Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 90 of 129
Found at i:14532850 original size:28 final size:28
Alignment explanation
Indices: 14532819--14532873 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14532809 ATAATTTTAA
* *
14532819 TAAAAAATAAAATTAAAAA-TAAATAATC
1 TAAAAAA-AAAATGAAAAACAAAATAATC
*
14532847 TAAAATAAAAATGAAAAACAAAATAAT
1 TAAAAAAAAAATGAAAAACAAAATAAT
14532874 AATAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (28 bp):
TAAAAAAAAAATGAAAAACAAAATAATC
Found at i:14533016 original size:17 final size:17
Alignment explanation
Indices: 14532977--14533016 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
14532967 ATTATTTTTC
14532977 TATAA-AAATAAAAAAT
1 TATAATAAATAAAAAAT
*
14532993 TGT-ATAAATAAAAAAT
1 TATAATAAATAAAAAAT
14533009 TATAATAA
1 TATAATAA
14533017 CAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.75
17 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TATAATAAATAAAAAAT
Found at i:14533031 original size:16 final size:17
Alignment explanation
Indices: 14533012--14533044 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14533002 AAAAAATTAT
14533012 AATAACA-AAAGAAAAA
1 AATAACAGAAAGAAAAA
14533028 AATAACAGAAAGAAAAA
1 AATAACAGAAAGAAAAA
14533045 TTAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (17 bp):
AATAACAGAAAGAAAAA
Found at i:14538096 original size:16 final size:17
Alignment explanation
Indices: 14538075--14538107 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
14538065 CAACTGTTCG
14538075 AAATATATTT-TTCTTA
1 AAATATATTTATTCTTA
14538091 AAATATATTTATTCTTA
1 AAATATATTTATTCTTA
14538108 TTTTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATATATTTATTCTTA
Found at i:14539742 original size:5 final size:5
Alignment explanation
Indices: 14539726--14539760 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
14539716 TTAGGCATCA
*
14539726 TATAT ATATAT TATAT TATAT TATAT TATAA TATA
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATA
14539761 CATAATTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:14541608 original size:18 final size:18
Alignment explanation
Indices: 14541561--14541608 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
14541551 TATGTGTGAG
*
14541561 TTTAATTATTTAATTATT
1 TTTAATTAATTAATTATT
*
14541579 TTTAATTGATTAATTATT
1 TTTAATTAATTAATTATT
14541597 ATTT-ATTAATTA
1 -TTTAATTAATTA
14541609 TAAATTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTAATTAATTAATTATT
Found at i:14546801 original size:14 final size:14
Alignment explanation
Indices: 14546770--14546812 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
14546760 AAAAATAAAA
* * *
14546770 TAATATAATTCATA
1 TAATTTAATTAATT
14546784 TAATTTAATTAATT
1 TAATTTAATTAATT
14546798 TAATTTTAATTAATT
1 TAA-TTTAATTAATT
14546813 CAGATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTTAATTAATT
Found at i:14547632 original size:29 final size:28
Alignment explanation
Indices: 14547568--14547659 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 28
14547558 AATGGTTAAA
* * *
14547568 ATATTAAAAAAATTCATGAATTTAATCATTT
1 ATATTTAAAAAATT-ATTAATTT--TTATTT
* *
14547599 -TATTTAGATAAATTTTTATATTTTTA-TT
1 ATATTTA-AAAAATTATTA-ATTTTTATTT
14547627 ATATTTTAAAAAATTATTAATTTTTATTT
1 ATA-TTTAAAAAATTATTAATTTTTATTT
14547656 ATAT
1 ATAT
14547660 CCCAATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
28 10 0.20
29 18 0.37
30 11 0.22
31 10 0.20
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
ATATTTAAAAAATTATTAATTTTTATTT
Found at i:14547669 original size:29 final size:29
Alignment explanation
Indices: 14547606--14547670 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
14547596 TTTTATTTAG
* ***
14547606 ATAAATTTTTATATTTTTATTATATTTTA
1 ATAAATTATTATATTTTTATTATATCCCA
*
14547635 AAAAATTATTA-ATTTTTATTTATATCCCA
1 ATAAATTATTATATTTTTA-TTATATCCCA
14547664 ATAAATT
1 ATAAATT
14547671 TTGTTTTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (29 bp):
ATAAATTATTATATTTTTATTATATCCCA
Found at i:14547738 original size:29 final size:30
Alignment explanation
Indices: 14547698--14547754 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
14547688 TTAATTTATA
*
14547698 TTAAAATTTTATTTAAATA-AAATTAAAGG
1 TTAAAAATTTATTTAAATACAAATTAAAGG
14547727 TTAAAAATTTATTTAAATACAAATTAAA
1 TTAAAAATTTATTTAAATACAAATTAAA
14547755 ATTTACAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (30 bp):
TTAAAAATTTATTTAAATACAAATTAAAGG
Found at i:14547767 original size:29 final size:29
Alignment explanation
Indices: 14547697--14547809 Score: 81
Period size: 29 Copynumber: 3.9 Consensus size: 29
14547687 ATTAATTTAT
**
14547697 ATTAAAATTTTATTTAAATAAAATTAAAG
1 ATTAAAAAGTTATTTAAATAAAATTAAAG
* *
14547726 GTTAAAAATTTATTTAAATACAAATTAAA-
1 ATTAAAAAGTTATTTAAATA-AAATTAAAG
* * ** * *
14547755 ATTTACAAGTTATTTAGGTATAA-TAAAA
1 ATTAAAAAGTTATTTAAATAAAATTAAAG
14547783 ATATATAAAAG-TATTTAAAT-AAATTAA
1 AT-TA-AAAAGTTATTTAAATAAAATTAA
14547810 TAAAATTCAA
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
27 4 0.06
28 6 0.09
29 43 0.66
30 12 0.18
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (29 bp):
ATTAAAAAGTTATTTAAATAAAATTAAAG
Found at i:14552477 original size:24 final size:23
Alignment explanation
Indices: 14552444--14552493 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14552434 ACCACATATG
* *
14552444 AATGACAAAAGTTCATCTTGTATA
1 AATGAAAAAAATTCAT-TTGTATA
*
14552468 AATGAAAAAAATTTATTTGTATA
1 AATGAAAAAAATTCATTTGTATA
14552491 AAT
1 AAT
14552494 AGAACAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (23 bp):
AATGAAAAAAATTCATTTGTATA
Found at i:14552551 original size:24 final size:23
Alignment explanation
Indices: 14552484--14552551 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
14552474 AAAAATTTAT
*
14552484 TTGTATAAATAGAACAAATTTGGAC
1 TTGTAT-AAT-GAACAAATTTAGAC
*
14552509 TTGTGTAAGTGATAC-AATTTAGAC
1 TTGTATAA-TGA-ACAAATTTAGAC
14552533 TTGTATATATGAACAAATT
1 TTGTATA-ATGAACAAATT
14552552 CGCACTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.06
24 25 0.69
25 9 0.25
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (23 bp):
TTGTATAATGAACAAATTTAGAC
Found at i:14552584 original size:47 final size:48
Alignment explanation
Indices: 14552460--14552585 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 48
14552450 AAAAGTTCAT
* * * *
14552460 CTTGTATAAATGAAAAAAATTT-ATTTGTATAAATAGAACAAATTTGGA
1 CTTGTATAAATG-AAACAATTTGAATTGTATAAATAGAACAAATTCGCA
* * * * *
14552508 CTTGTGTAAGTGATACAATTTAGACTTGTATATAT-GAACAAATTCGCA
1 CTTGTATAAATGAAACAATTT-GAATTGTATAAATAGAACAAATTCGCA
14552556 C-TGTATAAATGAAACAATTATGAATTGTAT
1 CTTGTATAAATGAAACAATT-TGAATTGTAT
14552586 TAATGAAAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
47 30 0.48
48 23 0.37
49 10 0.16
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (48 bp):
CTTGTATAAATGAAACAATTTGAATTGTATAAATAGAACAAATTCGCA
Found at i:14554838 original size:61 final size:61
Alignment explanation
Indices: 14554738--14555131 Score: 400
Period size: 61 Copynumber: 6.4 Consensus size: 61
14554728 TATTTGACAA
* * *
14554738 TTTCCAACATTA-AAACGTCATAGCATTTGTTTT-ATTTTTTTTCCTATATCAAATACGACGT
1 TTTCCAACA-TAGAAACATCATAGTATTTGTTTTCATTTTTTTT-CTATATCAAATACGATGT
* * * * * **
14554799 TTTCCAACATAGAAACATTATAGTAGTTGTTTTAATTTTTTTTTCTATTTAAAATACTTTGT
1 TTTCCAACATAGAAACATCATAGTATTTGTTTTCA-TTTTTTTTCTATATCAAATACGATGT
* * * **
14554861 TTTCCAACATTGAAACATCATAGTGTTTGTTTTCTTTTTTTTTCCTATATCAAATACGA-CA
1 TTTCCAACATAGAAACATCATAGTATTTGTTTTCATTTTTTTT-CTATATCAAATACGATGT
**
14554922 TTTCCAACACGGAAACATCATAGTATTTGTTTTTCATTTTTTTTCTATATCAAATACGATGT
1 TTTCCAACATAGAAACATCATAGTATTTG-TTTTCATTTTTTTTCTATATCAAATACGATGT
* ** * * *
14554984 TTTCCAACATAAAAATGTCTTAGTATTTGTTTTTCATTTTTTTT-TATATCAAATATGTTGT
1 TTTCCAACATAGAAACATCATAGTATTTG-TTTTCATTTTTTTTCTATATCAAATACGATGT
* ** ** * * *
14555045 TTTCCAACATGGAAATGTTGTAGTATTTGTTTTCATTTTTTTTATATATTAAATATGATGT
1 TTTCCAACATAGAAACATCATAGTATTTGTTTTCATTTTTTTTCTATATCAAATACGATGT
* **
14555106 TTTCCAACATGGAAATGTCATAGTAT
1 TTTCCAACATAGAAACATCATAGTAT
14555132 CTATTTTTCT
Statistics
Matches: 283, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
60 16 0.06
61 154 0.54
62 105 0.37
63 8 0.03
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (61 bp):
TTTCCAACATAGAAACATCATAGTATTTGTTTTCATTTTTTTTCTATATCAAATACGATGT
Found at i:14554962 original size:123 final size:121
Alignment explanation
Indices: 14554738--14555131 Score: 436
Period size: 123 Copynumber: 3.2 Consensus size: 121
14554728 TATTTGACAA
*
14554738 TTTCCAACATTAAAACGTCATAGCATTTGTTTT-ATTTTTTTTCCTATATCAAATACGACGTTTT
1 TTTCCAACATTAAAACGTCATAGTATTTGTTTTCATTTTTTTTCCTATATCAAATACGAC-TTTT
* * * *
14554802 CCAACATAGAAACATTATAGTAGTTGTTTTAATTTTTTTTTCTATTTAAAATACTTTGT
65 CCAACATGGAAACATTATAGTATTTGTTTTCA-TTTTTTTTCTATTT-AAATACTATGT
* * * * *
14554861 TTTCCAACATTGAAACATCATAGTGTTTGTTTTCTTTTTTTTTCCTATATCAAATACGACATTTC
1 TTTCCAACATTAAAACGTCATAGTATTTGTTTTCATTTTTTTTCCTATATCAAATACGACTTTTC
* * * *
14554926 CAACACGGAAACATCATAGTATTTGTTTTTCATTTTTTTTCTATATCAAATACGATGT
66 CAACATGGAAACATTATAGTATTTG-TTTTCATTTTTTTTCTAT-TTAAATACTATGT
* * * * **
14554984 TTTCCAACATAAAAATGTCTTAGTATTTGTTTTTCATTTTTTTT--TATATCAAATATGTTGTTT
1 TTTCCAACATTAAAACGTCATAGTATTTG-TTTTCATTTTTTTTCCTATATCAAATACG-ACTTT
** * *
14555047 TCCAACATGGAAATGTTGTAGTATTTGTTTTCATTTTTTTTATATATTAAATA-TGATGT
64 TCCAACATGGAAACATTATAGTATTTGTTTTCATTTTTTTTCTAT-TTAAATACT-ATGT
** *
14555106 TTTCCAACATGGAAATGTCATAGTAT
1 TTTCCAACATTAAAACGTCATAGTAT
14555132 CTATTTTTCT
Statistics
Matches: 229, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
122 63 0.28
123 122 0.53
124 44 0.19
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (121 bp):
TTTCCAACATTAAAACGTCATAGTATTTGTTTTCATTTTTTTTCCTATATCAAATACGACTTTTC
CAACATGGAAACATTATAGTATTTGTTTTCATTTTTTTTCTATTTAAATACTATGT
Found at i:14556369 original size:26 final size:23
Alignment explanation
Indices: 14556337--14556412 Score: 84
Period size: 22 Copynumber: 3.2 Consensus size: 23
14556327 ATTTTAAATA
14556337 TAAATATAAAATTAAATATATATAAT
1 TAAATATAAAATTAAA-A-A-ATAAT
*
14556363 TAAATATATAATTAAAAAAATAAT
1 TAAATATAAAATT-AAAAAATAAT
14556387 TAAA-A-AATAATTAAAAAATAAT
1 TAAATATAA-AATTAAAAAATAAT
14556409 TAAA
1 TAAA
14556413 AAAATAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.33
23 5 0.11
24 9 0.20
25 1 0.02
26 13 0.28
27 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAATATAAAATTAAAAAATAAT
Found at i:14556391 original size:12 final size:12
Alignment explanation
Indices: 14556358--14556421 Score: 96
Period size: 12 Copynumber: 5.5 Consensus size: 12
14556348 TTAAATATAT
* *
14556358 ATAATTAAATAT
1 ATAATTAAAAAA
14556370 ATAATTAAAAAA
1 ATAATTAAAAAA
14556382 ATAATT-AAAAA
1 ATAATTAAAAAA
14556393 ATAATT-AAAAA
1 ATAATTAAAAAA
14556404 ATAATTAAAAAA
1 ATAATTAAAAAA
14556416 ATAATT
1 ATAATT
14556422 TTTTTATATA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
11 22 0.45
12 27 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
ATAATTAAAAAA
Found at i:14556400 original size:23 final size:22
Alignment explanation
Indices: 14556358--14556421 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
14556348 TTAAATATAT
*
14556358 ATAATTAAATATATAATTAAAAAA
1 ATAATTAAA-AAATAATT-AAAAA
14556382 ATAATTAAAAAATAATTAAAAA
1 ATAATTAAAAAATAATTAAAAA
14556404 ATAATTAAAAAAATAATT
1 ATAATT-AAAAAATAATT
14556422 TTTTTATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
22 11 0.29
23 18 0.47
24 9 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATTAAAAAATAATTAAAAA
Found at i:14557172 original size:24 final size:23
Alignment explanation
Indices: 14557125--14557176 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
14557115 AAATTAATAG
*
14557125 AAAAAAAAAACCAAAAAACTAAAA
1 AAAAAAAAAACCAAAAAA-AAAAA
* * *
14557149 TAAAAATAAGCCAAAAAAAAAAA
1 AAAAAAAAAACCAAAAAAAAAAA
14557172 AAAAA
1 AAAAA
14557177 GAAGGTCTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.06
Consensus pattern (23 bp):
AAAAAAAAAACCAAAAAAAAAAA
Found at i:14569929 original size:965 final size:965
Alignment explanation
Indices: 14568056--14570000 Score: 2762
Period size: 965 Copynumber: 2.0 Consensus size: 965
14568046 AAAAAAATAT
*
14568056 TTTATTATTTTTTCTTTAATAATAGCTCAAATTACGAAGATAGATATTTGAAATTTAATTGATTG
1 TTTATTATTTTTTCTTTAATAATAGCTCAAATTACGAAGATAGATATTTAAAATTTAATTGATTG
*
14568121 CAAACAAGGATAAAATTTGAATAATTATTGAATTTTAATTCAAAACTTTTTTTTAATCTTTTTGC
66 CAAAAAAGGATAAAATTTGAATAATTATTGAATTTTAATTC--AACTTTTTTTTAATCTTTTTGC
*
14568186 CTTAAATTAATGTTCAACATGGGCGTCAAGGTAACTTACTTCAAGTCAATAGTGAAATTTGTTTT
129 CTTAAATTAATGTTCAACATGGGCGTCAAGGTAAATTACTTCAAGTCAATAGTGAAATTTGTTTT
*
14568251 CTTATTTTTAAATTCATTAAGATTTTTAGAAATTCATTAGTCATTTTTTGGCCATTATTTTTATT
194 CTTATTTTTAAATTCATTAAGATTTTTAGAAATTCATTAGTCATTTTTTGGCCATTATTTTTAGT
* * *
14568316 TTTAAGTTTTTTTTTTGGAAAACAAAAATTGGAAGTATAATTGCAAACAGAAAAATTGCATTATG
259 TTTAAGTTTTTTATTTGGAAAACAAAAATTGGAAATATAATTGCAAACAGAAAAATTACATTATG
* *** *
14568381 ATATTTTTATAATAATGATATTTTTTTTGTCTAAAGTTTTTTGTCTCGATAATCATTTTGGGCTT
324 ATATTTTTATAATAATGATATTTTATTTGTCTAAAGTTCGATGTCTCGATAATCATTTTAGGCTT
* * * * *
14568446 CGACTATTTCAAAATTAAGTTGTATCGAATTTTATAAAAAATATAAATTTTTTTAATACTTATTT
389 CGACTATTTCAAAATCAAGTTGTATCGAATTTTATAAAAAAGACAAACTCTTTTAATACTTATTT
* * * * ** **
14568511 TATTTATTCATAAGACTTAAAACTAAAATTTTGTATAAAGAAAATCAAATTTTTTATCACTCGGA
454 TATTTATTCATAAAACTTAAAACTAAAATCTTATATAAAAAAAATCAAATTCATTATCACTCAAA
** * * * * *
14568576 TGAATAAGAGTTGGTATAATGATATCATTGTTACTAAAATGAATTTTAGAGAAAATTAAAAAAAC
519 CCAATAAGAATCGATATAATAATATAATTGTTACTAAAATGAATTTTAGAGAAAATTAAAAAAAC
*
14568641 TAAAATATTCTCTAAGAAAAGGGCAATTTTGACTTATTGAAAGAAGGTGCTCAAATCAATAAAGC
584 TAAAATATTCTCTAAGAAAAGGGCAATTTTGACTTATCGAAAGAAGGTGCTCAAATCAATAAAGC
14568706 ATTTTGCAATAATTTTCATCTAAAAAAAAAATCTGAATGGGCCTTGATTATCTGGTTGTGGCCCC
649 ATTTTGCAATAATTTTCATCTAAAAAAAAAATCTGAATGGGCCTTGATTATCTGGTTGTGGCCCC
* *
14568771 ATGTAAATTCCCAATAAATTTCTCACTATAGGAAAAAAGAGAGAATGAAATAAAAAGAAAAAAAA
714 ATGTAAATTCCCAATAAATTTCTCACTAGAGGAAAAAAGAGAGAATGAAAGAAAAAGAAAAAAAA
* * *
14568836 AAAAAACAAATATGGAAAAGTTTTCGATTTTGAGAAGTGGAGTATAAGGAAGCAATAATGCTTTC
779 AAAAAACAAATATGGAAAAGTTTTCAAATTTGAGAAGTGAAGTATAAGGAAGCAATAATGCTTTC
14568901 TTACCTCCCCTCTTCATTGCCTTTATATAAAGAACAACGATGTAATTGCATTGGAAGGATAAGTG
844 TTACCTCCCCTCTTCATTGCCTTTATATAAAGAACAACGATGTAATTGCATTGGAAGGATAAGTG
14568966 TTTTGTAATTTATATATTTAATTTGTATTTATTTTGGGTTAAATATATATAAAATAAAA
909 TTTTGTAATTTATATATTTAATTTGTATTTATTTTGGGTT-AA-ATATATAAAATAAAA
* *
14569025 TTTATTATTTTTTCTTTAATAATAGCTCAAATTATGAAGATAGATATTTAAAATTTAATTGGTTG
1 TTTATTATTTTTTCTTTAATAATAGCTCAAATTACGAAGATAGATATTTAAAATTTAATTGATTG
* * *
14569090 CAAAAAATGATAAAAATTTGATTAATTATTGAATTTTAATTC-A-TTTTTTTTTATCTTTTTGCC
66 CAAAAAAGGAT-AAAATTTGAATAATTATTGAATTTTAATTCAACTTTTTTTTAATCTTTTTGCC
* * * *
14569153 TTAAATTAATGTTTAACATTGGTGTCAAGGTAAATTATTTCAAGTCAATAGTGAAATTTGTTTTC
130 TTAAATTAATGTTCAACATGGGCGTCAAGGTAAATTACTTCAAGTCAATAGTGAAATTTGTTTTC
* *
14569218 TTATTTTTAAATTCATTAAGGTTTTTAGAAATTCATTAGTCATTTTTTGTCCATTATTTTTAGTT
195 TTATTTTTAAATTCATTAAGATTTTTAGAAATTCATTAGTCATTTTTTGGCCATTATTTTTAGTT
* *
14569283 TTAGGTTTTTTATTT-GAAAACAAAAATTGGAAATATAATTGTAAACAG-AAAATTACATTATGA
260 TTAAGTTTTTTATTTGGAAAACAAAAATTGGAAATATAATTGCAAACAGAAAAATTACATTATGA
* * *
14569346 TATTTTTATAGTAATGATATTTCTATTTGTTTAGGACA-TTCGATGT-TTGATAATCATTTTAGG
325 TATTTTTATAATAATGATATTT-TATTTGTCTA--A-AGTTCGATGTCTCGATAATCATTTTAGG
* * * *** * * * * *
14569409 CTTTGATTTTTTTGGAATCGAGTTGGGT-TTGAA-TTTATAAAAGGAGACAAGCTCTTTTAAT-G
386 CTTCGACTATTTCAAAATCAAGTT--GTATCGAATTTTATAAAA-AAGACAAACTCTTTTAATAC
* * * *
14569471 TCTATTTT-TTTCATTTATAAAATTTGAAA-TCAAAATCTTATTTAAAAAAAATCAAATTCATTA
448 T-TATTTTATTT-ATTCATAAAACTTAAAACT-AAAATCTTATATAAAAAAAATCAAATTCATTA
* * * *
14569534 TCATTTAAACCAA-CAGACATCGATATAATAATATAATTGTTACTAAAATGCATTTTA-A-AAAA
510 TCACTCAAACCAATAAGA-ATCGATATAATAATATAATTGTTACTAAAATGAATTTTAGAGAAAA
* * *
14569596 TTTTGAAAAAATTAAAATATTCTCTAAGAAAAAAGGGTAATTTTGACTTATCGAAAGAAGGTGCT
574 --TTAAAAAAACTAAAATATTCTCTAAG--AAAAGGGCAATTTTGACTTATCGAAAGAAGGTGCT
*
14569661 CAAATCAATAAA-CATTTTGCAATAATTTTCATCTAAAAAATAAAAAATCTGAGTGGGCCTTGAT
635 CAAATCAATAAAGCATTTTGCAATAATTTTCATCT--AAAA-AAAAAATCTGAATGGGCCTTGAT
* *
14569725 TATCTGGTTGTGG-CCCATGTAAATTCCTAATAAATTTCTCACTAGAGG-AAAAAG-GA-CA-GA
697 TATCTGGTTGTGGCCCCATGTAAATTCCCAATAAATTTCTCACTAGAGGAAAAAAGAGAGAATGA
* * * *
14569785 AAGAAATA-ATAAAAAAAAAGAATAAATATGGAAAAGTTTTCAAATTTGAGAAGTGAAGTATAAG
762 AAGAAAAAGAAAAAAAAAAAAAACAAATATGGAAAAGTTTTCAAATTTGAGAAGTGAAGTATAAG
*
14569849 GAAGCAATAATGCTTTCTTACCTCCCCTCTTCATTGCCTTTATATAAAGAACAAGGATGTAATTG
827 GAAGCAATAATGCTTTCTTACCTCCCCTCTTCATTGCCTTTATATAAAGAACAACGATGTAATTG
14569914 CATTGGAAGGATAAGTGTTTTGTAATTTATATATTTAATTTGTATTTATTTTGGGTTAAATATAT
892 CATTGGAAGGATAAGTGTTTTGTAATTTATATATTTAATTTGTATTTATTTTGGGTTAAATATAT
14569979 AAAATAAAA
957 AAAATAAAA
* *
14569988 ATTATTATATTTT
1 TTTATTATTTTTT
14570001 AATTTATATT
Statistics
Matches: 871, Mismatches: 86, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
963 26 0.03
964 37 0.04
965 214 0.25
966 211 0.24
967 133 0.15
968 27 0.03
969 122 0.14
970 66 0.08
971 35 0.04
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (965 bp):
TTTATTATTTTTTCTTTAATAATAGCTCAAATTACGAAGATAGATATTTAAAATTTAATTGATTG
CAAAAAAGGATAAAATTTGAATAATTATTGAATTTTAATTCAACTTTTTTTTAATCTTTTTGCCT
TAAATTAATGTTCAACATGGGCGTCAAGGTAAATTACTTCAAGTCAATAGTGAAATTTGTTTTCT
TATTTTTAAATTCATTAAGATTTTTAGAAATTCATTAGTCATTTTTTGGCCATTATTTTTAGTTT
TAAGTTTTTTATTTGGAAAACAAAAATTGGAAATATAATTGCAAACAGAAAAATTACATTATGAT
ATTTTTATAATAATGATATTTTATTTGTCTAAAGTTCGATGTCTCGATAATCATTTTAGGCTTCG
ACTATTTCAAAATCAAGTTGTATCGAATTTTATAAAAAAGACAAACTCTTTTAATACTTATTTTA
TTTATTCATAAAACTTAAAACTAAAATCTTATATAAAAAAAATCAAATTCATTATCACTCAAACC
AATAAGAATCGATATAATAATATAATTGTTACTAAAATGAATTTTAGAGAAAATTAAAAAAACTA
AAATATTCTCTAAGAAAAGGGCAATTTTGACTTATCGAAAGAAGGTGCTCAAATCAATAAAGCAT
TTTGCAATAATTTTCATCTAAAAAAAAAATCTGAATGGGCCTTGATTATCTGGTTGTGGCCCCAT
GTAAATTCCCAATAAATTTCTCACTAGAGGAAAAAAGAGAGAATGAAAGAAAAAGAAAAAAAAAA
AAAACAAATATGGAAAAGTTTTCAAATTTGAGAAGTGAAGTATAAGGAAGCAATAATGCTTTCTT
ACCTCCCCTCTTCATTGCCTTTATATAAAGAACAACGATGTAATTGCATTGGAAGGATAAGTGTT
TTGTAATTTATATATTTAATTTGTATTTATTTTGGGTTAAATATATAAAATAAAA
Found at i:14570406 original size:5 final size:5
Alignment explanation
Indices: 14570396--14570451 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
14570386 GATAATTTAA
* *
14570396 AATAT AATAT AGTGATAT AATAT AAATAT AATAT AA-AA AATAT AAAAT
1 AATAT AATAT A---ATAT AATAT -AATAT AATAT AATAT AATAT AATAT
14570444 AATAT AAT
1 AATAT AAT
14570452 TTAAAATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 3 0.07
5 29 0.69
6 5 0.12
8 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:14570426 original size:11 final size:11
Alignment explanation
Indices: 14570395--14570450 Score: 64
Period size: 11 Copynumber: 5.2 Consensus size: 11
14570385 TGATAATTTA
14570395 AAATATAATAT
1 AAATATAATAT
*
14570406 AGTGATATAATAT
1 A--AATATAATAT
14570419 AAATATAATAT
1 AAATATAATAT
14570430 AAA-A-AATAT
1 AAATATAATAT
14570439 AAA-ATAATAT
1 AAATATAATAT
14570449 AA
1 AA
14570451 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.22
10 8 0.20
11 13 0.32
13 10 0.25
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (11 bp):
AAATATAATAT
Found at i:14570553 original size:11 final size:12
Alignment explanation
Indices: 14570512--14570561 Score: 59
Period size: 11 Copynumber: 4.2 Consensus size: 12
14570502 ATTTTCATAT
14570512 TAATATAAATTA
1 TAATATAAATTA
*
14570524 TAATATATAATTT
1 TAATATA-AATTA
*
14570537 TTATATAAA-TA
1 TAATATAAATTA
14570548 TAATATAAA-TA
1 TAATATAAATTA
14570559 TAA
1 TAA
14570562 AAATTTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 14 0.42
12 9 0.27
13 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATATAAATTA
Found at i:14570560 original size:19 final size:19
Alignment explanation
Indices: 14570512--14570565 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
14570502 ATTTTCATAT
14570512 TAATATAAAT-TATAATATA
1 TAATATAAATATATAA-ATA
**
14570531 TAAT-T-TTTATATAAATA
1 TAATATAAATATATAAATA
*
14570548 TAATATAAATATAAAAAT
1 TAATATAAATATATAAAT
14570566 TTTAATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
17 8 0.30
18 7 0.26
19 12 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATATAAATATATAAATA
Found at i:14570567 original size:31 final size:31
Alignment explanation
Indices: 14570502--14570573 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
14570492 TATATTTTAT
* * *
14570502 ATTTTCATATTAATATAAATTATAATATATA
1 ATTTTAATATAAATATAAATTATAATATAAA
*
14570533 ATTTTTATATAAATAT-AA-TATAAATATAAAA
1 ATTTTAATATAAATATAAATTAT-AATAT-AAA
14570564 ATTTTAATAT
1 ATTTTAATAT
14570574 TTTATATGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 3 0.09
30 7 0.20
31 25 0.71
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTTAATATAAATATAAATTATAATATAAA
Found at i:14570569 original size:30 final size:31
Alignment explanation
Indices: 14570502--14570569 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
14570492 TATATTTTAT
* *
14570502 ATTTTCATATTAATATAAATTATAATATATAA
1 ATTTT-ATATAAATATAAATTATAATATAAAA
*
14570534 TTTTTATATAAATAT-AA-TATAAATATAAAA
1 ATTTTATATAAATATAAATTAT-AATATAAAA
14570564 ATTTTA
1 ATTTTA
14570570 ATATTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 3 0.10
30 15 0.48
31 9 0.29
32 4 0.13
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTTATATAAATATAAATTATAATATAAAA
Found at i:14576915 original size:21 final size:21
Alignment explanation
Indices: 14576889--14576929 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14576879 AAAAGGTACC
14576889 GTAGAATCTATAGAACCAAGT
1 GTAGAATCTATAGAACCAAGT
* *
14576910 GTAGAATCTATGGAATCAAG
1 GTAGAATCTATAGAACCAAG
14576930 AGGTATAGGG
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:0.41, C:0.12, G:0.22, T:0.24
Consensus pattern (21 bp):
GTAGAATCTATAGAACCAAGT
Found at i:14594645 original size:22 final size:22
Alignment explanation
Indices: 14594595--14594648 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
14594585 ATATTTGTAT
* *
14594595 CTAAAAATAATATTTATAAAAAA
1 CTAAAAATAA-ATGTACAAAAAA
*
14594618 -T-TAAATAAATGTACAAAAAA
1 CTAAAAATAAATGTACAAAAAA
14594638 CTAAAAATAAA
1 CTAAAAATAAA
14594649 AAATTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (22 bp):
CTAAAAATAAATGTACAAAAAA
Found at i:14599453 original size:12 final size:12
Alignment explanation
Indices: 14599436--14599460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14599426 ATACAGAACC
14599436 AAGAAAATGAAA
1 AAGAAAATGAAA
14599448 AAGAAAATGAAA
1 AAGAAAATGAAA
14599460 A
1 A
14599461 CTGGCTTATT
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAGAAAATGAAA
Found at i:14601839 original size:20 final size:20
Alignment explanation
Indices: 14601814--14601851 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14601804 TGAATGTAAT
14601814 TTTCTTGATGCACATCCAAA
1 TTTCTTGATGCACATCCAAA
14601834 TTTCTTGATGCACATCCA
1 TTTCTTGATGCACATCCA
14601852 CAGTAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (20 bp):
TTTCTTGATGCACATCCAAA
Found at i:14604995 original size:17 final size:18
Alignment explanation
Indices: 14604973--14605011 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14604963 TAATTATATC
14604973 AAAAGTA-A-AATGTTTTT
1 AAAAGTATATAATG-TTTT
14604990 AAAAGTATATAATGTTTT
1 AAAAGTATATAATGTTTT
14605008 AAAA
1 AAAA
14605012 ATATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (18 bp):
AAAAGTATATAATGTTTT
Found at i:14605012 original size:19 final size:17
Alignment explanation
Indices: 14604973--14605012 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
14604963 TAATTATATC
*
14604973 AAAAGTAAAATGTTTTT
1 AAAAGTAAAATGTTTTA
14604990 AAAAGTATATAATGTTTTA
1 AAAAGTA-A-AATGTTTTA
14605009 AAAA
1 AAAA
14605013 TATTTAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 1 0.05
19 12 0.60
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (17 bp):
AAAAGTAAAATGTTTTA
Found at i:14606793 original size:2 final size:2
Alignment explanation
Indices: 14606788--14606822 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14606778 ATTCATCCTT
14606788 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14606823 GATGAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14607705 original size:25 final size:26
Alignment explanation
Indices: 14607677--14607795 Score: 95
Period size: 26 Copynumber: 4.6 Consensus size: 26
14607667 TTTTTATCTT
* * *
14607677 ATATATTTAGATA-ATTTTTTTATAA
1 ATATATATAAATATATTTTTTAATAA
14607702 ATATATATAAATATATTTTTTAATAA
1 ATATATATAAATATATTTTTTAATAA
* *
14607728 AAATATATGAAATTTATTTAATTT-A-AA
1 ATATATAT-AAATATATTT--TTTAATAA
** *
14607755 ATA-ATA-ATTTATATTTATTTACTAA
1 ATATATATAAATATATTT-TTTAATAA
14607780 ATATATATAAATATAT
1 ATATATATAAATATAT
14607796 ATGTAGGGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
23 4 0.05
24 7 0.09
25 16 0.22
26 24 0.32
27 19 0.26
28 1 0.01
29 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATATATAAATATATTTTTTAATAA
Found at i:14615230 original size:25 final size:23
Alignment explanation
Indices: 14615174--14615232 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
14615164 CCGATATATA
*
14615174 TTTATATATA-TTATTATATTTT
1 TTTATATTTATTTATTATATTTT
*
14615196 TTTAAAATTTATTTGATTATATATTT
1 TTT-ATATTTATTT-ATTATAT-TTT
14615222 TTTATATTTAT
1 TTTATATTTAT
14615233 ATTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 3 0.10
23 5 0.17
24 2 0.07
25 14 0.47
26 6 0.20
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTATATTTATTTATTATATTTT
Found at i:14621293 original size:24 final size:24
Alignment explanation
Indices: 14621266--14621313 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
14621256 ATTTTTTAAT
14621266 TATTTACTTAAA-TTTATATTTATA
1 TATTTA-TTAAATTTTATATTTATA
14621290 TATTTATTAAATTTTATATTTATA
1 TATTTATTAAATTTTATATTTATA
14621314 ATAAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTTATTAAATTTTATATTTATA
Found at i:14621818 original size:23 final size:23
Alignment explanation
Indices: 14621743--14621827 Score: 55
Period size: 23 Copynumber: 3.5 Consensus size: 23
14621733 CTTCTTTCAC
* *
14621743 ATATAATTTTAAATA-TGATATA
1 ATATAATTTAAAATATTAATATA
* *
14621765 ATAATACGATATAAAAATATATAAAATTA
1 AT-ATA--AT-TTAAAATAT-TAATA-TA
14621794 ATATAATTTAAAATATTAATATA
1 ATATAATTTAAAATATTAATATA
* *
14621817 ATTTAAATTAA
1 ATATAATTTAA
14621828 TTTATTTCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
22 2 0.04
23 14 0.29
24 4 0.08
25 10 0.21
26 8 0.17
28 6 0.12
29 4 0.08
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (23 bp):
ATATAATTTAAAATATTAATATA
Found at i:14626284 original size:26 final size:25
Alignment explanation
Indices: 14626254--14626319 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
14626244 TGTAAATTAC
*
14626254 ATTTTAATTATATATATTAAGTTAAT-
1 ATTTTAATTA-ATATATTAA-ATAATA
*
14626280 ATTTTCAATTAAAATATTAAATAATA
1 ATTTT-AATTAATATATTAAATAATA
14626306 ATTTT-ATTAATATA
1 ATTTTAATTAATATA
14626320 ATATATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 8 0.23
25 4 0.11
26 18 0.51
27 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTTAATTAATATATTAAATAATA
Found at i:14635151 original size:54 final size:54
Alignment explanation
Indices: 14635042--14635153 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
14635032 TTGCAAAAAC
* * * **
14635042 CCTGATTCTGCACAACTTTTTGTTGGGGAAATTTTGGTTGACTTGTGTAACTTG
1 CCTGATTCTGCACAACTCTTTGTTGGGGAAAGTTTGGCTGACTCATGTAACTTG
* *
14635096 CCTGATTCTGCACAACTCTTTGTTGGGGAAAGTTTGGCTGACTCATGTTAGTTG
1 CCTGATTCTGCACAACTCTTTGTTGGGGAAAGTTTGGCTGACTCATGTAACTTG
14635150 CCTG
1 CCTG
14635154 TGGAACTGCC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (54 bp):
CCTGATTCTGCACAACTCTTTGTTGGGGAAAGTTTGGCTGACTCATGTAACTTG
Found at i:14637400 original size:16 final size:16
Alignment explanation
Indices: 14637379--14637429 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14637369 CGGTTTTGTA
14637379 AATTTAAAAATTTTTT
1 AATTTAAAAATTTTTT
* ***
14637395 AATTTACAAATTTAGA
1 AATTTAAAAATTTTTT
14637411 AATTCTAAAAATTTTTT
1 AATT-TAAAAATTTTTT
14637428 AA
1 AA
14637430 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 16 0.62
17 10 0.38
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTTAAAAATTTTTT
Found at i:14637432 original size:11 final size:11
Alignment explanation
Indices: 14637416--14637448 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
14637406 TTAGAAATTC
14637416 TAAAAATTTTT
1 TAAAAATTTTT
14637427 TAAAAA-TTTT
1 TAAAAATTTTT
14637437 TAAAAATATTTT
1 TAAAAAT-TTTT
14637449 GAATTTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 6 0.30
12 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAAAATTTTT
Found at i:14638616 original size:22 final size:21
Alignment explanation
Indices: 14638580--14638620 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14638570 TTTATTTTTG
* *
14638580 ATTAATTTAATTTTTGAATTTA
1 ATTAATTAAAATTTT-AATTTA
14638602 ATTAATTAAAATTTTAATT
1 ATTAATTAAAATTTTAATT
14638621 GAAATATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTAATTAAAATTTTAATTTA
Found at i:14644329 original size:26 final size:26
Alignment explanation
Indices: 14644299--14644379 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
14644289 TTTTGATAAT
*
14644299 TTTTTGTATTGTGTCACCATATCGTG
1 TTTTTGTATAGTGTCACCATATCGTG
* * *
14644325 TTTTTGTATAGCGTCACCATATTGTA
1 TTTTTGTATAGTGTCACCATATCGTG
* * * * *
14644351 TTTTCGAATCGTGTCACCAAATCCTG
1 TTTTTGTATAGTGTCACCATATCGTG
14644377 TTT
1 TTT
14644380 AAAATTATGT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.46
Consensus pattern (26 bp):
TTTTTGTATAGTGTCACCATATCGTG
Found at i:14645758 original size:32 final size:33
Alignment explanation
Indices: 14645689--14645768 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
14645679 AAATAATAAT
*
14645689 TTTATTGATA-AATAATTAAATTTTATGTATTAG
1 TTTATT-ATATAATAATTAAAATTTATGTATTAG
*
14645722 TTTATTATATAATAA-TAAAATTTATTTATTTA-
1 TTTATTATATAATAATTAAAATTTATGTA-TTAG
14645754 TTTATTATATAATAA
1 TTTATTATATAATAA
14645769 GAAGTTGCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
32 29 0.67
33 14 0.33
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (33 bp):
TTTATTATATAATAATTAAAATTTATGTATTAG
Found at i:14646556 original size:18 final size:18
Alignment explanation
Indices: 14646512--14646561 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
14646502 TTTTTGTTTA
* *
14646512 AATTAAATTTTTATATTTT
1 AATTAAATTATTA-AATTT
14646531 AATT-AATTATTAAATTT
1 AATTAAATTATTAAATTT
14646548 AATTAAATTATTAA
1 AATTAAATTATTAA
14646562 TGATTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.29
18 16 0.57
19 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTAAATTATTAAATTT
Found at i:14648070 original size:64 final size:64
Alignment explanation
Indices: 14648002--14648127 Score: 236
Period size: 64 Copynumber: 2.0 Consensus size: 64
14647992 TTCATGAATG
14648002 ATCACTCAATTTATCACTATATCTTAAATAAATTACTAAAATTT-AATTTATACCAAAAATATGA
1 ATCACTCAATTTATCACTATATCTTAAATAAATTACT-AAATTTGAATTTATACCAAAAATATGA
14648066 ATCACTCAATTTATCACTATATCTTAAATAAATTACTAAATTTGAATTTATACCAAAAATAT
1 ATCACTCAATTTATCACTATATCTTAAATAAATTACTAAATTTGAATTTATACCAAAAATAT
14648128 CACTCAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 6 0.10
64 55 0.90
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (64 bp):
ATCACTCAATTTATCACTATATCTTAAATAAATTACTAAATTTGAATTTATACCAAAAATATGA
Found at i:14648126 original size:31 final size:30
Alignment explanation
Indices: 14648027--14648126 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
14648017 ACTATATCTT
14648027 AAATAAATTACTAAAATTTAATTTATACCAA
1 AAATAAATTACT-AAATTTAATTTATACCAA
* * * * **
14648058 AAATATGAATCACTCAATTT-ATCACTATATCTT
1 AAATA--AATTACTAAATTTAAT--TTATACCAA
14648091 AAATAAATTACTAAATTTGAATTTATACCAA
1 AAATAAATTACTAAATTT-AATTTATACCAA
14648122 AAATA
1 AAATA
14648127 TCACTCAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
31 28 0.55
32 5 0.10
33 18 0.35
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (30 bp):
AAATAAATTACTAAATTTAATTTATACCAA
Found at i:14648632 original size:11 final size:11
Alignment explanation
Indices: 14648588--14648682 Score: 60
Period size: 11 Copynumber: 9.1 Consensus size: 11
14648578 TAAATTTTAA
14648588 TTAAA-TAAAT
1 TTAAATTAAAT
14648598 TTAAA-T-AAT
1 TTAAATTAAAT
* * *
14648607 TTAATTTTTATT
1 TTAA-ATTAAAT
14648619 TTAAATTAAAT
1 TTAAATTAAAT
14648630 TTAAATTAAA-
1 TTAAATTAAAT
*
14648640 --AAATAAAAT
1 TTAAATTAAAT
**
14648649 TT-AATCGAAT
1 TTAAATTAAAT
*
14648659 TTAAATCAAATT
1 TTAAATTAAA-T
14648671 TTAAATTAAAT
1 TTAAATTAAAT
14648682 T
1 T
14648683 AAACTCAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.10
9 7 0.10
10 14 0.21
11 23 0.34
12 16 0.24
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:14649156 original size:26 final size:26
Alignment explanation
Indices: 14649099--14649156 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
14649089 TATATTCGCG
* **
14649099 AGAGAAACGAGAGTTTAGAGAGAGGG
1 AGAGAAACGAGAATTTAGAGAGAGAA
14649125 AG-GAAAC-AGAATTTAGAGAGAGAA
1 AGAGAAACGAGAATTTAGAGAGAGAA
14649149 AGTAGAAA
1 AG-AGAAA
14649157 AGCAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 16 0.59
25 5 0.19
26 6 0.22
ACGTcount: A:0.50, C:0.03, G:0.34, T:0.12
Consensus pattern (26 bp):
AGAGAAACGAGAATTTAGAGAGAGAA
Found at i:14649821 original size:27 final size:28
Alignment explanation
Indices: 14649767--14649821 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
14649757 ATATTTTATT
* *
14649767 TTTTGATATTAAAAAATATGAAATTTAA
1 TTTTAATATTAAAAAATATGAAAATTAA
* *
14649795 TTTTAATATT-AAATATATTAAAATTAA
1 TTTTAATATTAAAAAATATGAAAATTAA
14649822 AAAAATTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
TTTTAATATTAAAAAATATGAAAATTAA
Found at i:14659496 original size:12 final size:12
Alignment explanation
Indices: 14659481--14659519 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14659471 ATTAATTAAT
*
14659481 ATATTATTTATA
1 ATATTATATATA
*
14659493 ATATTATATATT
1 ATATTATATATA
*
14659505 TTATTATATATA
1 ATATTATATATA
14659517 ATA
1 ATA
14659520 GTAAATAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATTATATATA
Found at i:14661430 original size:13 final size:13
Alignment explanation
Indices: 14661412--14661438 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14661402 TCCTTCTTTA
14661412 AATAAAAAATATC
1 AATAAAAAATATC
14661425 AATAAAAAATATC
1 AATAAAAAATATC
14661438 A
1 A
14661439 TTAGTGATTA
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAAAAATATC
Found at i:14661756 original size:20 final size:20
Alignment explanation
Indices: 14661720--14661757 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14661710 ACTTAAAATT
14661720 TTTAAAAAATCATAAATAGA
1 TTTAAAAAATCATAAATAGA
14661740 TTTAATAAAATCA-AAATA
1 TTTAA-AAAATCATAAATA
14661758 TTATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (20 bp):
TTTAAAAAATCATAAATAGA
Found at i:14665128 original size:34 final size:36
Alignment explanation
Indices: 14665065--14665136 Score: 112
Period size: 34 Copynumber: 2.0 Consensus size: 36
14665055 TCCTGATATG
14665065 GTAATAGTCATGACTTCTTTTTTTTAGTTTAATGATAA
1 GTAATAGTCATGACTTC--TTTTTTAGTTTAATGATAA
14665103 GTAATAGTCAT-ACTTC-TTTTTAGTTTAATGATAA
1 GTAATAGTCATGACTTCTTTTTTAGTTTAATGATAA
14665137 TAGTCATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 18 0.53
37 5 0.15
38 11 0.32
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (36 bp):
GTAATAGTCATGACTTCTTTTTTAGTTTAATGATAA
Found at i:14665410 original size:2 final size:2
Alignment explanation
Indices: 14665405--14665436 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
14665395 TCTAATTCTA
14665405 AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14665437 TCAACATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:14667003 original size:25 final size:26
Alignment explanation
Indices: 14666974--14667031 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
14666964 TTAATATAAC
14666974 TATTAAAATAT-TAAAAATTATTTAT
1 TATTAAAATATATAAAAATTATTTAT
**
14666999 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATATATAAAAATTATTTAT
14667025 TATTAAA
1 TATTAAA
14667032 GTTATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TATTAAAATATATAAAAATTATTTAT
Found at i:14667004 original size:17 final size:17
Alignment explanation
Indices: 14666982--14667143 Score: 57
Period size: 17 Copynumber: 10.1 Consensus size: 17
14666972 ACTATTAAAA
14666982 TATTAAAAATTATTTAT
1 TATTAAAAATTATTTAT
14666999 TATT--AAA--A--TA-
1 TATTAAAAATTATTTAT
*
14667009 TATTGA-AATTATTTAT
1 TATTAAAAATTATTTAT
* *
14667025 TATT-AAAGTTA-TTAA
1 TATTAAAAATTATTTAT
*
14667040 TATTAAAAATAATTATAT
1 TATTAAAAATTATT-TAT
* *
14667058 T-TTAATAATAATATTTAA
1 TATTAA-AA-ATTATTTAT
*
14667076 TATTAAAATATTATGTTAA
1 TATTAAAA-ATTAT-TTAT
*
14667095 TA-TAAAAATT-CTTA-
1 TATTAAAAATTATTTAT
* *
14667109 AAAT-AAAATTATTTAT
1 TATTAAAAATTATTTAT
** *
14667125 TATTTTATATTATTTAT
1 TATTAAAAATTATTTAT
14667142 TA
1 TA
14667144 ATATATTATA
Statistics
Matches: 110, Mismatches: 16, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
10 4 0.04
11 4 0.04
13 2 0.02
14 7 0.06
15 20 0.18
16 15 0.14
17 24 0.22
18 20 0.18
19 14 0.13
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTAAAAATTATTTAT
Found at i:14667055 original size:19 final size:20
Alignment explanation
Indices: 14667036--14667103 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 20
14667026 ATTAAAGTTA
14667036 TTAATATTAAAAATAATTA-
1 TTAATATTAAAAATAATTAT
* *
14667055 -T-ATTTTAATAATAA-TAT
1 TTAATATTAAAAATAATTAT
14667072 TTAATATT-AAAAT-ATTAT
1 TTAATATTAAAAATAATTAT
14667090 GTTAATA-TAAAAAT
1 -TTAATATTAAAAAT
14667104 TCTTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
16 2 0.05
17 12 0.31
18 10 0.26
19 15 0.38
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (20 bp):
TTAATATTAAAAATAATTAT
Found at i:14667138 original size:3 final size:3
Alignment explanation
Indices: 14667116--14667266 Score: 50
Period size: 3 Copynumber: 50.0 Consensus size: 3
14667106 TTAAAATAAA
* * *
14667116 ATT ATTT ATT ATT -TT A-T ATT ATTT ATT AAT A-T ATT A-T AAT CTT
1 ATT A-TT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
* *
14667159 ATT ATT AATC A-T ATT ATT AAT ATAT ATAT ATT ATT ATAT ATT ATT A-T
1 ATT ATT -ATT ATT ATT ATT ATT AT-T AT-T ATT ATT AT-T ATT ATT ATT
* * * *
14667206 AAT ATTT ATT AATT A-A ATT AAT AAT ATTT ATT ATT A-T ATT ATTT ATT
1 ATT A-TT ATT -ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT A-TT ATT
* *
14667253 AAT A-T AAT ATT ATT
1 ATT ATT ATT ATT ATT
14667267 TATAAGTAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
2 16 0.14
3 71 0.62
4 28 0.24
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:14667150 original size:12 final size:12
Alignment explanation
Indices: 14667135--14667258 Score: 75
Period size: 12 Copynumber: 10.2 Consensus size: 12
14667125 TATTTTATAT
14667135 TATTTATTAATA
1 TATTTATTAATA
*
14667147 TA-TTA-TAATC
1 TATTTATTAATA
14667157 T-TATTATTAATCA
1 TAT-TTATTAAT-A
14667170 TA-TTATTAATA
1 TATTTATTAATA
*
14667181 TATATATATTATTA
1 TAT-T-TATTAATA
14667195 TATATTATT-ATAA
1 TAT-TTATTAAT-A
14667208 TATTTATTAAT-
1 TATTTATTAATA
*
14667219 TA--AATTAATAA
1 TATTTATTAAT-A
14667230 TATTTATTATTATA
1 TATTTATTA--ATA
14667244 TTATTTATTAATA
1 -TATTTATTAATA
14667257 TA
1 TA
14667259 ATATTATTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 34
0.69 0.05 0.26
Matches are distributed among these distances:
9 6 0.07
10 5 0.06
11 13 0.15
12 22 0.25
13 19 0.21
14 13 0.15
15 11 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTATTAATA
Found at i:14667150 original size:15 final size:15
Alignment explanation
Indices: 14667116--14667263 Score: 90
Period size: 15 Copynumber: 9.4 Consensus size: 15
14667106 TTAAAATAAA
*
14667116 ATTATTTATTATTTTAT
1 ATTATTTATTA--ATAT
14667133 ATTATTTATTAATAT
1 ATTATTTATTAATAT
*
14667148 ATTATAATCTTATTATTA-
1 A-T-T-AT-TTATTAATAT
*
14667166 ATCATATTATTAATAT
1 ATTAT-TTATTAATAT
14667182 ATATATATTATT-ATAT
1 AT-TAT-TTATTAATAT
14667198 ATTA-TTA-TAATAT
1 ATTATTTATTAATAT
*
14667211 -TTATTAATTAAATTAAT
1 ATTATTTATT-AA-T-AT
* *
14667228 AATATTTATTATTAT
1 ATTATTTATTAATAT
14667243 ATTATTTATTAATAT
1 ATTATTTATTAATAT
*
14667258 AATATT
1 ATTATT
14667264 ATTTATAAGT
Statistics
Matches: 105, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
12 4 0.04
13 9 0.09
14 1 0.01
15 38 0.36
16 11 0.10
17 24 0.23
18 10 0.10
19 8 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTTATTAATAT
Found at i:14667175 original size:55 final size:58
Alignment explanation
Indices: 14667106--14667258 Score: 160
Period size: 53 Copynumber: 2.7 Consensus size: 58
14667096 ATAAAAATTC
* *
14667106 TTAAAATAAAATTATTTATTATTTTATATTATTTATTAATATATTATAAT-CTTATT-A
1 TTAAATTAATATTATTTATTA-TTTATATTATTTATTAATATATTATAATACTTATTAA
* * * *
14667163 TT-AA-TCATATTA-TTAATATATATA-TA-TTATTATATATTATTATAATATTTATTAA
1 TTAAATTAATATTATTTATTATTTATATTATTTATTA-ATA-TATTATAATACTTATTAA
*
14667218 TTAAATTAATAATATTTATTA-TTATATTATTTATTAATATA
1 TTAAATTAATATTATTTATTATTTATATTATTTATTAATATA
14667259 ATATTATTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
51 6 0.08
52 5 0.06
53 14 0.18
54 10 0.13
55 9 0.12
56 4 0.05
57 14 0.18
58 10 0.13
59 6 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (58 bp):
TTAAATTAATATTATTTATTATTTATATTATTTATTAATATATTATAATACTTATTAA
Found at i:14667208 original size:29 final size:29
Alignment explanation
Indices: 14667132--14667210 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 29
14667122 TATTATTTTA
* * * *
14667132 TATTATTTATTAATATATTATAATCTTAT
1 TATTATATATTATTATAATATAATCATAT
14667161 TATTA-ATCA-TATTATTAATATATAT-ATAT
1 TATTATAT-ATTATTA-TAATATA-ATCATAT
14667190 TATTATATATTATTATAATAT
1 TATTATATATTATTATAATAT
14667211 TTATTAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.12
29 27 0.66
30 9 0.22
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TATTATATATTATTATAATATAATCATAT
Found at i:14667267 original size:55 final size:52
Alignment explanation
Indices: 14667018--14667269 Score: 148
Period size: 55 Copynumber: 4.8 Consensus size: 52
14667008 ATATTGAAAT
*
14667018 TATTTATTATTAAAGTTATTAATATTAA-A-AATA--ATTATATT-TTAATAATAA
1 TATTTATTATTATA-TTATT--TATTAATATAATATTATT-TATTATTAATAATAA
* * * * * * *
14667069 TATTTAATATTAAAATATTATGTTAATATAA-A--AATTCTTA-AAATAA-AA
1 TATTTATTATTATATTATT-TATTAATATAATATTATTTATTATTAATAATAA
* * * *
14667117 TTATTTATTATTTTATATTATTTATTAATATATTATAATCTTATTATTAATCATAT
1 -TATTTATTA--TTATATTATTTATTAATATAATATTAT-TTATTATTAATAATAA
* * * *
14667173 TATTAATATATATATATTA-TTATATATTATTATAATATTTATTAATTAAATTAATAA
1 TATTTAT-TAT-TATATTATTTAT-TAATATAATATTATTTATT-ATT-AA-TAATAA
14667230 TATTTATTATTATATTATTTATTAATATAATATTATTTAT
1 TATTTATTATTATATTATTTATTAATATAATATTATTTAT
14667270 AAGTAAAATT
Statistics
Matches: 154, Mismatches: 28, Indels: 34
0.71 0.13 0.16
Matches are distributed among these distances:
48 2 0.01
49 22 0.14
50 17 0.11
51 24 0.16
53 1 0.01
54 15 0.10
55 51 0.33
56 12 0.08
57 10 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (52 bp):
TATTTATTATTATATTATTTATTAATATAATATTATTTATTATTAATAATAA
Found at i:14667279 original size:55 final size:54
Alignment explanation
Indices: 14667063--14667280 Score: 139
Period size: 52 Copynumber: 4.0 Consensus size: 54
14667053 TATATTTTAA
* * * * * * *
14667063 TAATAATATTTAATATTAAAATATTATGTTAATATAAAAATT-CTTAAAATAAAAT
1 TAATAATATTTATTATTATATTATT-TATTAATAT-AATATTATTTATAATAAAAT
* * * *
14667118 T-AT-TTA-TTATT-TTATATTATTTATTAATATATTATAATCTTATTATTAATCATAT
1 TAATAATATTTATTATTATATTATTTATTAATATAATATTAT-TTA-TAATAA--A-AT
* * * * * *
14667173 TATTAATATATA-TA-TATTATTATATATTATTATAATATT-TAT-TAATTAAAT
1 TAATAATATTTATTATTA-TATTATTTATTAATATAATATTATTTATAATAAAAT
14667224 TAATAATATTTATTATTATATTATTTATTAATATAATATTATTTATAAGTAAAAT
1 TAATAATATTTATTATTATATTATTTATTAATATAATATTATTTATAA-TAAAAT
14667279 TA
1 TA
14667281 TGCTCAAAAG
Statistics
Matches: 120, Mismatches: 27, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
49 3 0.03
50 8 0.07
51 23 0.19
52 31 0.26
53 6 0.05
54 10 0.08
55 11 0.09
56 2 0.02
57 6 0.05
58 20 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (54 bp):
TAATAATATTTATTATTATATTATTTATTAATATAATATTATTTATAATAAAAT
Found at i:14671449 original size:23 final size:23
Alignment explanation
Indices: 14671418--14671461 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14671408 TTAAAAACAT
14671418 ATTAAATTATATTTAAATTTTAA
1 ATTAAATTATATTTAAATTTTAA
* * *
14671441 ATTATATTATTTTTATATTTT
1 ATTAAATTATATTTAAATTTT
14671462 TTATTTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTAAATTATATTTAAATTTTAA
Found at i:14680957 original size:19 final size:20
Alignment explanation
Indices: 14680935--14680972 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14680925 AATTTTGAAA
14680935 ATTAATT-TTTAAAAATTAT
1 ATTAATTCTTTAAAAATTAT
* *
14680954 ATTATTTCTTTGAAAATTA
1 ATTAATTCTTTAAAAATTA
14680973 ATTTTTAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTAATTCTTTAAAAATTAT
Found at i:14681593 original size:12 final size:13
Alignment explanation
Indices: 14681578--14681609 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
14681568 TTAATAAAAA
14681578 ATATATAA-TTTT
1 ATATATAATTTTT
14681590 ATATATAATTTTT
1 ATATATAATTTTT
14681603 ATATATA
1 ATATATA
14681610 CGTGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATAATTTTT
Found at i:14689435 original size:9 final size:9
Alignment explanation
Indices: 14689415--14689464 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
14689405 AAGTCGAGCT
14689415 TTTTATTTTA
1 TTTTA-TTTA
14689425 TTTTATTTA
1 TTTTATTTA
14689434 -TTTATTT-
1 TTTTATTTA
* *
14689441 GTTTAGTTA
1 TTTTATTTA
*
14689450 TTATATTTA
1 TTTTATTTA
14689459 TTTTAT
1 TTTTAT
14689465 AAGTGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
8 13 0.39
9 15 0.45
10 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:14689726 original size:21 final size:21
Alignment explanation
Indices: 14689702--14689741 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14689692 ATTTTCAATT
14689702 TAAAA-AAATAAAAATAAAATA
1 TAAAAGAAA-AAAAATAAAATA
*
14689723 TAAAAGAGAAAAAATAAAA
1 TAAAAGAAAAAAAATAAAA
14689742 AAATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
TAAAAGAAAAAAAATAAAATA
Found at i:14689997 original size:49 final size:48
Alignment explanation
Indices: 14689918--14690010 Score: 123
Period size: 49 Copynumber: 1.9 Consensus size: 48
14689908 CTTAATTAAA
* *
14689918 AAAATTTTAAATTGTCCCAAATGAAAAAAAAATTTAAAAATAAAAAAAG
1 AAAATTTTAAATTGACCAAAATG-AAAAAAAATTTAAAAATAAAAAAAG
*** *
14689967 AAAATTTTAAATTGACCAAAATGGTGAAAAATTTAGAAATAAAA
1 AAAATTTTAAATTGACCAAAATGAAAAAAAATTTAAAAATAAAA
14690011 TAAAACTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
48 17 0.45
49 21 0.55
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (48 bp):
AAAATTTTAAATTGACCAAAATGAAAAAAAATTTAAAAATAAAAAAAG
Found at i:14690425 original size:10 final size:10
Alignment explanation
Indices: 14690412--14690467 Score: 62
Period size: 10 Copynumber: 5.5 Consensus size: 10
14690402 TTTATTGTTA
14690412 AAAAAATAAT
1 AAAAAATAAT
*
14690422 AAAATATAAT
1 AAAAAATAAT
14690432 AAAGAAA-AAT
1 AAA-AAATAAT
14690442 AAAAAAATAA-
1 -AAAAAATAAT
14690452 AAAAAATTAAT
1 AAAAAA-TAAT
14690463 AAAAA
1 AAAAA
14690468 TTTTTGGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 6 0.15
10 21 0.54
11 12 0.31
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:14690463 original size:13 final size:13
Alignment explanation
Indices: 14690411--14690467 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
14690401 TTTTATTGTT
14690411 AAAAAAAT-AATA
1 AAAAAAATAAATA
* *
14690423 AAATATAATAAAGA
1 AAA-AAAATAAATA
*
14690437 AAAATAAAAAAATA
1 AAAA-AAATAAATA
*
14690451 AAAAAAATTAATA
1 AAAAAAATAAATA
14690464 AAAA
1 AAAA
14690468 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
12 3 0.09
13 16 0.46
14 16 0.46
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:14692324 original size:28 final size:26
Alignment explanation
Indices: 14692279--14692339 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 26
14692269 TTGGAGAATT
*
14692279 ATAAATAAATATATATAAAAAGGATA
1 ATAAATAAAAATATATAAAAAGGATA
**
14692305 ATAAATAAAAATAATAATAAAATTGATA
1 ATAAATAAAAAT-AT-ATAAAAAGGATA
14692333 ATAAATA
1 ATAAATA
14692340 TTCATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 11 0.37
27 2 0.07
28 17 0.57
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (26 bp):
ATAAATAAAAATATATAAAAAGGATA
Found at i:14692533 original size:22 final size:21
Alignment explanation
Indices: 14692495--14692535 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
14692485 TCTAAACCCT
14692495 AAAATTCAAATCCTAAAATAA
1 AAAATTCAAATCCTAAAATAA
14692516 AAAATCTCAAA-CCTTAAAAT
1 AAAAT-TCAAATCC-TAAAAT
14692536 TCAAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATTCAAATCCTAAAATAA
Found at i:14692534 original size:15 final size:16
Alignment explanation
Indices: 14692516--14692551 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
14692506 CCTAAAATAA
14692516 AAAATCTC-AAACCTT
1 AAAATCTCAAAACCTT
14692531 AAAAT-TCAAAACCTT
1 AAAATCTCAAAACCTT
14692546 AAAATC
1 AAAATC
14692552 CTAAATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATCTCAAAACCTT
Found at i:14697603 original size:7 final size:7
Alignment explanation
Indices: 14697591--14697643 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
14697581 ATAAATGCTT
14697591 TAAAAAA
1 TAAAAAA
14697598 TAAAAAA
1 TAAAAAA
**
14697605 -AGTAAA
1 TAAAAAA
14697611 -AAAAAA
1 TAAAAAA
14697617 TAAAAAA
1 TAAAAAA
14697624 T-AAAAA
1 TAAAAAA
*
14697630 GAAAAAA
1 TAAAAAA
14697637 TAAAAAA
1 TAAAAAA
14697644 AAAGTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
6 13 0.34
7 25 0.66
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (7 bp):
TAAAAAA
Found at i:14698228 original size:25 final size:25
Alignment explanation
Indices: 14698168--14698228 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
14698158 AGCCCACATA
**
14698168 ATCCTTTTCTAATTTATTTCATATG
1 ATCCTTTTCTTGTTTATTTCATATG
14698193 ATCCTTTTCTTGTTTATTAT-ATATG
1 ATCCTTTTCTTGTTTATT-TCATATG
14698218 A-CCATTTTCTT
1 ATCC-TTTTCTT
14698229 TCATTAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.57
Consensus pattern (25 bp):
ATCCTTTTCTTGTTTATTTCATATG
Found at i:14698840 original size:22 final size:22
Alignment explanation
Indices: 14698803--14698860 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
14698793 TGAAATAATG
*
14698803 TAAAAGAAAAAA-AAGAAAA-A
1 TAAAAAAAAAAAGAAGAAAAGA
14698823 TAAAAAAAAGAAAGAAGAAAAGA
1 TAAAAAAAA-AAAGAAGAAAAGA
*
14698846 AAAAAAAAAAAAGAA
1 TAAAAAAAAAAAGAA
14698861 ATGAATAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 13 0.39
23 9 0.27
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (22 bp):
TAAAAAAAAAAAGAAGAAAAGA
Found at i:14699825 original size:54 final size:53
Alignment explanation
Indices: 14699767--14699904 Score: 161
Period size: 54 Copynumber: 2.5 Consensus size: 53
14699757 CTAGATGATC
* *
14699767 TGGCATCAATGAAGTTTTAAGTCCAGTTTAGCTAGCACATAAGCTCAG-ATTATT
1 TGGCACCAATGAAGTTTTAAG-CCAGTTTAGCTAGCACATAAAC-CAGTATTATT
* * * * *
14699821 TGGCACCAATGAAGTTTTAAACCTAGTTTAGTTGGCACGTAAACCTGTATTATT
1 TGGCACCAATGAAGTTTTAAGCC-AGTTTAGCTAGCACATAAACCAGTATTATT
*
14699875 TGGTACCAATGAAGTTTTAAGCTCAGTTTA
1 TGGCACCAATGAAGTTTTAAGC-CAGTTTA
14699905 ATTGACACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
53 4 0.06
54 67 0.93
55 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (53 bp):
TGGCACCAATGAAGTTTTAAGCCAGTTTAGCTAGCACATAAACCAGTATTATT
Found at i:14700008 original size:23 final size:22
Alignment explanation
Indices: 14699924--14700017 Score: 93
Period size: 22 Copynumber: 4.2 Consensus size: 22
14699914 AATGAAAAGT
* **
14699924 TAAGCCCAG-TATAGGTGGCACG
1 TAAGCCCAGAT-TAGCTGGCATA
*
14699946 TAAGCCCAGATTAGATGGCATA
1 TAAGCCCAGATTAGCTGGCATA
*
14699968 TAAGCCCAG-TTCAACTGGCATAA
1 TAAGCCCAGATT-AGCTGGCAT-A
*
14699991 TAAGCCCAGATTAGCTGGCACA
1 TAAGCCCAGATTAGCTGGCATA
14700013 TAAGC
1 TAAGC
14700018 TTGGATTAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.03
22 39 0.64
23 18 0.30
24 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TAAGCCCAGATTAGCTGGCATA
Found at i:14700429 original size:94 final size:94
Alignment explanation
Indices: 14700264--14700434 Score: 218
Period size: 94 Copynumber: 1.8 Consensus size: 94
14700254 AAAGATTTAA
* * * *
14700264 ACCTCCAATCTTAAGCCCAATTTATCTGGCCGTCAAGCAAATCTTAAGCCGAGTTTATCTTACAT
1 ACCTCCAATCTTAAGCCCAATTTATCTGGCCGCCAAGAAAATCTTAAGCCCAGTTTATCTGACAT
*
14700329 CTAAGAAAATTTTAAACCCAATTTATCTT
66 CAAAGAAAATTTTAAACCCAATTTATCTT
* * * * * * *
14700358 ACCTCCATTTTTAAGCCTAGTTTATTTGGCC-CCAAGAAAATCTTAAGCCCAGTTTATCTGGCCT
1 ACCTCCAATCTTAAGCCCAATTTATCTGGCCGCCAAGAAAATCTTAAGCCCAGTTTATCT-GACA
14700422 TCAAAGAAAATTT
65 TCAAAGAAAATTT
14700435 AAGTTCAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
93 25 0.39
94 39 0.61
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (94 bp):
ACCTCCAATCTTAAGCCCAATTTATCTGGCCGCCAAGAAAATCTTAAGCCCAGTTTATCTGACAT
CAAAGAAAATTTTAAACCCAATTTATCTT
Found at i:14700444 original size:33 final size:33
Alignment explanation
Indices: 14700367--14700557 Score: 165
Period size: 33 Copynumber: 5.8 Consensus size: 33
14700357 TACCTCCATT
* * *
14700367 TTTAAGCCTAGTTTATTTGGCC--CCAAGAAAA
1 TTTAAGCCCAGTTTATCTGGCCTTCAAAGAAAA
14700398 TCTTAAGCCCAGTTTATCTGGCCTTCAAAGAAAA
1 T-TTAAGCCCAGTTTATCTGGCCTTCAAAGAAAA
** * * * *
14700432 TTTAAGTTCAGTTTATTTGGCC-CCTAATAAAA
1 TTTAAGCCCAGTTTATCTGGCCTTCAAAGAAAA
* *
14700464 TTTTAAGCCCAGTTTATCTGACCTTCAAAAAAAA
1 -TTTAAGCCCAGTTTATCTGGCCTTCAAAGAAAA
* * *
14700498 TTCAAGCCTAATTTATCTGGCACTT-AAAGAAATA
1 TTTAAGCCCAGTTTATCTGGC-CTTCAAAGAAA-A
* * *
14700532 TTTAAGCCTAGTTTATTTGACCTTCA
1 TTTAAGCCCAGTTTATCTGGCCTTCA
14700558 GTAAATTTTT
Statistics
Matches: 127, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.01
32 26 0.20
33 62 0.49
34 38 0.30
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTAAGCCCAGTTTATCTGGCCTTCAAAGAAAA
Found at i:14700513 original size:66 final size:65
Alignment explanation
Indices: 14700370--14700557 Score: 218
Period size: 66 Copynumber: 2.8 Consensus size: 65
14700360 CTCCATTTTT
* * *
14700370 AAGCCTAGTTTATTTGGCCCC-AAGAAAATCTTAAGCCCAGTTTATCTGGCCTTCAAAGAAAATT
1 AAGCCTAGTTTATTTGGCCCCTAA-AAAATTTTAAGCCCAGTTTATCTGACCTTCAAAAAAAATT
*
14700434 T
65 C
*
14700435 AAG-TTCAGTTTATTTGGCCCCTAATAAAATTTTAAGCCCAGTTTATCTGACCTTCAAAAAAAAT
1 AAGCCT-AGTTTATTTGGCCCCTAA-AAAATTTTAAGCCCAGTTTATCTGACCTTCAAAAAAAAT
14700499 TC
64 TC
* * * * * *
14700501 AAGCCTAATTTATCTGGCACTTAAAGAAATATTTAAGCCTAGTTTATTTGACCTTCA
1 AAGCCTAGTTTATTTGGCCCCTAAA-AAAT-TTTAAGCCCAGTTTATCTGACCTTCA
14700558 GTAAATTTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
64 1 0.01
65 19 0.18
66 60 0.57
67 25 0.24
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (65 bp):
AAGCCTAGTTTATTTGGCCCCTAAAAAATTTTAAGCCCAGTTTATCTGACCTTCAAAAAAAATTC
Found at i:14700781 original size:22 final size:22
Alignment explanation
Indices: 14700754--14700807 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
14700744 AGATTTTTGG
* *
14700754 GCATAATTTCTAATACCTCTGA
1 GCATAATTTCTAAGACCTCTAA
* *
14700776 GTATAATTTTTAAGACCTCTAA
1 GCATAATTTCTAAGACCTCTAA
14700798 GCATAATTTC
1 GCATAATTTC
14700808 GACTTGCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (22 bp):
GCATAATTTCTAAGACCTCTAA
Found at i:14701009 original size:37 final size:37
Alignment explanation
Indices: 14700913--14701088 Score: 101
Period size: 37 Copynumber: 4.8 Consensus size: 37
14700903 TTGCTTCTTA
* * * * * * *
14700913 ACTTTTTGACTTACAGTGTTATGTTGATTAATTCTTT
1 ACTTTTTGACTTGCTGTGTTGTCTCGATTATTTTTTT
* * *
14700950 ACTTTTCGACTCG-TGATATTGTCTCGATTATTTTTTT
1 ACTTTTTGACTTGCTG-TGTTGTCTCGATTATTTTTTT
* *
14700987 ACTTTTTGACTTGCTGTGTTGTC-CTAATCGA-TTTTTT
1 ACTTTTTGACTTGCTGTGTTGTCTC-GAT-TATTTTTTT
* * * * * *
14701024 ACTTCTCGACTTGCAGTGTTATCTC-AGTTGTTTTCTT
1 ACTTTTTGACTTGCTGTGTTGTCTCGA-TTATTTTTTT
*
14701061 ACTTTTTGACTTG-TGGTATTGTCTCGAT
1 ACTTTTTGACTTGCT-GTGTTGTCTCGAT
14701089 CGATTTTTAA
Statistics
Matches: 103, Mismatches: 27, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
36 3 0.03
37 95 0.92
38 5 0.05
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (37 bp):
ACTTTTTGACTTGCTGTGTTGTCTCGATTATTTTTTT
Found at i:14701398 original size:37 final size:37
Alignment explanation
Indices: 14701341--14701443 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 37
14701331 TTAATTCACA
* * *
14701341 GTGTTATCCCAGTTAATTTTTTACTTCTCAACTCAAG
1 GTGTTATCTCAGTCAATTTTTTACTTCTCAACTCAAC
* * * * **
14701378 GTGTTGTCTCAGTCACTTTTTTACTTTTTAACTCGTC
1 GTGTTATCTCAGTCAATTTTTTACTTCTCAACTCAAC
*
14701415 GTGTTATCTTAGTCAATTTTTTACTTCTC
1 GTGTTATCTCAGTCAATTTTTTACTTCTC
14701444 GATTTACGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (37 bp):
GTGTTATCTCAGTCAATTTTTTACTTCTCAACTCAAC
Found at i:14701499 original size:37 final size:37
Alignment explanation
Indices: 14701454--14701916 Score: 152
Period size: 37 Copynumber: 12.5 Consensus size: 37
14701444 GATTTACGAA
* *
14701454 GTTGTCCCATTCATTTTCTTACTTCTAGACTCGCAAT
1 GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
* * * * * **
14701491 GTTATCCCAATCGTTTTCTTACTTTTCGACTCACGGT
1 GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
* * * * **
14701528 ATTGTTCC-GATCGATTTT-TTACTTCTCGACTCGCTGT
1 GTTGTCCCAG-TC-ATTTTCTTACTTCTAGACTCACAAT
* *
14701565 GTTGTCTCAGTCATTTTCTTACTTTTAGACTCACAAT
1 GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
* * **
14701602 GTTGTCCCAGTCA-ATTCTTTACTTCTTGACTCATGAT
1 GTTGTCCCAGTCATTTTC-TTACTTCTAGACTCACAAT
** * * ** **
14701639 GTTGT-CTTGATCGTTTTCTTACTTATCCACTCACTGT
1 GTTGTCCCAG-TCATTTTCTTACTTCTAGACTCACAAT
* ** ** * * * **
14701676 GTCGTCTTAGTTGTTTTCTTACTTTTTGACTCGCGGT
1 GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
* * * ***
14701713 ATTGTCCTAGTCGATTCT-TTACTTCTCA-ACTCATGGT
1 GTTGTCCCAGTC-ATTTTCTTACTTCT-AGACTCACAAT
* ** * * *
14701750 GTTGTCCTAGTTGTTTTCTTACTTCTCGACTCGCAGT
1 GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
* * * * * **
14701787 ATTGTCCC-GATCATTTTCTTATTTTTTGACTCGCGGT
1 GTTGTCCCAG-TCATTTTCTTACTTCTAGACTCACAAT
*** * * *
14701824 GTTGTCTTGGTCGATTCT-TTACTTCTCGACTCACAGT
1 GTTGTCCCAGTC-ATTTTCTTACTTCTAGACTCACAAT
* * * * * *
14701861 GTTATCTCAGTCATTTT-TTATTTCTTGACTTACGAT
1 GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
*
14701897 GTTGTCCTAGTCATTTTCTT
1 GTTGTCCCAGTCATTTTCTT
14701917 TATTATTCTC
Statistics
Matches: 314, Mismatches: 96, Indels: 32
0.71 0.22 0.07
Matches are distributed among these distances:
36 46 0.15
37 250 0.80
38 18 0.06
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (37 bp):
GTTGTCCCAGTCATTTTCTTACTTCTAGACTCACAAT
Found at i:14701624 original size:111 final size:110
Alignment explanation
Indices: 14701454--14701863 Score: 376
Period size: 111 Copynumber: 3.7 Consensus size: 110
14701444 GATTTACGAA
* * * * * * *
14701454 GTTGTCCCATTCATTTTCTTACTTCTAGACTCGCAATGTTATCCCAATCG-TTTTCTTACTTTTC
1 GTTGTCTCAGTCATTTTCTTACTTTTAGACTCGCAATGTTGTCCCAGTCGATTCT-TTACTTCTC
*
14701518 GACTCACGGTATTGTTCCGATCGATTTT-TTACTTCTCGACTCGCTGT
65 GACTCACGGTGTTG-TCCGATCG-TTTTCTTACTTCTCGACTCGCTGT
* * *
14701565 GTTGTCTCAGTCATTTTCTTACTTTTAGACTCACAATGTTGTCCCAGTCAATTCTTTACTTCTTG
1 GTTGTCTCAGTCATTTTCTTACTTTTAGACTCGCAATGTTGTCCCAGTCGATTCTTTACTTCTCG
* * * * * *
14701630 ACTCATGATGTTGTCTTGATCGTTTTCTTACTTATCCACTCACTGT
66 ACTCACGGTGTTGTC-CGATCGTTTTCTTACTTCTCGACTCGCTGT
* * ** * ** * * *
14701676 GTCGTCTTAGTTGTTTTCTTACTTTTTGACTCGCGGTATTGTCCTAGTCGATTCTTTACTTCTCA
1 GTTGTCTCAGTCATTTTCTTACTTTTAGACTCGCAATGTTGTCCCAGTCGATTCTTTACTTCTCG
* * * *
14701741 ACTCATGGTGTTGTCCTAGTTGTTTTCTTACTTCTCGACTCGCAGT
66 ACTCACGGTGTTGTCCGA-TCGTTTTCTTACTTCTCGACTCGCTGT
* * * * ** ***
14701787 ATTGTC-CCGATCATTTTCTTATTTTTTGACTCGCGGTGTTGTCTTGGTCGATTCTTTACTTCTC
1 GTTGTCTCAG-TCATTTTCTTACTTTTAGACTCGCAATGTTGTCCCAGTCGATTCTTTACTTCTC
*
14701851 GACTCACAGTGTT
65 GACTCACGGTGTT
14701864 ATCTCAGTCA
Statistics
Matches: 243, Mismatches: 51, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
110 8 0.03
111 232 0.95
112 3 0.01
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (110 bp):
GTTGTCTCAGTCATTTTCTTACTTTTAGACTCGCAATGTTGTCCCAGTCGATTCTTTACTTCTCG
ACTCACGGTGTTGTCCGATCGTTTTCTTACTTCTCGACTCGCTGT
Found at i:14701825 original size:74 final size:74
Alignment explanation
Indices: 14701295--14701953 Score: 297
Period size: 74 Copynumber: 8.9 Consensus size: 74
14701285 TTTTGACTCA
* * ** * ** * * * *
14701295 CGACTCACGATGTTGTCCTAGTCATTTTCTTTTTTTTTAATTCACAGTGTTATCCCAGTTAATTT
1 CGACTCACGGTGTTGTCCTAGTCGTTTTCTTACTTCTCGACTCGCAGTGTTGTCCCAG-TCATTT
*
14701360 T-TTACTTCT
65 TCTTACTTTT
* * * * ** * **
14701369 CAACTCAAGGTGTTGT-CTCAGTCACTTTT-TTACTTTTTAACTCGTC-GTGTTATCTTAGTCAA
1 CGACTCACGGTGTTGTCCT-AGTC-GTTTTCTTACTTCTCGACTCG-CAGTGTTGTCCCAGTC-A
*
14701431 TTTT-TTACTTCT
62 TTTTCTTACTTTT
* * ** * * * * * * * *
14701443 CGATTTACGAAGTTGTCCCATTCATTTTCTTACTTCTAGACTCGCAATGTTATCCCAATCGTTTT
1 CGACTCACGGTGTTGTCCTAGTCGTTTTCTTACTTCTCGACTCGCAGTGTTGTCCCAGTCATTTT
14701508 CTTACTTTT
66 CTTACTTTT
* * * *
14701517 CGACTCACGGTATTGTTCCGA-TCGATTTT-TTACTTCTCGACTCGCTGTGTTGTCTCAGTCATT
1 CGACTCACGGTGTTG-TCCTAGTCG-TTTTCTTACTTCTCGACTCGCAGTGTTGTCCCAGTCATT
14701580 TTCTTACTTTT
64 TTCTTACTTTT
* ** * ** * ** *
14701591 AGACTCACAATGTTGTCCCAGTC-AATTCTTTACTTCTTGACT--CATGATGTTGT-CTTGATCG
1 CGACTCACGGTGTTGTCCTAGTCGTTTTC-TTACTTCTCGACTCGCA-G-TGTTGTCCCAG-TCA
*
14701652 TTTTCTTACTTAT
62 TTTTCTTACTTTT
* * * * * * * * * * *
14701665 CCACTCACTGTGTCGTCTTAGTTGTTTTCTTACTTTTTGACTCGCGGTATTGTCCTAGTCGATTC
1 CGACTCACGGTGTTGTCCTAGTCGTTTTCTTACTTCTCGACTCGCAGTGTTGTCCCAGTC-ATTT
*
14701730 T-TTACTTCT
65 TCTTACTTTT
* * * *
14701739 CAACTCATGGTGTTGTCCTAGTTGTTTTCTTACTTCTCGACTCGCAGTATTGTCCC-GATCATTT
1 CGACTCACGGTGTTGTCCTAGTCGTTTTCTTACTTCTCGACTCGCAGTGTTGTCCCAG-TCATTT
*
14701803 TCTTATTTTT
65 TCTTACTTTT
* * * * * * * *
14701813 TGACTCGCGGTGTTGTCTTGGTCG-ATTCTTTACTTCTCGACTCACAGTGTTATCTCAGTCATTT
1 CGACTCACGGTGTTGTCCTAGTCGTTTTC-TTACTTCTCGACTCGCAGTGTTGTCCCAGTCATTT
14701877 T-TTA-TTTCT
65 TCTTACTTT-T
* * * * * * * * *
14701886 TGACTTACGATGTTGTCCTAGTCATTTTCTTTATTATTCTCAACTCGCAATGTTATCCTAGTCAT
1 CGACTCACGGTGTTGTCCTAGTCGTTTTC-TTA--CTTCTCGACTCGCAGTGTTGTCCCAGTCAT
14701951 TTT
63 TTT
14701954 TTTATTTCTT
Statistics
Matches: 445, Mismatches: 111, Indels: 56
0.73 0.18 0.09
Matches are distributed among these distances:
72 6 0.01
73 48 0.11
74 338 0.76
75 25 0.06
76 28 0.06
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (74 bp):
CGACTCACGGTGTTGTCCTAGTCGTTTTCTTACTTCTCGACTCGCAGTGTTGTCCCAGTCATTTT
CTTACTTTT
Found at i:14701993 original size:37 final size:37
Alignment explanation
Indices: 14701869--14701981 Score: 129
Period size: 40 Copynumber: 3.0 Consensus size: 37
14701859 GTGTTATCTC
*
14701869 AGTCA-TTTTTTATTTCTTGACTTACGATGTTGTCCT
1 AGTCATTTTTTTATTTCTTGACTTGCGATGTTGTCCT
** * * *
14701905 AGTCATTTTCTTTATTATTCTCAACTCGCAATGTTATCCT
1 AGTCATTTT-TTTA-T-TTCTTGACTTGCGATGTTGTCCT
*
14701945 AGTCATTTTTTTATTTCTTGATTTGCGATGTTGTCCT
1 AGTCATTTTTTTATTTCTTGACTTGCGATGTTGTCCT
14701982 GATCGTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
36 5 0.08
37 20 0.33
38 5 0.08
39 5 0.08
40 26 0.43
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (37 bp):
AGTCATTTTTTTATTTCTTGACTTGCGATGTTGTCCT
Found at i:14703446 original size:29 final size:30
Alignment explanation
Indices: 14703396--14703461 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
14703386 TGAATCTTTT
* *
14703396 TTAAAATTTTTTATATATTATTTTTGT-TA
1 TTAAAATTTTTTATATAATATTTATGTATA
*
14703425 TTTAAATTTTATTAT-TAATATTTATGTATA
1 TTAAAATTTT-TTATATAATATTTATGTATA
14703455 TTAAAAT
1 TTAAAAT
14703462 GTGTAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
TTAAAATTTTTTATATAATATTTATGTATA
Found at i:14703577 original size:13 final size:12
Alignment explanation
Indices: 14703553--14703586 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
14703543 TAAAAATATT
14703553 TAAAATAATAAAA
1 TAAAA-AATAAAA
14703566 TAATAAAATAAAA
1 TAA-AAAATAAAA
14703579 TAAAAAAT
1 TAAAAAAT
14703587 GATTGATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 13 0.65
14 2 0.10
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:14703682 original size:12 final size:13
Alignment explanation
Indices: 14703655--14703685 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
14703645 GTTAGAGAAT
14703655 TATAAAAAATATA
1 TATAAAAAATATA
14703668 TATAAAGAAATATA
1 TATAAA-AAATATA
14703682 TATA
1 TATA
14703686 TATATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
TATAAAAAATATA
Found at i:14703745 original size:12 final size:12
Alignment explanation
Indices: 14703713--14703746 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
14703703 AATAAAAAAC
*
14703713 AATAATAAAATT
1 AATAATAATATT
14703725 AATAATAATATT
1 AATAATAATATT
14703737 AATAATAATA
1 AATAATAATA
14703747 AATGTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AATAATAATATT
Found at i:14709608 original size:25 final size:25
Alignment explanation
Indices: 14709558--14709608 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
14709548 ATTTTAATTA
* *
14709558 TCAAACAACTCTTAACATATCTTGG
1 TCAAACAAATCTTAACATATATTGG
*
14709583 TCAAA-AAATCTTAACATTTATATGG
1 TCAAACAAATCTTAACATATAT-TGG
14709608 T
1 T
14709609 ATAATTCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (25 bp):
TCAAACAAATCTTAACATATATTGG
Found at i:14720555 original size:13 final size:13
Alignment explanation
Indices: 14720539--14720586 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
14720529 TTTATTTTTT
14720539 TATTAAATTTAAA
1 TATTAAATTTAAA
* *
14720552 TATTAACTTTACA
1 TATTAAATTTAAA
14720565 TATTAAATTTTAAA
1 TATTAAA-TTTAAA
14720579 TTATTAAA
1 -TATTAAA
14720587 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 17 0.59
14 5 0.17
15 7 0.24
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTAAATTTAAA
Found at i:14721458 original size:14 final size:13
Alignment explanation
Indices: 14721432--14721474 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
14721422 ATTTAATAAA
*
14721432 TTTTAATATATAT
1 TTTTAATAAATAT
14721445 TTTTAAATAAATAT
1 TTTT-AATAAATAT
*
14721459 TTTTAATAAAAAT
1 TTTTAATAAATAT
14721472 TTT
1 TTT
14721475 ATTGTTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAATAAATAT
Found at i:14723068 original size:2 final size:2
Alignment explanation
Indices: 14723019--14723049 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14723009 TATGTTACTA
*
14723019 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14723050 ACTCAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:14723493 original size:33 final size:33
Alignment explanation
Indices: 14723451--14723525 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
14723441 TGTAATGCTT
*
14723451 ATTTGCTTTGAGGTGAACGCCGTTAGGTTTTAG
1 ATTTGCTTTGAAGTGAACGCCGTTAGGTTTTAG
14723484 ATTTGCTTTGAAGTGAACGCCGTTAGGTTTTAG
1 ATTTGCTTTGAAGTGAACGCCGTTAGGTTTTAG
14723517 ATTTGCTTT
1 ATTTGCTTT
14723526 CGGGGTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.43
Consensus pattern (33 bp):
ATTTGCTTTGAAGTGAACGCCGTTAGGTTTTAG
Found at i:14725385 original size:17 final size:17
Alignment explanation
Indices: 14725365--14725408 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14725355 TTATATTAAA
*
14725365 TATTTTATTTTAAAAAT
1 TATTTTAATTTAAAAAT
* *
14725382 TATTTAAATTTAAATAT
1 TATTTTAATTTAAAAAT
14725399 TATATTTAAT
1 TAT-TTTAAT
14725409 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTAATTTAAAAAT
Found at i:14726216 original size:12 final size:13
Alignment explanation
Indices: 14726163--14726217 Score: 60
Period size: 12 Copynumber: 4.3 Consensus size: 13
14726153 AAAAATAAAA
*
14726163 TTTAATATATATT
1 TTTAATAAATATT
14726176 TTTAGATAAATATT
1 TTTA-ATAAATATT
*
14726190 TTTAATAAA-AAT
1 TTTAATAAATATT
*
14726202 TTTAATATA-ATT
1 TTTAATAAATATT
14726214 TTTA
1 TTTA
14726218 TTATTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
12 16 0.43
13 9 0.24
14 12 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TTTAATAAATATT
Found at i:14727316 original size:17 final size:18
Alignment explanation
Indices: 14727294--14727327 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14727284 AATAATTAAA
14727294 TAATAAA-TATTTTATTT
1 TAATAAATTATTTTATTT
14727311 TAATAAATTATTTTATT
1 TAATAAATTATTTTATT
14727328 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATAAATTATTTTATTT
Found at i:14727364 original size:19 final size:20
Alignment explanation
Indices: 14727325--14727368 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
14727315 AAATTATTTT
14727325 ATTATTTTATTAAAAAAATA
1 ATTATTTTATTAAAAAAATA
* *
14727345 ATTATTTT-TTAATAATATA
1 ATTATTTTATTAAAAAAATA
14727364 ATTAT
1 ATTAT
14727369 ATGACATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTATTTTATTAAAAAAATA
Found at i:14727562 original size:36 final size:36
Alignment explanation
Indices: 14727506--14727575 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
14727496 AATGAACAAC
14727506 GATTCTTATTCTCACCGCATATGCTACGCTTTTGCT
1 GATTCTTATTCTCACCGCATATGCTACGCTTTTGCT
* *
14727542 GATTGTTATTCTCACTGCATATGCTACGCTTTTG
1 GATTCTTATTCTCACCGCATATGCTACGCTTTTG
14727576 TTTTCCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (36 bp):
GATTCTTATTCTCACCGCATATGCTACGCTTTTGCT
Found at i:14728066 original size:21 final size:21
Alignment explanation
Indices: 14728042--14728083 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14728032 TTCACCCCTG
*
14728042 ATCACCCAGACTAAACCCCAT
1 ATCACCCAGACCAAACCCCAT
*
14728063 ATCACCCAGACCAAATCCCAT
1 ATCACCCAGACCAAACCCCAT
14728084 GTGCCCTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.43, G:0.05, T:0.14
Consensus pattern (21 bp):
ATCACCCAGACCAAACCCCAT
Found at i:14729201 original size:10 final size:10
Alignment explanation
Indices: 14729181--14729432 Score: 57
Period size: 10 Copynumber: 24.8 Consensus size: 10
14729171 AAAATAAATT
14729181 TTCTAAAAAAA
1 TTCT-AAAAAA
14729192 TTCTAAAAAA
1 TTCTAAAAAA
* **
14729202 TCCATAAAATT
1 TTC-TAAAAAA
**
14729213 TTCTTTAAAA
1 TTCTAAAAAA
*
14729223 TGTTTAAAAAA
1 T-TCTAAAAAA
*
14729234 TT-TAAAAAT
1 TTCTAAAAAA
**
14729243 TTAAAAAAAAAA
1 TT--CTAAAAAA
*
14729255 TT-TAAAAAT
1 TTCTAAAAAA
14729264 TTC-AAAAAA
1 TTCTAAAAAA
*
14729273 TTCTAAAAATT
1 TTCTAAAAA-A
*
14729284 TTCTATAAAA
1 TTCTAAAAAA
*
14729294 TTATAAAAAA
1 TTCTAAAAAA
*
14729304 -GCTCAAAAAA
1 TTCT-AAAAAA
** *
14729314 TT-TTTAAAT
1 TTCTAAAAAA
* * *
14729323 TTTTTAAAAC
1 TTCTAAAAAA
* *
14729333 TTATAAAATTA
1 TTCTAAAA-AA
* *
14729344 TTTTAAAATA
1 TTCTAAAAAA
* * *
14729354 TTTTATAATA
1 TTCTAAAAAA
*
14729364 TTCAAAAAAA
1 TTCTAAAAAA
* * *
14729374 TTTTTAAAAT
1 TTCTAAAAAA
14729384 TTCTCAAAAAA
1 TTCT-AAAAAA
* *
14729395 TTTTTGAAAAA
1 -TTCTAAAAAA
* *
14729406 TT-GAAACAA
1 TTCTAAAAAA
14729415 TTCTAAAAAA
1 TTCTAAAAAA
14729425 TTCTAAAA
1 TTCTAAAA
14729433 TTCTTTGAAA
Statistics
Matches: 172, Mismatches: 54, Indels: 31
0.67 0.21 0.12
Matches are distributed among these distances:
9 35 0.20
10 85 0.49
11 42 0.24
12 10 0.06
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (10 bp):
TTCTAAAAAA
Found at i:14729242 original size:8 final size:8
Alignment explanation
Indices: 14729229--14729284 Score: 64
Period size: 8 Copynumber: 7.0 Consensus size: 8
14729219 AAAATGTTTA
14729229 AAAAATTT
1 AAAAATTT
14729237 AAAAATTT
1 AAAAATTT
14729245 AAAAA---
1 AAAAATTT
14729250 AAAAATTT
1 AAAAATTT
14729258 AAAAATTT
1 AAAAATTT
14729266 CAAAAAATTCT
1 --AAAAATT-T
14729277 AAAAATTT
1 AAAAATTT
14729285 TCTATAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.12
8 22 0.52
9 7 0.17
10 7 0.17
11 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAATTT
Found at i:14729254 original size:21 final size:21
Alignment explanation
Indices: 14729228--14729272 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
14729218 TAAAATGTTT
14729228 AAAAAATTTAAAAATTTAAAA
1 AAAAAATTTAAAAATTTAAAA
*
14729249 AAAAAATTTAAAAATTTCAAA
1 AAAAAATTTAAAAATTTAAAA
14729270 AAA
1 AAA
14729273 TTCTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAATTTAAAAATTTAAAA
Found at i:14729261 original size:12 final size:13
Alignment explanation
Indices: 14729237--14729262 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14729227 TAAAAAATTT
14729237 AAAAATTTAAAAA
1 AAAAATTTAAAAA
14729250 AAAAATTTAAAAA
1 AAAAATTTAAAAA
14729263 TTTCAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATTTAAAAA
Found at i:14729331 original size:20 final size:20
Alignment explanation
Indices: 14729308--14729399 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 20
14729298 AAAAAAGCTC
14729308 AAAAAATTTTTAAATTTTTT
1 AAAAAATTTTTAAATTTTTT
* * *
14729328 -AAAACTTATAAAATTATTTT
1 AAAAAATTTTTAAATT-TTTT
* * **
14729348 AAAATA-TTTTATAATATTCA
1 AAAAAATTTTTA-AATTTTTT
* *
14729368 AAAAAATTTTTAAAATTTCTC
1 AAAAAATTTTT-AAATTTTTT
14729389 AAAAAATTTTT
1 AAAAAATTTTT
14729400 GAAAAATTGA
Statistics
Matches: 52, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
19 12 0.23
20 14 0.27
21 25 0.48
22 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAAATTTTTAAATTTTTT
Found at i:14729441 original size:31 final size:30
Alignment explanation
Indices: 14729406--14729464 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
14729396 TTTTGAAAAA
*
14729406 TTGAAACAATTCT-AAAAAATTCTAAAATTCT
1 TTGAAA-AATTATAAAAAAATT-TAAAATTCT
*
14729437 TTGAAAATTTATAAAAAAATTTAAAATT
1 TTGAAAAATTATAAAAAAATTTAAAATT
14729465 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (30 bp):
TTGAAAAATTATAAAAAAATTTAAAATTCT
Found at i:14729467 original size:20 final size:20
Alignment explanation
Indices: 14729440--14729483 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14729430 AAATTCTTTG
*
14729440 AAAA-TTTATAAAAA-AATTT
1 AAAATTTTA-AAAAATAATTA
14729459 AAAATTTTAAAAAATAATTA
1 AAAATTTTAAAAAATAATTA
14729479 AAAAT
1 AAAAT
14729484 GAAATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTTTAAAAAATAATTA
Found at i:14729472 original size:10 final size:10
Alignment explanation
Indices: 14729219--14729473 Score: 80
Period size: 10 Copynumber: 25.5 Consensus size: 10
14729209 AATTTTCTTT
14729219 AAAATGTTTAA
1 AAAAT-TTTAA
14729230 AAAA-TTT-A
1 AAAATTTTAA
*
14729238 AAAATTTAAAAA
1 AAAATTT--TAA
*
14729250 AAAAATTT-A
1 AAAATTTTAA
*
14729259 AAAATTTCAA
1 AAAATTTTAA
*
14729269 AAAATTCTAA
1 AAAATTTTAA
* *
14729279 AAATTTTCTAT
1 AAAATTT-TAA
*
14729290 AAAATTATAA
1 AAAATTTTAA
** *
14729300 AAAAGCTCAA
1 AAAATTTTAA
*
14729310 AAAATTTT-T
1 AAAATTTTAA
* *
14729319 AAATTTTTTA
1 AAAATTTTAA
* *
14729329 AAACTTATAA
1 AAAATTTTAA
*
14729339 AATTATTTTAA
1 AA-AATTTTAA
* *
14729350 AATATTTTAT
1 AAAATTTTAA
* **
14729360 AATATTCAAA
1 AAAATTTTAA
*
14729370 AAAATTTT-T
1 AAAATTTTAA
14729379 AAAATTTCTCAA
1 AAAATTT-T-AA
*
14729391 AAAATTTTTGA
1 AAAA-TTTTAA
*
14729402 AAAA-TTGAA
1 AAAATTTTAA
* *
14729411 ACAATTCTAA
1 AAAATTTTAA
*
14729421 AAAATTCT--
1 AAAATTTTAA
**
14729429 AAAATTCTTTG
1 AAAATT-TTAA
14729440 AAAATTTATAA
1 AAAATTT-TAA
*
14729451 AAAAATTT--
1 AAAATTTTAA
14729459 AAAATTTTAA
1 AAAATTTTAA
14729469 AAAAT
1 AAAAT
14729474 AATTAAAAAT
Statistics
Matches: 175, Mismatches: 50, Indels: 39
0.66 0.19 0.15
Matches are distributed among these distances:
8 18 0.10
9 33 0.19
10 73 0.42
11 36 0.21
12 12 0.07
13 3 0.02
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:14729479 original size:19 final size:19
Alignment explanation
Indices: 14729440--14729481 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14729430 AAATTCTTTG
*
14729440 AAAATTTATAAAAAAATTT
1 AAAATTTATAAAAAAAATT
14729459 AAAATTT-TAAAAAATAATT
1 AAAATTTATAAAAAA-AATT
14729478 AAAA
1 AAAA
14729482 ATGAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTTATAAAAAAAATT
Found at i:14729968 original size:10 final size:10
Alignment explanation
Indices: 14729955--14730087 Score: 56
Period size: 10 Copynumber: 12.9 Consensus size: 10
14729945 ATAATATTTT
14729955 AATTTTTTAA
1 AATTTTTTAA
14729965 AA--TTTTAA
1 AATTTTTTAA
*
14729973 AGATTTTTAAAA
1 A-ATTTTT-TAA
*
14729985 AATTGTTTCAGA
1 AATT-TTTTA-A
* **
14729997 ATTTTTTTTG
1 AATTTTTTAA
*
14730007 AATTCTTTAAA
1 AATT-TTTTAA
** *
14730018 AAAATTTTGA
1 AATTTTTTAA
*
14730028 AATTATTTTAG
1 AATT-TTTTAA
14730039 AATTTTTTAA
1 AATTTTTTAA
* *
14730049 AATATTTCAA
1 AATTTTTTAA
**
14730059 AAAATTTTAA
1 AATTTTTTAA
14730069 GAA-TTTTTAA
1 -AATTTTTTAA
14730079 AATTTTTTA
1 AATTTTTTA
14730088 TGAAAATTTT
Statistics
Matches: 89, Mismatches: 24, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
8 7 0.08
9 3 0.03
10 44 0.49
11 25 0.28
12 10 0.11
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:14730085 original size:9 final size:9
Alignment explanation
Indices: 14729911--14729984 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 9
14729901 TTTTTGAATT
14729911 TTTTTGAAAA
1 TTTTT-AAAA
*
14729921 TTTTCTAGAA
1 TTTT-TAAAA
*
14729931 TTTTTATAA
1 TTTTTAAAA
* *
14729940 TATTTATAA
1 TTTTTAAAA
*
14729949 TATTTT-AAT
1 T-TTTTAAAA
14729958 TTTTTAAAA
1 TTTTTAAAA
14729967 -TTTTAAAGA
1 TTTTTAAA-A
14729976 TTTTTAAAA
1 TTTTTAAAA
14729985 AATTGTTTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 11 0.21
9 19 0.37
10 21 0.40
11 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:14730357 original size:18 final size:18
Alignment explanation
Indices: 14730334--14730401 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
14730324 AACATATTTT
14730334 TAAATATCAATTTGAAAG
1 TAAATATCAATTTGAAAG
***
14730352 TAAATATCGAAATTT--TTT
1 TAAATATC--AATTTGAAAG
*
14730370 TAAAATATCAATATGAAAG
1 T-AAATATCAATTTGAAAG
14730389 TAAATATCAATTT
1 TAAATATCAATTT
14730402 TTTTTAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
17 4 0.11
18 20 0.54
19 8 0.22
20 5 0.14
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAATATCAATTTGAAAG
Found at i:14730401 original size:35 final size:35
Alignment explanation
Indices: 14730330--14730422 Score: 141
Period size: 37 Copynumber: 2.6 Consensus size: 35
14730320 TTTAAACATA
14730330 TTTTTAAATATCAATTTGAAAGTAAATATCGAAATT
1 TTTTTAAATATCAATTTGAAAGTAAATATC-AAATT
* *
14730366 TTTTTAAAATATCAATATGAAAGTAAATATCAATTT
1 TTTTT-AAATATCAATTTGAAAGTAAATATCAAATT
*
14730402 TTTTTAAATACCAATTTGAAA
1 TTTTTAAATATCAATTTGAAA
14730423 ATTATCTACA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
35 14 0.27
36 14 0.27
37 24 0.46
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (35 bp):
TTTTTAAATATCAATTTGAAAGTAAATATCAAATT
Done.