Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_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: 2731752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 13
Found at i:658720 original size:14 final size:14
Alignment explanation
Indices: 658701--658768 Score: 64
Period size: 14 Copynumber: 4.5 Consensus size: 14
658691 AATCCATACT
658701 AATAAATTATCTAA
1 AATAAATTATCTAA
*
658715 AATAAATCAATCTATA
1 AATAAAT-TATCTA-A
*
658731 CTAATAAATTATTTAA
1 --AATAAATTATCTAA
*
658747 AATAAATTATTTAAA
1 AATAAATTATCT-AA
658762 AATAAAT
1 AATAAAT
658769 CAATCCATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 19 0.41
15 14 0.30
16 2 0.04
17 4 0.09
18 7 0.15
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AATAAATTATCTAA
Found at i:658721 original size:32 final size:32
Alignment explanation
Indices: 658680--658755 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
658670 ATCTATATTT
658680 TAAAATAAATTAATCCATACTAATAAATTATC
1 TAAAATAAATTAATCCATACTAATAAATTATC
* * *
658712 TAAAATAAATCAATCTATACTAATAAATTATT
1 TAAAATAAATTAATCCATACTAATAAATTATC
658744 TAAAATAAATTA
1 TAAAATAAATTA
658756 TTTAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (32 bp):
TAAAATAAATTAATCCATACTAATAAATTATC
Found at i:658765 original size:15 final size:15
Alignment explanation
Indices: 658733--658865 Score: 142
Period size: 15 Copynumber: 8.5 Consensus size: 15
658723 AATCTATACT
658733 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
*
658747 AATAAATTATTTAAA
1 AATAAATTATTTTAA
*
658762 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
658784 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
658799 AATAAATTATTTTAT
1 AATAAATTATTTTAA
658814 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
658829 AATAAATTATTTTAT
1 AATAAATTATTTTAA
*
658844 AATAAATTTTTTTAA
1 AATAAATTATTTTAA
658859 AATAAAT
1 AATAAAT
658866 AACCTTATTA
Statistics
Matches: 100, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.09
15 75 0.75
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 9 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:662100 original size:229 final size:225
Alignment explanation
Indices: 661688--662134 Score: 759
Period size: 229 Copynumber: 2.0 Consensus size: 225
661678 GTAAATTATC
* * *
661688 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
661753 TAATATTGTTAATTTAAAATCTAATAATATTTTATAAAATATCAAAACAATAAAATAATTTTTTG
66 TAATATTGTTAATTTAAAATCTAATAATATTTTATAAAATATCAAAACAATAAAATAAAATTTTG
661818 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATTGAA
131 TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATTGAA
661883 ACATAAATTACATAACTTTCAAAAAAGTATA
196 ACATAAATTACATAACTTT-AAAAAAGTATA
*
661914 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
* *
661979 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTT-AATTTAAAATCT-AATAATATTTTATAAAATATCAAAACAATAAAATAAAATT
* * *
662044 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAATAAATT
128 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
662109 GAAACATAAATTACATAACTTTAAAA
193 GAAACATAAATTACATAACTTTAAAA
662135 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
226 36 0.17
227 35 0.17
228 15 0.07
229 121 0.58
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (225 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAATTTAAAATCTAATAATATTTTATAAAATATCAAAACAATAAAATAAAATTTTG
TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATTGAA
ACATAAATTACATAACTTTAAAAAAGTATA
Found at i:662223 original size:20 final size:19
Alignment explanation
Indices: 662200--662245 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
662190 CGATATACTA
662200 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
662220 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
662240 GGTAAA
1 GGTAAA
662246 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:662390 original size:20 final size:19
Alignment explanation
Indices: 662367--662413 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
662357 CGATATAACA
662367 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
662387 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
662407 GGTAAAA
1 GGTAAAA
662414 TGATACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:662415 original size:17 final size:19
Alignment explanation
Indices: 662376--662418 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
662366 AGGTAAAAAT
662376 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
662396 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
662413 ATGATA
1 ATGATA
662419 CTGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:664775 original size:33 final size:33
Alignment explanation
Indices: 664733--664798 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
664723 AAATAGATGG
*
664733 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
664766 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
664799 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:666611 original size:18 final size:19
Alignment explanation
Indices: 666587--666634 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
666577 AAATGTGGGT
666587 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
666606 -AATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
666624 TATTTTTGTAT
1 TAATTTTGTAT
666635 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:667380 original size:196 final size:199
Alignment explanation
Indices: 666752--667712 Score: 1768
Period size: 196 Copynumber: 4.9 Consensus size: 199
666742 CAATATGGCC
*
666752 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATTGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
666817 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
666882 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
666947 TGGAA
195 TGGAA
666952 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
667017 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
667082 AATATGTCTAAATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
667146 GGAA
196 GGAA
667150 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
667215 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
667278 AATATGTATAAATAATGTGTCGACACTAAAATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
667342 GGAA
196 GGAA
*
667346 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
667411 CAAAAGTATAATGTAATATGTAATTTTTC-ATCTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
667474 AATA-GTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATG-AT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
667536 GGAA
196 GGAA
667540 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
667604 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAA-TATACCGGTTTTTATGAGA
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGAGA
667668 GAATATGTCTAAATAA--TGTCGACACTAATATAGTTTGTGTCGATA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
667713 CTAATTTAAA
Statistics
Matches: 747, Mismatches: 7, Indels: 20
0.97 0.01 0.03
Matches are distributed among these distances:
193 65 0.09
194 85 0.11
195 69 0.09
196 170 0.23
197 95 0.13
198 107 0.14
199 121 0.16
200 35 0.05
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:669458 original size:25 final size:25
Alignment explanation
Indices: 669424--669488 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
669414 ATTATCATTA
669424 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
669449 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
669474 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
669489 TCTTGAGTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:670183 original size:25 final size:25
Alignment explanation
Indices: 670149--670199 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
670139 ACAACAAATC
*
670149 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
670174 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
670199 A
1 A
670200 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:670596 original size:17 final size:17
Alignment explanation
Indices: 670576--670610 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
670566 GTAATTGGAG
670576 TTGAATTTAAATTTCAA
1 TTGAATTTAAATTTCAA
* *
670593 TTGAGTTTGAATTTCAA
1 TTGAATTTAAATTTCAA
670610 T
1 T
670611 ATATATTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (17 bp):
TTGAATTTAAATTTCAA
Found at i:670905 original size:39 final size:39
Alignment explanation
Indices: 670862--670948 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
670852 CCCGATTCTC
*
670862 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
670901 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
670940 ATCAAAATC
1 ATCAAAATC
670949 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:671369 original size:23 final size:23
Alignment explanation
Indices: 671338--671410 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
671328 ATAGGTAAAC
*
671338 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
671361 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
671384 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
671407 ATAT
1 ATAT
671411 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:672063 original size:329 final size:326
Alignment explanation
Indices: 671452--672107 Score: 1144
Period size: 329 Copynumber: 2.0 Consensus size: 326
671442 CCATACTTTT
*
671452 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTTAAGATATTAATTTAGTAA
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTTAAGATATTAATTTAGTAA
* *
671517 TTATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATATTAAATTAAAAATTCTAA
66 TTATAGGCGTCTAATGATTTATATTTTACGTTACGATATATATTATATTAAATTAAAAATTCTAA
671582 ATAATATTTTATAAATATCAAAACAATCAAATAATTTTTCGTGCAAATGAAATTATTAATTAATA
131 ATAATATTTTATAAATATCAAAACAATCAAATAATTTTTCGTGCAAATGAAATTATTAATTAATA
*
671647 TTGTAGGTGGAAAAATGAAACACTATTAAAAAAATTGAAACATAAATACATAACTTTAAAAGAAG
196 TTGTAGGTGGAAAAATGAAACACTATTAAAAAAATTGAAACATAAATACATAACTTTAAAAGAAA
671712 TATCGATCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTGCA
261 TATCGATCTTTTTATAAAAAGTATGGACACTTTC-A-AT-ATATAATGTAATAGGTAAATTTGCA
671777 ATGC
323 ATGC
671781 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA-ATTTTAAGATATTAATTTAGTAA
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTTAAGATATTAATTTAGTAA
671845 TTATAGGCGTCTAATGATTTA-ATTTTACGTTACGATATAT-TT-TATTAAATTAAAAATTCTAA
66 TTATAGGCGTCTAATGATTTATATTTTACGTTACGATATATATTATATTAAATTAAAAATTCTAA
*
671907 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
131 ATAATATTTTAT-AAATATCAAAACAATCAAATAATTTTTCGTGCAAATGAAATTATT-AATTAA
671972 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AA
194 TATTGTAGGTGGAAAA-ATGAAACACTATT-AAAAAAATTGAAACATAAA-TACATAACTTTAAA
672036 AGAAATATCGATCCTTTTTAT-AAAAGTATGGACACTTTCAATATATAATGTAATAGGTAAATTT
256 AGAAATATCGAT-CTTTTTATAAAAAGTATGGACACTTTCAATATATAATGTAATAGGTAAATTT
672100 GCAATGC
320 GCAATGC
672107 T
1 T
672108 ATCGGTATAA
Statistics
Matches: 316, Mismatches: 5, Indels: 15
0.94 0.01 0.04
Matches are distributed among these distances:
325 32 0.10
326 76 0.24
327 41 0.13
328 57 0.18
329 91 0.29
330 19 0.06
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (326 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGATTTTAAGATATTAATTTAGTAA
TTATAGGCGTCTAATGATTTATATTTTACGTTACGATATATATTATATTAAATTAAAAATTCTAA
ATAATATTTTATAAATATCAAAACAATCAAATAATTTTTCGTGCAAATGAAATTATTAATTAATA
TTGTAGGTGGAAAAATGAAACACTATTAAAAAAATTGAAACATAAATACATAACTTTAAAAGAAA
TATCGATCTTTTTATAAAAAGTATGGACACTTTCAATATATAATGTAATAGGTAAATTTGCAATG
C
Found at i:672500 original size:21 final size:21
Alignment explanation
Indices: 672476--672515 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
672466 TTATAAAAAA
*
672476 TATTTAAAATATTATTATTTT
1 TATTAAAAATATTATTATTTT
672497 TATTAAAAATATTATTATT
1 TATTAAAAATATTATTATT
672516 AGATGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTAAAAATATTATTATTTT
Found at i:676796 original size:21 final size:21
Alignment explanation
Indices: 676772--676812 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
676762 TGAGTATTAA
676772 AGCTAAAAACTAAT-ATTCAAG
1 AGCTAAAAA-TAATGATTCAAG
*
676793 AGCTAAGAATAATGATTCAA
1 AGCTAAAAATAATGATTCAA
676813 TGATTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (21 bp):
AGCTAAAAATAATGATTCAAG
Found at i:679320 original size:18 final size:19
Alignment explanation
Indices: 679289--679332 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
679279 TATTCTCTTA
* *
679289 TTTTTTTTACTTTAATTGC
1 TTTTATTTACTTTAATCGC
*
679308 TTTTATTTA-TTTAATCGT
1 TTTTATTTACTTTAATCGC
679326 TTTTATT
1 TTTTATT
679333 ACTACTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTACTTTAATCGC
Found at i:688954 original size:18 final size:19
Alignment explanation
Indices: 688924--688966 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
688914 TATTCTCTTA
*
688924 TTTT-TTTACTTTAATTGC
1 TTTTATTTACTTTAATCGC
*
688942 TTTTATTTA-TTTAATCGT
1 TTTTATTTACTTTAATCGC
688960 TTTTATT
1 TTTTATT
688967 ACTACTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTACTTTAATCGC
Found at i:716846 original size:35 final size:35
Alignment explanation
Indices: 716789--716911 Score: 129
Period size: 35 Copynumber: 3.5 Consensus size: 35
716779 TTAAAACTTA
*
716789 CAAAACAATCATCAATTTCATTCTAAACCCCAATTTC
1 CAAAACAA-C-TCAATTTCATTCTAAACCCCAAATTC
* *
716826 CAAAGCAACTCAATTTCATTCTAAACCCTAAATTC
1 CAAAACAACTCAATTTCATTCTAAACCCCAAATTC
* * ** *
716861 CAAAATAATTCAATTAAATTTTAAACCCCAAATTC
1 CAAAACAACTCAATTTCATTCTAAACCCCAAATTC
* * *
716896 TAAAATAATTCAATTT
1 CAAAACAACTCAATTT
716912 AAGGTTTTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 66 0.89
36 1 0.01
37 7 0.09
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.32
Consensus pattern (35 bp):
CAAAACAACTCAATTTCATTCTAAACCCCAAATTC
Found at i:716975 original size:35 final size:35
Alignment explanation
Indices: 716907--716981 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
716897 AAAATAATTC
* * * *
716907 AATTTAAGGTTTTGAATGTAATTAAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
* * *
716942 AATTTAGGGTTTAGAATGAAATTAAGGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
716977 AATTT
1 AATTT
716982 TGAACATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
Found at i:719410 original size:24 final size:24
Alignment explanation
Indices: 719378--719427 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
719368 ATGTGCAGAC
*
719378 TTTATTTGTAGAAACCTGATGGAT
1 TTTATTTGTAGAAAACTGATGGAT
719402 TTTATTTGTAGAAAACTGATGGAT
1 TTTATTTGTAGAAAACTGATGGAT
719426 TT
1 TT
719428 CATTACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (24 bp):
TTTATTTGTAGAAAACTGATGGAT
Found at i:727573 original size:33 final size:32
Alignment explanation
Indices: 727531--727608 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 32
727521 AATGAAGGCT
727531 CAGCTTGTGATGATGATGGTGCTTGTGATGTTA
1 CAGCTT-TGATGATGATGGTGCTTGTGATGTTA
*
727564 CAGC-TTG-TGATGATGGTGCTTGTGATGTTG
1 CAGCTTTGATGATGATGGTGCTTGTGATGTTA
727594 CAGCATTTGATGATG
1 CAGC-TTTGATGATG
727609 GTGTAATCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
30 26 0.63
31 2 0.05
32 4 0.10
33 9 0.22
ACGTcount: A:0.18, C:0.10, G:0.33, T:0.38
Consensus pattern (32 bp):
CAGCTTTGATGATGATGGTGCTTGTGATGTTA
Found at i:727577 original size:30 final size:30
Alignment explanation
Indices: 727541--727611 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
727531 CAGCTTGTGA
727541 TGATGATGGTGCTTGTGATGTTACAGC-TT
1 TGATGATGGTGCTTGTGATGTTACAGCATT
*
727570 GTGATGATGGTGCTTGTGATGTTGCAGCATT
1 -TGATGATGGTGCTTGTGATGTTACAGCATT
727601 TGATGATGGTG
1 TGATGATGGTG
727612 TAATCGTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.17, C:0.08, G:0.35, T:0.39
Consensus pattern (30 bp):
TGATGATGGTGCTTGTGATGTTACAGCATT
Found at i:727584 original size:15 final size:15
Alignment explanation
Indices: 727541--727590 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
727531 CAGCTTGTGA
727541 TGATGATGGTGCTTG
1 TGATGATGGTGCTTG
* ***
727556 TGATGTTACAGCTTG
1 TGATGATGGTGCTTG
727571 TGATGATGGTGCTTG
1 TGATGATGGTGCTTG
727586 TGATG
1 TGATG
727591 TTGCAGCATT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (15 bp):
TGATGATGGTGCTTG
Found at i:729800 original size:31 final size:31
Alignment explanation
Indices: 729754--729867 Score: 129
Period size: 31 Copynumber: 3.7 Consensus size: 31
729744 AGGGTCGAGG
* * *
729754 GTTTACCTATGTTCTTCGGCACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGAACC
* * * *
729785 GTTTATCTATATTCTTCGGGACATATAAACC
1 GTTTACCTATGTTCTTCGGAACATATGAACC
**
729816 GTTTACCTATGTTCTTCGGAACATATGAATT
1 GTTTACCTATGTTCTTCGGAACATATGAACC
* *
729847 GATTACCTAGGTTCTTCGGAA
1 GTTTACCTATGTTCTTCGGAA
729868 TCTATGGACT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGAACC
Found at i:730225 original size:18 final size:17
Alignment explanation
Indices: 730192--730230 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
730182 TAAAAAGTAT
*
730192 TAATGATAATAAGAGGA
1 TAATGATAAGAAGAGGA
730209 TAATGATAAGGAAGAGGA
1 TAATGATAA-GAAGAGGA
730227 TAAT
1 TAAT
730231 CATATATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (17 bp):
TAATGATAAGAAGAGGA
Found at i:730728 original size:21 final size:21
Alignment explanation
Indices: 730702--730742 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
730692 AAAATTTTAG
*
730702 TGCATCGGTGTACTGTAGCAA
1 TGCATCGATGTACTGTAGCAA
*
730723 TGCATCGATGTATTGTAGCA
1 TGCATCGATGTACTGTAGCA
730743 TTGTTCATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (21 bp):
TGCATCGATGTACTGTAGCAA
Found at i:733754 original size:19 final size:20
Alignment explanation
Indices: 733730--733769 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
733720 AAGATAATTT
*
733730 TTAAA-GGTGCATTGATGCA
1 TTAAAGGGTGCATCGATGCA
733749 TTAAAGGGTGCATCGATGCA
1 TTAAAGGGTGCATCGATGCA
733769 T
1 T
733770 GGGAATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (20 bp):
TTAAAGGGTGCATCGATGCA
Found at i:734665 original size:31 final size:32
Alignment explanation
Indices: 734529--734677 Score: 173
Period size: 31 Copynumber: 4.8 Consensus size: 32
734519 AGGGTTTATA
*
734529 TATGTTCTTCGGGACATATGGGTTG-TTTACC
1 TATGTTCTTCGGGACATATGGATTGATTTACC
734560 TATGTTCTTCGGGACATATGGATT-ATTTACC
1 TATGTTCTTCGGGACATATGGATTGATTTACC
* * * **
734591 TATGTTTTTTGGGATATATGGA-CCATTTACC
1 TATGTTCTTCGGGACATATGGATTGATTTACC
*
734622 TATGTTCTTCGGAACATATGGATTGA-TTACC
1 TATGTTCTTCGGGACATATGGATTGATTTACC
* *
734653 TAGGTTCTTCGGAATC-TATGGATTG
1 TATGTTCTTCGGGA-CATATGGATTG
734678 GTCTTTCTGG
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
31 100 0.98
32 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.42
Consensus pattern (32 bp):
TATGTTCTTCGGGACATATGGATTGATTTACC
Found at i:735026 original size:18 final size:17
Alignment explanation
Indices: 734990--735028 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
734980 ATATAGGTAT
* *
734990 TAATGATAATAATAGGA
1 TAATGATAAGAAGAGGA
735007 TAATGATAAGGAAGAGGA
1 TAATGATAA-GAAGAGGA
735025 TAAT
1 TAAT
735029 CATATATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (17 bp):
TAATGATAAGAAGAGGA
Found at i:735582 original size:22 final size:22
Alignment explanation
Indices: 735556--735598 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
735546 GTACTTTAGC
735556 ACTATTCACGGTACTGTTCATT
1 ACTATTCACGGTACTGTTCATT
* *
735578 ACTATTTACGGTATTGTTCAT
1 ACTATTCACGGTACTGTTCAT
735599 ACCGTATAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (22 bp):
ACTATTCACGGTACTGTTCATT
Found at i:738653 original size:25 final size:26
Alignment explanation
Indices: 738625--738673 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
738615 ATGTGGGAAA
* *
738625 TCAACAACAGAAATAAAA-TCATATT
1 TCAAAAACAAAAATAAAAGTCATATT
738650 TCAAAAACAAAAATAAAAGTCATA
1 TCAAAAACAAAAATAAAAGTCATA
738674 ACATTGTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.61, C:0.14, G:0.04, T:0.20
Consensus pattern (26 bp):
TCAAAAACAAAAATAAAAGTCATATT
Found at i:745763 original size:21 final size:21
Alignment explanation
Indices: 745715--745780 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
745705 TAATTTTCTA
745715 TAAAATATAAATCA-TAAA-CT
1 TAAAATATAAAT-ATTAAATCT
* *
745735 CTAGAATATAAA-ATTTAGATCT
1 -TAAAATATAAATA-TTAAATCT
745757 TAAAATATAAATATTAAATCT
1 TAAAATATAAATATTAAATCT
745778 TAA
1 TAA
745781 GTGTTAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
21 33 0.89
22 3 0.08
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAAATATAAATATTAAATCT
Found at i:747405 original size:10 final size:10
Alignment explanation
Indices: 747390--747430 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
747380 TTTTATCACA
747390 TCAAATTCTC
1 TCAAATTCTC
747400 TCAAATTCTC
1 TCAAATTCTC
747410 T-AAATTTCTC
1 TCAAA-TTCTC
*
747420 TCAAATACTC
1 TCAAATTCTC
747430 T
1 T
747431 ATCTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:747751 original size:111 final size:111
Alignment explanation
Indices: 747557--747889 Score: 621
Period size: 111 Copynumber: 3.0 Consensus size: 111
747547 TGGAAATCAT
* *
747557 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTGTTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
747622 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
747668 ATATCTCGACACTTTGATGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
747733 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
747779 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
747844 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
747890 TTTTTGTAAT
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 216 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:754439 original size:19 final size:20
Alignment explanation
Indices: 754417--754456 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
754407 TTTATAATTT
754417 TAATATATATTTTT-TATAA
1 TAATATATATTTTTATATAA
* *
754436 TAATTTTTATTTTTATATAA
1 TAATATATATTTTTATATAA
754456 T
1 T
754457 TTTTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATATATTTTTATATAA
Found at i:754454 original size:20 final size:20
Alignment explanation
Indices: 754424--754476 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
754414 TTTTAATATA
754424 TATTTTT-TATAATAATTT-T
1 TATTTTTATATAAT-ATTTAT
*
754443 TATTTTTATATAATTTTTAT
1 TATTTTTATATAATATTTAT
*
754463 TATTTTTAGATAAT
1 TATTTTTATATAAT
754477 GATGATATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTTTATATAATATTTAT
Found at i:754455 original size:17 final size:18
Alignment explanation
Indices: 754427--754463 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
754417 TAATATATAT
754427 TTTTTATAATAATTTTTA
1 TTTTTATAATAATTTTTA
754445 TTTTTAT-ATAATTTTTA
1 TTTTTATAATAATTTTTA
754462 TT
1 TT
754464 ATTTTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTATAATAATTTTTA
Found at i:757223 original size:20 final size:21
Alignment explanation
Indices: 757185--757227 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
757175 ATTAAAATAA
*
757185 TTATATAAATATTTTATTACAT
1 TTATATAAATATTTAATTA-AT
757207 TTATAT-AATA-TTAATTAAT
1 TTATATAAATATTTAATTAAT
757226 TT
1 TT
757228 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 6 0.30
21 4 0.20
22 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATAAATATTTAATTAAT
Found at i:757933 original size:25 final size:26
Alignment explanation
Indices: 757898--757947 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
757888 ATTATTTATA
**
757898 TTTTATATTTTTAATTTAAATAAGTT
1 TTTTATATTTTTAAAATAAATAAGTT
757924 TTTTAT-TTTTTAAAATAAATAAGT
1 TTTTATATTTTTAAAATAAATAAGT
757948 ACTTAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTATATTTTTAAAATAAATAAGTT
Found at i:761288 original size:16 final size:16
Alignment explanation
Indices: 761254--761303 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
761244 TCAGGTTTAA
* *
761254 TTTGTTTCGGGTTGAT
1 TTTGATTCGGGTTGCT
761270 TTTGATTCGGGTTGCT
1 TTTGATTCGGGTTGCT
**
761286 TTTGATTTAGGTTGCT
1 TTTGATTCGGGTTGCT
761302 TT
1 TT
761304 CGGTTCAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (16 bp):
TTTGATTCGGGTTGCT
Found at i:761554 original size:16 final size:16
Alignment explanation
Indices: 761492--761558 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
761482 GATAAACTAA
761492 ATTCGGGTTG-TTTTAG
1 ATTCGGGTTGATTTT-G
* * * *
761508 GTTCAGGTTTAATTTG
1 ATTCGGGTTGATTTTG
*
761524 TTTCGGGTTGATTTTG
1 ATTCGGGTTGATTTTG
*
761540 ATTCGGGTTGCTTTTG
1 ATTCGGGTTGATTTTG
761556 ATT
1 ATT
761559 TAGGTTACTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 37 0.93
17 3 0.08
ACGTcount: A:0.12, C:0.07, G:0.28, T:0.52
Consensus pattern (16 bp):
ATTCGGGTTGATTTTG
Found at i:761572 original size:266 final size:266
Alignment explanation
Indices: 761093--761609 Score: 973
Period size: 266 Copynumber: 1.9 Consensus size: 266
761083 AAAACATGCA
761093 TCATTTTACAATTTATCAAATTATTAAAAATAGATGATAATAATAATAAATTATTCATTTACTTA
1 TCATTTTACAATTTATCAAATTATTAAAAATAGATGATAATAATAATAAATTATTCATTTACTTA
761158 AACTCAATTATCGGGTTACAATCGGGTCTAAGTTCTGTTCGGATCTGATATGGATAAGGATAAAC
66 AACTCAATTATCGGGTTACAATCGGGTCTAAGTTCTGTTCGGATCTGATATGGATAAGGATAAAC
761223 TAAATTCGGGTTGTTTTAGGTTCAGGTTTAATTTGTTTCGGGTTGATTTTGATTCGGGTTGCTTT
131 TAAATTCGGGTTGTTTTAGGTTCAGGTTTAATTTGTTTCGGGTTGATTTTGATTCGGGTTGCTTT
* *
761288 TGATTTAGGTTGCTTTCGGTTCAACTAAAATTCGGGTTGATTTCAG-TTCGATTCGAATAATAAT
196 TGATTTAGGTTACTTTCGGTTCAACTAAAATTCGAGTTGATTT-AGATTCGATTCGAATAATAAT
761352 AAATTAT
260 AAATTAT
761359 TCATTTTACAATTTATCAAATTATTAAAAATAGATGATAATAATAATAAATTATTCATTTACTTA
1 TCATTTTACAATTTATCAAATTATTAAAAATAGATGATAATAATAATAAATTATTCATTTACTTA
*
761424 GACTCAATTATCGGGTTACAATCGGGTCTAAGTTCTGTTCGGATCTGATATGGATAAGGATAAAC
66 AACTCAATTATCGGGTTACAATCGGGTCTAAGTTCTGTTCGGATCTGATATGGATAAGGATAAAC
761489 TAAATTCGGGTTGTTTTAGGTTCAGGTTTAATTTGTTTCGGGTTGATTTTGATTCGGGTTGCTTT
131 TAAATTCGGGTTGTTTTAGGTTCAGGTTTAATTTGTTTCGGGTTGATTTTGATTCGGGTTGCTTT
* *
761554 TGATTTAGGTTACTTTCGGTTTAACTAAAATTCGAGTTGATTTTGATTCGATTCGA
196 TGATTTAGGTTACTTTCGGTTCAACTAAAATTCGAGTTGATTTAGATTCGATTCGA
761610 TTTATTTTAG
Statistics
Matches: 245, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
265 1 0.00
266 244 1.00
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (266 bp):
TCATTTTACAATTTATCAAATTATTAAAAATAGATGATAATAATAATAAATTATTCATTTACTTA
AACTCAATTATCGGGTTACAATCGGGTCTAAGTTCTGTTCGGATCTGATATGGATAAGGATAAAC
TAAATTCGGGTTGTTTTAGGTTCAGGTTTAATTTGTTTCGGGTTGATTTTGATTCGGGTTGCTTT
TGATTTAGGTTACTTTCGGTTCAACTAAAATTCGAGTTGATTTAGATTCGATTCGAATAATAATA
AATTAT
Found at i:761957 original size:37 final size:37
Alignment explanation
Indices: 761900--762004 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
761890 CATTTTTGTC
761900 TTACTAGGATTTAAATTCCTAAAAATAGGATAAAATT
1 TTACTAGGATTTAAATTCCTAAAAATAGGATAAAATT
** * *
761937 TTGTTAGGATTTAAACTCCTAAAAATAGGATAGAATT
1 TTACTAGGATTTAAATTCCTAAAAATAGGATAAAATT
* *
761974 TTACTAAGATTTAAATTCCTAAAGATAGGAT
1 TTACTAGGATTTAAATTCCTAAAAATAGGAT
762005 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (37 bp):
TTACTAGGATTTAAATTCCTAAAAATAGGATAAAATT
Found at i:762374 original size:14 final size:13
Alignment explanation
Indices: 762355--762393 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
762345 TATATGGATA
762355 TTTTATTCATTTAT
1 TTTTATT-ATTTAT
762369 TTTTATTATTTAT
1 TTTTATTATTTAT
762382 GTTGTTATTATT
1 -TT-TTATTATT
762394 ATATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:763006 original size:9 final size:9
Alignment explanation
Indices: 762994--763045 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
762984 CTTATCTTAC
762994 TTATTTATT
1 TTATTTATT
763003 TTATTTATT
1 TTATTTATT
763012 TTATTT-TT
1 TTATTTATT
** *
763020 CCATTGTATC
1 TTATT-TATT
763030 TTATTTATT
1 TTATTTATT
*
763039 TTCTTTA
1 TTATTTA
763046 CCTTGTTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
8 5 0.15
9 25 0.74
10 4 0.12
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (9 bp):
TTATTTATT
Found at i:767295 original size:183 final size:183
Alignment explanation
Indices: 766987--767523 Score: 995
Period size: 183 Copynumber: 2.9 Consensus size: 183
766977 ATTAAATCCG
*
766987 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAACCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
767052 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
767117 TTGTCAGGCCAAAAACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
767170 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
767235 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
767300 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
767353 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
767418 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
767482 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
767524 TAAACCTGAT
Statistics
Matches: 345, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
182 1 0.00
183 344 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:768745 original size:36 final size:36
Alignment explanation
Indices: 768705--768821 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
768695 ATACTTTGTC
768705 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTTATT
1 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTTATT
** * ** * ** *
768741 TCACTCAAGATTGTTTTTCTTAAAACAAGATTCGTC
1 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTTATT
* * *
768777 TCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TCACTTGAGACTGTTTT-TCTCGAAAGAA-G-ATTT-ATT
768817 TCACT
1 TCACT
768822 CAAGGCTGTT
Statistics
Matches: 55, Mismatches: 22, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
36 39 0.71
37 7 0.13
38 1 0.02
39 3 0.05
40 5 0.09
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (36 bp):
TCACTTGAGACTGTTTTTCTCGAAAGAAGATTTATT
Found at i:768758 original size:72 final size:75
Alignment explanation
Indices: 768664--768834 Score: 199
Period size: 72 Copynumber: 2.3 Consensus size: 75
768654 ATGCAGATGA
* * * * * *
768664 TTATCTCACTCAA-ATTTATTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTCGTCTCACTTGAGACCGTTTTCACTC
768726 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
768736 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCGTCTCACTTGAGACCGTTTTCACTCGA
768801 AAGAAGGCAT
66 AAGAAGGCAT
**
768811 TTCATTTCACTCAAGGCTGTTTTT
1 TT-ATTTCACTCAAGATTGTTTTT
768835 TAAGAAGATT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
71 1 0.01
72 48 0.57
73 11 0.13
74 1 0.01
75 4 0.05
76 19 0.23
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTCGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:769018 original size:105 final size:105
Alignment explanation
Indices: 768908--769227 Score: 522
Period size: 105 Copynumber: 3.1 Consensus size: 105
768898 ACAGTTTTTC
* *
768908 TTGAAAACATTTCCCTTGAAATTAATTTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
768973 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
769013 TTGAAAACATTTCCCTTGAAATGATTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
769078 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
769118 TTGAAAACATTTCCCTTGAAATGAA-TTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
* ** *
769179 TTTTATCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
769219 TTGAAAACA
1 TTGAAAACA
769228 ATTTAACGAA
Statistics
Matches: 204, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
101 47 0.23
103 1 0.00
104 30 0.15
105 126 0.62
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:769174 original size:36 final size:36
Alignment explanation
Indices: 769127--769202 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
769117 ATTGAAAACA
* * *
769127 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
769163 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
769199 TTTC
1 TTTC
769203 TCTCCAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:769556 original size:105 final size:105
Alignment explanation
Indices: 769402--769926 Score: 799
Period size: 105 Copynumber: 5.0 Consensus size: 105
769392 ATATCGTGAC
* * *
769402 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAAGTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
769467 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
769507 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
769572 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
769612 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
*
769677 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
769717 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
* *
769778 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
769817 ACTCGAGACAACACAAGTTTAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCC
** * * *
769882 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
769923 ACTC
1 ACTC
769927 GGAACAATGC
Statistics
Matches: 387, Mismatches: 27, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
100 81 0.21
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 256 0.66
106 37 0.10
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.21
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:770520 original size:37 final size:37
Alignment explanation
Indices: 770469--770573 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
770459 CATTTTTGTC
*
770469 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
770506 TTACTATGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
770543 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
770574 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:770951 original size:14 final size:13
Alignment explanation
Indices: 770913--770970 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
770903 TATTAGTCCC
770913 TTTATTTATTA-TA
1 TTTATTT-TTATTA
*
770926 TGTATATTTTATTCA
1 TTTAT-TTTTATT-A
770941 TTTATTTTTATTA
1 TTTATTTTTATTA
770954 TTTATGTTGTTATTA
1 TTTAT-TT-TTATTA
770969 TT
1 TT
770971 ATATGTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 13 0.34
14 12 0.32
15 13 0.34
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (13 bp):
TTTATTTTTATTA
Found at i:771240 original size:30 final size:30
Alignment explanation
Indices: 771186--771242 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
771176 ATATATTTAT
* *
771186 ATTATTTTTTATTATTTTTGTTTTTTATTC
1 ATTATTTTATATTATTATTGTTTTTTATTC
771216 ATTATTATTATATTATTATT-TTTTTTA
1 ATTATT-TTATATTATTATTGTTTTTTA
771243 AAAAAAACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (30 bp):
ATTATTTTATATTATTATTGTTTTTTATTC
Found at i:773610 original size:16 final size:16
Alignment explanation
Indices: 773589--773621 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
773579 TATTACTTAT
773589 AAGTCAGATAAATATC
1 AAGTCAGATAAATATC
*
773605 AAGTCAGATAAGTATC
1 AAGTCAGATAAATATC
773621 A
1 A
773622 TATTGATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (16 bp):
AAGTCAGATAAATATC
Found at i:779780 original size:64 final size:64
Alignment explanation
Indices: 779679--779809 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
779669 AAAGAAATCT
779679 AATTTTTCAAAGTTGAAAGAAACTTCCTTTATATAGGTGAGAAGTCCTTGTAACATTACTAATG
1 AATTTTTCAAAGTTGAAAGAAACTTCCTTTATATAGGTGAGAAGTCCTTGTAACATTACTAATG
779743 AATTTTTCAAAGTTGAAAGAAACTTCCTTTATATAGGTGAGAAGTCCTTGTAACATTACTAATG
1 AATTTTTCAAAGTTGAAAGAAACTTCCTTTATATAGGTGAGAAGTCCTTGTAACATTACTAATG
779807 AAT
1 AAT
779810 AAAGATAATG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (64 bp):
AATTTTTCAAAGTTGAAAGAAACTTCCTTTATATAGGTGAGAAGTCCTTGTAACATTACTAATG
Found at i:779873 original size:51 final size:52
Alignment explanation
Indices: 779809--779906 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
779799 TACTAATGAA
* * *
779809 TAAAGATAATG-TTTCGATT-ATATCCTAATTTCTAATAAAATAATAATAAAC
1 TAAAAATAATGTTTTCAATTCA-ATCCTAATTCCTAATAAAATAATAATAAAC
* *
779860 TAAAAATAATGTTTTTAATTCAATCTTAATTCCTAATAAAATAATAA
1 TAAAAATAATGTTTTCAATTCAATCCTAATTCCTAATAAAATAATAA
779907 ATCTAATCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
51 10 0.25
52 29 0.73
53 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (52 bp):
TAAAAATAATGTTTTCAATTCAATCCTAATTCCTAATAAAATAATAATAAAC
Found at i:787607 original size:8 final size:8
Alignment explanation
Indices: 787594--787634 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
787584 CTCATTTTTA
787594 GAGAATTT
1 GAGAATTT
787602 GAGAATTT
1 GAGAATTT
*
787610 -AGAGTTT
1 GAGAATTT
*
787617 GGGAATTT
1 GAGAATTT
787625 GAGAATTT
1 GAGAATTT
787633 GA
1 GA
787635 AAGTTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:787626 original size:23 final size:24
Alignment explanation
Indices: 787596--787641 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
787586 CATTTTTAGA
*
787596 GAATTTGAGAATTT-AGAGTTTGG
1 GAATTTGAGAATTTGAAAGTTTGG
787619 GAATTTGAGAATTTGAAAGTTTG
1 GAATTTGAGAATTTGAAAGTTTG
787642 TGAACTGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (24 bp):
GAATTTGAGAATTTGAAAGTTTGG
Found at i:787944 original size:128 final size:128
Alignment explanation
Indices: 787719--788275 Score: 953
Period size: 128 Copynumber: 4.4 Consensus size: 128
787709 TTCACATGAA
787719 GGCGCGCCTTCCATTA--TT-TCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
1 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
787781 TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGG
66 TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGG
787844 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
1 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
787909 TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGG
66 TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGG
787972 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
1 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
*
788037 TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCATTCCCGGG
66 TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGG
*
788100 GGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
1 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
* * * * *** *
788165 TCGAGGACATTA-TTCATATCAGTACCTATTATTTCTC-AGGGGACTTGAAGGCGCGTTCCCGGG
66 TCGGGGACACTAGAT-ATATCAGTACCTATTATTTCACTA-TTCACATGAAGGCGCGTTCCCGGG
* *
788228 GGCGCGCCTTCCATTATTTTGTCATAGAATATGTTATCATTACCCTAT
1 GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
788276 CTCGGGGACA
Statistics
Matches: 415, Mismatches: 12, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
125 16 0.04
127 4 0.01
128 395 0.95
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (128 bp):
GGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCACTCATGTCCC
TCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGG
Found at i:788739 original size:34 final size:34
Alignment explanation
Indices: 788701--788801 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
788691 AAATTTAATG
*
788701 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
788735 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* *
788769 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
788802 AACATTTATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:789345 original size:21 final size:20
Alignment explanation
Indices: 789321--789392 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 20
789311 TATGGTATAA
*
789321 AACCCTGCGGGCTATGCATGT
1 AACCCTGCGGGCTA-GAATGT
*
789342 AA-CCTGGCGGGCTAGGATGT
1 AACCCT-GCGGGCTAGAATGT
*
789362 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCT-AGAATGT
789383 AACCCTGCGG
1 AACCCTGCGG
789393 AGATGGCATA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 17 0.38
21 28 0.62
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.19
Consensus pattern (20 bp):
AACCCTGCGGGCTAGAATGT
Found at i:789422 original size:21 final size:21
Alignment explanation
Indices: 789396--789443 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
789386 CCTGCGGAGA
*
789396 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
789417 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
789438 GGGCAT
1 TGGCAT
789444 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:791030 original size:34 final size:33
Alignment explanation
Indices: 790952--791031 Score: 81
Period size: 34 Copynumber: 2.4 Consensus size: 33
790942 AATAATATAC
* * *
790952 ATTATAAAAAAT-AAAATTAATATAAATTCATA
1 ATTATTAAAAATAAAAATAAATATAAATACATA
* * *
790984 ATAACTTTAAAATAAAAATAAATTTAAATACATTA
1 ATTA-TTAAAAATAAAAATAAATATAAATACA-TA
791019 ATTATTAAAAATA
1 ATTATTAAAAATA
791032 TTACCATATC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 3 0.08
33 6 0.16
34 23 0.62
35 5 0.14
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (33 bp):
ATTATTAAAAATAAAAATAAATATAAATACATA
Found at i:791204 original size:18 final size:17
Alignment explanation
Indices: 791160--791206 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
791150 TAAATAATAT
791160 ATAAATATT-AT-TTTA
1 ATAAATATTAATATTTA
* *
791175 ATAAAAAATAATATTTA
1 ATAAATATTAATATTTA
791192 CATAAATATTAATAT
1 -ATAAATATTAATAT
791207 AAAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 7 0.28
16 2 0.08
17 4 0.16
18 12 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAATATTAATATTTA
Found at i:791218 original size:33 final size:33
Alignment explanation
Indices: 791160--791249 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
791150 TAAATAATAT
* * *
791160 ATAAATATTATTTTAATAAAAAATAA-TATTTAC
1 ATAAATATTAATATAA-AAAAAATAACTATTTAA
791193 ATAAATATTAATATAAAAAATAATAACTATTTAA
1 ATAAATATTAATATAAAAAA-AATAACTATTTAA
* * * *
791227 AAAAATACTAACATAAAATAAAT
1 ATAAATATTAATATAAAAAAAAT
791250 TTCTTACCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
32 4 0.08
33 22 0.46
34 22 0.46
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.34
Consensus pattern (33 bp):
ATAAATATTAATATAAAAAAAATAACTATTTAA
Found at i:791233 original size:34 final size:32
Alignment explanation
Indices: 791162--791249 Score: 86
Period size: 34 Copynumber: 2.7 Consensus size: 32
791152 AATAATATAT
* * * *
791162 AAATATTATTTTAATAAAAAATAATATTTACAT
1 AAATATTAATATAA-AAAAAATAATATTTAAAA
791195 AAATATTAATATAAAAAATAATAACTATTTAAAA
1 AAATATTAATATAAAAAA-AATAA-TATTTAAAA
* * *
791229 AAATACTAACATAAAATAAAT
1 AAATATTAATATAAAAAAAAT
791250 TTCTTACCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
32 4 0.09
33 20 0.43
34 22 0.48
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (32 bp):
AAATATTAATATAAAAAAAATAATATTTAAAA
Found at i:795449 original size:4 final size:4
Alignment explanation
Indices: 795440--795488 Score: 80
Period size: 4 Copynumber: 12.2 Consensus size: 4
795430 ATAGGAATCA
* *
795440 CTAT CTAT CTAT TTAT CTAT CTAT CTAT TTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
795488 C
1 C
795489 ATGTATATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (4 bp):
CTAT
Found at i:795461 original size:16 final size:16
Alignment explanation
Indices: 795440--795488 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
795430 ATAGGAATCA
795440 CTATCTATCTATTTAT
1 CTATCTATCTATTTAT
795456 CTATCTATCTATTTAT
1 CTATCTATCTATTTAT
*
795472 CTATCTATCTATCTAT
1 CTATCTATCTATTTAT
795488 C
1 C
795489 ATGTATATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (16 bp):
CTATCTATCTATTTAT
Found at i:797450 original size:28 final size:29
Alignment explanation
Indices: 797417--797480 Score: 121
Period size: 28 Copynumber: 2.2 Consensus size: 29
797407 CATCCATTTG
797417 CATCCAACTTCAGATGCACATA-TTTTTT
1 CATCCAACTTCAGATGCACATATTTTTTT
797445 CATCCAACTTCAGATGCACATATTTTTTT
1 CATCCAACTTCAGATGCACATATTTTTTT
797474 CATCCAA
1 CATCCAA
797481 ATCAAAGCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (29 bp):
CATCCAACTTCAGATGCACATATTTTTTT
Found at i:798384 original size:3 final size:3
Alignment explanation
Indices: 798376--798407 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
798366 GAATTGGGTT
*
798376 TTG TTG TTG TTG TTG TTG TTG TTG TAG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
798408 TAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.31, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:799584 original size:37 final size:37
Alignment explanation
Indices: 799511--799585 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
799501 GTTAAAAAAT
*
799511 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
799548 ATTTATATAATTTT-TTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
799585 A
1 A
799586 AAGTTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:800462 original size:20 final size:20
Alignment explanation
Indices: 800437--800571 Score: 166
Period size: 20 Copynumber: 6.7 Consensus size: 20
800427 CGCAATGCGG
800437 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
800457 TCGCAACGCGAATTTA-GAAAA
1 TCGCAATGCGAA--TACGTAAA
* *
800478 TCGCAACGCGAATTTA-GAAAA
1 TCGCAATGCGAA--TACGTAAA
*
800499 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
800519 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
800539 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
800559 TCGCAACGCGAAT
1 TCGCAATGCGAAT
800572 CTGATTATCG
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
19 2 0.02
20 66 0.63
21 35 0.33
22 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:800582 original size:40 final size:40
Alignment explanation
Indices: 800475--800589 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
800465 CGAATTTAGA
* * *
800475 AAATCGCAACGCGAATTTAGAAAATCGCAATGCGATTACGT
1 AAATCGCAACGCGAATCT-GATAATCGCAATGCGAATACGT
*
800516 AAATCGCAATGCGAATAC-G-TAAATCGCAATGCGAATACGT
1 AAATCGCAACGCGAAT-CTGAT-AATCGCAATGCGAATACGT
*
800556 AAATCGCAACGCGAATCTGATTATCGCAATGCGA
1 AAATCGCAACGCGAATCTGATAATCGCAATGCGA
800590 TTTACATAGC
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 47 0.73
41 16 0.25
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGCGAATCTGATAATCGCAATGCGAATACGT
Found at i:800793 original size:22 final size:22
Alignment explanation
Indices: 800768--800832 Score: 94
Period size: 22 Copynumber: 3.0 Consensus size: 22
800758 GGCAACATTC
*
800768 GTCCCCATCTCCAACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
800790 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
800812 GTCTCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
800833 TATCACGGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.25, C:0.40, G:0.14, T:0.22
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:801246 original size:20 final size:20
Alignment explanation
Indices: 801170--801239 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
801160 CGATTCTGTC
*
801170 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
**
801189 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
801209 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
801229 GTTGCGATTTT
1 GTTGCGATTTT
801240 AAGTTTCAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.24
20 34 0.76
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:803065 original size:19 final size:20
Alignment explanation
Indices: 803041--803146 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 20
803031 GCAACGAGAG
803041 AATCGCAATGCG-AAATGAA
1 AATCGCAATGCGAAAATGAA
*
803060 AATCGCAA--C---AA-CAA
1 AATCGCAATGCGAAAATGAA
* *
803074 AATCGCAACGCGAAAATGAC
1 AATCGCAATGCGAAAATGAA
*
803094 TATCGCAATGCGAAAATG-A
1 AATCGCAATGCGAAAATGAA
* *
803113 CATCGCAATGCGAAAATGAC
1 AATCGCAATGCGAAAATGAA
* *
803133 TATCACAATGCGAA
1 AATCGCAATGCGAA
803147 TTTGACTATC
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.14
15 2 0.03
16 1 0.01
17 1 0.01
19 27 0.39
20 29 0.41
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.15
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:803100 original size:20 final size:20
Alignment explanation
Indices: 803075--803160 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
803065 CAACAACAAA
*
803075 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
803095 ATCGCAATGCGAAAATGAC-
1 ATCGCAATGCGAAAATGACT
803114 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
803134 ATCACAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
803154 ATCGCAA
1 ATCGCAA
803161 CGAAAGAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.32
20 41 0.68
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:803129 original size:39 final size:35
Alignment explanation
Indices: 803008--803136 Score: 140
Period size: 33 Copynumber: 3.7 Consensus size: 35
802998 ATAGTTTACT
* *
803008 ATCGCAATGCGAAACTGACTATCGCAACG-AGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAAGA
**
803042 ATCGCAATGCG-AAATGAAAATCGCAAC-AACAA-A
1 ATCGCAATGCGAAAATGACTATCGCAACGAA-AAGA
*
803075 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA--CGAAAA-GA
803113 CATCGCAATGCGAAAATGACTATC
1 -ATCGCAATGCGAAAATGACTATC
803137 ACAATGCGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
33 25 0.32
34 25 0.32
36 3 0.04
37 2 0.03
38 1 0.01
39 22 0.28
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (35 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAAGA
Found at i:803142 original size:39 final size:40
Alignment explanation
Indices: 803075--803162 Score: 133
Period size: 39 Copynumber: 2.2 Consensus size: 40
803065 CAACAACAAA
*
803075 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGAC-
1 ATCGCAACGCGAAAATGACTATCACAATGCGAAAATGACT
* **
803114 ATCGCAATGCGAAAATGACTATCACAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACTATCACAATGCGAAAATGACT
803154 ATCGCAACG
1 ATCGCAACG
803163 AAAGAATTGC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 35 0.81
40 8 0.19
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCACAATGCGAAAATGACT
Found at i:803291 original size:40 final size:40
Alignment explanation
Indices: 803205--803293 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
803195 GCGATTCTCT
*
803205 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCA
* ** **
803245 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCA
803285 CGTTGCGAT
1 CGTTGCGAT
803294 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
CGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCA
Found at i:803293 original size:20 final size:20
Alignment explanation
Indices: 803207--803278 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
803197 GATTCTCTCG
803207 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
803227 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
803247 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
803267 TTGCGATAGTCA
1 TTGCGATAGTCA
803279 TTTTCACGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:803868 original size:21 final size:21
Alignment explanation
Indices: 803777--803875 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
803767 GACTCACCTG
803777 TCATCGTTCAAGAGGCCAC-C
1 TCATCGTTCAAGAGGCCACTC
* * * *
803797 CCTATCATTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCACTC
** * *
803819 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCACTC
* * *
803840 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCACTC
*
803861 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
803876 TCCCTCCCAA
Statistics
Matches: 58, Mismatches: 19, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.21
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCACTC
Found at i:803874 original size:42 final size:42
Alignment explanation
Indices: 803804--803884 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
803794 ACCCCTATCA
*
803804 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACCG
* ** *
803846 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
803885 ACATTCTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACCG
Found at i:805288 original size:14 final size:14
Alignment explanation
Indices: 805269--805304 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
805259 ATTGTTTAAT
805269 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
805283 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
805297 TGATTTGT
1 TGATTTGT
805305 TTAATTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:805460 original size:33 final size:34
Alignment explanation
Indices: 805410--805505 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
805400 AAAACAGACT
* **
805410 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
805444 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* ** *
805477 ATGGCAATGCAAAAATGAAAATCGTAACG
1 ATCGCAATGCGGAAATGAAAATCGCAACG
805506 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:805577 original size:33 final size:34
Alignment explanation
Indices: 805520--805595 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
805510 ACTAAATTCG
*
805520 CGTTACGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
805554 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
805587 CGTTGCGAT
1 CGTTGCGAT
805596 AGTCAATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:805612 original size:20 final size:20
Alignment explanation
Indices: 805587--805655 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
805577 GCGATTCTCT
805587 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
* *
805607 CGTTGCGATAGTCATTTCAG
1 CGTTGCGATAGTCAATTCCG
*
805627 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCA-ATTCCG
805647 CGTTGCGAT
1 CGTTGCGAT
805656 TTCAGCGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:807474 original size:30 final size:30
Alignment explanation
Indices: 807438--807529 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
807428 CCCGCAGGAC
807438 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
807468 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
807498 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
807528 CT
1 CT
807530 GTCAATAGGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:807646 original size:32 final size:32
Alignment explanation
Indices: 807527--807650 Score: 112
Period size: 31 Copynumber: 3.9 Consensus size: 32
807517 ATCCTCGGCA
* * * * * *
807527 ACTGTCAATAGGTTCCGAATAACCTAGGTGA-
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* *
807558 ACTGTCCATATATTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
*
807589 ACTGTCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
*
807621 TCTGTCCATATGTTCCGTAGAACATAGGTA
1 ACTGTCCATATGTTCCGTAGAACATAGGTA
807651 CCCTCGACTC
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
30 5 0.07
31 42 0.56
32 24 0.32
33 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:808441 original size:21 final size:21
Alignment explanation
Indices: 808415--808458 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
808405 ATTTTATTCG
* *
808415 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
808436 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
808457 CT
1 CT
808459 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:812752 original size:30 final size:30
Alignment explanation
Indices: 812716--812817 Score: 177
Period size: 30 Copynumber: 3.4 Consensus size: 30
812706 CCCGCAGGAC
812716 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
812746 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
812776 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
812806 CTGTCCATAGGT
1 CTATCCAGAGGT
812818 TCCGAAGAAC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:812842 original size:31 final size:30
Alignment explanation
Indices: 812804--812928 Score: 137
Period size: 31 Copynumber: 4.0 Consensus size: 30
812794 GATCCTCGGC
* *
812804 AACTGTCCATAGGTTCCGAAGAACCTAGGT
1 AACTGTCCATATGTTCCGAAGAACATAGGT
**
812834 GAACTGTCCATATGTTCCTTAGAACATAGGT
1 -AACTGTCCATATGTTCCGAAGAACATAGGT
812865 ATACTGTCCATATG-TCTCGAA-AGACATAGGT
1 A-ACTGTCCATATGTTC-CGAAGA-ACATAGGT
*
812896 AATTCTGTCCATATGTTCCGTAGAACATAGGT
1 AA--CTGTCCATATGTTCCGAAGAACATAGGT
812928 A
1 A
812929 CCCTCGACTC
Statistics
Matches: 80, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
30 5 0.06
31 49 0.61
32 23 0.29
33 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
AACTGTCCATATGTTCCGAAGAACATAGGT
Found at i:813709 original size:21 final size:21
Alignment explanation
Indices: 813685--813728 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
813675 ATTTTATTCG
*
813685 CTTGAAGGGGTATCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
*
813706 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
813727 CT
1 CT
813729 AGCCCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:815765 original size:24 final size:24
Alignment explanation
Indices: 815738--815793 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
815728 CTGTTTCATC
815738 ATCAAAATTCGGGTATTGACCAAT
1 ATCAAAATTCGGGTATTGACCAAT
*
815762 ATCAAAATTCTGGTATTGACCAAT
1 ATCAAAATTCGGGTATTGACCAAT
815786 ATCAAAAT
1 ATCAAAAT
815794 CATTACACGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (24 bp):
ATCAAAATTCGGGTATTGACCAAT
Found at i:815865 original size:24 final size:24
Alignment explanation
Indices: 815831--815884 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
815821 CTGAAAAATC
815831 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
815855 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
815879 ATCAAA
1 ATCAAA
815885 TTTTGAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:816751 original size:20 final size:20
Alignment explanation
Indices: 816726--816792 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
816716 AAATTCAGTA
816726 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
816746 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
816766 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
816786 TTGCGAT
1 TTGCGAT
816793 TTACGTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:816802 original size:20 final size:20
Alignment explanation
Indices: 816779--816892 Score: 165
Period size: 20 Copynumber: 5.7 Consensus size: 20
816769 CGATAGTCAG
*
816779 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
816799 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
816819 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
816839 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
816860 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
816880 ATTCGCATTGCGA
1 ATTCGCATTGCGA
816893 ATTAGGAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 67 0.82
21 15 0.18
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:816810 original size:40 final size:38
Alignment explanation
Indices: 816766--816892 Score: 155
Period size: 40 Copynumber: 3.2 Consensus size: 38
816756 CAGAATCTCG
816766 TTGCGATAGTCAGATTCGCGTTGCGATTTACGTATTCGCA
1 TTGCGAT--TCAGATTCGCGTTGCGATTTACGTATTCGCA
* * *
816806 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTCA-G-ATTCGCGTTGCGATTTACGTATTCGCA
*
816846 TTGCGATTTTCCAAATTCGCGTTGCGATTTACGTATTCGCA
1 TTGCGA--TT-CAGATTCGCGTTGCGATTTACGTATTCGCA
816887 TTGCGA
1 TTGCGA
816893 ATTAGGAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 38 0.51
41 31 0.41
42 2 0.03
43 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (38 bp):
TTGCGATTCAGATTCGCGTTGCGATTTACGTATTCGCA
Found at i:816913 original size:41 final size:41
Alignment explanation
Indices: 816779--816901 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 41
816769 CGATAGTCAG
* *
816779 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACG-T
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGAA
* * *
816819 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGAA
* * *
816860 ATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAGGAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGAA
816901 A
1 A
816902 ATCGTAATGC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 35 0.49
41 36 0.51
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGAA
Found at i:816914 original size:21 final size:21
Alignment explanation
Indices: 816882--816931 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
816872 ATTTACGTAT
* *
816882 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGAAAAA
* *
816903 TCGTAATGCGAATTTGAAAAA
1 TCGCAATGCGAATTAGAAAAA
816924 TCGCAATG
1 TCGCAATG
816932 TGATAGTTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (21 bp):
TCGCAATGCGAATTAGAAAAA
Found at i:817819 original size:20 final size:20
Alignment explanation
Indices: 817749--817819 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 20
817739 TAGAAAAACT
817749 AATATAAAAAATAATATTTTA
1 AATA-AAAAAATAATATTTTA
* *
817770 AGTAATACCAAATATTAATATTTTT
1 AATAA-A--AAA-A-TAATATTTTA
*
817795 GATAAAAAAATAATATTTTA
1 AATAAAAAAATAATATTTTA
817815 AATAA
1 AATAA
817820 TATATTTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
20 14 0.36
21 5 0.13
22 3 0.08
23 3 0.08
24 2 0.05
25 12 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATAAAAAAATAATATTTTA
Found at i:821600 original size:38 final size:39
Alignment explanation
Indices: 821530--821611 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
821520 GTGACTCGGC
* * *
821530 TTTTACATGATATTTGTTCTATGCATACTTTCTAACTAA
1 TTTTACATGAGATTTATTCAATGCATACTTTCTAACTAA
821569 TTTTACATGAGATTTATTCAAT-CATACTTTCTAACTAA
1 TTTTACATGAGATTTATTCAATGCATACTTTCTAACTAA
821607 TTTTA
1 TTTTA
821612 ATTGGGTGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 21 0.52
39 19 0.47
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (39 bp):
TTTTACATGAGATTTATTCAATGCATACTTTCTAACTAA
Found at i:822409 original size:25 final size:25
Alignment explanation
Indices: 822362--822409 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
822352 ATCGCGACAT
*
822362 TATAATTATATTTATAACTTAAAAA
1 TATAATTATATTTATAACATAAAAA
*
822387 TATAATATATTTTTATAA-ATAAA
1 TATAAT-TATATTTATAACATAAA
822410 TCTATAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTATATTTATAACATAAAAA
Found at i:823763 original size:31 final size:31
Alignment explanation
Indices: 823727--823785 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
823717 AACTTAAAAG
823727 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
823758 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
823786 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:823834 original size:22 final size:22
Alignment explanation
Indices: 823809--824328 Score: 647
Period size: 22 Copynumber: 23.6 Consensus size: 22
823799 ATAATAAATT
823809 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
* *
823831 TTTTAAAATAAATCAATCCACA
1 TTTTAAAATAAATCAATTCATA
*
823853 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
823875 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
* * ***
823897 TTTTAAAACAATTTTTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
* * *
823920 TTTTAAATTAAATCAATCCATT
1 TTTTAAAATAAATCAATTCATA
*
823942 TTTTAAAATAAA--ATTTTCCATA
1 TTTTAAAATAAATCA-ATT-CATA
*
823964 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
823986 TTTTAAAATAAATCAATCCAAA
1 TTTTAAAATAAATCAATTCATA
*
824008 TTTTAAAATAAATCAACTCATA
1 TTTTAAAATAAATCAATTCATA
*
824030 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
824052 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
***
824074 TTTTAAAAT-AATTTTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
824096 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
* ***
824118 TTTTAAAATAATTTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
*
824140 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
824162 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
824184 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
824206 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
824228 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
** *
824250 TTTTAAAATAAAAT-TTTTCGTA
1 TTTTAAAAT-AAATCAATTCATA
*
824272 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
824294 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
824316 TTTTAAAATAAAT
1 TTTTAAAATAAAT
824329 TTTAAAATAT
Statistics
Matches: 430, Mismatches: 56, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.00
21 11 0.03
22 390 0.91
23 27 0.06
24 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:823875 original size:44 final size:44
Alignment explanation
Indices: 823809--824328 Score: 713
Period size: 44 Copynumber: 11.8 Consensus size: 44
823799 ATAATAAATT
* *
823809 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCACA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
823853 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* * *** * *
823897 TTTTAAAACAATTTTTTTCCATATTTTAAATTAAATCAATCCATT
1 TTTTAAAATAA-ATCAATCCATATTTTAAAATAAATCAATCCATA
**
823942 TTTTAAAATAAAAT-TTTCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCATA
*
823986 TTTTAAAATAAATCAATCCAAATTTTAAAATAAATCAA-CTCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATC-CATA
824030 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* *** *
824074 TTTTAAAATAATTTTTTCCATATTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
* *** *
824118 TTTTAAAATAATTTTTTTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
824162 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
824206 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
** * *
824250 TTTTAAAATAAAAT-TTTTCGTATTTTAAAATAAATCAATCCATA
1 TTTTAAAAT-AAATCAATCCATATTTTAAAATAAATCAATCCATA
*
824294 TTTTAAAATAAATCAATCTATATTTTAAAATAAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAAT
824329 TTTAAAATAT
Statistics
Matches: 425, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
43 9 0.02
44 374 0.88
45 40 0.09
46 2 0.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (44 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
Found at i:824345 original size:11 final size:12
Alignment explanation
Indices: 824312--824342 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
824302 TAAATCAATC
824312 TATATTTTAAAA
1 TATATTTTAAAA
*
824324 TAAATTTTAAAA
1 TATATTTTAAAA
824336 TATATTT
1 TATATTT
824343 AAATGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATTTTAAAA
Found at i:824346 original size:22 final size:23
Alignment explanation
Indices: 824312--824354 Score: 54
Period size: 21 Copynumber: 1.9 Consensus size: 23
824302 TAAATCAATC
824312 TATATTTTAAAATAAATTTTAAAA
1 TATATTTTAAAAT-AATTTTAAAA
*
824336 TATA-TTT-AAATGATTTTAA
1 TATATTTTAAAATAATTTTAA
824355 TTTTCCCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 3 0.17
24 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TATATTTTAAAATAATTTTAAAA
Found at i:833922 original size:2 final size:2
Alignment explanation
Indices: 833882--833907 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
833872 TGAAATAATG
833882 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
833908 TAAAAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:838659 original size:146 final size:145
Alignment explanation
Indices: 838396--838686 Score: 555
Period size: 146 Copynumber: 2.0 Consensus size: 145
838386 TTTTTAGGGT
838396 AAATTACTCTTGTTGTCACTTTTATTTAGTTTTTTATATTTTGATCATTCAACTTTGAGAAATTA
1 AAATTACTCTTGTTGTCACTTTTATTTAGTTTTTTATATTTTGATCATTCAACTTTGAGAAATTA
838461 TATTTTAACCACTTACATTATGATTACAAGAAAGTATCTATTCAGAATTCTCTCAACCAATTGAC
66 TATTTTAACCACTTACATTATGATTACAAGAAAGTATCTATTCAGAATTCTCTCAACCAATTGAC
838526 AATAAACGCACACAC
131 AATAAACGCACACAC
*
838541 AAATTACTCTTGTTGTCACTTTTATTTAATTTTTTTATATTTTGATCATTCAACTTTGAGAAATT
1 AAATTACTCTTGTTGTCACTTTTATTT-AGTTTTTTATATTTTGATCATTCAACTTTGAGAAATT
*
838606 ATATTTTAACCACTTACATTATGATTACAAGAAATTATCTATTCAGAATTCTCTCAACCAATTGA
65 ATATTTTAACCACTTACATTATGATTACAAGAAAGTATCTATTCAGAATTCTCTCAACCAATTGA
838671 CAATAAACGCACACAC
130 CAATAAACGCACACAC
838687 CCCCTACAGA
Statistics
Matches: 143, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
145 27 0.19
146 116 0.81
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.41
Consensus pattern (145 bp):
AAATTACTCTTGTTGTCACTTTTATTTAGTTTTTTATATTTTGATCATTCAACTTTGAGAAATTA
TATTTTAACCACTTACATTATGATTACAAGAAAGTATCTATTCAGAATTCTCTCAACCAATTGAC
AATAAACGCACACAC
Found at i:841228 original size:26 final size:28
Alignment explanation
Indices: 841199--841252 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
841189 TATGAACTCT
*
841199 TGATTCTTTG-TT-TTTACTCTTTCTGG
1 TGATTCTTTGCTTGCTTACTCTTTCTGG
*
841225 TGATTCTTTGCTTGCTTATTCTTTCTGG
1 TGATTCTTTGCTTGCTTACTCTTTCTGG
841253 AAACCTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.07, C:0.17, G:0.17, T:0.59
Consensus pattern (28 bp):
TGATTCTTTGCTTGCTTACTCTTTCTGG
Found at i:854590 original size:16 final size:16
Alignment explanation
Indices: 854566--854610 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
854556 CCGATAAAAT
*
854566 TTTATTATTCATGAAA
1 TTTACTATTCATGAAA
**
854582 TTTACTATTCACAAAA
1 TTTACTATTCATGAAA
854598 TTTACTATTCATG
1 TTTACTATTCATG
854611 TGAATAGTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTACTATTCATGAAA
Found at i:859237 original size:7 final size:7
Alignment explanation
Indices: 859225--859280 Score: 112
Period size: 7 Copynumber: 8.0 Consensus size: 7
859215 TAGACCGGAT
859225 GAAGTGG
1 GAAGTGG
859232 GAAGTGG
1 GAAGTGG
859239 GAAGTGG
1 GAAGTGG
859246 GAAGTGG
1 GAAGTGG
859253 GAAGTGG
1 GAAGTGG
859260 GAAGTGG
1 GAAGTGG
859267 GAAGTGG
1 GAAGTGG
859274 GAAGTGG
1 GAAGTGG
859281 TTAAGATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.29, C:0.00, G:0.57, T:0.14
Consensus pattern (7 bp):
GAAGTGG
Found at i:862366 original size:14 final size:14
Alignment explanation
Indices: 862333--862371 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
862323 ATCGACCCTA
* *
862333 TTTATCTATATTAT
1 TTTATTTATTTTAT
*
862347 TCTATTTATTTTAT
1 TTTATTTATTTTAT
862361 TTTATTTATTT
1 TTTATTTATTT
862372 AAATTGAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:866524 original size:26 final size:26
Alignment explanation
Indices: 866483--866561 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
866473 CCAGAAGGCG
* *
866483 CGCTGAGTAGATCTTCTAGAAATTGC
1 CGCTGACTAGACCTTCTAGAAATTGC
* *
866509 TGCTGACTATACCTTCTAGAAATTGC
1 CGCTGACTAGACCTTCTAGAAATTGC
* *
866535 CGCTGACTAGACCTTCTAAAAACTGC
1 CGCTGACTAGACCTTCTAGAAATTGC
866561 C
1 C
866562 ACGTCAGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
CGCTGACTAGACCTTCTAGAAATTGC
Found at i:869802 original size:18 final size:19
Alignment explanation
Indices: 869779--869822 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
869769 ATTGAAGTTC
869779 TACTTTTCTTTCATT-TTT
1 TACTTTTCTTTCATTATTT
*
869797 TACTTTTATTTCATTATTT
1 TACTTTTCTTTCATTATTT
869816 T-CTTTTC
1 TACTTTTC
869823 AAAATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (19 bp):
TACTTTTCTTTCATTATTT
Done.