Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007884.1 Hibiscus syriacus cultivar Beakdansim tig00110264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2814991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:3194 original size:29 final size:29
Alignment explanation
Indices: 3159--3240 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
3149 AAACTAAATT
*
3159 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
3188 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
3217 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
3241 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:9472 original size:18 final size:18
Alignment explanation
Indices: 9429--9473 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
9419 GCAAATCGGT
*
9429 TTCAACAAGACATGCAGC
1 TTCAACATGACATGCAGC
9447 TTCAACATGACATGCAGC
1 TTCAACATGACATGCAGC
9465 TTCAACATG
1 TTCAACATG
9474 CTCCAAACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (18 bp):
TTCAACATGACATGCAGC
Found at i:13790 original size:23 final size:24
Alignment explanation
Indices: 13756--13802 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
13746 TTGGATATCA
13756 TCAAATTAAAACATGAATTGGGCT
1 TCAAATTAAAACATGAATTGGGCT
*
13780 TCAAA-TAAAACGTGAATTGGGCT
1 TCAAATTAAAACATGAATTGGGCT
13803 ATGGCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (24 bp):
TCAAATTAAAACATGAATTGGGCT
Found at i:14372 original size:28 final size:28
Alignment explanation
Indices: 14340--14403 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
14330 CAAACATTAT
14340 TAAAGAGTTATGTATGAATATAGGGTCA
1 TAAAGAGTTATGTATGAATATAGGGTCA
14368 TAAAGAGTTATGTATGAATATAGGGTCA
1 TAAAGAGTTATGTATGAATATAGGGTCA
14396 TAAAGAGT
1 TAAAGAGT
14404 CCATAAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (28 bp):
TAAAGAGTTATGTATGAATATAGGGTCA
Found at i:27482 original size:12 final size:12
Alignment explanation
Indices: 27461--27490 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27451 TTGTTGTGCT
*
27461 TGCTCTTCGGGC
1 TGCTCATCGGGC
27473 TGCTCATCGGGC
1 TGCTCATCGGGC
27485 TGCTCA
1 TGCTCA
27491 GGCTCATCTT
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:0.07, C:0.33, G:0.30, T:0.30
Consensus pattern (12 bp):
TGCTCATCGGGC
Found at i:29139 original size:21 final size:21
Alignment explanation
Indices: 29113--29152 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29103 CCAGAACCCA
*
29113 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
29134 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
29153 TCAAAAGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:36516 original size:40 final size:40
Alignment explanation
Indices: 36461--36541 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
36451 AAATTACTCC
36461 CCCTTACTTTAACACTTCTCCCATTTATCATTTAAAAACA
1 CCCTTACTTTAACACTTCTCCCATTTATCATTTAAAAACA
36501 CCCTTACTTTAACACTTCTCCCATTTATCATTTAAAAACA
1 CCCTTACTTTAACACTTCTCCCATTTATCATTTAAAAACA
36541 C
1 C
36542 TTTCACACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.32, C:0.31, G:0.00, T:0.37
Consensus pattern (40 bp):
CCCTTACTTTAACACTTCTCCCATTTATCATTTAAAAACA
Found at i:38496 original size:91 final size:92
Alignment explanation
Indices: 38391--38571 Score: 330
Period size: 92 Copynumber: 2.0 Consensus size: 92
38381 ATAATTTGAA
38391 AATTAACA-TTTTTTTTAATTTC-AAAATTTTAAAAATTTTTGGAAAATTCTTGTGTTTTTGATG
1 AATTAACATTTTTTTTTAATTTCGAAAA-TTTAAAAATTTTTGGAAAATTCTTGTGTTTTTGATG
38454 AAATTAGTTGTAACATCTAGTTTCTATC
65 AAATTAGTTGTAACATCTAGTTTCTATC
*
38482 AATTAACATTTTTTTTTAATTTCGAAAATTTAAAATTTTTTGGAAAATTCTTGTGTTTTTGATGA
1 AATTAACATTTTTTTTTAATTTCGAAAATTTAAAAATTTTTGGAAAATTCTTGTGTTTTTGATGA
38547 AATTAGTTGTAACATCTAGTTTCTA
66 AATTAGTTGTAACATCTAGTTTCTA
38572 ATCACTAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
91 8 0.09
92 75 0.86
93 4 0.05
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (92 bp):
AATTAACATTTTTTTTTAATTTCGAAAATTTAAAAATTTTTGGAAAATTCTTGTGTTTTTGATGA
AATTAGTTGTAACATCTAGTTTCTATC
Found at i:38962 original size:19 final size:21
Alignment explanation
Indices: 38911--38970 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
38901 TTCCCCTATG
38911 GGGGGAATCGGTTCCTCTTCAAA
1 GGGGGAATCGGTTCC-C-TCAAA
*
38934 GGGGGAATCGGTTCCCTC-AT
1 GGGGGAATCGGTTCCCTCAAA
*
38954 GGGGG-ATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
38971 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.31
20 6 0.17
21 2 0.06
22 1 0.03
23 15 0.43
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:49088 original size:13 final size:13
Alignment explanation
Indices: 49067--49118 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
49057 AATGATGCTC
49067 AATGCGCGTCATA
1 AATGCGCGTCATA
*
49080 AATGAGCGTCATA
1 AATGCGCGTCATA
*
49093 AATGCGTGTCATA
1 AATGCGCGTCATA
49106 AATGCGCGTCATA
1 AATGCGCGTCATA
49119 GATTTATGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:51663 original size:2 final size:2
Alignment explanation
Indices: 51656--51697 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
51646 AGATAATACT
51656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51698 GAAGTAGTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55207 original size:11 final size:11
Alignment explanation
Indices: 55191--55227 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
55181 AGAGAATTAT
55191 ACAAATCATAC
1 ACAAATCATAC
*
55202 ACAAAT--TAT
1 ACAAATCATAC
55211 ACAAATCATAC
1 ACAAATCATAC
55222 ACAAAT
1 ACAAAT
55228 TATTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (11 bp):
ACAAATCATAC
Found at i:55210 original size:20 final size:20
Alignment explanation
Indices: 55185--55230 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
55175 AAAAAGAGAG
55185 AATTATACAAATCATACACA
1 AATTATACAAATCATACACA
55205 AATTATACAAATCATACACA
1 AATTATACAAATCATACACA
55225 AATTAT
1 AATTAT
55231 TAAATTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.28
Consensus pattern (20 bp):
AATTATACAAATCATACACA
Found at i:56799 original size:19 final size:19
Alignment explanation
Indices: 56755--56791 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56745 CGGCTAAGGC
*
56755 TAGGGATATTAAGTATCTG
1 TAGGGTTATTAAGTATCTG
*
56774 TAGGGTTATTAGGTATCT
1 TAGGGTTATTAAGTATCT
56792 TAAGGGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (19 bp):
TAGGGTTATTAAGTATCTG
Found at i:58253 original size:19 final size:19
Alignment explanation
Indices: 58229--58284 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
58219 ACTAAAGCTA
58229 GGGCTATTAGGTACTTTTG
1 GGGCTATTAGGTACTTTTG
58248 GGGCTATTAGGTACTTTTG
1 GGGCTATTAGGTACTTTTG
*
58267 GGGTTATTAGGTATCTTT
1 GGGCTATTAGGTA-CTTT
58285 AGGGTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 31 0.89
20 4 0.11
ACGTcount: A:0.16, C:0.09, G:0.30, T:0.45
Consensus pattern (19 bp):
GGGCTATTAGGTACTTTTG
Found at i:62588 original size:35 final size:35
Alignment explanation
Indices: 62542--62653 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
62532 AAGACATTCC
* *
62542 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
*
62577 TCAATTTCATTCTAAACCATAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
* * * * *
62612 TCAATTACATTCTAAAACTCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
62647 TCAATTT
1 TCAATTT
62654 AAGGAGGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
Found at i:63432 original size:57 final size:57
Alignment explanation
Indices: 63339--63560 Score: 299
Period size: 57 Copynumber: 3.9 Consensus size: 57
63329 CACAGTTTCC
* *
63339 AAAATCGCGTTGTGAT-ACTACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTG
1 AAAATCGCGTTGCGATAAC-ACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
63396 AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCG-ATTT-
1 AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
* ** *
63451 ACATATTATCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTACGAATTTG
1 A-A-AATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
* * **
63510 TAAATCGCGTT-CAATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGA
1 AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGA
63561 TTTACATATT
Statistics
Matches: 146, Mismatches: 14, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
55 1 0.01
56 41 0.28
57 97 0.66
58 7 0.05
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (57 bp):
AAAATCGCGTTGCGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
Found at i:63577 original size:20 final size:21
Alignment explanation
Indices: 63552--63600 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
63542 TCGGTAATTA
* *
63552 GCGTTGCG-ATTTACATATTC
1 GCGTTGCGAATTTACAAAATC
*
63572 GCGTTGCGAATTTAGAAAATC
1 GCGTTGCGAATTTACAAAATC
63593 GCGTTGCG
1 GCGTTGCG
63601 GTAACACTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (21 bp):
GCGTTGCGAATTTACAAAATC
Found at i:63578 original size:113 final size:114
Alignment explanation
Indices: 63343--63580 Score: 372
Period size: 113 Copynumber: 2.1 Consensus size: 114
63333 GTTTCCAAAA
* *
63343 TCGCGTTGTGATACTACTGTTTACCTACATCGGTAATTAGCGTTGCGAATTTGAAAATCGCGTTG
1 TCGCGTTGCGATACTACTGTTTACCTACATCGGTAATTAGCGTTACGAATTTGAAAATCGCGTTG
*
63408 CGATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACATAT
66 CAATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACATAT
** * *
63457 TATCGTTGCGATAAC-ACTGTTTACCTATATCGGTAATTAGCGTTACGAATTTGTAAATCGCGTT
1 TCGCGTTGCGAT-ACTACTGTTTACCTACATCGGTAATTAGCGTTACGAATTTGAAAATCGCGTT
**
63521 -CAATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACATAT
65 GCAATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACATAT
63570 TCGCGTTGCGA
1 TCGCGTTGCGA
63581 ATTTAGAAAA
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
113 55 0.49
114 55 0.49
115 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (114 bp):
TCGCGTTGCGATACTACTGTTTACCTACATCGGTAATTAGCGTTACGAATTTGAAAATCGCGTTG
CAATAACACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTACATAT
Found at i:63624 original size:78 final size:77
Alignment explanation
Indices: 63496--63677 Score: 235
Period size: 78 Copynumber: 2.4 Consensus size: 77
63486 TCGGTAATTA
* * ** ** *
63496 GCGTTACGAATTTGTAAATCGCGTT-CAATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCG
1 GCGTTGCGAATTTGAAAATCGCGTTGCGGTAACACTGTTTACATATATCGGTAATTAGCGTTGCG
*
63560 -ATTT-ACATATTC
66 AATTTGA-A-AATC
*
63572 GCGTTGCGAATTTAGAAAATCGCGTTGCGGTAACACTGTTTATATATATCGGTAATTAGCGTTGC
1 GCGTTGCGAATTT-GAAAATCGCGTTGCGGTAACACTGTTTACATATATCGGTAATTAGCGTTGC
63637 GAATTTGAAAATC
65 GAATTTGAAAATC
63650 GCGTTGCGAATTTGAAAATCGCGTTGCG
1 GCGTTGCGAATTTGAAAATCGCGTTGCG
63678 AATTTGAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
76 12 0.13
77 26 0.28
78 49 0.53
79 5 0.05
80 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (77 bp):
GCGTTGCGAATTTGAAAATCGCGTTGCGGTAACACTGTTTACATATATCGGTAATTAGCGTTGCG
AATTTGAAAATC
Found at i:63655 original size:20 final size:20
Alignment explanation
Indices: 63630--63698 Score: 138
Period size: 20 Copynumber: 3.5 Consensus size: 20
63620 TCGGTAATTA
63630 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
63650 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
63670 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
63690 GCGTTGCGA
1 GCGTTGCGA
63699 TAGTACTGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:63743 original size:37 final size:37
Alignment explanation
Indices: 63690--63773 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
63680 TTTGAAAATC
* *
63690 GCGTTGCGATAGTACTGTTTACATATATTGGTAATTA
1 GCGTTGCGATAATACTGTTTACATATATCGGTAATTA
* *
63727 GCTTTGCGATAATACTGTTTACTTATATCGGTAATTA
1 GCGTTGCGATAATACTGTTTACATATATCGGTAATTA
63764 GCGTTGCGAT
1 GCGTTGCGAT
63774 TTACATATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (37 bp):
GCGTTGCGATAATACTGTTTACATATATCGGTAATTA
Found at i:63788 original size:20 final size:20
Alignment explanation
Indices: 63760--63812 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
63750 TATATCGGTA
63760 ATTAGCGTTGCGATTTACAT
1 ATTAGCGTTGCGATTTACAT
*
63780 ATTATCGTTGCGATTTACAT
1 ATTAGCGTTGCGATTTACAT
*
63800 ATTCGCGTTGCGA
1 ATTAGCGTTGCGA
63813 ATTTGGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTAGCGTTGCGATTTACAT
Found at i:63826 original size:21 final size:21
Alignment explanation
Indices: 63802--63841 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
63792 ATTTACATAT
63802 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
* *
63823 TCGCTTTGCGATTTTGGAA
1 TCGCGTTGCGAATTTGGAA
63842 TCTGTGTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:64508 original size:35 final size:34
Alignment explanation
Indices: 64459--64567 Score: 155
Period size: 35 Copynumber: 3.1 Consensus size: 34
64449 TAAAAAAACA
* *
64459 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
64494 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
64529 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
64564 GAAA
1 GAAA
64568 CTGATGATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 1 0.01
35 63 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:72043 original size:12 final size:14
Alignment explanation
Indices: 72013--72042 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
72003 ACCAATATTT
72013 AAAATGTAAAGAAA
1 AAAATGTAAAGAAA
72027 AAAATG-AAAGAAA
1 AAAATGTAAAGAAA
72040 AAA
1 AAA
72043 TAGAATTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (14 bp):
AAAATGTAAAGAAA
Found at i:72583 original size:22 final size:21
Alignment explanation
Indices: 72542--72583 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
72532 TACCACAATT
*
72542 CTATTTTTTTTATATGTTTTA
1 CTATTTTTTTTATATCTTTTA
*
72563 CTATTTTTATTTTTATCTTTT
1 CTATTTTT-TTTATATCTTTT
72584 TCATGATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
CTATTTTTTTTATATCTTTTA
Found at i:76237 original size:23 final size:23
Alignment explanation
Indices: 76193--76237 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
76183 AAATGAAAAC
* * *
76193 AAAATTTAATTTAATTTTTAATT
1 AAAATTTAAGTTAATATCTAATT
76216 AAAATTTAAGTTAATATCTAAT
1 AAAATTTAAGTTAATATCTAAT
76238 AATTCTTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
AAAATTTAAGTTAATATCTAATT
Found at i:78839 original size:37 final size:37
Alignment explanation
Indices: 78773--79144 Score: 337
Period size: 37 Copynumber: 9.9 Consensus size: 37
78763 TGCAAATGAT
* * **
78773 TTTTGAAATAGATATATAATATATGGTTTTTGAAAGTA
1 TTTTGAAA-ACATATATAATATATAGTTTTTGAAAACA
* *
78811 TTTTGAAAACATATATATTATATAGTTTTTTAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
* *
78848 TTTTGGAAACATATATATAATATATAGTTTTTAAAAAACA
1 TTTT-GAAA-ACATATATAATATATAGTTTTT-GAAAACA
* * *
78888 TTTTGAAAACTTATATAATATATGGTTTTTTAAAAAAACA
1 TTTTGAAAACATATATAATATATAG-TTTTT--GAAAACA
* * * *
78928 TTTT-AAAATATATATAATATATGGTTTTTAAAAAAA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
* *
78964 TTTGGAAAATATATATAATATATAGTTTTT-AAAACA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
*
79000 TTTTGAAAAC-TATATAATATATA-ATTTTGAAAACA
1 TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
* * *
79035 TTTTTAAAAATATATATAATATATAG-TTTT-AAAATA
1 -TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
* * *
79071 TTATTTGAAAACATATATATTATAT-GGTTTTGAAAATAA
1 -T-TTTGAAAACATATATAATATATAGTTTTTGAAAA-CA
* * *
79110 TTTTTAAAAGCATAGATAGTATATAGTTTTT-AAAA
1 TTTTGAAAA-CATATATAATATATAGTTTTTGAAAA
79145 TGTTCTTTCT
Statistics
Matches: 286, Mismatches: 32, Indels: 32
0.82 0.09 0.09
Matches are distributed among these distances:
34 4 0.01
35 19 0.07
36 38 0.13
37 98 0.34
38 52 0.18
39 53 0.19
40 22 0.08
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTTGAAAACATATATAATATATAGTTTTTGAAAACA
Found at i:79180 original size:20 final size:20
Alignment explanation
Indices: 79157--79199 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
79147 TTCTTTCTTT
79157 TTTTAT-TTATATATATTTTA
1 TTTTATATT-TATATATTTTA
*
79177 TTTTATATTTTTATATTTTA
1 TTTTATATTTATATATTTTA
79197 TTT
1 TTT
79200 ATTACTCATT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTATATTTATATATTTTA
Found at i:79193 original size:15 final size:14
Alignment explanation
Indices: 79155--79197 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
79145 TGTTCTTTCT
79155 TTTTTTATTTATATA
1 TTTTTTATTT-TATA
*
79170 TATTTTATTTTATA
1 TTTTTTATTTTATA
79184 TTTTTATATTTTAT
1 TTTTT-TATTTTAT
79198 TTATTACTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTATTTTATA
Found at i:80464 original size:8 final size:9
Alignment explanation
Indices: 80438--80473 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
80428 TTTTATTTCA
80438 TTTCTGTTT
1 TTTCTGTTT
80447 TTTCTGTTT
1 TTTCTGTTT
80456 TTTCT-TTT
1 TTTCTGTTT
80464 TTTCT-TTT
1 TTTCTGTTT
80472 TT
1 TT
80474 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (9 bp):
TTTCTGTTT
Found at i:80464 original size:17 final size:17
Alignment explanation
Indices: 80438--80473 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
80428 TTTTATTTCA
80438 TTTCTGTTTTTTCTGTTT
1 TTTCT-TTTTTTCTGTTT
80456 TTTCTTTTTTTCT-TTT
1 TTTCTTTTTTTCTGTTT
80472 TT
1 TT
80474 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 8 0.44
18 5 0.28
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (17 bp):
TTTCTTTTTTTCTGTTT
Found at i:80480 original size:17 final size:16
Alignment explanation
Indices: 80444--80495 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
80434 TTCATTTCTG
* *
80444 TTTTTTCTGTTTTTTCT
1 TTTTTTCTATTTTAT-T
*
80461 TTTTTTCTTTTTTAATT
1 TTTTTTCTATTTT-ATT
80478 TTTTTTCTATTTTATT
1 TTTTTTCTATTTTATT
80494 TT
1 TT
80496 ATATTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 5 0.16
17 25 0.81
18 1 0.03
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTTTTCTATTTTATT
Found at i:84882 original size:99 final size:100
Alignment explanation
Indices: 84694--84886 Score: 255
Period size: 99 Copynumber: 1.9 Consensus size: 100
84684 TATAATATTA
* *
84694 TATATATATATATACAATAAAGCTTGAACTATCCCTCTAGAGCAATTGGTTAAACGCCCCAGTTT
1 TATATATATATATACAATAAAGCTTGAACTATCCCTCTAGAGCAATTGGCTAAACGCCCCAGCTT
* *
84759 TATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
66 TATGGATAAGATTCAACTAACCTGATAAAGGTGAT
* * * *** *
84794 TATA-ATATCTATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGCTAAATTTCCCGGCT
1 TATATATATATATACAATAAAGCTTGAACTATCCCTCTAGA-GCAATTGGCTAAACGCCCCAGCT
*
84857 TTATGGATAAGATTTAACTAACCTGATAAA
65 TTATGGATAAGATTCAACTAACCTGATAAA
84887 ACTATTTATA
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
98 1 0.01
99 75 0.94
100 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (100 bp):
TATATATATATATACAATAAAGCTTGAACTATCCCTCTAGAGCAATTGGCTAAACGCCCCAGCTT
TATGGATAAGATTCAACTAACCTGATAAAGGTGAT
Found at i:86412 original size:85 final size:85
Alignment explanation
Indices: 86245--87164 Score: 1040
Period size: 85 Copynumber: 10.8 Consensus size: 85
86235 AAAATATTGG
* * *
86245 CAGCATAGCTCAAGGCGA-AAGGGCTATCTGTCAACAAAGACCTTCAACTTCGATTACATTCAGT
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* *
86309 TCAAAGACATATCCAATTTA
66 TCAAAGGCATATCAAATTTA
* * ** * * *
86329 CAACATAACTCAAGATGAGAAGGGTTATCTGTCAACAAAGACCTTCAAGTTCGAATACATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
*
86394 TCAAAGGCACATCAAATTTA
66 TCAAAGGCATATCAAATTTA
* *
86414 CAGCATAGCTCAAGGCGAGAAGAGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAG
*
86479 CTCAAAGGCATATCCAATTTA
65 CTCAAAGGCATATCAAATTTA
* * * * * *
86500 CAACATAACTCAAGGCGAGAATGGTTATCTGTCAGCAAAGACCTTCGAATTCGATTACATTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* *
86565 TCAAAGGCACATGAAATTTA
66 TCAAAGGCATATCAAATTTA
* * *
86585 TAACATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAG
*
86650 CTCAAATGC-TAATCAAATTTA
65 CTCAAAGGCAT-ATCAAATTTA
* * * * * * * **
86671 CAGCATAACTCAAGGCAAGAAGGGTTATATGTCAACCAAGACCTTCGAGTTCGATTATACTCAAA
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
86736 TCAAAGGCATATCAAATTTA
66 TCAAAGGCATATCAAATTTA
* * * * * * *
86756 CAGCATAGCTCAAGACGAGAAGGACTATATGTTAATTAAAGACCTTCAAGTTCGATTACACTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACATTCAG
86821 CTCAAAGGCATATCAAATTTA
65 CTCAAAGGCATATCAAATTTA
* ** *
86842 CAGCATAGCTTAAGGCGAGAAGGGCTATCTGTCAATGAAGACCTTCGAGTTCGATTACACTCAGC
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
* * *
86907 TTAAAGGCACATCAGATTTA
66 TCAAAGGCATATCAAATTTA
* * * *
86927 CAGTATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTTGAGTTCGATTATATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAG
*
86992 CTCAAAGGCATATCCAATTTA
65 CTCAAAGGCATATCAAATTTA
* * * * * * * * *
87013 TAGTATAACTCAAGGCAAGAAGGGTTATATGTCAAAAAATACCTTCGAGTTCAATT-CTATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTAC-ATTCAG
* * *
87077 CTCAAGGGCATGTCAAATTCA
65 CTCAAAGGCATATCAAATTTA
* * ** * ** * *
87098 CAGCAT-GCCTTAAGTCGAGAAAAGCTATCTATCAACAAA-AATTGTCGAGCTCGATTCCATTCA
1 CAGCATAG-CTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCA
87161 GCTC
64 GCTC
87165 GATGACACAT
Statistics
Matches: 708, Mismatches: 117, Indels: 21
0.84 0.14 0.02
Matches are distributed among these distances:
84 16 0.02
85 397 0.56
86 295 0.42
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (85 bp):
CAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGC
TCAAAGGCATATCAAATTTA
Found at i:86528 original size:171 final size:171
Alignment explanation
Indices: 86245--87164 Score: 1134
Period size: 171 Copynumber: 5.4 Consensus size: 171
86235 AAAATATTGG
* * *
86245 CAGCATAGCTCAAGGCGA-AAGGGCTATCTGTCAAC-AAAGACCTTCAACTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
* * * **
86308 TTCAAAGACATATCCAATTTACAACATAACTCAAGATGAGAAGGGTTATCTGTCAACAAAGACCT
66 CTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
* *
86373 TCAAGTTCGAATACATTCAGCTCAAAGGCACATCAAATTTA
131 TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * *
86414 CAGCATAGCTCAAGGCGAGAAGAGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
* * *
86479 CTCAAAGGCATATCCAATTTACAACATAACTCAAGGCGAGAATGGTTATCTGTCAGCAAAGACCT
66 CTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
* *
86544 TCGAATTCGATTACATTCAGCTCAAAGGCACATGAAATTTA
131 TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* *
86585 TAACATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
* * * * *
86650 CTCAAATGC-TAATCAAATTTACAGCATAACTCAAGGCAAGAAGGGTTATATGTCAACCAAGACC
66 CTCAAAGGCAT-ATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACC
* * ** *
86714 TTCGAGTTCGATTATACTCAAATCAAAGGCATATCAAATTTA
130 TTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * * * * ** * *
86756 CAGCATAGCTCAAGACGAGAAGGACTATATGTTAATTAAAGACCTTCAAGTTCGATTACACTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
* * * * **
86821 CTCAAAGGCATATCAAATTTACAGCATAGCTTAAGGCGAGAAGGGCTATCTGTCAATGAAGACCT
66 CTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
* * *
86886 TCGAGTTCGATTACACTCAGCTTAAAGGCACATCAGATTTA
131 TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
* * *
86927 CAGTATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTTGAGTTCGATTATATTCAG
1 CAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
* * * * * *
86992 CTCAAAGGCATATCCAATTTATAGTATAACTCAAGGCAAGAAGGGTTATATGTCAAAAAATACCT
66 CTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
* * ** *
87057 TCGAGTTCAATT-CTATTCAGCTCAAGGGCATGTCAAATTCA
131 TCGAGTTCGATTAC-ATTCAGCTCAAAGGCACATCAAATTTA
* * ** * * *
87098 CAGCAT-GCCTTAAGTCGAGAAAAGCTATCTATCAACAAAA-A-TTGTCGAGCTCGATTCCATTC
1 CAGCATAG-CTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCT-TCGAGTTCGATTACATTC
87160 AGCTC
64 AGCTC
87165 GATGACACAT
Statistics
Matches: 644, Mismatches: 100, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
169 19 0.03
170 38 0.06
171 586 0.91
172 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (171 bp):
CAGCATAGCTCAAGGCGAGAAGGGCTATCTATCAACAAAAGACCTTCGAGTTCGATTACATTCAG
CTCAAAGGCATATCCAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCT
TCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTA
Found at i:87929 original size:27 final size:27
Alignment explanation
Indices: 87899--87957 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
87889 TTGCAAATTA
87899 TTTTTGAAA-TAGATATATAATATACAG
1 TTTTTGAAAGTA-ATATATAATATACAG
* * *
87926 TTTTTGAAAGTATTATATATTATATAG
1 TTTTTGAAAGTAATATATAATATACAG
87953 TTTTT
1 TTTTT
87958 TAAAACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (27 bp):
TTTTTGAAAGTAATATATAATATACAG
Found at i:87981 original size:37 final size:37
Alignment explanation
Indices: 87939--88145 Score: 154
Period size: 37 Copynumber: 5.5 Consensus size: 37
87929 TTGAAAGTAT
*
87939 TATATATTATATAGTTTTTTAAAACATTTTGGAAACA
1 TATATATTATATAGTTTTTTAAAACATTTTGAAAACA
*
87976 TATATATAATATATAGTTTTTAAAATACATTTTGAAAAC-
1 TATATAT--TATATAGTTTTTTAAA-ACATTTTGAAAACA
* * * * * *
88015 TATTTAATATATA-ATTTTGAAAACATTTTTAAATATA
1 TATATATTATATAGTTTTTTAAAACATTTTGAAA-ACA
* *
88052 TATATAATATATAG--TTTTAAAATATTATTTGAAAACA
1 TATATATTATATAGTTTTTTAAAACA-T-TTTGAAAACA
* ** * *
88089 TATATATTATAT-GGTTTAGAAAATAATTTTTAAAAGCA
1 TATATATTATATAGTTTTTTAAAA-CATTTTGAAAA-CA
* *
88127 TAAATAGTATATAGTTTTT
1 TATATATTATATAGTTTTT
88146 CAAATGTTTT
Statistics
Matches: 135, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
35 10 0.07
36 17 0.13
37 46 0.34
38 25 0.19
39 25 0.19
40 12 0.09
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (37 bp):
TATATATTATATAGTTTTTTAAAACATTTTGAAAACA
Found at i:87990 original size:39 final size:39
Alignment explanation
Indices: 87939--88100 Score: 167
Period size: 39 Copynumber: 4.3 Consensus size: 39
87929 TTGAAAGTAT
* *
87939 TATATATTATATAGTTTTTTAAAACATTTTGGAAACATA
1 TATATAATATATAGTTTTTTAAAACATTTTGAAAACATA
*
87978 TATATAATATATAGTTTTTAAAATACATTTTGAAAAC-TA
1 TATATAATATATAGTTTTTTAAA-ACATTTTGAAAACATA
* * * *
88017 T-T-TAATATATA-ATTTTGAAAACATTTT-TAAATATA
1 TATATAATATATAGTTTTTTAAAACATTTTGAAAACATA
*
88052 TATATAATATATAG--TTTTAAAATATTATTTGAAAACATA
1 TATATAATATATAGTTTTTTAAAACA-T-TTTGAAAACATA
*
88091 TATATTATAT
1 TATATAATAT
88101 GGTTTAGAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
34 3 0.03
35 10 0.10
36 16 0.16
37 19 0.18
38 4 0.04
39 39 0.38
40 12 0.12
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (39 bp):
TATATAATATATAGTTTTTTAAAACATTTTGAAAACATA
Found at i:88032 original size:24 final size:26
Alignment explanation
Indices: 88004--88053 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
87994 TTTAAAATAC
88004 ATTTTGAAAAC-TATTT-AATATATA
1 ATTTTGAAAACATATTTAAATATATA
*
88028 ATTTTGAAAACATTTTTAAATATATA
1 ATTTTGAAAACATATTTAAATATATA
88054 TATAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTTTGAAAACATATTTAAATATATA
Found at i:88058 original size:74 final size:74
Alignment explanation
Indices: 87939--88150 Score: 205
Period size: 74 Copynumber: 2.8 Consensus size: 74
87929 TTGAAAGTAT
* * * *
87939 TATATATTATATAGTTTTTTAAAACATTTTGGAAACATATATATAATATATAGTTTTTAAAATAC
1 TATATAATATATA-ATTTTGAAAACATTTT-TAAA-ATATATATAATATATAGTTTTTAAAATA-
88004 AT-TTTGAAAAC-
62 ATATTTGAAAACA
* *
88015 TATTTAATATATAATTTTGAAAACATTTTTAAATATATATATAATATATAG-TTTTAAAATATTA
1 TATATAATATATAATTTTGAAAACATTTTTAAA-ATATATATAATATATAGTTTTTAAAATAATA
88079 TTTGAAAACA
65 TTTGAAAACA
* ** * * * * * *
88089 TATATATTATATGGTTTAGAAAATAATTTTTAAAAGCATAAATAGTATATAGTTTTTCAAAT
1 TATATAATATATAATTTTGAAAA-CATTTTTAAAA-TATATATAATATATAGTTTTTAAAAT
88151 GTTTTTTTCT
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
72 1 0.01
73 19 0.17
74 39 0.34
75 36 0.32
76 19 0.17
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (74 bp):
TATATAATATATAATTTTGAAAACATTTTTAAAATATATATAATATATAGTTTTTAAAATAATAT
TTGAAAACA
Found at i:88138 original size:38 final size:38
Alignment explanation
Indices: 88059--88143 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
88049 ATATATATAA
* * *
88059 TATATAGTTT-TAAAATATTATTTGAAAACATATATAT
1 TATATAGTTTAGAAAATATTATTTGAAAACATAAATAG
*
88096 TATATGGTTTAGAAAATAATT-TTT-AAAAGCATAAATAG
1 TATATAGTTTAGAAAAT-ATTATTTGAAAA-CATAAATAG
88134 TATATAGTTT
1 TATATAGTTT
88144 TTCAAATGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 13 0.32
38 24 0.60
39 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (38 bp):
TATATAGTTTAGAAAATATTATTTGAAAACATAAATAG
Found at i:88199 original size:13 final size:14
Alignment explanation
Indices: 88167--88232 Score: 66
Period size: 13 Copynumber: 4.8 Consensus size: 14
88157 TTCTTATATA
* *
88167 TATATATATATATAT
1 TATATTTAT-TATTT
88182 TAT-TTTATTATTT
1 TATATTTATTATTT
88195 TAT-TTTATTATTAT
1 TATATTTATTATT-T
*
88209 TTTATTTATTATTT
1 TATATTTATTATTT
88223 T-TATTTATTA
1 TATATTTATTA
88233 CTCATTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 25 0.54
14 9 0.20
15 12 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATATTTATTATTT
Found at i:98105 original size:23 final size:23
Alignment explanation
Indices: 98070--98132 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
98060 AACCTTATAT
* *
98070 GGCACTTCAGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
98093 GGCACTAT-GGTGCAATTCTACGT
1 GGCACT-TCGGTGCAATTCTACGC
98116 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
98133 TATATGAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.03
23 33 0.94
24 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:100130 original size:29 final size:29
Alignment explanation
Indices: 100094--100152 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
100084 AAATTAAATA
*
100094 AGGTCTCAAACTTT-CT-AAAAAATCAATT
1 AGGTCTCAAA-TTTAATAAAAAAATCAATT
100122 AGGTCCTCAAATTTAATAAAAAAATCAATT
1 AGGT-CTCAAATTTAATAAAAAAATCAATT
100152 A
1 A
100153 AACATATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 7 0.26
29 7 0.26
30 13 0.48
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (29 bp):
AGGTCTCAAATTTAATAAAAAAATCAATT
Found at i:108369 original size:21 final size:20
Alignment explanation
Indices: 108344--108400 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
108334 TACTTTTTAA
108344 AAAAATCAATAAAAATGCAAT
1 AAAAATCAATAAAAATG-AAT
** * *
108365 AAAAAAGAATTGAAAGTGAAT
1 AAAAATCAA-TAAAAATGAAT
*
108386 AAAATTCAATAAAAA
1 AAAAATCAATAAAAA
108401 AATAATGTAA
Statistics
Matches: 26, Mismatches: 9, Indels: 3
0.68 0.24 0.08
Matches are distributed among these distances:
20 4 0.15
21 16 0.62
22 6 0.23
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (20 bp):
AAAAATCAATAAAAATGAAT
Found at i:111173 original size:82 final size:82
Alignment explanation
Indices: 111063--111341 Score: 380
Period size: 82 Copynumber: 3.4 Consensus size: 82
111053 TACATCACTA
* * * *
111063 AAAAATTGCAGAAGATGAAAATGTACCACTATTTCACCCATTGTCTGAAAAATTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTGTCTGAAAAATTGTTTAAATTAT
*
111128 GCATTAAATGGCCTCTG
66 GCATTAAATGACCTCTG
* * *
111145 AAAAGTTGCAGAAGATGACAATGCACCACTATTTCACCTGTTGTCTGAAAAGTTGTTTAAATTAT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTGTCTGAAAAATTGTTTAAATTAT
* *
111210 GCATTGAATGACCTCTA
66 GCATTAAATGACCTCTG
* * * * *
111227 AAAAGTTGTAGAAGATGATAATGCACCATTATTTCACTCGTTTTCT-AAAAATTTATTTAAATTA
1 AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTGTCTGAAAAA-TTGTTTAAATTA
*
111291 TGCATTCAATGACCTCTG
65 TGCATTAAATGACCTCTG
* *
111309 AAAAGTTGCTGAAGATGATAATGAACCACTATT
1 AAAAGTTGCAGAAGATGATAATGCACCACTATT
111342 ATTTTTCCTA
Statistics
Matches: 173, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 4 0.02
82 169 0.98
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (82 bp):
AAAAGTTGCAGAAGATGATAATGCACCACTATTTCACCCGTTGTCTGAAAAATTGTTTAAATTAT
GCATTAAATGACCTCTG
Found at i:116845 original size:43 final size:42
Alignment explanation
Indices: 116774--116936 Score: 130
Period size: 43 Copynumber: 3.8 Consensus size: 42
116764 TATAGGTACC
* * *
116774 GATATTTAGCGGCGTTTGTCTTAAAAACGCCGCAATTGGTGT
1 GATATTTAGCGGCGTTTTTATTACAAACGCCGCAATTGGTGT
* * **
116816 CAATATTTAGCGGCGTTTTTATTACAAACGCCACAATAAGTGTT
1 -GATATTTAGCGGCGTTTTTATTACAAACGCCGCAATTGGTG-T
* * * * * *
116860 GATATTTCGTGACATTTTTTATGA-AAACGCCGCAATTGGTCT
1 GATATTTAGCGGC-GTTTTTATTACAAACGCCGCAATTGGTGT
* * *
116902 GGTATTTAGCAGCGTTTTTAGGGTACAAACGCCGC
1 GATATTTAGCGGCGTTTTTA--TTACAAACGCCGC
116937 TATAGGACTG
Statistics
Matches: 90, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
41 6 0.07
42 9 0.10
43 57 0.63
44 18 0.20
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
GATATTTAGCGGCGTTTTTATTACAAACGCCGCAATTGGTGT
Found at i:116961 original size:44 final size:44
Alignment explanation
Indices: 116884--117026 Score: 142
Period size: 44 Copynumber: 3.2 Consensus size: 44
116874 TTTTTTATGA
* * * * * * *
116884 AAACGCCGCAATTGGTCTGGTATTTAGCAGCGTTTTTAGGGTAC
1 AAACGCCGCTATAGGACTGGAATATAGCGGCGTTTTTAGGATAC
*
116928 AAACGCCGCTATAGGACTGGAATATAGTGGCGTTTTTAGGATAC
1 AAACGCCGCTATAGGACTGGAATATAGCGGCGTTTTTAGGATAC
* * * * * ** *
116972 AAAAGTCGCGATATGTCTGTTATATAGCGGCGATTTTAGGATAC
1 AAACGCCGCTATAGGACTGGAATATAGCGGCGTTTTTAGGATAC
117016 AAACGCCGCTA
1 AAACGCCGCTA
117027 AAAGTTGGTA
Statistics
Matches: 79, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
AAACGCCGCTATAGGACTGGAATATAGCGGCGTTTTTAGGATAC
Found at i:121156 original size:21 final size:21
Alignment explanation
Indices: 121130--121171 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
121120 TCAGAATGGG
*
121130 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
121151 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
121172 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:121363 original size:36 final size:33
Alignment explanation
Indices: 121284--121368 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
121274 AAACCATGCA
* *
121284 GGGGGAATCTGTACCCGGGGAATGATACCCCTG
1 GGGGGAATCTGTTCCCGAGGAATGATACCCCTG
121317 GGGGGAATCTGTTCCCGAGGAATCGATACCCCCTGG
1 GGGGGAATCTGTTCCCGAGGAAT-GATA-CCCCT-G
121353 GGGGGAATCTGTTCCC
1 GGGGGAATCTGTTCCC
121369 CCTGGGGGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 21 0.45
34 4 0.09
35 5 0.11
36 17 0.36
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (33 bp):
GGGGGAATCTGTTCCCGAGGAATGATACCCCTG
Found at i:121375 original size:20 final size:21
Alignment explanation
Indices: 121335--121389 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
121325 CTGTTCCCGA
121335 GGAATC-GATACCCCCTGGGGG
1 GGAATCTG-TACCCCCTGGGGG
*
121356 GGAATCTGTTCCCCCT-GGGG
1 GGAATCTGTACCCCCTGGGGG
121376 GGAATCTGTACCCC
1 GGAATCTGTACCCC
121390 TTGGACAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 17 0.55
21 13 0.42
22 1 0.03
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (21 bp):
GGAATCTGTACCCCCTGGGGG
Found at i:126880 original size:25 final size:24
Alignment explanation
Indices: 126816--126880 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
126806 TGGCACTACG
*
126816 GTGCAAATTTCTACGCGGTCCTTC
1 GTGCAAATTTCTACGCGGTACTTC
* * *
126840 GGGACAAAATTCTACGTGGTACTTC
1 GTG-CAAATTTCTACGCGGTACTTC
*
126865 GATGCAAATTTATACG
1 G-TGCAAATTTCTACG
126881 AGTTATGGTG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
GTGCAAATTTCTACGCGGTACTTC
Found at i:131638 original size:20 final size:20
Alignment explanation
Indices: 131615--131664 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
131605 TATATAAGTT
*
131615 GGTTTAA-GTAATGGTGGTTG
1 GGTTTAATGGAAT-GTGGTTG
*
131635 GGTTTAATGGCATGTGGTTG
1 GGTTTAATGGAATGTGGTTG
131655 GGTTTAATGG
1 GGTTTAATGG
131665 CATGATAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.18, C:0.02, G:0.40, T:0.40
Consensus pattern (20 bp):
GGTTTAATGGAATGTGGTTG
Found at i:131665 original size:20 final size:20
Alignment explanation
Indices: 131628--131668 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
131618 TTAAGTAATG
131628 GTGGTTGGGTTTAATGGCAT
1 GTGGTTGGGTTTAATGGCAT
131648 GTGGTTGGGTTTAATGGCAT
1 GTGGTTGGGTTTAATGGCAT
131668 G
1 G
131669 ATAGGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.05, G:0.41, T:0.39
Consensus pattern (20 bp):
GTGGTTGGGTTTAATGGCAT
Found at i:131678 original size:19 final size:19
Alignment explanation
Indices: 131633--131680 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
131623 TAATGGTGGT
*
131633 TGGGTTTAATGGCATGTGG
1 TGGGTTTAATGGCATGTAG
131652 TTGGGTTTAATGGCATGATAG
1 -TGGGTTTAATGGCATG-TAG
131673 -GGGTTTAA
1 TGGGTTTAA
131681 AATAGAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.21, C:0.04, G:0.38, T:0.38
Consensus pattern (19 bp):
TGGGTTTAATGGCATGTAG
Found at i:138476 original size:21 final size:21
Alignment explanation
Indices: 138435--138476 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
138425 CTAATCAAAG
*
138435 AAAATGAACTGTCGCTAGAAA
1 AAAATGAACTGTAGCTAGAAA
*
138456 AAAATTAACTTGTAGCT-GAAA
1 AAAATGAAC-TGTAGCTAGAAA
138477 TTTAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (21 bp):
AAAATGAACTGTAGCTAGAAA
Found at i:139181 original size:41 final size:42
Alignment explanation
Indices: 139136--139369 Score: 192
Period size: 42 Copynumber: 5.6 Consensus size: 42
139126 TACAAATATT
* * *
139136 TTGCGGCGTTTGTTA-AAAAACGCCACTATAGTTTACACCTA
1 TTGCGGCGTTTGTTACAAAAACGCCACTATAATTTAAACATA
* * * *
139177 TTGCGGCGTTTG-TACAAAAACGCCACTAAAATATAAATATT
1 TTGCGGCGTTTGTTACAAAAACGCCACTATAATTTAAACATA
* * * * *
139218 TTGCGGCATTTTTTGA-AATAACGCCACTATATATATCAAACCTA
1 TTGCGGCGTTTGTT-ACAAAAACGCCACTATA-AT-TTAAACATA
* * * * *
139262 TTGCGGCGTTTGTAAAAAAAACGCCGCTA-AATTATAAATATT
1 TTGCGGCGTTTGTTACAAAAACGCCACTATAATT-TAAACATA
* * *
139304 TTGCGGCGTTTGGTACTAAAACGCCACTATAGA-TTACACATA
1 TTGCGGCGTTTGTTACAAAAACGCCACTATA-ATTTAAACATA
*
139346 TTGCGGCGTTTG-TATAAAAACGCC
1 TTGCGGCGTTTGTTACAAAAACGCC
139370 GCAAAAGTCA
Statistics
Matches: 149, Mismatches: 35, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
40 2 0.01
41 52 0.35
42 61 0.41
43 7 0.05
44 27 0.18
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (42 bp):
TTGCGGCGTTTGTTACAAAAACGCCACTATAATTTAAACATA
Found at i:139350 original size:42 final size:40
Alignment explanation
Indices: 139136--139369 Score: 179
Period size: 41 Copynumber: 5.6 Consensus size: 40
139126 TACAAATATT
* * *
139136 TTGCGGCGTTTGTTAAAAAACGCCACTATAGTTTACACCTA
1 TTGCGGCGTTTG-TAAAAAACGCCACTATAGATTAAACATA
* * *
139177 TTGCGGCGTTTGTACAAAAACGCCACTA-AAATATAAATATT
1 TTGCGGCGTTTGTA-AAAAACGCCACTATAGAT-TAAACATA
* * * * *
139218 TTGCGGCATTTTTTGAAATAACGCCACTATATATATCAAACCTA
1 TTGCGGC-GTTTGT-AAAAAACGCCACTATAGAT-T-AAACATA
*
139262 TTGCGGCGTTTGTAAAAAAAACGCCGCTA-A-ATTATAA-ATA
1 TTGCGGCGTTTGT--AAAAAACGCCACTATAGATTA-AACATA
* *
139302 TTTTGCGGCGTTTGGTACTAAAACGCCACTATAGATTACACATA
1 --TTGCGGCGTTT-GTA-AAAAACGCCACTATAGATTAAACATA
139346 TTGCGGCGTTTGTATAAAAACGCC
1 TTGCGGCGTTTGTA-AAAAACGCC
139370 GCAAAAGTCA
Statistics
Matches: 154, Mismatches: 24, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
40 7 0.05
41 51 0.33
42 51 0.33
43 15 0.10
44 30 0.19
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (40 bp):
TTGCGGCGTTTGTAAAAAACGCCACTATAGATTAAACATA
Found at i:139651 original size:73 final size:73
Alignment explanation
Indices: 139532--139681 Score: 273
Period size: 73 Copynumber: 2.1 Consensus size: 73
139522 AAAAGTTATG
* * *
139532 CATAAAATTAATACTTAACAACAGAATACATTAAAATTTATAAACATTAAAGTTATGCATAAACA
1 CATAAAATTAATACTTAACAACAAAATACATTAAAATTTAGAAACATTAAAGTTATGCATAAAAA
139597 GTCTTCAC
66 GTCTTCAC
139605 CATAAAATTAATACTTAACAACAAAATACATTAAAATTTAGAAACATTAAAGTTATGCATAAAAA
1 CATAAAATTAATACTTAACAACAAAATACATTAAAATTTAGAAACATTAAAGTTATGCATAAAAA
139670 GTCTTCAC
66 GTCTTCAC
139678 CATA
1 CATA
139682 TTGTTCACTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (73 bp):
CATAAAATTAATACTTAACAACAAAATACATTAAAATTTAGAAACATTAAAGTTATGCATAAAAA
GTCTTCAC
Found at i:140993 original size:93 final size:93
Alignment explanation
Indices: 140823--140994 Score: 200
Period size: 93 Copynumber: 1.8 Consensus size: 93
140813 CATTTTCAGA
* * ** * *
140823 ACAAACGCCGCTAAATAATTAATCTATTGCGGCATTTTTTGCACAAACGCCGCTATAAACAACCA
1 ACAAACGCCACTAAATAATTAATCTATTGCGGCATTTATTAAAAAAACGCCACTATAAACAACCA
* *
140888 AATTGCGGCGTTTTTGCGGCGTTTTTAT
66 AATTCCGACGTTTTTGCGGCGTTTTTAT
* * * * ***
140916 ACAAACGCCACTAAATTATTACTCTATTGCGGCGTTTATTAAAAAAACGCCACTGTAAACATGTA
1 ACAAACGCCACTAAATAATTAATCTATTGCGGCATTTATTAAAAAAACGCCACTATAAACAACCA
*
140981 TATTCCGACGTTTT
66 AATTCCGACGTTTT
140995 AGCTATAAAC
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
93 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (93 bp):
ACAAACGCCACTAAATAATTAATCTATTGCGGCATTTATTAAAAAAACGCCACTATAAACAACCA
AATTCCGACGTTTTTGCGGCGTTTTTAT
Found at i:145814 original size:25 final size:25
Alignment explanation
Indices: 145775--145896 Score: 189
Period size: 25 Copynumber: 5.0 Consensus size: 25
145765 CATCGAGGTG
*
145775 CCACATAG-AATTTGTTCCGAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
*
145799 CCGCATAGAAATTTGTCCCGAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
145824 CCACATAGAAATTTGTCCCGAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
*
145849 CCACATAGAAATTTGTCCCGAAAGA
1 CCACATAGAAATTTGTCCCGAAGGA
145874 CCACATAG--A-TTGTCCCGAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
145896 C
1 C
145897 TGCGTAGAAC
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
22 13 0.14
23 1 0.01
24 7 0.08
25 71 0.77
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (25 bp):
CCACATAGAAATTTGTCCCGAAGGA
Found at i:146472 original size:22 final size:20
Alignment explanation
Indices: 146424--146474 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
146414 GACATAGTAA
146424 TATCGATACTCCTTCTACAG
1 TATCGATACTCCTTCTACAG
* **
146444 TACCGATACTTCCCTTCTATGG
1 TATCGATAC-T-CCTTCTACAG
146466 TATCGATAC
1 TATCGATAC
146475 CCCCCTTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 16 0.64
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACTCCTTCTACAG
Found at i:152754 original size:25 final size:25
Alignment explanation
Indices: 152716--152783 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
152706 CACAGAAGTG
*
152716 CCACGTAG-AATTTGTCCCCAAGGA
1 CCACGTAGAAATTTGTCCCAAAGGA
* *
152740 CCATGTAGAAATTTGTCTCAAAGGA
1 CCACGTAGAAATTTGTCCCAAAGGA
* * *
152765 TCACATAGAAATTTATCCC
1 CCACGTAGAAATTTGTCCC
152784 GAATGACCGC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 7 0.20
25 28 0.80
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
CCACGTAGAAATTTGTCCCAAAGGA
Found at i:158243 original size:22 final size:22
Alignment explanation
Indices: 158215--158267 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
158205 CAATGGACTC
*
158215 AAAAAAGCAACTCTATATAGTC
1 AAAAAAGCAACTCTATATAGTA
*
158237 CAAAAAGCAACTCTATATAGTA
1 AAAAAAGCAACTCTATATAGTA
158259 AAAAAAGCA
1 AAAAAAGCA
158268 TTTTGTAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.55, C:0.17, G:0.09, T:0.19
Consensus pattern (22 bp):
AAAAAAGCAACTCTATATAGTA
Found at i:159727 original size:35 final size:35
Alignment explanation
Indices: 159663--159734 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
159653 CTTAGGTCCG
*
159663 TAAGGAATTACCAGTTCGATTGGTATGAACCTATA
1 TAAGGAATTACCAGTTCGATCGGTATGAACCTATA
* * *
159698 TAAGGAATTATCAGTTTGATCGAGT-TGAACCTCTA
1 TAAGGAATTACCAGTTCGATCG-GTATGAACCTATA
159733 TA
1 TA
159735 TCTAGCCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (35 bp):
TAAGGAATTACCAGTTCGATCGGTATGAACCTATA
Found at i:161674 original size:10 final size:11
Alignment explanation
Indices: 161661--161710 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
161651 AGCGAATGGT
161661 CGGTCAACG-A
1 CGGTCAACGTA
* *
161671 CGGTTAACGTT
1 CGGTCAACGTA
161682 CGGTCAACG-A
1 CGGTCAACGTA
* *
161692 CGGTTAACGTT
1 CGGTCAACGTA
161703 CGGTCAAC
1 CGGTCAAC
161711 ACCCAGTCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (11 bp):
CGGTCAACGTA
Found at i:161684 original size:21 final size:21
Alignment explanation
Indices: 161660--161710 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
161650 CAGCGAATGG
161660 TCGGTCAACGACGGTTAACGT
1 TCGGTCAACGACGGTTAACGT
161681 TCGGTCAACGACGGTTAACGT
1 TCGGTCAACGACGGTTAACGT
161702 TCGGTCAAC
1 TCGGTCAAC
161711 ACCCAGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (21 bp):
TCGGTCAACGACGGTTAACGT
Found at i:168143 original size:45 final size:45
Alignment explanation
Indices: 168087--168172 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
168077 ATGAAGTGGA
*
168087 AGAAAGACAATGTGTTATATGGGAGTTCAGATCACCGGAAATGGG
1 AGAAAGACAATGTGTTATATGGGAGATCAGATCACCGGAAATGGG
*
168132 AGAAAGGCAATGTGTTATATGGGAGATCAGATCACCGGAAA
1 AGAAAGACAATGTGTTATATGGGAGATCAGATCACCGGAAA
168173 ACCAATCCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (45 bp):
AGAAAGACAATGTGTTATATGGGAGATCAGATCACCGGAAATGGG
Found at i:175531 original size:31 final size:31
Alignment explanation
Indices: 175390--175543 Score: 247
Period size: 31 Copynumber: 5.0 Consensus size: 31
175380 GGGTCGAGGG
*
175390 TTACCTATGTTCTTCGGGACATACGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
175421 TTACCTATGTTCTTCGGGACATACGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
175452 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
175483 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
175514 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
175544 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:177083 original size:16 final size:16
Alignment explanation
Indices: 177062--177093 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
177052 AACCATTCCT
177062 TAGCCTTCGGCTAAGG
1 TAGCCTTCGGCTAAGG
177078 TAGCCTTCGGCTAAGG
1 TAGCCTTCGGCTAAGG
177094 AAAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (16 bp):
TAGCCTTCGGCTAAGG
Found at i:177746 original size:18 final size:19
Alignment explanation
Indices: 177723--177765 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
177713 TTTAAATAGT
*
177723 AATAAAAGCGATTAAA-TA
1 AATAAAAGCAATTAAAGTA
177741 AATAAAAGCAATTAAAGTA
1 AATAAAAGCAATTAAAGTA
177760 AA-AAAA
1 AATAAAA
177766 AATAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (19 bp):
AATAAAAGCAATTAAAGTA
Found at i:184454 original size:8 final size:7
Alignment explanation
Indices: 184420--184482 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
184410 GAGAGAACCC
184420 ATTTTATT
1 ATTTT-TT
184428 ATTATTTT
1 ATT-TTTT
* *
184436 -TATTTA
1 ATTTTTT
184442 ATTTTTT
1 ATTTTTT
184449 ATTTTTT
1 ATTTTTT
184456 ATTTTTT
1 ATTTTTT
184463 ATTTTTT
1 ATTTTTT
*
184470 -TGTATTT
1 AT-TTTTT
184477 ATTTTT
1 ATTTTT
184483 CTTTATATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
6 4 0.09
7 33 0.73
8 6 0.13
9 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:184494 original size:35 final size:35
Alignment explanation
Indices: 184420--184496 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 35
184410 GAGAGAACCC
* *
184420 ATTTTATTATTATTTTTATTTAATTTTTTATTTTTT
1 ATTTT-TTATTATTTTTATTTAATTTTTTATTATAT
*
184456 ATTTTTTATTTTTTTGTATTT-ATTTTTCT-TTATAT
1 ATTTTTTATTATTTT-TATTTAATTTTT-TATTATAT
184491 ATTTTT
1 ATTTTT
184497 AGGTACACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 25 0.69
36 11 0.31
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (35 bp):
ATTTTTTATTATTTTTATTTAATTTTTTATTATAT
Found at i:185109 original size:25 final size:27
Alignment explanation
Indices: 185080--185134 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
185070 AGAGAAGCGC
*
185080 AAAAAGGAAGAAATTAA-AAAAAAAA-G
1 AAAAAGGAAGAAA-AAACAAAAAAAATG
185106 AAAAAGG-AGAAAAAACAAAAAAAATG
1 AAAAAGGAAGAAAAAACAAAAAAAATG
185132 AAA
1 AAA
185135 GGGAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 13 0.50
26 11 0.42
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (27 bp):
AAAAAGGAAGAAAAAACAAAAAAAATG
Found at i:186636 original size:18 final size:19
Alignment explanation
Indices: 186613--186663 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
186603 AATTCTTCTA
*
186613 ATTTATTTATTT-TCTCATT
1 ATTTATTTATTTAT-TCAAT
186632 A-TTATTT-TTTATTCAAT
1 ATTTATTTATTTATTCAAT
186649 ATTTATTTATTTATT
1 ATTTATTTATTTATT
186664 TTATTCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATTTATTTATTCAAT
Found at i:186668 original size:13 final size:13
Alignment explanation
Indices: 186638--186678 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
186628 CATTATTATT
*
186638 TTTTATTCA-ATA
1 TTTTATTCATTTA
*
186650 -TTTATTTATTTA
1 TTTTATTCATTTA
186662 TTTTATTCATTTA
1 TTTTATTCATTTA
186675 TTTT
1 TTTT
186679 CATTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.29
12 2 0.08
13 15 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATTCATTTA
Found at i:186673 original size:21 final size:21
Alignment explanation
Indices: 186613--186677 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
186603 AATTCTTCTA
*
186613 ATTTATTTATTTT-CTCA-TT
1 ATTTATTTATTTTATTCATTT
186632 A-TTA-TT-TTTTATTCAATATTT
1 ATTTATTTATTTTATTC---ATTT
186653 ATTTATTTATTTTATTCATTT
1 ATTTATTTATTTTATTCATTT
186674 ATTT
1 ATTT
186678 TCATTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
18 3 0.08
19 1 0.03
20 1 0.03
21 11 0.30
22 3 0.08
23 2 0.05
24 8 0.22
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTATTTATTTTATTCATTT
Found at i:200546 original size:28 final size:29
Alignment explanation
Indices: 200498--200555 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
200488 TTAAAATTTT
200498 AAAATTATATTGAAACAAAAAAA-ATTCC
1 AAAATTATATTGAAACAAAAAAATATTCC
**
200526 AAAATTATAATT-AAATTAAAAAATATTCC
1 AAAATTAT-ATTGAAACAAAAAAATATTCC
200555 A
1 A
200556 TATGCTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAATTATATTGAAACAAAAAAATATTCC
Found at i:203381 original size:21 final size:20
Alignment explanation
Indices: 203323--203392 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
203313 GAAAGGATTA
* *
203323 ATCCTTTCTGTCGAGGAATCG
1 ATCCTTTCT-CCGAGGGATCG
*
203344 ATCCTTTTCTCCAAGGGATCG
1 ATCC-TTTCTCCGAGGGATCG
*
203365 ATCCTTTCTCCTGAGGGATCA
1 ATCCTTTCTCC-GAGGGATCG
203386 ATCCTTT
1 ATCCTTT
203393 TGGGAAGGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.17
21 30 0.71
22 5 0.12
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (20 bp):
ATCCTTTCTCCGAGGGATCG
Found at i:213059 original size:116 final size:116
Alignment explanation
Indices: 212855--213087 Score: 378
Period size: 116 Copynumber: 2.0 Consensus size: 116
212845 GGTCTTATGG
* * * *
212855 CGGCTCTCTCCAGTATGTATGAGAAGCTATCGGCCTCAAACAAAGTTTACTTAATGAGGCGATTA
1 CGGCTCTCTCCAATATATATGAGAAGCCATCGGCCTCAAACAAAGTTCACTTAATGAGGCGATTA
*
212920 TTCAATTTGCGAATGGCGGAAAGGGCATCACTGGTTCAACACCTAAATGAA
66 TTCAATTTGCGAATAGCGGAAAGGGCATCACTGGTTCAACACCTAAATGAA
*
212971 CGGCTCTCTCCAATATATATGAGAAGCCATCGGCCTCAAACAAAGTTCACTTGATGAGGCGATTA
1 CGGCTCTCTCCAATATATATGAGAAGCCATCGGCCTCAAACAAAGTTCACTTAATGAGGCGATTA
* *
213036 CTT-AATTTGCGGATAGCGGAAAGGGCATCAGTGGTTCAACACCTAAATGAA
66 -TTCAATTTGCGAATAGCGGAAAGGGCATCACTGGTTCAACACCTAAATGAA
213087 C
1 C
213088 TCAACACAAT
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
116 106 0.98
117 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (116 bp):
CGGCTCTCTCCAATATATATGAGAAGCCATCGGCCTCAAACAAAGTTCACTTAATGAGGCGATTA
TTCAATTTGCGAATAGCGGAAAGGGCATCACTGGTTCAACACCTAAATGAA
Found at i:216711 original size:20 final size:20
Alignment explanation
Indices: 216667--216713 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
216657 GCCACTGGCC
*
216667 ACTTTGAATAAATAGGGGTT
1 ACTTTGAATAAATAGGGGCT
* * *
216687 GCTTTTAATAAATGGGGGCT
1 ACTTTGAATAAATAGGGGCT
216707 ACTTTGA
1 ACTTTGA
216714 TTTCAAAGTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (20 bp):
ACTTTGAATAAATAGGGGCT
Found at i:219061 original size:24 final size:24
Alignment explanation
Indices: 219029--219074 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
219019 ATAAATGAGA
219029 GAACATAAATAAACGAACATAAGC
1 GAACATAAATAAACGAACATAAGC
* **
219053 GAACTTAAATAAATTAACATAA
1 GAACATAAATAAACGAACATAA
219075 ATGAACAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.13, G:0.09, T:0.20
Consensus pattern (24 bp):
GAACATAAATAAACGAACATAAGC
Found at i:219080 original size:24 final size:24
Alignment explanation
Indices: 219029--219081 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
219019 ATAAATGAGA
*
219029 GAACATAAATAAACGAACATAAGC
1 GAACATAAATAAACGAACATAAAC
* ** *
219053 GAACTTAAATAAATTAACATAAAT
1 GAACATAAATAAACGAACATAAAC
219077 GAACA
1 GAACA
219082 GATTACTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.19
Consensus pattern (24 bp):
GAACATAAATAAACGAACATAAAC
Found at i:220284 original size:22 final size:22
Alignment explanation
Indices: 220259--220324 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 22
220249 TGTGTTTATG
220259 TTTGGTCTTAAATCTTACATGA
1 TTTGGTCTTAAATCTTACATGA
* **
220281 TTT-GT-ATATGT-TCTA-ATG-
1 TTTGGTCTTAAATCT-TACATGA
*
220299 TTTGGTCTCAAATCTTACATGA
1 TTTGGTCTTAAATCTTACATGA
220321 TTTG
1 TTTG
220325 TATATGTTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
18 3 0.10
19 6 0.19
20 9 0.29
21 6 0.19
22 7 0.23
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (22 bp):
TTTGGTCTTAAATCTTACATGA
Found at i:220302 original size:40 final size:40
Alignment explanation
Indices: 220256--220341 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
220246 ATGTGTGTTT
*
220256 ATGTTTGGTCTTAAATCTTACATGATTTGTATATGTTCTA
1 ATGTTTGGTCTCAAATCTTACATGATTTGTATATGTTCTA
220296 ATGTTTGGTCTCAAATCTTACATGATTTGTATATGTTCTA
1 ATGTTTGGTCTCAAATCTTACATGATTTGTATATGTTCTA
220336 ATGTTT
1 ATGTTT
220342 TGGAGGGCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.50
Consensus pattern (40 bp):
ATGTTTGGTCTCAAATCTTACATGATTTGTATATGTTCTA
Found at i:225190 original size:20 final size:21
Alignment explanation
Indices: 225167--225218 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
225157 GCAGCCTACC
*
225167 TTTGAATTC-TAAGC-AGCCCA
1 TTTGAATTCATAA-CAACCCCA
225187 TTTGAATTCAATAACAACCCCA
1 TTTGAATTC-ATAACAACCCCA
225209 TTTGAATTCA
1 TTTGAATTCA
225219 ATTTTAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTGAATTCATAACAACCCCA
Found at i:243386 original size:18 final size:18
Alignment explanation
Indices: 243355--243391 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
243345 CTTCATTTAT
243355 ATTTCTCATGTACTCTTA
1 ATTTCTCATGTACTCTTA
243373 ATTTC-CATGCTACTCTTA
1 ATTTCTCATG-TACTCTTA
243391 A
1 A
243392 AAGTCTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (18 bp):
ATTTCTCATGTACTCTTA
Found at i:245683 original size:26 final size:26
Alignment explanation
Indices: 245640--245689 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
245630 CTATAAATTT
*
245640 TTTATTATATTATAATTATTTAATAA
1 TTTATTATATTATAATTACTTAATAA
*
245666 TTTATTAT-TTAATTATTACTTAAT
1 TTTATTATATT-ATAATTACTTAAT
245690 TTACTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTATTATATTATAATTACTTAATAA
Found at i:248679 original size:31 final size:31
Alignment explanation
Indices: 248609--248830 Score: 295
Period size: 31 Copynumber: 7.1 Consensus size: 31
248599 GAGTCGAGGG
** *
248609 TTACCTATG-TCTTAAGGACATATGAACATGA
1 TTACCTATGTTCTTCGGGACATATGGACA-GA
*
248640 TTTACCTATGTTCTTCGGGACATATGGACATA
1 -TTACCTATGTTCTTCGGGACATATGGACAGA
* *
248672 TTACCTATG-TCTTTCTGGATATATGGACAGGA
1 TTACCTATGTTC-TTCGGGACATATGGACA-GA
*
248704 TTACCTATGTTCTTCGGGATATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
248735 TTACCTATGTTCTTCGGGACATATAGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
248766 TTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
** *
248797 TTACCTATGTTCTTTAGGATATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
248828 TTA
1 TTA
248831 TTATACGAGT
Statistics
Matches: 172, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.01
31 116 0.67
32 36 0.21
33 18 0.10
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:248708 original size:63 final size:62
Alignment explanation
Indices: 248609--248830 Score: 297
Period size: 63 Copynumber: 3.5 Consensus size: 62
248599 GAGTCGAGGG
* * *
248609 TTACCTATGTC-TTAAGGACATATGAACATGATTTACCTATGTTCTTCGGGACATATGGACATA
1 TTACCTATGTCTTTCAGGACATATGGACA-GA-TTACCTATGTTCTTCGGGACATATGGACAGA
* * *
248672 TTACCTATGTCTTTCTGGATATATGGACAGGATTACCTATGTTCTTCGGGATATATGGACAGA
1 TTACCTATGTCTTTCAGGACATATGGACA-GATTACCTATGTTCTTCGGGACATATGGACAGA
* *
248735 TTACCTATGT-TCTTCGGGACATATAGACAGATTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTCT-TTCAGGACATATGGACAGATTACCTATGTTCTTCGGGACATATGGACAGA
*
248797 TTACCTATGTTCTTT-AGGATATATGGACAGATTA
1 TTACCTATG-TCTTTCAGGACATATGGACAGATTA
248831 TTATACGAGT
Statistics
Matches: 141, Mismatches: 14, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
62 58 0.41
63 67 0.48
64 16 0.11
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (62 bp):
TTACCTATGTCTTTCAGGACATATGGACAGATTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:249509 original size:21 final size:21
Alignment explanation
Indices: 249485--249528 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
249475 TACGGAAGTT
*
249485 ACTGTAACAGTGCATCGGTAC
1 ACTGTAACAGTGCATCGATAC
**
249506 ACTGTAGTAGTGCATCGATAC
1 ACTGTAACAGTGCATCGATAC
249527 AC
1 AC
249529 AATTTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (21 bp):
ACTGTAACAGTGCATCGATAC
Found at i:249592 original size:19 final size:19
Alignment explanation
Indices: 249568--249635 Score: 109
Period size: 19 Copynumber: 3.6 Consensus size: 19
249558 CTATTCACAG
249568 TACTGTTCATATCGTATAA
1 TACTGTTCATATCGTATAA
249587 TACTGTTCATATCGTATAA
1 TACTGTTCATATCGTATAA
* *
249606 TACTGTTCATACCGTATAG
1 TACTGTTCATATCGTATAA
*
249625 TATTGTTCATA
1 TACTGTTCATA
249636 AATTGTGTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (19 bp):
TACTGTTCATATCGTATAA
Found at i:250440 original size:21 final size:22
Alignment explanation
Indices: 250405--250455 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
250395 GGCATATAAA
250405 ATTTGTCCTGAATGACCTATGT
1 ATTTGTCCTGAATGACCTATGT
250427 ATTTGTCC-GAATGACCTATGT
1 ATTTGTCCTGAATGACCTATGT
250448 ATTTGTCC
1 ATTTGTCC
250456 CGAGGGACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (22 bp):
ATTTGTCCTGAATGACCTATGT
Found at i:250464 original size:22 final size:21
Alignment explanation
Indices: 250405--250464 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
250395 GGCATATAAA
*
250405 ATTTGTCCTGAATGACCTATGT
1 ATTTGTCC-GAAGGACCTATGT
*
250427 ATTTGTCCGAATGACCTATGT
1 ATTTGTCCGAAGGACCTATGT
*
250448 ATTTGTCCCGAGGGACC
1 ATTTGT-CCGAAGGACC
250465 GCGTCGTAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (21 bp):
ATTTGTCCGAAGGACCTATGT
Found at i:250731 original size:2 final size:2
Alignment explanation
Indices: 250726--250773 Score: 87
Period size: 2 Copynumber: 23.5 Consensus size: 2
250716 ACATATATTC
250726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
250769 AT AT A
1 AT AT A
250774 CTTTGAATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 43 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:252717 original size:21 final size:21
Alignment explanation
Indices: 252691--252767 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
252681 GACAATTCTG
*
252691 ATGGCACCTCAACCTTTTCAA
1 ATGGCACCACAACCTTTTCAA
* *
252712 ATGGCACCGCAACCATTTT-AT
1 ATGGCACCACAACC-TTTTCAA
*
252733 ATAGCACCACAA-CTATTTCAA
1 ATGGCACCACAACCT-TTTCAA
*
252754 ATGCCACCACAACC
1 ATGGCACCACAACC
252768 GATTCAGACG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.02
20 4 0.09
21 35 0.78
22 5 0.11
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (21 bp):
ATGGCACCACAACCTTTTCAA
Found at i:252773 original size:21 final size:21
Alignment explanation
Indices: 252749--252802 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
252739 CCACAACTAT
*
252749 TTCAAATGCCACCACAACCGA
1 TTCAGATGCCACCACAACCGA
* * *
252770 TTCAGACGCCACCATAACCGG
1 TTCAGATGCCACCACAACCGA
252791 TTCAGATGCCAC
1 TTCAGATGCCAC
252803 TACCTCAGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.37, G:0.15, T:0.17
Consensus pattern (21 bp):
TTCAGATGCCACCACAACCGA
Found at i:254655 original size:38 final size:38
Alignment explanation
Indices: 254613--254689 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
254603 ATGTAAACGT
254613 AAGTTTCTGAGGAAAAAAACCCAAGAATATGTATATTC
1 AAGTTTCTGAGGAAAAAAACCCAAGAATATGTATATTC
* * * *
254651 AAGTTTCTGAGGAAAAAAGCTCAAGAATTTGTATCTTC
1 AAGTTTCTGAGGAAAAAAACCCAAGAATATGTATATTC
254689 A
1 A
254690 CCTTCAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (38 bp):
AAGTTTCTGAGGAAAAAAACCCAAGAATATGTATATTC
Found at i:265427 original size:29 final size:29
Alignment explanation
Indices: 265386--265450 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
265376 TGATTTTTAG
*
265386 ATGGGATTATAT-CTTAGTCCTAATTCTGC
1 ATGGGATTATATCCCTA-TCCTAATTCTGC
* *
265415 ATGGGATTGTATCCCTATCCTGATTCTGC
1 ATGGGATTATATCCCTATCCTAATTCTGC
265444 ATGGGAT
1 ATGGGAT
265451 CTTTTACGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (29 bp):
ATGGGATTATATCCCTATCCTAATTCTGC
Found at i:268166 original size:18 final size:18
Alignment explanation
Indices: 268143--268179 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
268133 GTTCTACGTG
*
268143 GTCCTTCGGGACATATAT
1 GTCCTTCGGAACATATAT
*
268161 GTCCTTTGGAACATATAT
1 GTCCTTCGGAACATATAT
268179 G
1 G
268180 CGGTACTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (18 bp):
GTCCTTCGGAACATATAT
Found at i:273825 original size:21 final size:20
Alignment explanation
Indices: 273740--273896 Score: 75
Period size: 21 Copynumber: 7.8 Consensus size: 20
273730 AAAGACCAAT
** *
273740 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
273759 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
273779 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
273799 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
273820 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* ** *
273841 AAATTCGCATTGCGATATTCC
1 AAAATCGCAACGCGAT-TTTC
* * *
273862 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
273882 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
273897 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:273925 original size:20 final size:20
Alignment explanation
Indices: 273863--274056 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
273853 CGATATTCCA
* ** *
273863 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
273883 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
273903 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
273923 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
273943 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
273963 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
273983 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
274003 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
274023 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
274044 AAATCGCAACGCG
1 AAATCGCAACGCG
274057 ATATTTAAAT
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:273947 original size:60 final size:60
Alignment explanation
Indices: 273863--274056 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
273853 CGATATTCCA
* ** * *
273863 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
273923 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
273983 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
274044 AAATCGCAACGCG
1 AAATCGCAACGCG
274057 ATATTTAAAT
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:274478 original size:33 final size:33
Alignment explanation
Indices: 274439--274509 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
274429 TTCACTTAGA
*
274439 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
274472 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
274505 TTTCA
1 TTTCA
274510 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:274633 original size:20 final size:20
Alignment explanation
Indices: 274589--274698 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
274579 TGCAGAAGAG
*
274589 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
274610 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
274630 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
274651 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
274665 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
274684 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
274699 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:274646 original size:41 final size:38
Alignment explanation
Indices: 274582--274698 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
274572 TTCAATTTGC
* *
274582 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
274620 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
274661 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
274694 AGAAT
1 AGAAT
274699 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:274668 original size:14 final size:14
Alignment explanation
Indices: 274649--274705 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
274639 GAGAAATGAA
274649 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
274663 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
274682 AATCGCAACGAGAG
1 AATCGCAACGAGAG
274696 AATCGCAACG
1 AATCGCAACG
274706 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:274681 original size:33 final size:33
Alignment explanation
Indices: 274641--274721 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
274631 CGCAACGAGA
274641 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
274674 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
274707 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
274722 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:274758 original size:14 final size:14
Alignment explanation
Indices: 274739--274827 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
274729 TTTCATTTCG
274739 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
274753 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
274771 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
274785 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
274804 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
274818 CGTTGCGATT
1 CGTTGCGATT
274828 TCATTTCAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 30 0.48
15 4 0.06
16 2 0.03
17 5 0.08
18 11 0.18
19 10 0.16
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:274805 original size:33 final size:32
Alignment explanation
Indices: 274722--274834 Score: 208
Period size: 32 Copynumber: 3.5 Consensus size: 32
274712 CAAAATCGCA
274722 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
274755 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
274787 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATT-TCATTTCGCGTTGCGATTCTCTCG
274820 TTGCGATTTCATTTC
1 TTGCGATTTCATTTC
274835 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
32 41 0.52
33 38 0.48
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (32 bp):
TTGCGATTTCATTTCGCGTTGCGATTCTCTCG
Found at i:276683 original size:93 final size:93
Alignment explanation
Indices: 276524--277264 Score: 1399
Period size: 93 Copynumber: 8.1 Consensus size: 93
276514 TAGATTGCTT
*
276524 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276589 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
276617 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276682 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
276710 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276775 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
276802 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276867 -TTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
276893 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTATATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276957 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
276985 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
277050 TTTGTCTTTG-TTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
277076 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
277141 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
277169 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
277234 -TTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
277260 AGTAA
1 AGTAA
277265 TGCAATCCAT
Statistics
Matches: 638, Mismatches: 5, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
90 31 0.05
91 148 0.23
92 186 0.29
93 273 0.43
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:276996 original size:183 final size:186
Alignment explanation
Indices: 276524--277264 Score: 1399
Period size: 183 Copynumber: 4.0 Consensus size: 186
276514 TAGATTGCTT
*
276524 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276589 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
276654 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
276710 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
276775 -TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
276839 GTGTATTCTTTAACACTGTGAAATAGTA-TTGTC-TTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
276893 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTATATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
276957 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
277022 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG-TTTGTC-TTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
277076 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
277141 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
277206 GTGTATTCTTTAACACTGTGAAATAGTA-TTGTCTTTGTTTTGTCTTTTGGTTG-A
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
277260 AGTAA
1 AGTAA
277265 TGCAATCCAT
Statistics
Matches: 544, Mismatches: 5, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
182 31 0.06
183 195 0.36
184 151 0.28
185 103 0.19
186 64 0.12
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:277413 original size:19 final size:19
Alignment explanation
Indices: 277312--277407 Score: 103
Period size: 19 Copynumber: 5.3 Consensus size: 19
277302 TAGTTTACTT
* *
277312 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
277332 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
277351 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
277370 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
277384 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
277403 TCGCA
1 TCGCA
277408 TTGCGATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 36 0.56
20 13 0.20
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:277425 original size:19 final size:18
Alignment explanation
Indices: 277403--277466 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 18
277393 GAAACCAAAA
277403 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
*
277422 TCGCGTTGCGA-TTC-TT
1 TCGCATTGCGATTTCATT
277438 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
277454 TCGCATTGCGATT
1 TCGCATTGCGATT
277467 CTGTCGTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
14 6 0.15
15 3 0.08
16 10 0.25
17 3 0.08
18 8 0.20
19 10 0.25
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:277444 original size:14 final size:14
Alignment explanation
Indices: 277425--277480 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
277415 TTTCATTTCG
277425 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
277439 CGTTGCGATTTCATTT
1 CGTTGCGA-TTC-TTT
*
277455 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
277471 CGTTGCGATT
1 CGTTGCGATT
277481 TTGGTTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 16 0.43
15 3 0.08
16 9 0.24
17 3 0.08
18 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:277495 original size:19 final size:20
Alignment explanation
Indices: 277471--277517 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
277461 GCGATTCTGT
*
277471 CGTTGCGATTTT-GGTTTCG
1 CGTTGCGATTTTAAGTTTCG
277490 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTAAGTTTCG
*
277510 TGTTGCGA
1 CGTTGCGA
277518 AAGTAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.45
Consensus pattern (20 bp):
CGTTGCGATTTTAAGTTTCG
Found at i:277496 original size:33 final size:33
Alignment explanation
Indices: 277408--277499 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 33
277398 CAAAATCGCA
*
277408 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
277441 TTGCGA-TTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
277473 TTGCGATTTTGGTTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
277500 TTAAGTTTCG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 30 0.57
33 23 0.43
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:279456 original size:14 final size:14
Alignment explanation
Indices: 279437--279472 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
279427 ATTGTTTAAT
279437 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
279451 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
279465 TGATTTGT
1 TGATTTGT
279473 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Done.