Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 83 of 240
Found at i:26247676 original size:16 final size:17
Alignment explanation
Indices: 26247652--26247684 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26247642 ATTATCATTT
26247652 TTTTCAATTATATTATA
1 TTTTCAATTATATTATA
*
26247669 TTTT-AATTATTTTATA
1 TTTTCAATTATATTATA
26247685 AAGTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCAATTATATTATA
Found at i:26248506 original size:16 final size:16
Alignment explanation
Indices: 26248487--26248519 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
26248477 GTTTAGGGTT
26248487 TAGGGTTTTTATTTTC
1 TAGGGTTTTTATTTTC
26248503 TAGGGTTTTTATTTTC
1 TAGGGTTTTTATTTTC
26248519 T
1 T
26248520 CTTCTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.64
Consensus pattern (16 bp):
TAGGGTTTTTATTTTC
Found at i:26259037 original size:45 final size:45
Alignment explanation
Indices: 26258988--26259154 Score: 167
Period size: 45 Copynumber: 3.7 Consensus size: 45
26258978 TATAGGAATT
* * *
26258988 GAGTAAAACCATAGTTGAAAGACGCTATGGCATCA-GAATTTAGAC
1 GAGTAAAACCATAGCTGAAAGACACTATGGCATCACG-ATTTAGAA
* * * *
26259033 GAGTAAGACCATCGCTAAAAGACACTATGGCATAACGATTTAGATA
1 GAGTAAAACCATAGCTGAAAGACACTATGGCATCACGATTTAGA-A
** ** * * *
26259079 -AGTAAGTCCATAGCTGAAAGATGCTATGACATCACGATTCAAAA
1 GAGTAAAACCATAGCTGAAAGACACTATGGCATCACGATTTAGAA
*
26259123 GAGTAAAACCATAGTTGAAAGACACTATGGCA
1 GAGTAAAACCATAGCTGAAAGACACTATGGCA
26259155 ACATGACGGG
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
44 1 0.01
45 95 0.98
46 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (45 bp):
GAGTAAAACCATAGCTGAAAGACACTATGGCATCACGATTTAGAA
Found at i:26259309 original size:13 final size:13
Alignment explanation
Indices: 26259291--26259481 Score: 68
Period size: 13 Copynumber: 14.6 Consensus size: 13
26259281 ATGACGAATG
*
26259291 GTTATATGAATTA
1 GTTATATGAAATA
** *
26259304 GTTATACAAAATG
1 GTTATATGAAATA
*
26259317 GTTATGTGAAAT-
1 GTTATATGAAATA
* * *
26259329 GATTATAAGAATTG
1 G-TTATATGAAATA
26259343 GTTATATGGAAATA
1 GTTATAT-GAAATA
* * * *
26259357 GATGTACGAAAGA
1 GTTATATGAAATA
* *
26259370 GTTGTATGAATTA
1 GTTATATGAAATA
*
26259383 GTTATATGGAAACA
1 GTTATAT-GAAATA
* * **
26259397 GATAAACAAAATA
1 GTTATATGAAATA
*
26259410 ATTATATG-AATCA
1 GTTATATGAAAT-A
*
26259423 GATATATGGAAATA
1 GTTATAT-GAAATA
* *
26259437 ATTATATGAAGT-
1 GTTATATGAAATA
*
26259449 GTTATATTAAAT-
1 GTTATATGAAATA
*
26259461 GTTTATAT-AGATA
1 G-TTATATGAAATA
26259474 GTTATATG
1 GTTATATG
26259482 TAAAAAGAGA
Statistics
Matches: 125, Mismatches: 43, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
12 23 0.18
13 75 0.60
14 24 0.19
15 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (13 bp):
GTTATATGAAATA
Found at i:26259317 original size:26 final size:26
Alignment explanation
Indices: 26259287--26259388 Score: 75
Period size: 26 Copynumber: 3.9 Consensus size: 26
26259277 CCGGATGACG
*
26259287 AATGGTTATATGAATTAGTTATACAA
1 AATGGTTATATGAAATAGTTATACAA
*
26259313 AATGGTTATGTGAAAT-GATTATA-AGA
1 AATGGTTATATGAAATAG-TTATACA-A
* * * *
26259339 ATTGGTTATATGGAAATAGATGTACGA
1 AATGGTTATAT-GAAATAGTTATACAA
* *
26259366 AA-GAGTTGTATGAATTAGTTATA
1 AATG-GTTATATGAAATAGTTATA
26259389 TGGAAACAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 12
0.71 0.15 0.15
Matches are distributed among these distances:
25 2 0.03
26 39 0.67
27 16 0.28
28 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (26 bp):
AATGGTTATATGAAATAGTTATACAA
Found at i:26259392 original size:40 final size:40
Alignment explanation
Indices: 26259330--26259436 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 40
26259320 ATGTGAAATG
* * ** *
26259330 ATTATAAGAATTGGTTATATGGAAATAGATGTACGAAAGA
1 ATTATATGAATTAGTTATATGGAAATAGATAAACAAAAGA
* * * *
26259370 GTTGTATGAATTAGTTATATGGAAACAGATAAACAAAATA
1 ATTATATGAATTAGTTATATGGAAATAGATAAACAAAAGA
* *
26259410 ATTATATGAATCAGATATATGGAAATA
1 ATTATATGAATTAGTTATATGGAAATA
26259437 ATTATATGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.31
Consensus pattern (40 bp):
ATTATATGAATTAGTTATATGGAAATAGATAAACAAAAGA
Found at i:26259414 original size:27 final size:28
Alignment explanation
Indices: 26259384--26259444 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
26259374 TATGAATTAG
26259384 TTATATGGAAACAGATA-AACAAAATAA
1 TTATATGGAAACAGATATAACAAAATAA
* ***
26259411 TTATAT-GAATCAGATATATGGAAATAA
1 TTATATGGAAACAGATATAACAAAATAA
26259438 TTATATG
1 TTATATG
26259445 AAGTGTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (28 bp):
TTATATGGAAACAGATATAACAAAATAA
Found at i:26262411 original size:20 final size:21
Alignment explanation
Indices: 26262368--26262413 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
26262358 TATCCATTAA
*
26262368 TAAAAATATAATTATATTATT
1 TAAAAATAAAATTATATTATT
26262389 TAAAAATAAAATT-TA-TATCT
1 TAAAAATAAAATTATATTAT-T
26262409 TAAAA
1 TAAAA
26262414 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 8 0.35
21 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATAAAATTATATTATT
Found at i:26267869 original size:13 final size:13
Alignment explanation
Indices: 26267851--26267877 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26267841 ATGTTTGCTT
26267851 ACTGAAAAAGTCC
1 ACTGAAAAAGTCC
26267864 ACTGAAAAAGTCC
1 ACTGAAAAAGTCC
26267877 A
1 A
26267878 TTTACACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
ACTGAAAAAGTCC
Found at i:26272580 original size:34 final size:35
Alignment explanation
Indices: 26272542--26272608 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
26272532 TTGAGAGAAC
*
26272542 TCTATGAAAGTTAG-GGTTTGGTTTTCAGGTTTGT
1 TCTATGAAAGTTAGAGCTTTGGTTTTCAGGTTTGT
* * *
26272576 TCTATGAGAGTTAGAGCTTTGTTTTTGAGGTTT
1 TCTATGAAAGTTAGAGCTTTGGTTTTCAGGTTT
26272609 TGGGTTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.18, C:0.06, G:0.28, T:0.48
Consensus pattern (35 bp):
TCTATGAAAGTTAGAGCTTTGGTTTTCAGGTTTGT
Found at i:26273800 original size:70 final size:72
Alignment explanation
Indices: 26273673--26273817 Score: 215
Period size: 70 Copynumber: 2.0 Consensus size: 72
26273663 TTACTATCAC
* * *
26273673 TTGCTTATTGGATAGAGTTGACTATTTGTTTTTGATAAGGAGGTGATTAGAACATCTCATTTTAT
1 TTGCTTATTGGATAGAGGTGACTATTTGTTTTTGATAAGAAGGTGATTAAAACATCTCATTTTAT
26273738 TCAAA-A
66 TCAAATA
* *
26273744 TTGCTTATTGGATAGAGGT-ACTGTTTGTTTTTTATAAGAAGGT-ATTTAAAACATCTCATTTTA
1 TTGCTTATTGGATAGAGGTGACTATTTGTTTTTGATAAGAAGGTGA-TTAAAACATCTCATTTTA
26273807 TTCAAATA
65 TTCAAATA
26273815 TTG
1 TTG
26273818 TAATTTTCTG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
69 1 0.01
70 44 0.66
71 22 0.33
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (72 bp):
TTGCTTATTGGATAGAGGTGACTATTTGTTTTTGATAAGAAGGTGATTAAAACATCTCATTTTAT
TCAAATA
Found at i:26274571 original size:46 final size:46
Alignment explanation
Indices: 26274518--26274648 Score: 171
Period size: 43 Copynumber: 2.9 Consensus size: 46
26274508 GTCTATGTGT
26274518 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGAGTT-TTAA
1 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGA-TTCTTAA
* * *
26274564 TAGGATATCA-TA-G-GATATTATCTCTTAGCAATTTTATTCTTAG
1 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGATTCTTAA
* * *
26274607 TAGGATATTATTATAAGATATTATCTTTTAGTAATTTGATTC
1 TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGATTC
26274649 CTACGTAACT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 34 0.47
44 3 0.04
45 2 0.03
46 32 0.44
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (46 bp):
TAGGATATTATTATGAGATATTATCTCTTAGCAATTTGATTCTTAA
Found at i:26280507 original size:41 final size:41
Alignment explanation
Indices: 26280449--26280617 Score: 171
Period size: 41 Copynumber: 4.1 Consensus size: 41
26280439 GTACTGGAGA
* * * *
26280449 TATTGTATTAGGTCTTGAACCTAGCAGGCTTTGTGCCGGTA
1 TATTGAATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
* * *
26280490 TATT-ATGTTAGGCCTTGAGCCTAGTAGGCTTTGTACCGGTG
1 TATTGA-ATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
* * *
26280531 TATTGAATCAGGCCTTGAGCCTAGCAAGCTTTGAGCCGGTG
1 TATTGAATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
* * * * *
26280572 TATTGCATCAAGCCTTCAGCCTAGCAGGCTTCT-TGTCGGTG
1 TATTGAATTAGGCCTTGAGCCTAGCAGGCTT-TGTGCCGGTG
26280613 TATTG
1 TATTG
26280618 TATCAAGTAA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
41 104 0.98
42 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (41 bp):
TATTGAATTAGGCCTTGAGCCTAGCAGGCTTTGTGCCGGTG
Found at i:26293676 original size:51 final size:50
Alignment explanation
Indices: 26293614--26293804 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 50
26293604 ATGTCCAGTT
* * *
26293614 CACATAGTAGCCTACACATAGTACTAGACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGGTA
* * * * * *
26293665 CACTTAGTAGCCTGCACATGGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGGTA
* * *
26293716 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGGTA
*
26293766 CACATAGTAGCCTGTACATAGTACTACACACT-TGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACA-TGTGACCAT
26293805 CACTTTCACT
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
49 2 0.02
50 40 0.35
51 71 0.62
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGGTA
Found at i:26302095 original size:54 final size:53
Alignment explanation
Indices: 26302022--26302145 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 53
26302012 TTGTTTCAAG
* *
26302022 TCAGTGAGTTACACAGCCTAGCACACGGCCTAGAACACGGGTCTATGT-GGCAAC
1 TCAGAGAGTTACACGGCCTAGCACACGGCCTAGAACACGGG-C-ATGTGGGCAAC
* *
26302076 TTAGAGAGTTACACGGCCTAGCACACGGCCTAGCACACGGGCATGTGGGGCAAC
1 TCAGAGAGTTACACGGCCTAGCACACGGCCTAGAACACGGGCATGT-GGGCAAC
*
26302130 TCAGTGAGTTACACGG
1 TCAGAGAGTTACACGG
26302146 GTGAATACAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
52 4 0.06
53 1 0.02
54 57 0.92
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.18
Consensus pattern (53 bp):
TCAGAGAGTTACACGGCCTAGCACACGGCCTAGAACACGGGCATGTGGGCAAC
Found at i:26302103 original size:12 final size:12
Alignment explanation
Indices: 26302086--26302115 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
26302076 TTAGAGAGTT
26302086 ACACGGCCTAGC
1 ACACGGCCTAGC
26302098 ACACGGCCTAGC
1 ACACGGCCTAGC
26302110 ACACGG
1 ACACGG
26302116 GCATGTGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.40, G:0.27, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:26306101 original size:24 final size:24
Alignment explanation
Indices: 26305999--26306168 Score: 105
Period size: 24 Copynumber: 6.9 Consensus size: 24
26305989 ACACACTGCA
*
26305999 GCTCTTATGAG-TGTCCCATTATATG
1 GCTCTTATGAGCT-TCCCGTTA-ATG
* *
26306024 GCTCTTCATGAGCTTTCCGCTTAAAG
1 GCTCTT-ATGAGCTTCCCG-TTAATG
* **
26306050 GCTCTTTGTGAGCTTCCTAATTAATG
1 GCTC-TTATGAGCTTCC-CGTTAATG
26306076 GCTCTCTA-GAGCTTCCCGTTAATG
1 GCTCT-TATGAGCTTCCCGTTAATG
* * **
26306100 GCTCTTCA-GAGCTACCTGTTTTTG
1 GCTCTT-ATGAGCTTCCCGTTAATG
** **
26306124 GCTCGCATGAGCTTCCTAATT-ATG
1 GCTCTTATGAGCTTCC-CGTTAATG
26306148 GCTCTTATGAGCTTCCCGTTA
1 GCTCTTATGAGCTTCCCGTTA
26306169 TACAGCCCAA
Statistics
Matches: 110, Mismatches: 25, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
23 4 0.04
24 51 0.46
25 17 0.15
26 32 0.29
27 6 0.05
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGTTAATG
Found at i:26309571 original size:40 final size:40
Alignment explanation
Indices: 26309516--26309594 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
26309506 GTCTTTGAGG
26309516 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAT
1 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAT
26309556 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAA
1 ATATGGAGGACATGAATAAAATATACCTTATTGAACTAA
26309595 CATAATCATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (40 bp):
ATATGGAGGACATGAATAAAATATACCTTATTGAACTAAT
Found at i:26309754 original size:36 final size:36
Alignment explanation
Indices: 26309703--26309775 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
26309693 AGTAAACTCT
*
26309703 ATTCAACTCAATAGCCTTTTAGATCTATTCTAACTA
1 ATTCAACTCAATAGCCTTTCAGATCTATTCTAACTA
* *
26309739 ATTCAATTCAGTAGCCTTTCAGATCTATTCTAACTA
1 ATTCAACTCAATAGCCTTTCAGATCTATTCTAACTA
26309775 A
1 A
26309776 AGCACTCCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (36 bp):
ATTCAACTCAATAGCCTTTCAGATCTATTCTAACTA
Found at i:26311370 original size:11 final size:11
Alignment explanation
Indices: 26311353--26311389 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
26311343 GAATGAGGAC
26311353 TGATTGAGGGA
1 TGATTGAGGGA
*
26311364 TGCTTGAGGGA
1 TGATTGAGGGA
*
26311375 TGATTGAGTGA
1 TGATTGAGGGA
26311386 TGAT
1 TGAT
26311390 GAATGAAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.24, C:0.03, G:0.41, T:0.32
Consensus pattern (11 bp):
TGATTGAGGGA
Found at i:26314489 original size:23 final size:21
Alignment explanation
Indices: 26314463--26314505 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
26314453 TTATGTTGCA
* *
26314463 ACACACACCTTGTGTTGAGCC
1 ACACACACCCTATGTTGAGCC
26314484 ACACACACCCTATGTTGAGCC
1 ACACACACCCTATGTTGAGCC
26314505 A
1 A
26314506 TAGCCTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.21
Consensus pattern (21 bp):
ACACACACCCTATGTTGAGCC
Found at i:26314838 original size:13 final size:13
Alignment explanation
Indices: 26314817--26314862 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
26314807 GAGCATTCTC
* *
26314817 TTTACTCTTTTAT
1 TTTATTCTTCTAT
26314830 TTTATTCTTCTAT
1 TTTATTCTTCTAT
26314843 TTTATTCTTCTAT
1 TTTATTCTTCTAT
26314856 TTATATT
1 TT-TATT
26314863 TTGTTAACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 26 0.87
14 4 0.13
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTATTCTTCTAT
Found at i:26328114 original size:125 final size:125
Alignment explanation
Indices: 26327802--26328118 Score: 454
Period size: 125 Copynumber: 2.5 Consensus size: 125
26327792 GATAAAATCA
* *
26327802 AAGCAGGATGCTTTATCGAAAGAATTTCTGAAATTGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAAAAGAATTTCTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
26327867 TGGTCCTGAAAAAATAATTTCAAGTTGACGTTTTTGAGCGAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
* * * *
26327927 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAATTGCGCCCACATGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAAAAGAATTTCTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
26327992 AGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCGAATAGTATAAAAAATGCTTC
66 AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
* * ** * * * * *
26328052 AAGCAGGATGCTTTATCAAAAAAATTTATGAAATCACACCCTCGTGGGCGCGTTTTTACTACAGT
1 AAGCAGGATGCTTTATCAAAAGAATTTCTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
26328117 AG
66 AG
26328119 CATGTTTGGG
Statistics
Matches: 168, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
125 168 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAAAAGAATTTCTGAAATTGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCAAGTTGACATTTCTGAGCGAATAGTATAAAAAACGCTTC
Found at i:26331185 original size:59 final size:59
Alignment explanation
Indices: 26331093--26331217 Score: 232
Period size: 59 Copynumber: 2.1 Consensus size: 59
26331083 CATTGTAAAC
*
26331093 AAATTATATTTTTTTGTACCAATCAAAATATTTTGTAAAAACGCAATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
*
26331152 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCTATAGTTTGTTAGTA
1 AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
26331211 AAATTAT
1 AAATTAT
26331218 TAATTGTTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (59 bp):
AAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAAACGCAATAGTTTGTTAGTA
Found at i:26331317 original size:21 final size:21
Alignment explanation
Indices: 26331281--26331399 Score: 132
Period size: 22 Copynumber: 5.6 Consensus size: 21
26331271 GGTTAGGTTT
*
26331281 AGGGTTA-GGATTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
26331301 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
* *
26331322 TGGGTTTAGGGTTTTTAAGTTG
1 AGGG-TTAGGGTTTTTAAGTTA
***
26331344 TTTGTTAGGGTTTTTAAGTTAA
1 AGGGTTAGGGTTTTTAAGTT-A
*
26331366 AGGTTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
*
26331387 ATGTGTTAGGGTT
1 A-GGGTTAGGGTT
26331400 AGGGTTAGGG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.08
21 33 0.40
22 43 0.52
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:26331341 original size:43 final size:43
Alignment explanation
Indices: 26331291--26331399 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
26331281 AGGGTTAGGA
* **
26331291 TTTTAAGTTAAGGGTTAGGGTTTTTAAGTTATGGGTTTAGGGT
1 TTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAAGGTTTAGGGT
***
26331334 TTTTAAGTTGTTTGTTAGGGTTTTTAAGTTAAAGGTTTAGGGT
1 TTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAAGGTTTAGGGT
26331377 TTTTAAGTTAATGTGTTAGGGTT
1 TTTTAAGTTAA-GTGTTAGGGTT
26331400 AGGGTTAGGG
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
43 46 0.82
44 10 0.18
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (43 bp):
TTTTAAGTTAAGTGTTAGGGTTTTTAAGTTAAAGGTTTAGGGT
Found at i:26331518 original size:12 final size:12
Alignment explanation
Indices: 26331501--26331530 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26331491 TTTAAAGTTA
26331501 AAGGTTAGGGTT
1 AAGGTTAGGGTT
26331513 AAGGTTAGGGTT
1 AAGGTTAGGGTT
*
26331525 AGGGTT
1 AAGGTT
26331531 TTTGTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (12 bp):
AAGGTTAGGGTT
Found at i:26331567 original size:119 final size:120
Alignment explanation
Indices: 26331391--26331618 Score: 361
Period size: 119 Copynumber: 1.9 Consensus size: 120
26331381 AAGTTAATGT
*
26331391 GTTAGGGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAATATCAAAATTTAATTATAAATT
1 GTTAAGGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAATATCAAAATTTAATTATAAATT
26331456 ATAAATTTAT-AATTTTTAATAAATTAGTTTAGGGTTTTAAAGTTAAAGGTTAGG
66 ATAAATTTATAAATTTTTAATAAATTAGTTTAGGGTTTTAAAGTTAAAGGTTAGG
* * * * *
26331510 GTTAAGGTTAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAA-ATTATAATTATAATTATAATT
1 GTTAAGGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAATATCAAAATT-TAATTATAAAT
* *
26331574 TATAAATTTATAAATTTTTAATAAATTAGTTTAGGTTTTTTAAGT
65 TATAAATTTATAAATTTTTAATAAATTAGTTTAGGGTTTTAAAGT
26331619 AATACCTCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
118 7 0.07
119 61 0.62
120 31 0.31
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (120 bp):
GTTAAGGTTAGGGTTAGGGTTTCTGTTAAGGTTTGTCAATTAATATCAAAATTTAATTATAAATT
ATAAATTTATAAATTTTTAATAAATTAGTTTAGGGTTTTAAAGTTAAAGGTTAGG
Found at i:26333993 original size:11 final size:12
Alignment explanation
Indices: 26333952--26334025 Score: 72
Period size: 11 Copynumber: 6.7 Consensus size: 12
26333942 TTAAATATGG
26333952 ATTTGAGAG-AA
1 ATTTGAGAGCAA
*
26333963 ATTTG-GAAGGAA
1 ATTTGAG-AGCAA
26333975 A-TTGAGAGCAA
1 ATTTGAGAGCAA
26333986 ATTT-AGAGC-A
1 ATTTGAGAGCAA
26333996 ATTTGAGAG-AA
1 ATTTGAGAGCAA
26334007 ATTTGAGAG-AA
1 ATTTGAGAGCAA
*
26334018 AATTGAGA
1 ATTTGAGA
26334026 AAATAATTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.11
11 43 0.78
12 6 0.11
ACGTcount: A:0.45, C:0.03, G:0.27, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGCAA
Found at i:26334961 original size:5 final size:5
Alignment explanation
Indices: 26334953--26334977 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
26334943 AAAATTTAAA
26334953 GATGG GATGG GATGG GATGG GATGG
1 GATGG GATGG GATGG GATGG GATGG
26334978 AAGCAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.60, T:0.20
Consensus pattern (5 bp):
GATGG
Found at i:26335335 original size:2 final size:2
Alignment explanation
Indices: 26335328--26335354 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26335318 CATGTTTTGA
26335328 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
26335355 AACACTTTCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26338535 original size:22 final size:22
Alignment explanation
Indices: 26338489--26338535 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
26338479 ATATCAAAGA
*
26338489 TTTTTTTAAAAAAAATTTAAAT
1 TTTTTTTAAAAAAAATATAAAT
* * *
26338511 TTTTTTTATAAAATATATAAGT
1 TTTTTTTAAAAAAAATATAAAT
26338533 TTT
1 TTT
26338536 GTGATAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTTTTAAAAAAAATATAAAT
Found at i:26340390 original size:34 final size:35
Alignment explanation
Indices: 26340332--26340398 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
26340322 CAAACACAAG
26340332 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
26340367 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
26340399 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:26345385 original size:25 final size:25
Alignment explanation
Indices: 26345343--26345391 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
26345333 TCAAAAGCTA
* *
26345343 CGACAAATGCTTGGAGTTTGCAAGG
1 CGACAAATGCTAGGAGTTAGCAAGG
26345368 CGACAAATGC-AGGAAGTTAGCAAG
1 CGACAAATGCTAGG-AGTTAGCAAG
26345392 ATTTTTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (25 bp):
CGACAAATGCTAGGAGTTAGCAAGG
Found at i:26346257 original size:21 final size:20
Alignment explanation
Indices: 26346209--26346258 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
26346199 TATTTTGTTA
26346209 GTATTGTTTAGTTTTTTTATT
1 GTATT-TTTAGTTTTTTTATT
26346230 GTAATTTTTATGTTTTTTTAATT
1 GT-ATTTTTA-GTTTTTTT-ATT
26346253 -TATTTT
1 GTATTTT
26346259 AAAGTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 11 0.42
22 12 0.46
23 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
GTATTTTTAGTTTTTTTATT
Found at i:26346363 original size:104 final size:108
Alignment explanation
Indices: 26346232--26346433 Score: 313
Period size: 110 Copynumber: 1.9 Consensus size: 108
26346222 TTTTTATTGT
26346232 AATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CTA-TTA-TAAATTATTT
1 AATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTAGTTAGTAAATTATTT
*
26346294 GTCTATTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
66 GTCTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
* *
26346337 AATTTTTATGTTTTTTT-ATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTA
1 AATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTA--GTTA-GTAAATTA
*
26346401 TTTGTTTAGTTTAATATTTATTGTGATTTGTTA
63 TTTGTCTAGTTTAATATTTATTGTGATTTGTTA
26346434 TGAATGTAAT
Statistics
Matches: 87, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
104 28 0.32
105 19 0.22
108 3 0.03
110 37 0.43
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.60
Consensus pattern (108 bp):
AATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTAGTTAGTAAATTATTT
GTCTAGTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
Found at i:26346457 original size:105 final size:102
Alignment explanation
Indices: 26346232--26346465 Score: 289
Period size: 105 Copynumber: 2.2 Consensus size: 102
26346222 TTTTTATTGT
26346232 AATTTTTATGTTTTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTATTTGTC
1 AATTTTTATGTTTTTTT-ATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTATTTGTC
*
26346297 TATTTTAATATTTATTGTGATTTGTTAGGTTATGAATGTA
65 TAGTTTAATATTTATTGTGA-TTGTTA-GTTATGAATGTA
* *
26346337 AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAATTTATGGTTAGGTTAATTAT
1 AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAA-CTA---TTA--TAAATTAT
*
26346402 TTGTTTAGTTTAATATTTATTGTGA-T-TT-GTTATGAATGTA
60 TTGTCTAGTTTAATATTTATTGTGATTGTTAGTTATGAATGTA
*
26346442 ATTATTTTT-TG-TTTTTGATTTATT
1 A--ATTTTTATGTTTTTTTATTTATT
26346466 GAGATGTTAA
Statistics
Matches: 116, Mismatches: 5, Indels: 16
0.85 0.04 0.12
Matches are distributed among these distances:
104 28 0.24
105 44 0.38
106 2 0.02
107 8 0.07
108 4 0.03
110 30 0.26
ACGTcount: A:0.26, C:0.01, G:0.12, T:0.61
Consensus pattern (102 bp):
AATTTTTATGTTTTTTTATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTATTTGTCT
AGTTTAATATTTATTGTGATTGTTAGTTATGAATGTA
Found at i:26347274 original size:11 final size:11
Alignment explanation
Indices: 26347258--26347301 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
26347248 GAATTAACCG
26347258 AATTACCCAAA
1 AATTACCCAAA
*
26347269 AATTACCC--G
1 AATTACCCAAA
*
26347278 AACTACCCAAA
1 AATTACCCAAA
26347289 AATTACCCAAA
1 AATTACCCAAA
26347300 AA
1 AA
26347302 GTTCGGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.26
11 20 0.74
ACGTcount: A:0.52, C:0.30, G:0.02, T:0.16
Consensus pattern (11 bp):
AATTACCCAAA
Found at i:26347278 original size:20 final size:20
Alignment explanation
Indices: 26347249--26347296 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
26347239 CAGTGAACCG
* *
26347249 AATTAACCGAATTACCCAAA
1 AATTACCCGAACTACCCAAA
26347269 AATTACCCGAACTACCCAAA
1 AATTACCCGAACTACCCAAA
26347289 AATTACCC
1 AATTACCC
26347297 AAAAAGTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (20 bp):
AATTACCCGAACTACCCAAA
Found at i:26349337 original size:33 final size:36
Alignment explanation
Indices: 26349270--26349351 Score: 107
Period size: 33 Copynumber: 2.4 Consensus size: 36
26349260 TGGAACAAGC
* *
26349270 TTGGAACAAACTTTGTATTTATTTAATTGCGATTCA
1 TTGGAACAAACTTTGTATTTATTAAATTGAGATTCA
*
26349306 TTGGAACAAATTTTGTA-TT-TTAAATT-AGATTCA
1 TTGGAACAAACTTTGTATTTATTAAATTGAGATTCA
*
26349339 TTGGTACAAACTT
1 TTGGAACAAACTT
26349352 GGAACAAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 17 0.41
34 6 0.15
35 2 0.05
36 16 0.39
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (36 bp):
TTGGAACAAACTTTGTATTTATTAAATTGAGATTCA
Found at i:26353068 original size:16 final size:16
Alignment explanation
Indices: 26353016--26353068 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
26353006 GTGGCCCCTC
26353016 AGTAAAATTTTAATTT
1 AGTAAAATTTTAATTT
**
26353032 AG-ACCATTTATAATTT
1 AGTAAAATTT-TAATTT
*
26353048 A-TAAAATTTTAAATT
1 AGTAAAATTTTAATTT
26353063 AGTAAA
1 AGTAAA
26353069 GATAATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (16 bp):
AGTAAAATTTTAATTT
Found at i:26364483 original size:12 final size:12
Alignment explanation
Indices: 26364466--26364490 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26364456 CCTCCCGACA
26364466 TCTCTCTCTCTG
1 TCTCTCTCTCTG
26364478 TCTCTCTCTCTG
1 TCTCTCTCTCTG
26364490 T
1 T
26364491 GTCTTGTCTT
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:0.00, C:0.40, G:0.08, T:0.52
Consensus pattern (12 bp):
TCTCTCTCTCTG
Found at i:26368213 original size:41 final size:41
Alignment explanation
Indices: 26368162--26368258 Score: 167
Period size: 41 Copynumber: 2.4 Consensus size: 41
26368152 AGATATATCT
* *
26368162 TTTTCAACCTTTTCATGTGTTATCCTTTTCGGGTAATTTCC
1 TTTTCAACCTTTTCATGTGTTATCCCTTTCGGGTAACTTCC
*
26368203 TTTTCAACCTTTCCATGTGTTATCCCTTTCGGGTAACTTCC
1 TTTTCAACCTTTTCATGTGTTATCCCTTTCGGGTAACTTCC
26368244 TTTTCAACCTTTTCA
1 TTTTCAACCTTTTCA
26368259 AGAATTCGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.15, C:0.26, G:0.10, T:0.48
Consensus pattern (41 bp):
TTTTCAACCTTTTCATGTGTTATCCCTTTCGGGTAACTTCC
Found at i:26369417 original size:41 final size:40
Alignment explanation
Indices: 26369285--26369420 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
26369275 ACCAGTTTGG
*
26369285 CACCCAGTGCCTCATCGAATAAT-TCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCT-GAAGTAGTAAATTGA
* * * ** * * *
26369325 CACTCTGTGTCTCATCGGCTAAACCGAAGT-G--AATTGG
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
*
26369362 CACCGAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCTGAAGTAGTAAATTGA
*
26369403 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
26369421 CTCGAAGTCG
Statistics
Matches: 71, Mismatches: 20, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
37 18 0.25
38 9 0.13
39 1 0.01
40 22 0.31
41 21 0.30
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
Found at i:26369621 original size:24 final size:24
Alignment explanation
Indices: 26369576--26369632 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
26369566 TATAAATACC
26369576 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
26369600 AATTC-ATCACATACTAAA-TCAATA
1 AATTCAATCA-ATA-TAAATTCAATA
26369624 AATTTCAAT
1 AA-TTCAAT
26369633 TGTAAAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 7 0.24
26 2 0.07
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:26370314 original size:15 final size:15
Alignment explanation
Indices: 26370281--26370320 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
26370271 TTCGTCTCCT
* **
26370281 TTTTTCTTTCTTTGT
1 TTTTTGTTTCTTTCC
26370296 TTTTTGTTTCTTTCC
1 TTTTTGTTTCTTTCC
26370311 TTTTTGTTTC
1 TTTTTGTTTC
26370321 GTTTTTGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTTGTTTCTTTCC
Found at i:26370451 original size:42 final size:42
Alignment explanation
Indices: 26370372--26370451 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
26370362 TTTATTATAA
*
26370372 TATAATATATAATATATATACTTAACATTTAAGTTTTAATAT
1 TATAATATATAATATATATACTTAACATTTAAATTTTAATAT
*
26370414 TATAATATTATAATATATAT-TTTAAC-TTTAAAATTTTA
1 TATAATA-TATAATATATATACTTAACATTT-AAATTTTA
26370452 TAATAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 3 0.09
42 19 0.56
43 12 0.35
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (42 bp):
TATAATATATAATATATATACTTAACATTTAAATTTTAATAT
Found at i:26373425 original size:22 final size:22
Alignment explanation
Indices: 26373400--26373443 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26373390 GAAAACCCGA
26373400 AAACAAAAAATCCTCAAAATGT
1 AAACAAAAAATCCTCAAAATGT
* * *
26373422 AAACACAAAATTCTCTAAATGT
1 AAACAAAAAATCCTCAAAATGT
26373444 GTTATGAGTT
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:0.55, C:0.18, G:0.05, T:0.23
Consensus pattern (22 bp):
AAACAAAAAATCCTCAAAATGT
Found at i:26382931 original size:16 final size:17
Alignment explanation
Indices: 26382904--26382938 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
26382894 AGAGAGTTGA
26382904 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
26382921 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
26382937 GA
1 GA
26382939 TGTGAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:26384006 original size:11 final size:13
Alignment explanation
Indices: 26383990--26384022 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26383980 ATTTCACAGA
26383990 AAAATTTCG-T-G
1 AAAATTTCGTTCG
26384001 AAAATTTCGTTCG
1 AAAATTTCGTTCG
26384014 AAAATTTCG
1 AAAATTTCG
26384023 ATGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:26385295 original size:51 final size:51
Alignment explanation
Indices: 26385223--26385510 Score: 314
Period size: 51 Copynumber: 5.7 Consensus size: 51
26385213 TATCGATGAA
* * * * *
26385223 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * * * * * *
26385274 CACATGTGTAGTACTAAGTGAATGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAA-ATGTTGGT
* * *
26385325 CATGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
* * *
26385376 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATG--TTGGT
* * ** *
26385427 CACGTGTGTAGTGCTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
26385477 CACGTGTGTAGTACTATGTGAAGGCTACTATGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTATGTG
26385511 TATCGAATGA
Statistics
Matches: 194, Mismatches: 37, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.21
51 152 0.78
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGATAAATGTTGGT
Found at i:26385403 original size:102 final size:102
Alignment explanation
Indices: 26385223--26385517 Score: 439
Period size: 102 Copynumber: 2.9 Consensus size: 102
26385213 TATCGATGAA
* *
26385223 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
26385288 TAAGTGAATGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* *
26385325 CATGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
26385390 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *** * *
26385427 CACGTGTGTAGTGCTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
26385491 TATGTGAAGGCTACTATGTGTATCGAA
66 TAAGTGAAGGCTACTATGTGTACCGAA
26385518 TGATAAAAGT
Statistics
Matches: 175, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 45 0.26
102 130 0.74
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:26385549 original size:152 final size:153
Alignment explanation
Indices: 26385230--26385549 Score: 353
Period size: 152 Copynumber: 2.1 Consensus size: 153
26385220 GAACACGTGT
* *
26385230 GTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
* * * * * *
26385295 ATGCTACAATGTGTACCGAGAAGCTTTGGTCATGTGTGTAGTACTATGTGAAGGCTACTATGTGA
66 AGGCTACAACGTGAACCGAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTATGTGA
* ** * *
26385360 ATCGATAAATGATGGTCACATGT
131 ATCGATAAATAAAAGTAACATGG
** * * * * * *
26385383 GTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGTCACGTGTGTAGTGCTATGT
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATG--ATGGTCACATGTGTAGTACTAAGT
*
26385446 GAAGGCTACTACGTGAACCGTA-AAAC-TTGATCACGTGTGTAGTACTATGTGAAGGCTACTATG
64 GAAGGCTACAACGTGAACCG-AGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTATG
* *
26385509 TGTATCGA-ATGATAAAAGTAACATGG
128 TGAATCGATA-AATAAAAGTAACATGG
26385535 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
26385550 AAACCCCAAA
Statistics
Matches: 137, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
151 2 0.01
152 68 0.50
153 66 0.48
154 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (153 bp):
GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
AGGCTACAACGTGAACCGAGAAACTTTGATCACGTGTGTAGTACTATGTGAAGGCTACTATGTGA
ATCGATAAATAAAAGTAACATGG
Found at i:26389951 original size:20 final size:20
Alignment explanation
Indices: 26389926--26389963 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26389916 ACCCCCTTTA
26389926 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
26389946 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
26389964 CGAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:26395189 original size:39 final size:34
Alignment explanation
Indices: 26395124--26395202 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 34
26395114 AAGTAAGTGT
*
26395124 AGAAAAATAAACTCTAAAACTAAGAAAGAA-TAAG
1 AGAAAAAAAAACTCTAAAACTAAGAAA-AACTAAG
26395158 AGAAAATAAAAACTCTAAAAAACTTATAGAAAAACTAAG
1 AGAAAA-AAAAACTCT--AAAAC-TA-AGAAAAACTAAG
26395197 AGAAAA
1 AGAAAA
26395203 CCTAGAGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
34 6 0.16
35 8 0.21
37 5 0.13
38 4 0.11
39 15 0.39
ACGTcount: A:0.66, C:0.09, G:0.10, T:0.15
Consensus pattern (34 bp):
AGAAAAAAAAACTCTAAAACTAAGAAAAACTAAG
Found at i:26397956 original size:23 final size:24
Alignment explanation
Indices: 26397928--26397985 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
26397918 ATAATTCTTT
26397928 TAAAAAATAATGGTTATTTTTAAA
1 TAAAAAATAATGGTTATTTTTAAA
26397952 TAAAAAATAATGGTTATTTTTAAA
1 TAAAAAATAATGGTTATTTTTAAA
26397976 TAAAAAATAA
1 TAAAAAATAA
26397986 AAAATTATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (24 bp):
TAAAAAATAATGGTTATTTTTAAA
Found at i:26399725 original size:24 final size:25
Alignment explanation
Indices: 26399696--26399746 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
26399686 AAATATCATA
*
26399696 TTAATTTTAATTAATT-TGATTAAT
1 TTAATTTTAATTAATTAAGATTAAT
* *
26399720 TTAATTTTACTTGATTAAGATTAAT
1 TTAATTTTAATTAATTAAGATTAAT
26399745 TT
1 TT
26399747 TCTTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (25 bp):
TTAATTTTAATTAATTAAGATTAAT
Found at i:26402752 original size:16 final size:17
Alignment explanation
Indices: 26402723--26402755 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26402713 ATTAGAATAA
*
26402723 AATAAAGTTCTAATATT
1 AATAAACTTCTAATATT
26402740 AATAAACTT-TAATATT
1 AATAAACTTCTAATATT
26402756 TTGATATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
AATAAACTTCTAATATT
Found at i:26419513 original size:42 final size:42
Alignment explanation
Indices: 26419455--26419608 Score: 254
Period size: 42 Copynumber: 3.7 Consensus size: 42
26419445 GATGCAAGGG
26419455 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATGTGTC
1 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATGTGTC
26419497 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATGTGTC
1 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATGTGTC
*
26419539 ACACACGGCCAAAACACACGCCCATGTGCTAGGTCATGTGTC
1 ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATGTGTC
* ** * *
26419581 ACATACGGCTGAGACACACGCCCGTGTG
1 ACACACGGCCAAAACACACGCCCATGTG
26419609 GACAAAATAG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.16
Consensus pattern (42 bp):
ACACACGGCCAAAACACACGCCCATGTGCTAAGTCATGTGTC
Found at i:26422035 original size:50 final size:50
Alignment explanation
Indices: 26421924--26422121 Score: 252
Period size: 50 Copynumber: 3.8 Consensus size: 50
26421914 ATTTGGGTAA
* *
26421924 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATG
*
26421980 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * *
26422030 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATTGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * *
26422080 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26422122 GTACAAGAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
50 86 0.66
53 2 0.02
56 42 0.32
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:26424757 original size:47 final size:47
Alignment explanation
Indices: 26424688--26424779 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 47
26424678 ATAAGTAACT
*
26424688 ATTTTTATTATTTAGACCATATATAAATGACTATTTTATAATTTATC
1 ATTTTTATTACTTAGACCATATATAAATGACTATTTTATAATTTATC
* *
26424735 ATTTTTCTTACTTAGACCATATATAAATGACTATTTTATTATTTA
1 ATTTTTATTACTTAGACCATATATAAATGACTATTTTATAATTTA
26424780 GACCATACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (47 bp):
ATTTTTATTACTTAGACCATATATAAATGACTATTTTATAATTTATC
Found at i:26424804 original size:31 final size:31
Alignment explanation
Indices: 26424746--26424809 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
26424736 TTTTTCTTAC
* *
26424746 TTAGACCATATATAAATGACTATTTTATTAT
1 TTAGACCATACATAAATGACTATTTTATCAT
26424777 TTAGACCATACATAAAT-A-TATAATTTATCAT
1 TTAGACCATACATAAATGACTAT--TTTATCAT
26424808 TT
1 TT
26424810 TATAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 3 0.10
30 1 0.03
31 25 0.86
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.44
Consensus pattern (31 bp):
TTAGACCATACATAAATGACTATTTTATCAT
Found at i:26425263 original size:16 final size:17
Alignment explanation
Indices: 26425238--26425270 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26425228 ATACCTTTAT
*
26425238 TTTTACTAA-TTTAAAA
1 TTTTAATAATTTTAAAA
26425254 TTTTAATAATTTTAAAA
1 TTTTAATAATTTTAAAA
26425271 AATTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATAATTTTAAAA
Found at i:26430245 original size:14 final size:14
Alignment explanation
Indices: 26430217--26430249 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26430207 CTTTATTTTT
26430217 TTTAT-GTTGTATA
1 TTTATAGTTGTATA
*
26430230 TTTATAGTTGTTTA
1 TTTATAGTTGTATA
26430244 TTTATA
1 TTTATA
26430250 CAATATGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
TTTATAGTTGTATA
Found at i:26433488 original size:3 final size:3
Alignment explanation
Indices: 26433480--26433517 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
26433470 CAAAATCATT
*
26433480 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
26433518 GCCATGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:26443305 original size:2 final size:2
Alignment explanation
Indices: 26443300--26443346 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
26443290 TTTATATATA
*
26443300 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26443342 TG TG T
1 TG TG T
26443347 CATATTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:26452017 original size:12 final size:12
Alignment explanation
Indices: 26452000--26452024 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26451990 AAAATGCATT
26452000 ATTAATAAAATA
1 ATTAATAAAATA
26452012 ATTAATAAAATA
1 ATTAATAAAATA
26452024 A
1 A
26452025 CACATGAACT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAATAAAATA
Found at i:26455568 original size:20 final size:20
Alignment explanation
Indices: 26455543--26455621 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
26455533 TAGAATTTGC
26455543 CACAAAGGCTAACATAATAG
1 CACAAAGGCTAACATAATAG
* *
26455563 CACAAAGG-TAATATATAGAGTACAC
1 CACAAAGGCT-A-ACATA-A-T--AG
26455588 CACAAAGGCTAACATAATAG
1 CACAAAGGCTAACATAATAG
*
26455608 CATAAAGGCTAACA
1 CACAAAGGCTAACA
26455622 GAATGCCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
19 1 0.02
20 23 0.49
21 4 0.09
22 2 0.04
23 2 0.04
24 4 0.09
25 10 0.21
26 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.16
Consensus pattern (20 bp):
CACAAAGGCTAACATAATAG
Found at i:26455631 original size:20 final size:20
Alignment explanation
Indices: 26455591--26455673 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
26455581 AGTACACCAC
*
26455591 AAAGGCTAACATAATAG-CAT
1 AAAGGCTAACAGAAT-GCCAT
26455611 AAAGGCTAACAGAATGCCAT
1 AAAGGCTAACAGAATGCCAT
* *
26455631 AAAGGCCCAATCAGAATATGCCAC
1 AAAGG-CTAA-CAG-A-ATGCCAT
* *
26455655 ATAGGCTAACAAAATGCCA
1 AAAGGCTAACAGAATGCCA
26455674 CCTAGGCACC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.02
20 28 0.54
21 4 0.08
22 5 0.10
23 4 0.08
24 10 0.19
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.16
Consensus pattern (20 bp):
AAAGGCTAACAGAATGCCAT
Found at i:26459063 original size:36 final size:39
Alignment explanation
Indices: 26459000--26459089 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 39
26458990 GTCTCCAATT
* * *
26459000 TCACATTTCAGTTC-AATTTCACTTTTTC-ACTTTCAA-
1 TCACAATTCAATTCAAAATTCACTTTTTCTACTTTCAAG
*
26459036 TCACAATTCAATTCAAAATTCAC-TTTTCTATTTTCAAG
1 TCACAATTCAATTCAAAATTCACTTTTTCTACTTTCAAG
*
26459074 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
26459090 TTCCACACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 17 0.38
37 15 0.33
38 13 0.29
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.44
Consensus pattern (39 bp):
TCACAATTCAATTCAAAATTCACTTTTTCTACTTTCAAG
Found at i:26459895 original size:15 final size:15
Alignment explanation
Indices: 26459877--26459905 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26459867 TTTATATATA
26459877 ATATAATAATATAAT
1 ATATAATAATATAAT
26459892 ATATAATAATATAA
1 ATATAATAATATAA
26459906 CATAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATAATAATATAAT
Found at i:26459895 original size:20 final size:20
Alignment explanation
Indices: 26459870--26459912 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
26459860 ACTTTACTTT
*
26459870 ATATATAAT-ATAATAATATA
1 ATATATAATAAT-ATAACATA
26459890 ATATATAATAATATAACATA
1 ATATATAATAATATAACATA
26459910 ATA
1 ATA
26459913 AATATCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATATAATAATATAACATA
Found at i:26459913 original size:8 final size:8
Alignment explanation
Indices: 26459869--26459905 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
26459859 TACTTTACTT
26459869 TATATATAA
1 TATA-ATAA
26459878 TATAATAA
1 TATAATAA
26459886 TATAAT-A
1 TATAATAA
26459893 TATAATAA
1 TATAATAA
26459901 TATAA
1 TATAA
26459906 CATAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.26
8 16 0.59
9 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAATAA
Found at i:26463850 original size:42 final size:43
Alignment explanation
Indices: 26463738--26463855 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 43
26463728 AGCTCGTACA
* * * *
26463738 ACGCCAACGTCCCAGACGTGGTCTTACATGCAATCAAATAACG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
* * * * * * *
26463781 ATGTCATTATCCCAGACAGGGTTTTACACGTAATCATAT-ACG
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
*
26463823 ACGCCAATGTCTCAGACATGGTCTTACACGTAA
1 ACGCCAATGTCCCAGACATGGTCTTACACGTAA
26463856 ATCTCAAGTC
Statistics
Matches: 57, Mismatches: 18, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
42 29 0.51
43 28 0.49
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
ACGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACG
Found at i:26465934 original size:18 final size:19
Alignment explanation
Indices: 26465896--26465934 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
26465886 GTAACCCCTG
* *
26465896 TTTCCCAAATTTTTATGTT
1 TTTCCAAAATTTTTATATT
26465915 TTTCCAAAATTTTT-TATT
1 TTTCCAAAATTTTTATATT
26465933 TT
1 TT
26465935 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTCCAAAATTTTTATATT
Found at i:26467677 original size:28 final size:29
Alignment explanation
Indices: 26467622--26467681 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
26467612 AGTCTAAATA
*
26467622 TTTTAAGTTACTTTATATATTATTTTTATT
1 TTTTAAGTTACTTTACATATTA-TTTTATT
*
26467652 TTTTAAGTTATTTTACATATTA-TTTATT
1 TTTTAAGTTACTTTACATATTATTTTATT
26467680 TT
1 TT
26467682 AAATTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.29
30 20 0.71
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTAAGTTACTTTACATATTATTTTATT
Found at i:26475372 original size:3 final size:3
Alignment explanation
Indices: 26475364--26475389 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
26475354 TGTCCGCCTT
26475364 TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TG
26475390 CACTATTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:26477412 original size:15 final size:16
Alignment explanation
Indices: 26477380--26477414 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26477370 CATTAACATG
26477380 TATTTTTTAAAATATT
1 TATTTTTTAAAATATT
*
26477396 TATTTTTTAATAT-TT
1 TATTTTTTAAAATATT
26477411 TATT
1 TATT
26477415 ATATCTCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTTTTAAAATATT
Found at i:26478732 original size:36 final size:36
Alignment explanation
Indices: 26478687--26478758 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
26478677 TTGTGATAAA
*
26478687 AAAACAGTTTAAGTACCAACTTGAGAAAATTAGCAT
1 AAAACAGTTTAAGTACCAACTTGAGAAAATGAGCAT
26478723 AAAACAGTTTAAGTACCAACTTGAGAAAATGAGCAT
1 AAAACAGTTTAAGTACCAACTTGAGAAAATGAGCAT
26478759 TATTTAGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (36 bp):
AAAACAGTTTAAGTACCAACTTGAGAAAATGAGCAT
Found at i:26482761 original size:6 final size:6
Alignment explanation
Indices: 26482750--26482777 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
26482740 TAATTACAAC
26482750 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
26482778 AATTATTCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:26487034 original size:92 final size:92
Alignment explanation
Indices: 26486938--26487116 Score: 331
Period size: 92 Copynumber: 1.9 Consensus size: 92
26486928 AATACTTATC
26486938 TTAATAGTACTTTATTAATTTAATATTAAAGTGATTATATTAATATTAAATTTAATTTAATGTTT
1 TTAATAGTACTTTATTAATTTAATATTAAAGTGATTATATTAATATTAAATTTAATTTAATGTTT
26487003 ATCTACAAGATAAACATTCTATAAGAT
66 ATCTACAAGATAAACATTCTATAAGAT
* * *
26487030 TTAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTTAATTTAATTTAATGTTT
1 TTAATAGTACTTTATTAATTTAATATTAAAGTGATTATATTAATATTAAATTTAATTTAATGTTT
26487095 ATCTACAAGATAAACATTCTAT
66 ATCTACAAGATAAACATTCTAT
26487117 TATTTTAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (92 bp):
TTAATAGTACTTTATTAATTTAATATTAAAGTGATTATATTAATATTAAATTTAATTTAATGTTT
ATCTACAAGATAAACATTCTATAAGAT
Found at i:26487145 original size:11 final size:11
Alignment explanation
Indices: 26487131--26487177 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
26487121 TTAATAAGAT
26487131 TTAATATTAA-A
1 TTAAT-TTAATA
*
26487142 TTAATATAATA
1 TTAATTTAATA
*
26487153 TTTATTT-ATA
1 TTAATTTAATA
26487163 TTAATTTAATA
1 TTAATTTAATA
26487174 TTAA
1 TTAA
26487178 GGTGATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 12 0.40
11 18 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATTTAATA
Found at i:26487151 original size:26 final size:26
Alignment explanation
Indices: 26487122--26487174 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
26487112 TCTATTATTT
26487122 TAATA-AGATTTAATATTAAATTAATA
1 TAATATAGATTT-ATATTAAATTAATA
** *
26487148 TAATATTTATTTATATTAATTTAATA
1 TAATATAGATTTATATTAAATTAATA
26487174 T
1 T
26487175 TAAGGTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TAATATAGATTTATATTAAATTAATA
Found at i:26487170 original size:92 final size:90
Alignment explanation
Indices: 26486938--26487177 Score: 297
Period size: 92 Copynumber: 2.6 Consensus size: 90
26486928 AATACTTATC
* *
26486938 TTAATAGTACTTTATTAATTTAATATTAAAGTGATTATATTAATATTAAATTTAATTTAATGTTT
1 TTAATAGTATTTTATTAAATTAATATTAAAGTGATTATATTAAT-TT-AATTTAATTTAATGTTT
26487003 ATCTACAAGATAAACATTCTATAAGAT
64 ATCTACAAGATAAACATTCTATAAGAT
* *
26487030 TTAATAGTATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTTAATTTAATTTAATGTTT
1 TTAATAGTATTTTATTAAATTAATATTAAAGTGATTATATT-A-ATTTAATTTAATTTAATGTTT
* *
26487095 ATCTACAAGATAAACATTCTATTA-TT
64 ATCTACAAGATAAACATTCTATAAGAT
* *
26487121 TTAATAAG-ATTTAATATTAAATTAATA-TAATATTTATTTATATTAATTTAATATTAA
1 TTAAT-AGTATTT--TATTAAATTAATATTAA-AGTGA-TTATATTAATTTAAT-TTAA
26487178 GGTGATTAAG
Statistics
Matches: 132, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
91 10 0.08
92 91 0.69
93 23 0.17
94 8 0.06
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (90 bp):
TTAATAGTATTTTATTAAATTAATATTAAAGTGATTATATTAATTTAATTTAATTTAATGTTTAT
CTACAAGATAAACATTCTATAAGAT
Found at i:26490856 original size:30 final size:30
Alignment explanation
Indices: 26490815--26490877 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
26490805 ACTTAACAAG
26490815 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
* *
26490845 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
26490875 CAA
1 CAA
26490878 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:26490884 original size:17 final size:17
Alignment explanation
Indices: 26490854--26490886 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26490844 ACAAATGTCT
26490854 TTAAAATAATAATAAAA
1 TTAAAATAATAATAAAA
26490871 TTAACAATAA-AATAAA
1 TTAA-AATAATAATAAA
26490887 TTTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAATAATAATAAAA
Found at i:26492031 original size:11 final size:11
Alignment explanation
Indices: 26491997--26492053 Score: 69
Period size: 11 Copynumber: 5.1 Consensus size: 11
26491987 ATTAATCATT
*
26491997 TCTCAATTATTC
1 TCTCAATT-TCC
*
26492009 TATCAATTTCC
1 TCTCAATTTCC
*
26492020 TCTCAGTTTCC
1 TCTCAATTTCC
*
26492031 TCTCAATTTGC
1 TCTCAATTTCC
26492042 TCTCAATTTCC
1 TCTCAATTTCC
26492053 T
1 T
26492054 TCCAAATTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
11 31 0.82
12 7 0.18
ACGTcount: A:0.19, C:0.30, G:0.04, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:26492037 original size:22 final size:22
Alignment explanation
Indices: 26491997--26492069 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
26491987 ATTAATCATT
* *
26491997 TCTCAATTATTCTATCAATTTCC
1 TCTCAATT-TCCTCTCAATTTCC
* *
26492020 TCTCAGTTTCCTCTCAATTTGC
1 TCTCAATTTCCTCTCAATTTCC
26492042 TCTCAATTTCCT-TCCAAATTT-C
1 TCTCAATTTCCTCT-C-AATTTCC
26492064 TCTCAA
1 TCTCAA
26492070 ATCCATATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.02
22 30 0.70
23 12 0.28
ACGTcount: A:0.22, C:0.30, G:0.03, T:0.45
Consensus pattern (22 bp):
TCTCAATTTCCTCTCAATTTCC
Found at i:26494082 original size:18 final size:18
Alignment explanation
Indices: 26494059--26494101 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26494049 TGCCAGGTGC
* *
26494059 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
26494077 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
26494095 GTTTCCT
1 GTATCCT
26494102 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:26498597 original size:3 final size:3
Alignment explanation
Indices: 26498591--26498625 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
26498581 TGATGATGAT
*
26498591 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAA GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
26498626 TAAGCAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:26503132 original size:31 final size:31
Alignment explanation
Indices: 26503097--26503158 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
26503087 AGGCAAATTA
26503097 CAAGAGCAATTGAATCCTAATAAAACTCTTT
1 CAAGAGCAATTGAATCCTAATAAAACTCTTT
26503128 CAAGAGCAATTGAATCCTAATAAAACTCTTT
1 CAAGAGCAATTGAATCCTAATAAAACTCTTT
26503159 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (31 bp):
CAAGAGCAATTGAATCCTAATAAAACTCTTT
Found at i:26508745 original size:21 final size:21
Alignment explanation
Indices: 26508693--26508747 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
26508683 AGGCAACTTT
**
26508693 TTTTTGCGGTTTTTTTTGCAC
1 TTTTTGCTTTTTTTTTTGCAC
26508714 TTTTTGCTTTTTTTTTTGCGA-
1 TTTTTGCTTTTTTTTTTGC-AC
26508735 TTTTTG-TTTTTTT
1 TTTTTGCTTTTTTT
26508748 AAAGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.74
22 1 0.03
ACGTcount: A:0.04, C:0.09, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGCTTTTTTTTTTGCAC
Found at i:26509296 original size:31 final size:31
Alignment explanation
Indices: 26509258--26509317 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
26509248 GCAAATTACG
26509258 AGAGTAATTGAATCCTAATAAAACTCTTTCA
1 AGAGTAATTGAATCCTAATAAAACTCTTTCA
26509289 AGAGTAATTGAATCCTAATAAAACTCTTT
1 AGAGTAATTGAATCCTAATAAAACTCTTT
26509318 AAAATTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (31 bp):
AGAGTAATTGAATCCTAATAAAACTCTTTCA
Found at i:26510295 original size:52 final size:51
Alignment explanation
Indices: 26510186--26510336 Score: 134
Period size: 50 Copynumber: 2.9 Consensus size: 51
26510176 CTAATTCTAA
* * *
26510186 AAAATTTAAAGAAATATATAAAAATACATAAATATTTTCAAAACAACAATGAT
1 AAAATTT-TAGAAA-ATATAAAAATACAAAAATATTTTCAAAAAAACAATGAT
* * *
26510239 -AAATTTTAGAAAATATAAAAATA-AAAAATATTGTTGAAAAAAATAATATAT
1 AAAATTTTAGAAAATATAAAAATACAAAAATATT-TTCAAAAAAACAAT-GAT
*
26510290 AAAATTTT--AAAATATAAAAA-ACACACAAATAATTTT-TAAAAAACAAT
1 AAAATTTTAGAAAATATAAAAATACA-A-AAAT-ATTTTCAAAAAAACAAT
26510337 AATTTTGAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
49 9 0.11
50 35 0.42
51 17 0.20
52 19 0.23
53 3 0.04
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (51 bp):
AAAATTTTAGAAAATATAAAAATACAAAAATATTTTCAAAAAAACAATGAT
Found at i:26510398 original size:5 final size:6
Alignment explanation
Indices: 26510373--26510397 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26510363 ATAAAAATAA
26510373 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
26510398 AAAAAACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:26510512 original size:29 final size:30
Alignment explanation
Indices: 26510431--26510512 Score: 116
Period size: 29 Copynumber: 2.8 Consensus size: 30
26510421 TCCATCTCTC
26510431 ACATTTTGGATAA-TTTAATTTTAATATAT
1 ACATTTTGGATAATTTTAATTTTAATATAT
*
26510460 ACATTTTGTATATATTTTAATTTTAA-ATAAT
1 ACATTTTGGATA-ATTTTAATTTTAATAT-AT
26510491 A-ATTTTGGATAATTTTAATTTT
1 ACATTTTGGATAATTTTAATTTT
26510513 GTTCAGTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 22 0.46
30 12 0.25
31 14 0.29
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (30 bp):
ACATTTTGGATAATTTTAATTTTAATATAT
Found at i:26514630 original size:22 final size:24
Alignment explanation
Indices: 26514597--26514646 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
26514587 AAAATGTTCT
*
26514597 AAAA-TTTCT-AAAATAAAAATGA
1 AAAACTTTCTAAAAATAAAAATAA
*
26514619 AAAACTTT-TAAAAATAAAATTAA
1 AAAACTTTCTAAAAATAAAAATAA
26514642 AAAAC
1 AAAAC
26514647 CAATCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAACTTTCTAAAAATAAAAATAA
Found at i:26517641 original size:21 final size:21
Alignment explanation
Indices: 26517617--26517659 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
26517607 AACCCAAACA
*
26517617 CTAAACCCAATTAGCCTTAGC
1 CTAAACCCAATTAGCCTAAGC
26517638 CTAAACCCAATTAGCCTAAGC
1 CTAAACCCAATTAGCCTAAGC
26517659 C
1 C
26517660 CAATAACCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.21
Consensus pattern (21 bp):
CTAAACCCAATTAGCCTAAGC
Found at i:26517653 original size:15 final size:15
Alignment explanation
Indices: 26517633--26517663 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26517623 CCAATTAGCC
26517633 TTAGCCTAAACCCAA
1 TTAGCCTAAACCCAA
*
26517648 TTAGCCTAAGCCCAA
1 TTAGCCTAAACCCAA
26517663 T
1 T
26517664 AACCCTAACC
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:0.35, C:0.32, G:0.10, T:0.23
Consensus pattern (15 bp):
TTAGCCTAAACCCAA
Found at i:26518921 original size:28 final size:27
Alignment explanation
Indices: 26518856--26518921 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 27
26518846 GATGAATTAT
** *
26518856 TTTTTATATAATATATTTTTAATAACT
1 TTTTTATATAATATACGTTTAATAACA
*
26518883 TTTATTTTATAATATACGTTTAA-AAGCCA
1 TTT-TTATATAATATACGTTTAATAA--CA
26518912 TTTTTATATA
1 TTTTTATATA
26518922 TTTCATCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.16
28 22 0.71
29 4 0.13
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTTTATATAATATACGTTTAATAACA
Found at i:26522627 original size:23 final size:23
Alignment explanation
Indices: 26522599--26522644 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
26522589 TATAAGAAAA
26522599 CTCTACTTTAACATCATTTTCAT
1 CTCTACTTTAACATCATTTTCAT
26522622 CTCTACTTTAACATCATTTTCAT
1 CTCTACTTTAACATCATTTTCAT
26522645 GTTTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (23 bp):
CTCTACTTTAACATCATTTTCAT
Found at i:26525068 original size:13 final size:13
Alignment explanation
Indices: 26525050--26525083 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
26525040 ATTCATTTAA
26525050 CATTTCACATTTT
1 CATTTCACATTTT
*
26525063 CATTTCAAGATTTT
1 CATTTC-ACATTTT
26525077 CATTTCA
1 CATTTCA
26525084 AATGTCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (13 bp):
CATTTCACATTTT
Found at i:26525075 original size:14 final size:14
Alignment explanation
Indices: 26525058--26525084 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26525048 AACATTTCAC
26525058 ATTTTCATTTCAAG
1 ATTTTCATTTCAAG
26525072 ATTTTCATTTCAA
1 ATTTTCATTTCAA
26525085 ATGTCCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.52
Consensus pattern (14 bp):
ATTTTCATTTCAAG
Found at i:26525427 original size:43 final size:43
Alignment explanation
Indices: 26525366--26525450 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
26525356 TGCTCACATG
26525366 AGCTGTGGGTCGGGATGTTAGGCTACACGATGCTGTTTACACA
1 AGCTGTGGGTCGGGATGTTAGGCTACACGATGCTGTTTACACA
26525409 AGCTGTGGGTCGGGATGTTAGGCTACACGATGCTGTTTACAC
1 AGCTGTGGGTCGGGATGTTAGGCTACACGATGCTGTTTACAC
26525451 TAATAGCGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
AGCTGTGGGTCGGGATGTTAGGCTACACGATGCTGTTTACACA
Found at i:26539394 original size:16 final size:16
Alignment explanation
Indices: 26539373--26539404 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26539363 GCCCAATAAC
*
26539373 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
26539389 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
26539405 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:26539952 original size:22 final size:23
Alignment explanation
Indices: 26539908--26539955 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
26539898 AAAATACAAC
* * *
26539908 AAATATACGAAAATATAATATAA
1 AAATATAAGAAAATAAAAAATAA
26539931 AAATATAAG-AAATAAAAAATAA
1 AAATATAAGAAAATAAAAAATAA
26539953 AAA
1 AAA
26539956 AAATTAGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (23 bp):
AAATATAAGAAAATAAAAAATAA
Found at i:26539956 original size:23 final size:23
Alignment explanation
Indices: 26539895--26539957 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
26539885 TACATATATC
*
26539895 AAAAAAATACAACAAATATACGAA
1 AAAAAAATACAA-AAATATAAGAA
* * *
26539919 AATATAATATAAAAATATAAGAA
1 AAAAAAATACAAAAATATAAGAA
*
26539942 ATAAAAAATAAAAAAA
1 A-AAAAAATACAAAAA
26539958 ATTAGAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (23 bp):
AAAAAAATACAAAAATATAAGAA
Found at i:26540084 original size:14 final size:15
Alignment explanation
Indices: 26540065--26540094 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
26540055 AGCTCCCCCC
26540065 TCCCCTCTCT-TCTT
1 TCCCCTCTCTCTCTT
26540079 TCCCCTCTCTCTCTT
1 TCCCCTCTCTCTCTT
26540094 T
1 T
26540095 TCTCTCCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (15 bp):
TCCCCTCTCTCTCTT
Found at i:26540108 original size:20 final size:18
Alignment explanation
Indices: 26540061--26540115 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
26540051 CCGGAGCTCC
*
26540061 CCCCTCCCCTCTCTTCTTT
1 CCCCTCCTCTCTCTT-TTT
26540080 CCCCT-CTCTCTCTTTTCT
1 CCCCTCCTCTCTCTTTT-T
26540098 CTCCCTCCTCT-TCTTTTT
1 C-CCCTCCTCTCTCTTTTT
26540116 TTTCTCTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.06
18 11 0.34
19 15 0.47
20 4 0.12
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (18 bp):
CCCCTCCTCTCTCTTTTT
Found at i:26540128 original size:23 final size:22
Alignment explanation
Indices: 26540075--26540129 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 22
26540065 TCCCCTCTCT
*
26540075 TCTTTCCCCTCTCTCTCTTTTC
1 TCTTTCTCCTCTCTCTCTTTTC
** * *
26540097 TCTCCCTCCTCTTCTTTTTTTTC
1 TCTTTCTCCTC-TCTCTCTTTTC
26540120 TCTTTCTCCT
1 TCTTTCTCCT
26540130 GTTTTAAATG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (22 bp):
TCTTTCTCCTCTCTCTCTTTTC
Found at i:26559027 original size:67 final size:67
Alignment explanation
Indices: 26558919--26559191 Score: 315
Period size: 67 Copynumber: 4.0 Consensus size: 67
26558909 GGTCCAAAAG
* * *
26558919 AAATAATACATGAACAGGAGAGATTCCCTACAAGAAATGAT-GTGAACAGGAGAA-ATTCCCTGC
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGA-AAGATTCCCTGC
26558982 AACA
64 AACA
*
26558986 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAAAGATTCCCTGCA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
26559050 ACA
65 ACA
* * *
26559053 AAATAATGTGTGAACAGGAGA-ATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATAAT-CGTGAACAGGAAAGATTCCCTG
*
26559117 CAA-G
63 CAACA
* * * *
26559121 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAAGA-AATAAT-CGTGAACAGGAAAGATTCCCTGC
*
26559185 AAGA
64 AACA
26559189 AAA
1 AAA
26559192 GACAAGTGAA
Statistics
Matches: 184, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
66 25 0.14
67 127 0.69
68 9 0.05
69 23 0.12
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:26559091 original size:101 final size:101
Alignment explanation
Indices: 26558929--26559191 Score: 408
Period size: 101 Copynumber: 2.6 Consensus size: 101
26558919 AAATAATACA
* *
26558929 TGAACAGGAGAGATTCCCT---ACAAGA-AATGATGTGAACAGGAGAAATTCCCTGCAACAAAAT
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATG-TGTGAACAGGAG-AATTCCCTGCAACAAAAT
26558990 AATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
64 AATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
26559028 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAATTCCCTGCAACAAAATAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAATTCCCTGCAACAAAATAA
*
26559093 TGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 TCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * *
26559129 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGA-ATTCCCTGCAACAAAA
26559192 GACAAGTGAA
Statistics
Matches: 152, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
99 18 0.12
101 98 0.64
102 32 0.21
103 4 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (101 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAATTCCCTGCAACAAAATAA
TCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:26561747 original size:459 final size:459
Alignment explanation
Indices: 26560845--26562223 Score: 2643
Period size: 459 Copynumber: 3.0 Consensus size: 459
26560835 TAAATTGAGC
26560845 ATGCACATTTCAATTATGCGTCCATTAGCCGTCGTCTGGTTAGG-TTGCTCAACTAATTTAGGTG
1 ATGCACATTTCAATTATGCGTCCATTAGCCGTCGTCTGGTTAGGATTGCTCAACTAATTTAGGTG
26560909 CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
66 CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
*
26560974 ACAAACATTATAAACATGAATCAAATAAATATTATTTAATCAAAATAATCATCCTAACTTAAATA
131 ACAAACATTATAAACATGAATCAAATAAATATTATTTAATCAAAATAATCATCCTAGCTTAAATA
*
26561039 AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATATCAAACATATTTATATTAAATT
196 AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATAGCAAACATATTTATATTAAATT
26561104 AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGCTGTCACCCAAGACTCTGACTGACGAGGCTC
261 AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGCTGTCACCCAAGACTCTGACTGACGAGGCTC
* *
26561169 ATTCGCTTCTTTGCATTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCGACCAAGGGTTCTTTAA
326 CTTCGCTTCTTTGCGTTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCGACCAAGGGTTCTTTAA
26561234 GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
391 GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
26561299 GAGA
456 GAGA
26561303 ATGCACATTTCAATTATGCGTCCATTAGCCGTCGTCTGGTTAGGATTGCTCAACTAATTTAGGTG
1 ATGCACATTTCAATTATGCGTCCATTAGCCGTCGTCTGGTTAGGATTGCTCAACTAATTTAGGTG
26561368 CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
66 CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
*
26561433 ACAAACATTATAAACATGAATCAAATAAATATCATTTAATCAAAATAATCATCCTAGCTTAAATA
131 ACAAACATTATAAACATGAATCAAATAAATATTATTTAATCAAAATAATCATCCTAGCTTAAATA
26561498 AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATAGCAAACATATTTATATTAAATT
196 AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATAGCAAACATATTTATATTAAATT
*
26561563 AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGCTGTCACCCAAGACTCTGACTGACGAGACTC
261 AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGCTGTCACCCAAGACTCTGACTGACGAGGCTC
26561628 CTTCGCTTCTTTGCGTTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCGACCAAGGGTTCTTTAA
326 CTTCGCTTCTTTGCGTTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCGACCAAGGGTTCTTTAA
26561693 GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
391 GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
26561758 GAGA
456 GAGA
* *
26561762 ATGCACATTTTAATTATGCGTCCATTAGCCGTTGTCTGGTTAGGATTGCTCAACTAATTTAGGTG
1 ATGCACATTTCAATTATGCGTCCATTAGCCGTCGTCTGGTTAGGATTGCTCAACTAATTTAGGTG
26561827 CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
66 CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
26561892 ACAAACATTATAAACATGAATCAAATAAATATTATTTAATCAAAATAATCATCCTAGCTTAAATA
131 ACAAACATTATAAACATGAATCAAATAAATATTATTTAATCAAAATAATCATCCTAGCTTAAATA
26561957 AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATAGCAAACATATTTATATTAAATT
196 AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATAGCAAACATATTTATATTAAATT
*
26562022 AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGTTGTCACCCAAGACTCTGACTGACGAGGCTC
261 AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGCTGTCACCCAAGACTCTGACTGACGAGGCTC
* * *
26562087 CTTCGCTCCTTTGCGTTGCTTCTTTGTTGATGGCTCTTCAAGGTGGCCGACCAAGGGTTCTTTAA
326 CTTCGCTTCTTTGCGTTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCGACCAAGGGTTCTTTAA
26562152 GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
391 GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
26562217 GAGA
456 GAGA
26562221 ATG
1 ATG
26562224 ATGAATGATT
Statistics
Matches: 906, Mismatches: 14, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
458 44 0.05
459 862 0.95
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (459 bp):
ATGCACATTTCAATTATGCGTCCATTAGCCGTCGTCTGGTTAGGATTGCTCAACTAATTTAGGTG
CATTTTAATCACGTATGAACGAAATATAGACTTTGATTTTAATTGAACACATGATCGATTGATGC
ACAAACATTATAAACATGAATCAAATAAATATTATTTAATCAAAATAATCATCCTAGCTTAAATA
AAATTAAGCTATCATTTTTGTAAACAAGAACAAAGAACACATAGCAAACATATTTATATTAAATT
AAAGAAAAGAAATATTAAACCCAATTCAAAGTGGCTGTCACCCAAGACTCTGACTGACGAGGCTC
CTTCGCTTCTTTGCGTTGCTCCTTTGTTGATGGCTCTCCAAGGTGGCCGACCAAGGGTTCTTTAA
GATGCTTAATTGCTAAAATCCTTATGCAAGGATGATGAAGGGGAAAAGATAGCTAAAAGAGTTGA
GAGA
Found at i:26566794 original size:26 final size:25
Alignment explanation
Indices: 26566739--26566795 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
26566729 TTACAAAACC
* *
26566739 ACAAAATATGACAAATAATCATATT
1 ACAAAATATAACAAATAATAATATT
26566764 ACAAAATA-AACAAATAAATAATAATT
1 ACAAAATATAACAAAT-AATAAT-ATT
26566790 ACAAAA
1 ACAAAA
26566796 AAATGTATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 6 0.21
25 13 0.46
26 9 0.32
ACGTcount: A:0.65, C:0.11, G:0.02, T:0.23
Consensus pattern (25 bp):
ACAAAATATAACAAATAATAATATT
Found at i:26582412 original size:38 final size:41
Alignment explanation
Indices: 26582334--26582414 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 41
26582324 TAAAAAGCAT
* * *
26582334 TTATATTAAAAAGCACTACCATAAATATAATGAGTATTTTA
1 TTATATTAAAAAGCACTACAATAAATATAATAAATATTTTA
26582375 TTATATTAAAAA-CAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAGCACTACAATAAATATAATAAATATTTTA
26582413 TT
1 TT
26582415 GTGTTAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 21 0.57
39 1 0.03
40 3 0.08
41 12 0.32
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (41 bp):
TTATATTAAAAAGCACTACAATAAATATAATAAATATTTTA
Found at i:26583763 original size:43 final size:43
Alignment explanation
Indices: 26583711--26583977 Score: 304
Period size: 43 Copynumber: 6.3 Consensus size: 43
26583701 TTTTAGAAAT
*
26583711 AAACGCCGCTATAGAACAAGACCTTTAGCGGCACTTTTCACAC
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
* *
26583754 AAATGCCGCTATAGAACAAGATCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
** * * *
26583797 AAACGCCGCTATAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
* ** * * *
26583840 AAACGCCGCTATAGATCATCACTTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
* * * * *
26583883 AAATGCCGCTATTGAAC-AGACCTTTAGCGGCTCTTTTCCCAT
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
* * * *
26583925 AAACGCCGCTAAAGATC-TGACCTTTAGCGGAGCTTTTCACAC
1 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
*
26583967 AAAAGCCGCTA
1 AAACGCCGCTA
26583978 AAAATATATC
Statistics
Matches: 192, Mismatches: 32, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
42 62 0.32
43 130 0.68
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCACAC
Found at i:26584310 original size:43 final size:43
Alignment explanation
Indices: 26584244--26584330 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
26584234 ACATATGCAA
* * *
26584244 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
26584287 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
26584330 G
1 G
26584331 TACATCATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:26587218 original size:41 final size:41
Alignment explanation
Indices: 26587152--26587335 Score: 246
Period size: 41 Copynumber: 4.5 Consensus size: 41
26587142 GGTTTAGCCA
* * *
26587152 TGAGCATTAGCGGCACTTTTCTAAAAACGCCGCTAAAGACAC
1 TGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAA-ACCC
* * *
26587194 -GAGCATTAGCGGTGTTTTTTTAAAAATGCCGCTAAAACCC
1 TGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAACCC
*
26587234 TGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACCC
1 TGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAACCC
* *
26587275 TGAGCATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCC
1 TGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAA-ACCC
*
26587317 -GAGCATTAGCGGCACTTTT
1 TGAGCATTAGCGGCGCTTTT
26587336 AAAAAACACC
Statistics
Matches: 126, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.02
41 119 0.94
42 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
TGAGCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAACCC
Found at i:26587440 original size:39 final size:39
Alignment explanation
Indices: 26587397--26587517 Score: 118
Period size: 40 Copynumber: 3.1 Consensus size: 39
26587387 GCGACGCTTA
*
26587397 TTGGAAAATGCCGCTAATGCTCATTTTTAGTGGCGTTTT
1 TTGGAAAACGCCGCTAATGCTCATTTTTAGTGGCGTTTT
* ** *
26587436 TTGGAAAGCGCCGCTAACACTCGATCTTTAGTGGCGTTTT
1 TTGGAAAACGCCGCTAATGCTC-ATTTTTAGTGGCGTTTT
* * * * *
26587476 TT-TAAAAGCGCCACTAATGATTGATTTTTAGCGGCGTTTT
1 TTGGAAAA-CGCCGCTAATG-CTCATTTTTAGTGGCGTTTT
26587516 TT
1 TT
26587518 TATCCAAACG
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
39 21 0.32
40 43 0.66
41 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (39 bp):
TTGGAAAACGCCGCTAATGCTCATTTTTAGTGGCGTTTT
Found at i:26587506 original size:40 final size:40
Alignment explanation
Indices: 26587419--26587519 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
26587409 GCTAATGCTC
** *
26587419 ATTTTTAGTGGCGTTTTTTGGAAAGCGCCGCTAACACTCG
1 ATTTTTAGTGGCGTTTTTTTAAAAGCGCCACTAACACTCG
* * *
26587459 ATCTTTAGTGGCGTTTTTTTAAAAGCGCCACTAATGA-TTG
1 ATTTTTAGTGGCGTTTTTTTAAAAGCGCCACTAA-CACTCG
*
26587499 ATTTTTAGCGGCGTTTTTTTA
1 ATTTTTAGTGGCGTTTTTTTA
26587520 TCCAAACGCC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 51 0.98
41 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.42
Consensus pattern (40 bp):
ATTTTTAGTGGCGTTTTTTTAAAAGCGCCACTAACACTCG
Done.