 ATCATAAATATAATTTGAGA
1 ATCATAAATTTTATTTAAGA
531711 ATCATAAATTTTATTTAAGA
1 ATCATAAATTTTATTTAAGA
531731 AT-ATAATATTTTAT
1 ATCATAA-ATTTTAT
531745 CGCATTAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (20 bp):
ATCATAAATTTTATTTAAGA
Found at i:534038 original size:11 final size:11
Alignment explanation
Indices: 534016--534052 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
534006 ACTTTTCAAA
534016 TTCTTTTCATTT
1 TTCTTTT-ATTT
534028 TTCTTTTATTT
1 TTCTTTTATTT
534039 TTCTTTTATTT
1 TTCTTTTATTT
534050 TTC
1 TTC
534053 AAGCTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (11 bp):
TTCTTTTATTT
Found at i:545128 original size:13 final size:13
Alignment explanation
Indices: 545112--545136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
545102 TTCTGTTAAA
545112 TTTTTATTTTTAC
1 TTTTTATTTTTAC
545125 TTTTTATTTTTA
1 TTTTTATTTTTA
545137 TTCGATCAAG
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:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTATTTTTAC
Found at i:547647 original size:15 final size:15
Alignment explanation
Indices: 547627--547657 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
547617 TAGAGTCACG
547627 GGGATAACCCTTGTA
1 GGGATAACCCTTGTA
*
547642 GGGATAACCTTTGTA
1 GGGATAACCCTTGTA
547657 G
1 G
547658 ACAAAGTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (15 bp):
GGGATAACCCTTGTA
Found at i:557109 original size:22 final size:24
Alignment explanation
Indices: 557083--557142 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
557073 CAAACAAACG
557083 AAAAATATGTC--AAAAG-ATATAA
1 AAAAATATGTCATAAAAGTATA-AA
* *
557105 GAAAACATGTCATAAAAGTATAAA
1 AAAAATATGTCATAAAAGTATAAA
557129 AAAAATATGTCATA
1 AAAAATATGTCATA
557143 TAAGCAGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 9 0.29
24 19 0.61
25 3 0.10
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (24 bp):
AAAAATATGTCATAAAAGTATAAA
Found at i:564555 original size:19 final size:19
Alignment explanation
Indices: 564512--564549 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
564502 TGAATTAGAC
564512 GATGCATGAATTCAATTAT
1 GATGCATGAATTCAATTAT
564531 GATGCATGAATTCAATTAT
1 GATGCATGAATTCAATTAT
564550 TGTGCAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GATGCATGAATTCAATTAT
Found at i:567414 original size:22 final size:24
Alignment explanation
Indices: 567381--567441 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
567371 ATATAATAAA
567381 TAATATTATTTATTATAAAAA-CT
1 TAATATTATTTATTATAAAAATCT
*
567404 TAATATT-TTTATTTTAAAAATCT
1 TAATATTATTTATTATAAAAATCT
*
567427 TAGA-ATAATTTATTA
1 TA-ATATTATTTATTA
567442 AAATATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 12 0.38
23 13 0.41
24 7 0.22
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (24 bp):
TAATATTATTTATTATAAAAATCT
Found at i:567657 original size:27 final size:28
Alignment explanation
Indices: 567611--567675 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
567601 ATTATTAGAC
567611 TATTATATTAATATTAAATACA-TAAATAA
1 TATTAT-TTAATATTAAATA-ATTAAATAA
* *
567640 TATTATTTATTATT-AATAATTTAATAA
1 TATTATTTAATATTAAATAATTAAATAA
567667 TATT-TTTAA
1 TATTATTTAA
567676 GAAATTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.16
27 14 0.44
28 7 0.22
29 6 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TATTATTTAATATTAAATAATTAAATAA
Found at i:567670 original size:51 final size:49
Alignment explanation
Indices: 567615--567720 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 49
567605 TTAGACTATT
** * *
567615 ATATTAATATTAAA-TACATAAATAATATTATTTATTATTAATAATTTAATA
1 ATATTAATAAGAAATTA-ATAAATAATATAACTT-TTATTAATAATTT-ATA
** *
567666 ATATTTTTAAGAAATTAATAAATAATATAACTTTTATTAATAATTTATT
1 ATATTAATAAGAAATTAATAAATAATATAACTTTTATTAATAATTTATA
567715 ATATTA
1 ATATTA
567721 TTAAAATAAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
49 7 0.15
50 13 0.28
51 24 0.52
52 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (49 bp):
ATATTAATAAGAAATTAATAAATAATATAACTTTTATTAATAATTTATA
Found at i:567675 original size:20 final size:20
Alignment explanation
Indices: 567647--567686 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
567637 TAATATTATT
* *
567647 TATTATTAATAATTTAATAA
1 TATTATTAAGAAATTAATAA
*
567667 TATTTTTAAGAAATTAATAA
1 TATTATTAAGAAATTAATAA
567687 ATAATATAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TATTATTAAGAAATTAATAA
Found at i:567740 original size:50 final size:47
Alignment explanation
Indices: 567632--567777 Score: 132
Period size: 50 Copynumber: 2.9 Consensus size: 47
567622 TATTAAATAC
* * * **
567632 ATAAATAATATTATTTATTATTAATAATTTAATAATATTTTTAAGAAATTA
1 ATAAATAATA-TAATT-TTATTAATAATTT-ATTATATTATTAA-AAAAGA
567683 ATAAATAATATAACTTTTATTAATAATTTATTATATTATTAAAATAAGA
1 ATAAATAATATAA-TTTTATTAATAATTTATTATATTATTAAAA-AAGA
* * *
567732 ATATAATAATATCATATATTATT-ATAATATATTATATTGTTAAAAA
1 ATA-AATAATAT-A-ATTTTATTAATAATTTATTATATTATTAAAAA
567778 TATTAATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
48 2 0.02
49 17 0.21
50 43 0.52
51 19 0.23
52 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (47 bp):
ATAAATAATATAATTTTATTAATAATTTATTATATTATTAAAAAAGA
Found at i:567805 original size:23 final size:23
Alignment explanation
Indices: 567764--567819 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
567754 TATAATATAT
*
567764 TATATTGTTAAAAATATTAATAAA
1 TATATT-TTAAAAACATTAATAAA
* *
567788 TATATTTTAAATACATTAATAAT
1 TATATTTTAAAAACATTAATAAA
567811 TATTATTTT
1 TA-TATTTT
567820 TATTAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTTTAAAAACATTAATAAA
Found at i:570416 original size:23 final size:23
Alignment explanation
Indices: 570390--570434 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
570380 CACCACAGCT
*
570390 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
570413 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
570435 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:571471 original size:18 final size:18
Alignment explanation
Indices: 571450--571484 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
571440 TCCCATCTAG
571450 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
571468 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
571485 AATCTCCTAG
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:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:572092 original size:21 final size:21
Alignment explanation
Indices: 572068--572112 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
572058 TCTTGTTCGT
* *
572068 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
572089 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
572110 TTG
1 TTG
572113 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:588976 original size:29 final size:27
Alignment explanation
Indices: 588943--588996 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
588933 TATTCTAAAT
588943 ATTAAACGAATGATAGGTATTAATTATCA
1 ATTAAACGAATGATA--TATTAATTATCA
* *
588972 ATTAAACGAGTGTTATATTAATTAT
1 ATTAAACGAATGATATATTAATTAT
588997 TATTTGGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
29 13 0.57
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTAAACGAATGATATATTAATTATCA
Found at i:605541 original size:15 final size:15
Alignment explanation
Indices: 605521--605567 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
605511 CAATAGACTG
605521 AGAGACTAAATTATA
1 AGAGACTAAATTATA
*
605536 AGAGACATAAATGATA
1 AGAGAC-TAAATTATA
* *
605552 AGGGATTAAATTATA
1 AGAGACTAAATTATA
605567 A
1 A
605568 AAAGAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (15 bp):
AGAGACTAAATTATA
Found at i:610835 original size:31 final size:31
Alignment explanation
Indices: 610797--610857 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
610787 AACGGCTGAG
610797 GGACTAAAATCAAACAGATCGATAACGTTAT
1 GGACTAAAATCAAACAGATCGATAACGTTAT
* * *
610828 GGACTAAAATCGAACTGATCGATAATGTTA
1 GGACTAAAATCAAACAGATCGATAACGTTA
610858 AGAACCACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.25
Consensus pattern (31 bp):
GGACTAAAATCAAACAGATCGATAACGTTAT
Found at i:611418 original size:21 final size:21
Alignment explanation
Indices: 611389--611544 Score: 86
Period size: 21 Copynumber: 7.6 Consensus size: 21
611379 GATCTCTAAT
*
611389 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
611410 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* *
611430 TCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
* * ** **
611451 TTGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
611471 TCGCGTCGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
611492 TCGCGTTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
*
611512 TCGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
611533 TCGCGTTGCGAT
1 TCGCGTTGCGAT
611545 TTTTCATTTC
Statistics
Matches: 93, Mismatches: 37, Indels: 10
0.66 0.26 0.07
Matches are distributed among these distances:
19 1 0.01
20 40 0.43
21 51 0.55
22 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:611444 original size:41 final size:41
Alignment explanation
Indices: 611366--611591 Score: 287
Period size: 41 Copynumber: 5.5 Consensus size: 41
611356 AATGACCAAC
* * * * *
611366 AAAATCGCATTGCGA-TCTCTAATTCGCATTGCGATAGTTG
1 AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG
611406 AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-
1 AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TG
* * * *
611447 ACAGTTGCGTTGCGATTTTCCATTTCGCGTCGCGATAGTTG
1 AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG
* *
611488 AAAATCGCGTTGCGATTTTTCATTTCGTGTTGCGATAGTTG
1 AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG
*
611529 AAAATCGCGTTGCGATTTTTCATTTCGCGTTGCGATAGTCT-
1 AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TG
* *
611570 ACAGTCGCGTTGCGATTTTCCA
1 AAAATCGCGTTGCGATTTTCCA
611592 AATTCGTTGT
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 15 0.09
41 146 0.90
42 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
AAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTG
Found at i:611693 original size:6 final size:6
Alignment explanation
Indices: 611682--611711 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
611672 GAAGACACGT
611682 ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC
611712 CGAGACGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:612230 original size:6 final size:6
Alignment explanation
Indices: 612219--612320 Score: 204
Period size: 6 Copynumber: 17.0 Consensus size: 6
612209 TCTCGTCTCG
612219 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
612267 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
612315 GGTCGT
1 GGTCGT
612321 ACGTGTCTTC
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 96 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:612463 original size:42 final size:41
Alignment explanation
Indices: 612411--612536 Score: 155
Period size: 41 Copynumber: 3.0 Consensus size: 41
612401 ACAACGAATT
612411 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAA
* * *
612453 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
* * * * *
612494 TGGAAAATCACAACGCGATTTTCAACTATCGCAACTCGAAA
1 TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
612535 TG
1 TG
612537 CAACACGAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
41 62 0.79
42 16 0.21
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
Found at i:612464 original size:20 final size:20
Alignment explanation
Indices: 612439--612511 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
612429 ACTGTAGACT
612439 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
612459 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
612480 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
612500 ATCACAACGCGA
1 ATCGCAACGCGA
612512 TTTTCAACTA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:612540 original size:21 final size:21
Alignment explanation
Indices: 612436--612540 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
612426 ACAACTGTAG
*
612436 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
612457 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
612477 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
612498 A-AATCACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
612518 ACTATCGCAACTCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
612539 AC
1 AC
612541 ACGAATTTGC
Statistics
Matches: 60, Mismatches: 22, Indels: 4
0.70 0.26 0.05
Matches are distributed among these distances:
20 29 0.48
21 31 0.52
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:612553 original size:41 final size:41
Alignment explanation
Indices: 612436--612536 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
612426 ACAACTGTAG
*
612436 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
612477 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
*
612518 ACTATCGCAACTCGAAATG
1 ACTATCGCAACGCGAAATG
612537 CAACACGAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
Found at i:612604 original size:20 final size:20
Alignment explanation
Indices: 612581--612694 Score: 84
Period size: 20 Copynumber: 5.6 Consensus size: 20
612571 GATTTCAACT
612581 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** **
612601 ATCGCAACGCGATCTCCATCT
1 ATCGCAACGCGAAATGGA-AA
*
612622 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** **
612642 ATCGCAACGCGATCTCCATCT
1 ATCGCAACGCGAAATGGA-AA
612663 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
612683 AACGCAACGCGA
1 ATCGCAACGCGA
612695 TTTTCAACCA
Statistics
Matches: 65, Mismatches: 27, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
20 38 0.58
21 27 0.42
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:612627 original size:21 final size:21
Alignment explanation
Indices: 612601--612674 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
612591 GAAATGGAAA
612601 ATCGCAACGCGATCTCCATCT
1 ATCGCAACGCGATCTCCATCT
* ** ** **
612622 ATCGCAATGCGAAATGGA-AA
1 ATCGCAACGCGATCTCCATCT
612642 ATCGCAACGCGATCTCCATCT
1 ATCGCAACGCGATCTCCATCT
612663 ATCGCAACGCGA
1 ATCGCAACGCGA
612675 AATGGAAAAA
Statistics
Matches: 38, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 13 0.34
21 25 0.66
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGATCTCCATCT
Found at i:612634 original size:41 final size:41
Alignment explanation
Indices: 612579--612695 Score: 216
Period size: 41 Copynumber: 2.9 Consensus size: 41
612569 GCGATTTCAA
612579 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAT
1 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAT
*
612620 CTATCGCAATGCGAAATGGAAAATCGCAACGCGATCTCCAT
1 CTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAT
*
612661 CTATCGCAACGCGAAATGGAAAAACGCAACGCGAT
1 CTATCGCAACGCGAAATGGAAAATCGCAACGCGAT
612696 TTTCAACCAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (41 bp):
CTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAT
Found at i:612695 original size:142 final size:141
Alignment explanation
Indices: 612436--612695 Score: 378
Period size: 142 Copynumber: 1.8 Consensus size: 141
612426 ACAACTGTAG
* *
612436 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
* * * * * *
612501 TCACAACGCGATTTTCAACTATCGCAACTCGAAATGCAACACGAATTTGCGATGATGGAGATCGC
66 TCACAACGCGATCTCCAACTATCGCAACGCGAAATGAAAAACGAA-TCGCGATGATGGAGATCGC
612566 GTTGCGATTTCA
130 GTTGCGATTTCA
* *
612578 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCATCTATCGCAATGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
* *
612643 TCGCAACGCGATCTCCATCTATCGCAACGCGAAATGGAAAAACGCAA-CGCGAT
66 TCACAACGCGATCTCCAACTATCGCAACGCGAAAT-GAAAAACG-AATCGCGAT
612696 TTTCAACCAT
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
142 96 0.92
143 6 0.06
144 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.19
Consensus pattern (141 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
TCACAACGCGATCTCCAACTATCGCAACGCGAAATGAAAAACGAATCGCGATGATGGAGATCGCG
TTGCGATTTCA
Found at i:612708 original size:41 final size:41
Alignment explanation
Indices: 612576--612719 Score: 207
Period size: 41 Copynumber: 3.5 Consensus size: 41
612566 GTTGCGATTT
612576 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
* *
612617 CATCTATCGCAATGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
* * * *
612658 CATCTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
* * *
612699 CAACCATCGCAATGCAAAATG
1 CAACTATCGCAACGCGAAATG
612720 CAACGTGAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.37, C:0.27, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
Found at i:620590 original size:21 final size:21
Alignment explanation
Indices: 620566--620610 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
620556 AGAAAAAGGA
* *
620566 TCCAATTATTCTAAAAATTAC
1 TCCAATAATTATAAAAATTAC
*
620587 TCCAATAATTATAAACATTAC
1 TCCAATAATTATAAAAATTAC
620608 TCC
1 TCC
620611 GACAAAGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (21 bp):
TCCAATAATTATAAAAATTAC
Found at i:623849 original size:2 final size:2
Alignment explanation
Indices: 623842--623877 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
623832 AAAATTTAAA
623842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
623878 TTCATTCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:624515 original size:22 final size:22
Alignment explanation
Indices: 624490--624564 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
624480 ATTAATATTT
624490 TAATATTTTAA-TATATAAATTA
1 TAATATTTTAAGTA-ATAAATTA
*
624512 TAATTTTTTAAGTAATTAAA--A
1 TAATATTTTAAGTAA-TAAATTA
624533 TAA-ATTATTAAGTAATAAATTA
1 TAATATT-TTAAGTAATAAATTA
624555 TAAT-TTTTAA
1 TAATATTTTAA
624565 ACATATTAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
20 6 0.13
21 16 0.36
22 17 0.38
23 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (22 bp):
TAATATTTTAAGTAATAAATTA
Found at i:624564 original size:21 final size:21
Alignment explanation
Indices: 624490--624564 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
624480 ATTAATATTT
624490 TAATATTTTAA-TATATAAATTA
1 TAAT-TTTTAAGTA-ATAAATTA
*
624512 TAATTTTTTAAGTAATTAAAATA
1 TAA-TTTTTAAGTAA-TAAATTA
*
624535 -AATTATTAAGTAATAAATTA
1 TAATTTTTAAGTAATAAATTA
624555 TAATTTTTAA
1 TAATTTTTAA
624565 ACATATTAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
20 6 0.13
21 18 0.40
22 12 0.27
23 9 0.20
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TAATTTTTAAGTAATAAATTA
Found at i:625768 original size:40 final size:40
Alignment explanation
Indices: 625724--625811 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
625714 TCATAAAAAT
*
625724 ATTTATTTAATTTAATTTTAAAATATCGTAAAATTTAGAA
1 ATTTATTTAATTTAATTTTAAAATATCATAAAATTTAGAA
625764 ATTTATTTAATTTAATTTTAAAATATCATAAAATTTAGAA
1 ATTTATTTAATTTAATTTTAAAATATCATAAAATTTAGAA
625804 ATTTATTT
1 ATTTATTT
625812 TTATATTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (40 bp):
ATTTATTTAATTTAATTTTAAAATATCATAAAATTTAGAA
Found at i:631818 original size:20 final size:20
Alignment explanation
Indices: 631781--631842 Score: 52
Period size: 24 Copynumber: 2.9 Consensus size: 20
631771 GTTCGTTCAT
** *
631781 TTATGTTCGTGAACGTTCGG
1 TTATGTTCGTTTATGTTCGG
631801 TTATGTTCGTTTATGTTCGTTCGG
1 TTATGTTCGTTTA---T-GTTCGG
*
631825 TTATGTTTGTTTATGTTC
1 TTATGTTCGTTTATGTTC
631843 ATTCATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 15 0.44
21 1 0.03
24 18 0.53
ACGTcount: A:0.11, C:0.11, G:0.24, T:0.53
Consensus pattern (20 bp):
TTATGTTCGTTTATGTTCGG
Found at i:631821 original size:24 final size:24
Alignment explanation
Indices: 631794--631842 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
631784 TGTTCGTGAA
631794 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
*
631818 CGTTCGGTTATGTTTGTTTATGTT
1 CGTTCGGTTATGTTCGTTTATGTT
631842 C
1 C
631843 ATTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.12, G:0.24, T:0.55
Consensus pattern (24 bp):
CGTTCGGTTATGTTCGTTTATGTT
Found at i:631852 original size:24 final size:24
Alignment explanation
Indices: 631800--631856 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
631790 TGAACGTTCG
* * *
631800 GTTATGTTCGTTTATGTTCGTTCG
1 GTTATGTTTGTTTATGTTCATTCA
631824 GTTATGTTTGTTTATGTTCATTCA
1 GTTATGTTTGTTTATGTTCATTCA
*
631848 TTTATGTTT
1 GTTATGTTT
631857 AACTCAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.60
Consensus pattern (24 bp):
GTTATGTTTGTTTATGTTCATTCA
Found at i:634383 original size:23 final size:23
Alignment explanation
Indices: 634340--634402 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
634330 CAGCTCATAT
*
634340 AATTGCACCA-AGTGTCACGTAG
1 AATTGCACCAGAGTGCCACGTAG
*
634362 AATTGCACCAGAGTGCCGCGTAG
1 AATTGCACCAGAGTGCCACGTAG
634385 AATTGCACC-GTAGTGCCA
1 AATTGCACCAG-AGTGCCA
634403 TATAATAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 11 0.31
23 25 0.69
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (23 bp):
AATTGCACCAGAGTGCCACGTAG
Found at i:635376 original size:64 final size:64
Alignment explanation
Indices: 635268--635488 Score: 236
Period size: 64 Copynumber: 3.5 Consensus size: 64
635258 TAATGAAGGT
* * * * *
635268 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTT-TCATTATTAATGG
635331 G
64 G
* *
635332 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
* * **
635396 ATGCATCGATGCACTACTTATGCATCGATGCACAAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCATTATTAATGGG
* * *
635459 AGTGCATCGATGCACTTCCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
635489 ACACCTTCAA
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 4 0.03
64 125 0.93
65 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:641122 original size:21 final size:21
Alignment explanation
Indices: 641096--641148 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
641086 GTTTCCAGAT
*
641096 TCGCAATGTGAACATCGACTA
1 TCGCAATGCGAACATCGACTA
* *
641117 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACATCGACTA
641138 TCGCAATGCGA
1 TCGCAATGCGA
641149 TTTTCCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACATCGACTA
Found at i:641202 original size:21 final size:21
Alignment explanation
Indices: 641160--641202 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
641150 TTTCCAAATT
* **
641160 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAAATCG
*
641181 CGTTGTGATAGTCCAAAATCG
1 CGTTGCGATAGTCCAAAATCG
641202 C
1 C
641203 AACGACTGGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAAATCG
Found at i:643447 original size:23 final size:23
Alignment explanation
Indices: 643421--643478 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
643411 CTCGTATAAA
* *
643421 TGCACCAAAGTGTCACGTAGAGT
1 TGCACCGAAGTGTCACGTAGAAT
*
643444 TGCACCGAAGTGTCGCGTAGAAT
1 TGCACCGAAGTGTCACGTAGAAT
643467 TGCACCGAAGTG
1 TGCACCGAAGTG
643479 CCATATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGTCACGTAGAAT
Found at i:660731 original size:78 final size:78
Alignment explanation
Indices: 660595--660750 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
660585 CAAATCAAGA
660595 ATCACCCTCCGCAATCCAAGTTTCCAATCATTGCTCCAAACTTTAGTGCCCAACTCCTTGATTTT
1 ATCACCCTCCGCAATCCAAGTTTCCAATCATTGCTCCAAACTTTAGTGCCCAACTCCTTGATTTT
660660 TGCAACCATTTGG
66 TGCAACCATTTGG
660673 ATCACCCCTCCGCAATCCAAGTTTCCAATCATTGCTCC-AACTTTAGTGCCCAACTCCTTGATTT
1 ATCA-CCCTCCGCAATCCAAGTTTCCAATCATTGCTCCAAACTTTAGTGCCCAACTCCTTGATTT
660737 TTGCAACCATTTGG
65 TTGCAACCATTTGG
660751 TTTTATCCAA
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
78 44 0.57
79 33 0.43
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.32
Consensus pattern (78 bp):
ATCACCCTCCGCAATCCAAGTTTCCAATCATTGCTCCAAACTTTAGTGCCCAACTCCTTGATTTT
TGCAACCATTTGG
Found at i:664017 original size:22 final size:22
Alignment explanation
Indices: 663992--664065 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
663982 ATCTTTTGTC
663992 TATTTCTTTATATTATATTTTT
1 TATTTCTTTATATTATATTTTT
* *
664014 TATTTTTTTAATATAAT-TTTTGT
1 TATTTCTTT-ATATTATATTTT-T
*
664037 ATATTTC-TTA-ATTA-ATTTTG
1 -TATTTCTTTATATTATATTTTT
664057 TATTATCTT
1 TATT-TCTT
664066 AAAATGATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 8 0.20
22 13 0.32
23 9 0.22
24 5 0.12
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (22 bp):
TATTTCTTTATATTATATTTTT
Found at i:664034 original size:21 final size:20
Alignment explanation
Indices: 664003--664067 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 20
663993 ATTTCTTTAT
*
664003 ATTATATTTTTTATTTTTTTA
1 ATTA-ATTTTTTATTTTCTTA
664024 ATATAATTTTTGTATATTTCTTA
1 AT-TAATTTTT-TAT-TTTCTTA
* *
664047 ATTAATTTTGTATTATCTTA
1 ATTAATTTTTTATTTTCTTA
664067 A
1 A
664068 AATGATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.18
21 11 0.29
22 12 0.32
23 8 0.21
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTAATTTTTTATTTTCTTA
Found at i:664047 original size:23 final size:22
Alignment explanation
Indices: 663985--664067 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
663975 AGCAAGTATC
* *
663985 TTTTGTCTATTTCTTTATATTATAT
1 TTTTGTAT-TTTCTTAATA-TA-AT
*
664010 TTTT-TATTTTTTTAATATAAT
1 TTTTGTATTTTCTTAATATAAT
664031 TTTTGTATATTTCTTAAT-TAA-
1 TTTTGTAT-TTTCTTAATATAAT
*
664052 TTTTGTATTATCTTAA
1 TTTTGTATTTTCTTAA
664068 AATGATTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.14
21 14 0.27
22 8 0.16
23 16 0.31
24 2 0.04
25 4 0.08
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTGTATTTTCTTAATATAAT
Found at i:664067 original size:20 final size:23
Alignment explanation
Indices: 664021--664067 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
664011 TTTTATTTTT
*
664021 TTAATATAATTTTTGTATATTTC
1 TTAATATAATTTTTGTATATATC
664044 TTAAT-TAA-TTTTGTAT-TATC
1 TTAATATAATTTTTGTATATATC
664064 TTAA
1 TTAA
664068 AATGATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 8 0.35
22 3 0.13
23 5 0.22
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (23 bp):
TTAATATAATTTTTGTATATATC
Found at i:666194 original size:6 final size:6
Alignment explanation
Indices: 666184--666217 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
666174 AAGGCGACCT
*
666184 TTGTAT TTGTAA TTGTAA TTGTAA TTGTAA TTGT
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGT
666218 GTGACGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (6 bp):
TTGTAA
Found at i:669446 original size:2 final size:2
Alignment explanation
Indices: 669439--669465 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
669429 AATCAAACCA
669439 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
669466 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:671838 original size:182 final size:182
Alignment explanation
Indices: 671453--671926 Score: 707
Period size: 182 Copynumber: 2.6 Consensus size: 182
671443 GATCCAAATT
* * * **
671453 AAAAATATATCGATCCACAACGATATAACATGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATATATCGATCAACAACGATATAACATGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * * *
671518 AAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAGAATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
* *
671583 GTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
** *
671635 AAAAATATATCGATCAACAACGATATAACATGTAAAAATATGATAAAACTGGTATCAAAATGATG
1 AAAAATATATCGATCAACAACGATATAACATGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * * * *
671700 AAACCGGTAAAACGCTATCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
*
671764 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* *
671816 AAAAATGTATCGATCAAACAACGATATAACAAGTAAAAATATGATAAAACCAGTATCAAAATGAT
1 AAAAATATATCGATC-AACAACGATATAACATGTAAAAATATGATAAAACCAGTATCAAAATGAT
*
671881 AAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
671927 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 80 0.31
182 181 0.69
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCAACAACGATATAACATGTAAAAATATGATAAAACCAGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:671870 original size:20 final size:19
Alignment explanation
Indices: 671847--671893 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
671837 CGATATAACA
671847 AGTAAAAATATGATAAAACC
1 AGTAAAAA-ATGATAAAACC
*
671867 AGTATCAAAATGATAAAACC
1 AGTA-AAAAATGATAAAACC
*
671887 GGTAAAA
1 AGTAAAA
671894 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (19 bp):
AGTAAAAAATGATAAAACC
Found at i:674396 original size:22 final size:22
Alignment explanation
Indices: 674352--674396 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
674342 ATTACATAAC
*
674352 TTTAAAAAAAGTATGAATCCTT
1 TTTAAAAAAAGTATGAATACTT
* *
674374 TTTATAAAAAGTATGGATACTT
1 TTTAAAAAAAGTATGAATACTT
674396 T
1 T
674397 CAACATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (22 bp):
TTTAAAAAAAGTATGAATACTT
Found at i:674890 original size:182 final size:182
Alignment explanation
Indices: 674423--675082 Score: 1144
Period size: 182 Copynumber: 3.6 Consensus size: 182
674413 TTTTACCTTT
* *
674423 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
674488 AACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
674553 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGAAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
674605 TTTAAAATAGAAG-AGTTATAGCGCCAATATAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
674669 AACAATATAATATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
674734 CGGTTATGTTGAAAGTGTCAATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
674786 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
674851 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
674916 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
674968 -TTAATAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * * **
675032 TAATAATATAACATGTAAAAATATGATAAAACCGGTGTATAAATGACAAAA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
675083 GGTGAACGCA
Statistics
Matches: 455, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
181 174 0.38
182 281 0.62
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:675265 original size:23 final size:23
Alignment explanation
Indices: 675209--675265 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
675199 TTACTTATAA
*
675209 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* **
675233 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAGCGCTACCT
675256 AATATGTTAT
1 AATATGTTAT
675266 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:675322 original size:87 final size:87
Alignment explanation
Indices: 675218--675380 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
675208 AAATATGTCA
*
675218 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
675283 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* *
675305 ATATAAGCGCTATCTATTACATTATATAAACGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
*
675370 TCGGTTAAATA
66 CCGGTTAAATA
675381 ATATAACATA
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:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:678417 original size:22 final size:22
Alignment explanation
Indices: 678392--678435 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
678382 AAGCAAATAC
678392 ACAAAAAAAAAAAAAAAAAAAA
1 ACAAAAAAAAAAAAAAAAAAAA
* * *
678414 ACAAAACAAAAGAAAAATAAAA
1 ACAAAAAAAAAAAAAAAAAAAA
678436 TATGAAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (22 bp):
ACAAAAAAAAAAAAAAAAAAAA
Found at i:678739 original size:15 final size:15
Alignment explanation
Indices: 678721--678770 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
678711 TAAAATAATA
678721 ATAAATATA-ATAGTT
1 ATAAATATATATA-TT
678736 ATAAATATATATATT
1 ATAAATATATATATT
*
678751 ATATATATATATATAT
1 ATAAATATATATAT-T
678767 ATAA
1 ATAA
678771 TAACTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 24 0.77
16 7 0.23
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATAAATATATATATT
Found at i:678747 original size:2 final size:2
Alignment explanation
Indices: 678735--678769 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
678725 ATATAATAGT
*
678735 TA TA AA TA TA TA TA T- 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
678770 ATAACTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:678747 original size:19 final size:19
Alignment explanation
Indices: 678720--678772 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
678710 GTAAAATAAT
*
678720 AATAAATATAATAGT-TATA
1 AATATATATAATA-TATATA
678739 AATATATATATTATATATATA
1 AATATATATA--ATATATATA
*
678760 TATATATATAATA
1 AATATATATAATA
678773 ACTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 12 0.41
20 1 0.03
21 16 0.55
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATATATAATATATATA
Found at i:678799 original size:16 final size:16
Alignment explanation
Indices: 678778--678812 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
678768 TAATAACTTT
678778 AAAAAACATTAAAATA
1 AAAAAACATTAAAATA
* *
678794 AAAAAATATTAGAATA
1 AAAAAACATTAAAATA
678810 AAA
1 AAA
678813 TTAATTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAACATTAAAATA
Found at i:680033 original size:2 final size:2
Alignment explanation
Indices: 680011--680066 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
680001 AAAACATGTT
* *
680011 TA TA -A TA TA TT TA TA CA -A 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
680051 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
680067 AAATATGTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:681020 original size:106 final size:106
Alignment explanation
Indices: 680835--681191 Score: 478
Period size: 106 Copynumber: 3.4 Consensus size: 106
680825 ATTGCTCCGA
* * * * * * **
680835 GTCCAATATCTTTCGTCGCGAAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGGAATTGTTTGTTGACAGTC
*
680900 AGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGG
66 AGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGTTGTCTTGG
*
680941 GTCCAATATCCTTCGATGTGAAGTTGAAATTGGATCTGAAATTGGGGAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGGAATTGTTTGTTGACAGTC
*
681006 AGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGTTGTCTTGA
66 AGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGTTGTCTTGG
* *
681047 GTCCAATATCCTTCGTTGTGAAGTTGAAACT-GACTCTGAAA-----G--TTGTTTGTTGACAAT
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGA-TCTGAAATTGGGGAATTGTTTGTTGACAGT
* * *
681104 CAGTCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTATCTTGG
65 CAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGTTGTCTTGG
* * *
681146 GTCCAATATCATTCGTTGTGAAGTTGAAATTGGTTATGAAATTGGG
1 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGG
681192 AAGCCCCTTC
Statistics
Matches: 222, Mismatches: 22, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
99 87 0.39
100 1 0.00
101 1 0.00
105 2 0.01
106 131 0.59
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (106 bp):
GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGGAATTGTTTGTTGACAGTC
AGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGTTGTCTTGG
Found at i:682290 original size:20 final size:20
Alignment explanation
Indices: 682265--682303 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
682255 CATCTTATTT
682265 TCTTTT-CTTTCTCTTTTTTC
1 TCTTTTACTTT-TCTTTTTTC
682285 TCTTTTACTTTTCTTTTTT
1 TCTTTTACTTTTCTTTTTT
682304 ACAATTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TCTTTTACTTTTCTTTTTTC
Found at i:684109 original size:20 final size:20
Alignment explanation
Indices: 684084--684122 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
684074 CAGATTGTCC
684084 AGGGGTACAGATTCCCCCCA
1 AGGGGTACAGATTCCCCCCA
*
684104 AGGGGTACCGATTCCCCCC
1 AGGGGTACAGATTCCCCCC
684123 TGTCTAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (20 bp):
AGGGGTACAGATTCCCCCCA
Found at i:687534 original size:22 final size:22
Alignment explanation
Indices: 687508--687569 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
687498 AGATTGTCCA
687508 GGGGTACCGATTCCCCCCCAAG
1 GGGGTACCGATTCCCCCCCAAG
*
687530 GGGGTACCGATTCCCCCCTAAG
1 GGGGTACCGATTCCCCCCCAAG
*
687552 GAGGTACCGATTCCCCCC
1 GGGGTACCGATTCCCCCC
687570 TGTCTAATGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.18, C:0.40, G:0.26, T:0.16
Consensus pattern (22 bp):
GGGGTACCGATTCCCCCCCAAG
Found at i:696833 original size:13 final size:13
Alignment explanation
Indices: 696817--696856 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
696807 AGCTAATACT
696817 AAAAAAAAACAAA
1 AAAAAAAAACAAA
*
696830 AAAACAAAACAAA
1 AAAAAAAAACAAA
*
696843 AAAAAAAAATAAA
1 AAAAAAAAACAAA
696856 A
1 A
696857 TGAAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:697197 original size:17 final size:17
Alignment explanation
Indices: 697160--697203 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
697150 TATATATATT
697160 TAAAAA-AA-ATTAAAA
1 TAAAAATAATATTAAAA
* *
697175 TTAAAATAATATTAGAA
1 TAAAAATAATATTAAAA
697192 TAAAAATAATAT
1 TAAAAATAATAT
697204 ATATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 2 0.08
17 17 0.71
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAAATAATATTAAAA
Found at i:697207 original size:2 final size:2
Alignment explanation
Indices: 697200--697237 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
697190 AATAAAAATA
697200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
697238 TTAATAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:698430 original size:13 final size:13
Alignment explanation
Indices: 698409--698450 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
698399 GTTTATAATA
* *
698409 ATATTTATACCAT
1 ATATATATAACAT
698422 ATATATATAACAT
1 ATATATATAACAT
698435 ATATATATAA-AT
1 ATATATATAACAT
698447 ATAT
1 ATAT
698451 GTTCATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATATATAACAT
Found at i:702976 original size:16 final size:16
Alignment explanation
Indices: 702955--703009 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
702945 GGTATTACCC
*
702955 GACCTGTTTTCAACCT
1 GACCTGTTTTTAACCT
702971 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
702987 GACCTGTTTTTAACCT
1 GACCTGTTTTTAACCT
*
703003 GATCTGT
1 GACCTGT
703010 AAATGATCCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (16 bp):
GACCTGTTTTTAACCT
Found at i:703305 original size:23 final size:24
Alignment explanation
Indices: 703271--703316 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
703261 ATGCAAAGAA
703271 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
*
703295 AAATT-ATATAGTTTTATTTATA
1 AAATTAATATAGTTTAATTTATA
703317 CAAAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:703506 original size:24 final size:24
Alignment explanation
Indices: 703479--703525 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
703469 TCTATTTATA
703479 TTATGGTTTA-TGATTTAGTGTTTT
1 TTATGGTTTAGT-ATTTAGTGTTTT
* *
703503 TTATGTTTTAGTTTTTAGTGTTT
1 TTATGGTTTAGTATTTAGTGTTT
703526 ATGATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.15, C:0.00, G:0.19, T:0.66
Consensus pattern (24 bp):
TTATGGTTTAGTATTTAGTGTTTT
Found at i:703507 original size:17 final size:16
Alignment explanation
Indices: 703485--703518 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
703475 TATATTATGG
703485 TTTATGATTTAGTGTTT
1 TTTATGATTTAGT-TTT
*
703502 TTTATGTTTTAGTTTT
1 TTTATGATTTAGTTTT
703518 T
1 T
703519 AGTGTTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (16 bp):
TTTATGATTTAGTTTT
Found at i:703560 original size:21 final size:21
Alignment explanation
Indices: 703502--703563 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
703492 TTTAGTGTTT
* ** *
703502 TTTATGTTTTAGTTTTTAGTG
1 TTTATGATTTAGAGTTTAGGG
*
703523 TTTATGATTTAAAGTTTAGGG
1 TTTATGATTTAGAGTTTAGGG
*
703544 TTTATGATTTAGGGTTTAGG
1 TTTATGATTTAGAGTTTAGG
703564 TTTCTATATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (21 bp):
TTTATGATTTAGAGTTTAGGG
Found at i:703651 original size:2 final size:2
Alignment explanation
Indices: 703639--703689 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
703629 TTTTATAGTT
*
703639 TA TA TA T- TA TA TA TC 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
*
703680 TA CA TA TA TA
1 TA TA TA TA TA
703690 ACTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:703850 original size:20 final size:21
Alignment explanation
Indices: 703811--703850 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
703801 ATTGCATATT
*
703811 ATAAGTCCATTTGCAATAGTA
1 ATAAGTCCATTTACAATAGTA
*
703832 ATAA-TCCATTTACATTAGT
1 ATAAGTCCATTTACAATAGT
703851 TTACCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
ATAAGTCCATTTACAATAGTA
Found at i:704060 original size:17 final size:18
Alignment explanation
Indices: 704035--704071 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
704025 ATAGTATCTT
*
704035 TATATTTTATATATA-TA
1 TATAGTTTATATATACTA
704052 TATAGTTTATATATACTA
1 TATAGTTTATATATACTA
704070 TA
1 TA
704072 CATGATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TATAGTTTATATATACTA
Found at i:704144 original size:2 final size:2
Alignment explanation
Indices: 704137--704164 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
704127 TAATATTGGT
704137 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
704165 AATTACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:709979 original size:3 final size:3
Alignment explanation
Indices: 709971--710010 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
709961 CATTGATTTT
709971 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
710011 AATATGTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:711365 original size:23 final size:23
Alignment explanation
Indices: 711339--711399 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
711329 CTCGTATAAA
* *
711339 TGCACCAAAGTGCCACGTAGAAG
1 TGCACCGAAGTGCCACATAGAAG
* *
711362 TGCACCGAAGTGCCGCATAGAAT
1 TGCACCGAAGTGCCACATAGAAG
711385 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
711400 TATAAAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAG
Found at i:712954 original size:20 final size:20
Alignment explanation
Indices: 712929--712966 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
712919 TTCCCCTTGA
712929 AGTGCATCGATACATTCTAT
1 AGTGCATCGATACATTCTAT
*
712949 AGTGCATCGATGCATTCT
1 AGTGCATCGATACATTCT
712967 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAT
Found at i:717930 original size:21 final size:21
Alignment explanation
Indices: 717906--717961 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
717896 ACTCTGAGAA
*
717906 AAATATCCTTGAAAGACTATG
1 AAATGTCCTTGAAAGACTATG
717927 AAATGTCCTTGAAAGACTATG
1 AAATGTCCTTGAAAGACTATG
*
717948 AACTGTCCTTGAAA
1 AAATGTCCTTGAAA
717962 ATTTTACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (21 bp):
AAATGTCCTTGAAAGACTATG
Found at i:721845 original size:161 final size:163
Alignment explanation
Indices: 721569--721894 Score: 629
Period size: 161 Copynumber: 2.0 Consensus size: 163
721559 AAGAAACCAA
721569 GCTTCGTGCTAGCATTCCATCGAACACTTTGCGGGCGCTGGACAAAAGACCTGATTTACAATACA
1 GCTTCGTGCTAGCATTCCATCGAACACTTTGCGGGCGCTGGACAAAAGACCTGATTTACAATACA
*
721634 AGTTAATGAGAATGTTAGATGTTGTAGTGTCTTCTTGCAACCCGAAATGGATTGCCCGTACATGG
66 AGTTAATGAGAATGTTAGATGTTGTAGTGTCTTCTTGCAACCCAAAATGGATTGCCCGTACATGG
721699 CATGCTTTCCCATGGATGGCTGCTTTG-TTCTT
131 CATGCTTTCCCATGGATGGCTGCTTTGTTTCTT
721731 GCTTCGTGCT-GCATTCCATCGAACACTTTGCGGGCGCTGGACAAAAGACCTGATTTACAATACA
1 GCTTCGTGCTAGCATTCCATCGAACACTTTGCGGGCGCTGGACAAAAGACCTGATTTACAATACA
721795 AGTTAATGAGAATGTTAGATGTTGTAGTGTCTTCTTGCAACCCAAAATGGATTGCCCGTACATGG
66 AGTTAATGAGAATGTTAGATGTTGTAGTGTCTTCTTGCAACCCAAAATGGATTGCCCGTACATGG
721860 CATGCTTTCCCATGGATGGCTGCTTTGTTTCTT
131 CATGCTTTCCCATGGATGGCTGCTTTGTTTCTT
721893 GC
1 GC
721895 GCATAACTGT
Statistics
Matches: 162, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
161 145 0.90
162 17 0.10
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (163 bp):
GCTTCGTGCTAGCATTCCATCGAACACTTTGCGGGCGCTGGACAAAAGACCTGATTTACAATACA
AGTTAATGAGAATGTTAGATGTTGTAGTGTCTTCTTGCAACCCAAAATGGATTGCCCGTACATGG
CATGCTTTCCCATGGATGGCTGCTTTGTTTCTT
Found at i:727071 original size:52 final size:57
Alignment explanation
Indices: 727005--727139 Score: 201
Period size: 57 Copynumber: 2.5 Consensus size: 57
726995 ACTAATTGGA
727005 TCACTTTCTACCTTAATTATTAAGGG-TTT-TTCTT-TCAATTTTAT-AAA-TAGTCC
1 TCACTTTCTACCTTAATTATTAAGGGTTTTATTCTTATCAATTTTATAAAATTA-TCC
*
727058 TCA-TTTCTACCTTAATTATTAAGGGTTTTATTTTTATCAATTTTATAAAATTATCC
1 TCACTTTCTACCTTAATTATTAAGGGTTTTATTCTTATCAATTTTATAAAATTATCC
*
727114 TCACTTTCTACCCTAATTATTAAGGG
1 TCACTTTCTACCTTAATTATTAAGGG
727140 CCTCTAAATT
Statistics
Matches: 74, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
52 22 0.30
53 6 0.08
54 4 0.05
55 10 0.14
56 9 0.12
57 23 0.31
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.48
Consensus pattern (57 bp):
TCACTTTCTACCTTAATTATTAAGGGTTTTATTCTTATCAATTTTATAAAATTATCC
Found at i:727248 original size:59 final size:59
Alignment explanation
Indices: 727157--727284 Score: 154
Period size: 59 Copynumber: 2.2 Consensus size: 59
727147 ATTTTTTAAC
* *
727157 TTTATAAAATAGTCATCACTTTCTACTTTTATAATTGAAGGC-TCCTAATTTTATT-TAGAT
1 TTTATAAAATAGTCATCACTTTCTACCTTTATAACTG-AGGCATCCT-ATTTTATTCTA-AT
* * *
727217 TTTATAAAATAGT-TTCAGTTTCTACCTTTATAACTGAGGCATCCTATTTTTTTCTAAT
1 TTTATAAAATAGTCATCACTTTCTACCTTTATAACTGAGGCATCCTATTTTATTCTAAT
*
727275 TCTATAAAAT
1 TTTATAAAAT
727285 TCTCAATTTC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
58 22 0.37
59 25 0.42
60 13 0.22
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (59 bp):
TTTATAAAATAGTCATCACTTTCTACCTTTATAACTGAGGCATCCTATTTTATTCTAAT
Found at i:730108 original size:12 final size:12
Alignment explanation
Indices: 730091--730115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
730081 CGAAAAGTTG
730091 AAAATTTAAATT
1 AAAATTTAAATT
730103 AAAATTTAAATT
1 AAAATTTAAATT
730115 A
1 A
730116 CCTGATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:730225 original size:2 final size:2
Alignment explanation
Indices: 730218--730262 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
730208 GCAAAGGGAA
* *
730218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
730260 AT A
1 AT A
730263 ATAATAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:730269 original size:12 final size:14
Alignment explanation
Indices: 730218--730270 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
730208 GCAAAGGGAA
*
730218 ATATATATATATAT
1 ATATATATATAAAT
*
730232 ATATATATATATAT
1 ATATATATATAAAT
*
730246 ATATAGATATAAAT
1 ATATATATATAAAT
730260 ATA-ATA-ATAAA
1 ATATATATATAAA
730271 ACAAAACGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
12 5 0.14
13 2 0.06
14 29 0.81
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATATATATATAAAT
Found at i:730351 original size:15 final size:16
Alignment explanation
Indices: 730309--730342 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
730299 GTTAGTAAAA
730309 AAATAA-TAGAAATAAT
1 AAATAAGTA-AAATAAT
730325 AAATAAGTAAAATAAT
1 AAATAAGTAAAATAAT
730341 AA
1 AA
730343 TATATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATAAGTAAAATAAT
Found at i:730554 original size:15 final size:16
Alignment explanation
Indices: 730534--730567 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
730524 GAGGTTTTAA
730534 AAATAATAATA-TAAT
1 AAATAATAATACTAAT
*
730549 AAATAATGATACTAAT
1 AAATAATAATACTAAT
730565 AAA
1 AAA
730568 AAATCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
AAATAATAATACTAAT
Found at i:730934 original size:23 final size:23
Alignment explanation
Indices: 730908--730955 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
730898 ATAAAGTACA
*
730908 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
730931 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
730954 AT
1 AT
730956 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:731357 original size:21 final size:20
Alignment explanation
Indices: 731327--731378 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
731317 GATAGACACT
*
731327 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
731348 TTACATTATAAACGATACCTA
1 TTACATTAT-AACCATACCTA
731369 TTACATTATA
1 TTACATTATA
731379 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:731389 original size:23 final size:22
Alignment explanation
Indices: 731332--731402 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
731322 ACACTTTACA
*
731332 ATATAACCATTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
731355 ATA-AACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
* * *
731376 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGATACCTATTACATT
731399 ATAT
1 ATAT
731403 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.38
22 6 0.14
23 20 0.48
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:734493 original size:180 final size:184
Alignment explanation
Indices: 733942--734606 Score: 1164
Period size: 184 Copynumber: 3.7 Consensus size: 184
733932 TTTTAAATGG
* *
733942 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACCGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCGCA
734007 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
734072 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
* *
734126 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACCGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCGCA
734191 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
734256 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTTCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
*
734310 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCGCA
*
734374 TAAGACCGGTATA-TTATA-CGGTTATATTACAAAATTATCTATTACATTATAA-TATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
734436 GATGTGTAAAATGTCGACACTTTTTTAAATTATATCGACACAATTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
*
734490 TATGGACATAAAGTACCG--ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCGCA
* **
734553 TAAGACCGGTATATTTATA-CGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
734607 GTTGAAAGTG
Statistics
Matches: 468, Mismatches: 10, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
178 8 0.02
179 49 0.10
180 116 0.25
181 34 0.07
182 5 0.01
183 45 0.10
184 211 0.45
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATACAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:735976 original size:3 final size:3
Alignment explanation
Indices: 735968--736018 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
735958 ACTTGTTTGG
* * * *
735968 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
736016 ATC
1 ATC
736019 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:735985 original size:12 final size:12
Alignment explanation
Indices: 735968--736030 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
735958 ACTTGTTTGG
735968 ATCATCATCTTC
1 ATCATCATCTTC
*
735980 ATCATCATCGTC
1 ATCATCATCTTC
*
735992 ATCATCATCATC
1 ATCATCATCTTC
*
736004 ATCGTCATCTTC
1 ATCATCATCTTC
* *
736016 ATCGTCAGCTTC
1 ATCATCATCTTC
736028 ATC
1 ATC
736031 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:736029 original size:18 final size:18
Alignment explanation
Indices: 735972--736033 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
735962 GTTTGGATCA
735972 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
735990 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
736008 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
736026 TCATCTTC
1 TCATCTTC
736034 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:736033 original size:6 final size:6
Alignment explanation
Indices: 735972--736033 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
735962 GTTTGGATCA
* * * * * *
735972 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
736020 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
736034 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:738788 original size:590 final size:594
Alignment explanation
Indices: 737479--739870 Score: 4232
Period size: 590 Copynumber: 4.0 Consensus size: 594
737469 TTTAAATTAG
* *
737479 TATCGACACAAAATATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
737543 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
737608 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAA
737673 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
737738 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* ***
737803 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
325 GGATCGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTG
*
737868 GGAAAAAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
389 GAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAA
*
737932 ACCGGTATAATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGA
454 ACCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
737996 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATT
519 -TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATT
738061 CTGGAAAAAAAA
583 CTGGAAAAAAAA
738073 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
738137 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *** *
738202 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGG-GAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
738266 AAATATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
738330 ATAATTGTACC-GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
738394 GATCGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGA
738456 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
391 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
738521 CGGTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
456 CGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-T
* * ***
738585 TTGGGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
520 TTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATT
*
738650 CTGGGAAAAAAA
583 CTGGAAAAAAAA
738662 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
738727 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
738792 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
738857 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
738922 ATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
* ***
738986 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GATCGACAC-TTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGG
*
739051 GAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAA
390 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAA
*
739116 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
455 CCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
739181 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGT-AAAATTCATTCT
520 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCT
739245 GG-AAAAAAA
585 GGAAAAAAAA
739254 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
739317 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
739382 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
739447 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
739512 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
*
739576 GATCGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGA
739638 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
391 AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
739703 CGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
456 CGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
739768 TGGGATCGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCT
521 TGGGATCGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCT
739833 GGAAAAAAAA
585 GGAAAAAAAA
*
739843 TATCGACAC-AACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
739871 TGACCCTTAA
Statistics
Matches: 1737, Mismatches: 42, Indels: 42
0.95 0.02 0.02
Matches are distributed among these distances:
586 183 0.11
587 223 0.13
588 61 0.04
589 77 0.04
590 509 0.29
591 101 0.06
592 151 0.09
593 74 0.04
594 115 0.07
595 89 0.05
596 116 0.07
597 38 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (594 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTAAAAATTCATTCTGGA
AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAAC
CGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTG
GAAAAAAAA
Found at i:738898 original size:198 final size:198
Alignment explanation
Indices: 737479--739870 Score: 4223
Period size: 199 Copynumber: 12.1 Consensus size: 198
737469 TTTAAATTAG
* *
737479 TATCGACACAAAATATA-TAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
737543 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
737608 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
737673 AAAA
195 AAAA
737677 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
737742 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
737807 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
737872 AAAAA
194 AAAAA
737877 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
737941 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
738005 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
738070 AAA
196 AAA
738073 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
738137 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
738202 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGG-GAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
738266 AAA
196 AAA
738269 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
738333 ATTGTACC-GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
738397 CGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
738460 AAA
196 AAA
738463 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
738528 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
738592 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
738657 AAAAA
194 AAAAA
738662 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
738727 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
738792 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
738857 AAA
196 AAA
738860 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
738925 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
738989 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
739054 AAAAA
194 AAAAA
739059 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
739124 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
739188 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGT-AAAATTCATTCTGG-AAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
739251 AAA
196 AAA
739254 TATCGACACAAAC--TATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
739317 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
739382 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
739447 AAA
196 AAA
739450 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
739515 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
739579 CGACAC-TTTT-TATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
739642 AAA
196 AAA
739645 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
739710 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
739774 CGACACTTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
739839 AAAA
195 AAAA
*
739843 TATCGACAC-AACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
739871 TGACCCTTAA
Statistics
Matches: 2120, Mismatches: 49, Indels: 51
0.95 0.02 0.02
Matches are distributed among these distances:
193 148 0.07
194 97 0.05
195 367 0.17
196 198 0.09
197 277 0.13
198 427 0.20
199 482 0.23
200 124 0.06
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AAA
Found at i:739978 original size:18 final size:18
Alignment explanation
Indices: 739957--740010 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
739947 CATAAAAAAA
739957 TATAAATCGTATACAAAT
1 TATAAATCGTATACAAAT
739975 TATAAATCGTATACAAAAT
1 TATAAATCGTATAC-AAAT
*
739994 TATAAATCTTATACAAA
1 TATAAATCGTATACAAA
740011 ATTAACTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (18 bp):
TATAAATCGTATACAAAT
Found at i:739995 original size:19 final size:19
Alignment explanation
Indices: 739952--740014 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
739942 ATTCACATAA
*
739952 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
739971 -AAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
739989 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
740008 AAAATTA
1 AAAATTA
740015 ACTCGACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.41
19 24 0.59
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:740599 original size:4 final size:4
Alignment explanation
Indices: 740590--740614 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
740580 AATGTCCTTT
740590 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
740615 CAATCTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:741849 original size:33 final size:33
Alignment explanation
Indices: 741812--741877 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
741802 CATCTTAATA
*
741812 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
741845 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
741878 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:744019 original size:24 final size:24
Alignment explanation
Indices: 743982--744034 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
743972 CCGTTCTATC
743982 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
744006 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
744030 TATTT
1 TATTT
744035 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:744225 original size:20 final size:20
Alignment explanation
Indices: 744179--744234 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
744169 TCCGGTATCA
*
744179 TTTTACCGTTTTTATCATTT
1 TTTTACCGTGTTTATCATTT
**
744199 TGATACCG-GTTTATCATATT
1 TTTTACCGTGTTTATCAT-TT
744219 TTTTACC-TGTTATATC
1 TTTTACCGTGTT-TATC
744235 GTTGTGGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 8 0.29
20 16 0.57
21 4 0.14
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGTGTTTATCATTT
Found at i:744373 original size:20 final size:20
Alignment explanation
Indices: 744346--744392 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
744336 ACACTTTTAA
744346 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
744365 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
744386 TTTTACC
1 TTTTACC
744393 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:746605 original size:84 final size:84
Alignment explanation
Indices: 746517--747484 Score: 814
Period size: 84 Copynumber: 11.7 Consensus size: 84
746507 CTGAATGCAA
* * * * *
746517 TCGAACTCGGAGGTCTTCGGTTGGTAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
746582 ACCTTAGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
746601 TCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * ** *
746665 GCCCTCGAAGCTGAGTATAA
66 G-CCTTGGAGCTGAGCGTAG
* * * *
746685 TCGAACTCG-AGAGTC--T--TTGGCAGATAGCCCTTCTTGACTTAAG--CTGCTGCAAATGATA
1 TCGAACTCGAAG-GTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
746743 TGCCTTAGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * * * *
746763 TCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * * *
746827 TGCCCTCGAAGCTAAGTGTAA
65 TG-CCTTGGAGCTGAGCGTAG
* * * * ** * **
746848 TCAAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTATAAATTATAC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
746909 ACATTGGAGTTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
** * *
746928 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGGTTTAAGTTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
746993 GTCTTGGAGCTTAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * *
747012 TCGAACTCGAAGGTCTTTTGGTT-ACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * * *
747076 TGCCCTCGAAGTTGAGTGTAA
65 TG-CCTTGGAGCTGAGCGTAG
* * * * * * *
747097 TCGAACTTGAGGGTC--T--TTGACAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
**
747158 GTTTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* *
747177 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
747242 GCCTTGGAGCTGAGTGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * * * * *
747261 TCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGATATGTTGTAAATGATA
1 TCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * *
747325 TGCCATCGAAGCTGAGTGTAA
65 TGCC-TTGGAGCTGAGCGTAG
* * * * * *
747346 TCGAACTTGAGGGTC--T--TTGGCAGATAACTCTTCTCGACTTAAGCTATACTGCAAATGATGC
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
747407 G-CTTGGAGCCGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
747425 TCAAACTCGATGGTCTTTTGTTGGCATATAACCCTTCTCGATTTAAGTTATGCTGCAAAT
1 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
747485 CTGAGACTGT
Statistics
Matches: 691, Mismatches: 162, Indels: 63
0.75 0.18 0.07
Matches are distributed among these distances:
78 24 0.03
79 39 0.06
80 51 0.07
81 124 0.18
82 27 0.04
83 73 0.11
84 266 0.38
85 87 0.13
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:747027 original size:249 final size:248
Alignment explanation
Indices: 746701--747484 Score: 1194
Period size: 249 Copynumber: 3.2 Consensus size: 248
746691 TCGAGAGTCT
* * * * *
746701 TTGGCAGATAGCCCTTCTTGACTTAAG--CTGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
746764 CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG
66 CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG
* * *
746829 CCCTCGAAGCTAAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
** * * * *
746894 TGCTATAAATTATACACATTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGG
196 TGCTGCAAATGATGCGC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * *
746948 TTGGCAGATAACCCTTCTCGGTTTAAGTTATGCTGTAAATGATATGTCTTGGAGCTTAGCGTAGT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * *
747013 CGAACTCGAAGGTCTTTTGGTTACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
66 CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG
* *
747078 CCCTCGAAGTTGAGTGTAATCGAACTTGAGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* *
747143 TGTTGCAAATGATGCGTTTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
196 TGCTGCAAATGATGCG-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
*
747197 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGTGTAGT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * *
747262 CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGATATGTTGTAAATGATATG
66 CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG
* * *
747327 CCATCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAACTCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
* * * * *
747392 TACTGCAAATGATGCGCTTGGAGCCGAGCGTAGTCAAACTCGATGGTCTTTTG
196 TGCTGCAAATGATGCGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
*
747445 TTGGCATATAACCCTTCTCGATTTAAGTTATGCTGCAAAT
1 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAAT
747485 CTGAGACTGT
Statistics
Matches: 486, Mismatches: 48, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
247 23 0.05
248 71 0.15
249 392 0.81
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (248 bp):
TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
TGCTGCAAATGATGCGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:747130 original size:165 final size:164
Alignment explanation
Indices: 746517--747484 Score: 509
Period size: 165 Copynumber: 5.9 Consensus size: 164
746507 CTGAATGCAA
* * ** * * * *
746517 TCGAACTCGGAGGTCTTCGGTTGGTAGATAACCCTTCTCGACTTAAGCTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * * * *
746582 ACCT-TAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGA
66 GCCTCGA-AGCTGAGTGTAATCGAACTCGAAGGTC-TT--TGACAGATAACCCTTCTCGACTTAA
* * ** * * * ** *
746646 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTATAA
127 GCTATGCTGCAAATGATACG-TCTTGGAGCTGAGCGTAG
* * *
746685 TCGAACTCG-AGAGTCTTT-G--G-CAGATAGCCCTTCTTGACTTAAG--CTGCTGCAAATGATA
1 TCGAACTCGAAG-GTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATA
* * * * *
746743 TGCCT-TAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTT
65 TGCCTCGA-AGCTGAGTGTAATCGAACTCGAAGGTC--TT--TGACAGATAACCCTTCTCGACTT
* * * * ** * * * * * *
746807 GAGTTATGATGTAAATGATGTGCCCTCGAAGCTAAGTGTAA
125 AAGCTATGCTGCAAATGATACG-TCTTGGAGCTGAGCGTAG
* * * * * ** * *
746848 TCAAACTCGAGGGTCTTT-G--G-CAGATAGCCCTTCTCGACTTAAGCTATGCTATAAATTATAC
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * * * * * **
746909 ACATTGGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGGTTTAA
66 GCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--T--TTGACAGATAACCCTTCTCGACTTAA
* * * *
746974 GTTATGCTGTAAATGATATGTCTTGGAGCTTAGCGTAG
127 GCTATGCTGCAAATGATACGTCTTGGAGCTGAGCGTAG
* * * * *
747012 TCGAACTCGAAGGTCTTTTGGTT-ACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATA
* * * *
747076 TGCCCTCGAAGTTGAGTGTAATCGAACTTGAGGGTCTTTGACAGATAGCCCTTCTCGACTTAAGC
65 TG-CCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAGC
* * *
747141 TATGTTGCAAATGATGCGTTTTGGAGCTGAGCGTAG
129 TATGCTGCAAATGATACGTCTTGGAGCTGAGCGTAG
* * *
747177 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * * *
747242 GCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGA
66 GCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC--TT--TGACAGATAACCCTTCTCGACTTAA
* * * * * * * * *
747307 GATATGTTGTAAATGATATGCCATCGAAGCTGAGTGTAA
127 GCTATGCTGCAAATGATACGTC-TTGGAGCTGAGCGTAG
* * * * * *
747346 TCGAACTTGAGGGTCTTT-G--G-CAGATAACTCTTCTCGACTTAAGCTATACTGCAAATG--AT
1 TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * * * * * * *
747405 GCGCTTGGAGCCGAGCGTAGTCAAACTCGATGGTCTTTTGTTGGCATATAACCCTTCTCGATTTA
66 GC-CTCGAAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGACAGATAACCCTTCTCGACTTA
*
747470 AGTTATGCTGCAAAT
126 AGCTATGCTGCAAAT
747485 CTGAGACTGT
Statistics
Matches: 662, Mismatches: 115, Indels: 50
0.80 0.14 0.06
Matches are distributed among these distances:
162 46 0.07
163 108 0.16
164 138 0.21
165 223 0.34
166 5 0.01
167 5 0.01
168 83 0.13
169 54 0.08
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (164 bp):
TCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
GCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAGCTA
TGCTGCAAATGATACGTCTTGGAGCTGAGCGTAG
Found at i:752252 original size:16 final size:17
Alignment explanation
Indices: 752221--752260 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
752211 GTTAGTAAAA
752221 AAATAATAGAAAATAAT
1 AAATAATAGAAAATAAT
*
752238 AAATAA-AGTAAATAAT
1 AAATAATAGAAAATAAT
752254 -AATAATA
1 AAATAATA
752261 TATAAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 10 0.48
17 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
AAATAATAGAAAATAAT
Found at i:755010 original size:17 final size:17
Alignment explanation
Indices: 754988--755031 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
754978 ATGAAAAAAT
754988 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
755005 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
755022 AAATATTTAA
1 AAATATTTAA
755032 TCAAGTAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Done.