Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 70 of 198
Found at i:21798564 original size:22 final size:22
Alignment explanation
Indices: 21798539--21798617 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 22
21798529 AGTGTTTAGT
*
21798539 GTTTATGGTTTAGGGTTTTAAG
1 GTTTAAGGTTTAGGGTTTTAAG
* ** *
21798561 GTTTAGAGGTTAATAG-TTTAGG
1 GTTTA-AGGTTTAGGGTTTTAAG
* *
21798583 GTTTAGGGTTTAAGGTTTTAAG
1 GTTTAAGGTTTAGGGTTTTAAG
*
21798605 GTTTATGGTTTAG
1 GTTTAAGGTTTAG
21798618 CTAAAAGCAC
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 6 0.14
22 31 0.72
23 6 0.14
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.47
Consensus pattern (22 bp):
GTTTAAGGTTTAGGGTTTTAAG
Found at i:21798565 original size:7 final size:7
Alignment explanation
Indices: 21798539--21798616 Score: 59
Period size: 7 Copynumber: 10.7 Consensus size: 7
21798529 AGTGTTTAGT
*
21798539 GTTTATG
1 GTTTAAG
*
21798546 GTTTAGG
1 GTTTAAG
21798553 GTTTTAAG
1 G-TTTAAG
21798561 GTTTAGAG
1 GTTTA-AG
*
21798569 G-TTAATA
1 GTTTAA-G
*
21798576 GTTTAGG
1 GTTTAAG
*
21798583 GTTTAGG
1 GTTTAAG
21798590 GTTTAAG
1 GTTTAAG
21798597 GTTTTAAG
1 G-TTTAAG
*
21798605 GTTTATG
1 GTTTAAG
21798612 GTTTA
1 GTTTA
21798617 GCTAAAAGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
6 1 0.02
7 39 0.66
8 19 0.32
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
GTTTAAG
Found at i:21799025 original size:184 final size:185
Alignment explanation
Indices: 21798795--21799324 Score: 621
Period size: 195 Copynumber: 2.8 Consensus size: 185
21798785 AAAACGCTTT
* *
21798795 AAATATATATTAAAAGATATCAAAACGTTGCCATTTTGTCTGCGTTTTTAGTGGCGTTTT-TCGC
1 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCGTTTTTAGTGGCGTTTTATCGC
* *
21798859 GAATATGTTTTAAGTGTTGGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAATGGC
66 GAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAGTGGC
* * * *
21798924 GCTTTTGATAAACACCGTAAATTTTAATTAATCTAACTTAAACGACGTCGTTCGC
131 GCTTTTGATAAACACCGCAAATTTTAATTAATCTAACTTAAACGACATCATTCAC
* * * *
21798979 AAATATGTATTAAAAGATATCAAAACATTGTCGTTTTGTTTGCGTTTTTAGTGGCATTTTTACGA
1 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCGTTTTTAGTGGC-GTTTT----
*
21799044 AAAACGTCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTA
61 ---A--TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTG
* ** * *
21799109 TGTTAGTGGCGCTTTTGATATATGCTGCAAATTTTAATTAATCTGACTTAAACGACATCATTCAC
121 TGTTAGTGGCGCTTTTGATAAACACCGCAAATTTTAATTAATCTAACTTAAACGACATCATTCAC
* * *
21799174 AAATATGTGTTAAAAGATATCAAAATGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGA
1 AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCGTTTTTAGTGGCGTTTT-----
* * * * *
21799239 AAAACGCCGCGAATATGTTTTAAGTGTTTACAAAACATTTTCATTTTTAGCTGCGATTTTAGCTG
61 ---A--TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTG
* *
21799304 CGTTAGTGACGCTTTTGATAA
121 TGTTAGTGGCGCTTTTGATAA
21799325 GCGCCGCGAA
Statistics
Matches: 300, Mismatches: 34, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
184 50 0.17
185 4 0.01
194 4 0.01
195 242 0.81
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (185 bp):
AAATATGTATTAAAAGATATCAAAACGTTGCCGTTTTGTCTGCGTTTTTAGTGGCGTTTTATCGC
GAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAGTGGC
GCTTTTGATAAACACCGCAAATTTTAATTAATCTAACTTAAACGACATCATTCAC
Found at i:21799189 original size:195 final size:195
Alignment explanation
Indices: 21798855--21799324 Score: 697
Period size: 195 Copynumber: 2.4 Consensus size: 195
21798845 GTGGCGTTTT
* *
21798855 TCGCGAATATGTTTTAAGTGTTGGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAA
1 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAG
* * * *
21798920 TGGCGCTTTTGATAAACACCGTAAATTTTAATTAATCTAACTTAAACGACGTCGTTCGCAAATAT
66 TGGCGCTTTTGATAAACACCGCAAATTTTAATTAATCTAACTTAAACGACATCATTCACAAATAT
* * * *
21798985 GTATTAAAAGATATCAAAACATTGTCGTTTTGTTTGCGTTTTTAGTGGCATTTTTACGAAAAACG
131 GTATTAAAAGATATCAAAACATTGCCGTTTTGTCTGCATTTTTAGTGGCATTTTCACGAAAAACG
*
21799050 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTATGTTAG
1 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAG
* ** * *
21799115 TGGCGCTTTTGATATATGCTGCAAATTTTAATTAATCTGACTTAAACGACATCATTCACAAATAT
66 TGGCGCTTTTGATAAACACCGCAAATTTTAATTAATCTAACTTAAACGACATCATTCACAAATAT
* ** *
21799180 GTGTTAAAAGATATCAAAATGTTGCCGTTTTGTCTGCATTTTTAGTGGCGTTTTCACGAAAAACG
131 GTATTAAAAGATATCAAAACATTGCCGTTTTGTCTGCATTTTTAGTGGCATTTTCACGAAAAACG
* * * * * *
21799245 CCGCGAATATGTTTTAAGTGTTTACAAAACATTTTCATTTTTAGCTGCGATTTTAGCTGCGTTAG
1 TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAG
*
21799310 TGACGCTTTTGATAA
66 TGGCGCTTTTGATAA
21799325 GCGCCGCGAA
Statistics
Matches: 246, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
195 246 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (195 bp):
TCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGTGTTAG
TGGCGCTTTTGATAAACACCGCAAATTTTAATTAATCTAACTTAAACGACATCATTCACAAATAT
GTATTAAAAGATATCAAAACATTGCCGTTTTGTCTGCATTTTTAGTGGCATTTTCACGAAAAACG
Found at i:21799382 original size:83 final size:83
Alignment explanation
Indices: 21799240--21799414 Score: 296
Period size: 83 Copynumber: 2.1 Consensus size: 83
21799230 TTTTCACGAA
*
21799240 AAACGCCGCGAATATGTTTTAAGTGTTTACAAAACATTTTCATTTTTAGCTGCGATTTTAGCTGC
1 AAACGCCGCGAATATGTTTTAAGTGTTTACAAAACATTGTCATTTTTAGCTGCGATTTTAGCTGC
*
21799305 GTTAGTGACGCTTTTGAT
66 GCTAGTGACGCTTTTGAT
* * * *
21799323 AAGCGCCGCGAATATGTTTTAAGTGTTTGCAAAACGTTGTCGTTTTTAGCTGCGATTTTAGCTGC
1 AAACGCCGCGAATATGTTTTAAGTGTTTACAAAACATTGTCATTTTTAGCTGCGATTTTAGCTGC
21799388 GCTAGTGACGCTTTTGAT
66 GCTAGTGACGCTTTTGAT
21799406 AAACGCCGC
1 AAACGCCGC
21799415 AAATTTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (83 bp):
AAACGCCGCGAATATGTTTTAAGTGTTTACAAAACATTGTCATTTTTAGCTGCGATTTTAGCTGC
GCTAGTGACGCTTTTGAT
Found at i:21799513 original size:23 final size:23
Alignment explanation
Indices: 21799487--21799559 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
21799477 CCCACTCAAC
21799487 TTTCCCCGATTTCATTTCCCCAA
1 TTTCCCCGATTTCATTTCCCCAA
* *
21799510 TTT-CCC-AATTCCTTCTCCCCCAA
1 TTTCCCCGATTTCATT-T-CCCCAA
* *
21799533 TTTCCCTGATTTCATTTCCCCGA
1 TTTCCCCGATTTCATTTCCCCAA
21799556 TTTC
1 TTTC
21799560 TCAACTGACC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 6 0.15
22 4 0.10
23 21 0.52
24 3 0.08
25 6 0.15
ACGTcount: A:0.15, C:0.40, G:0.04, T:0.41
Consensus pattern (23 bp):
TTTCCCCGATTTCATTTCCCCAA
Found at i:21799636 original size:16 final size:16
Alignment explanation
Indices: 21799615--21799650 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21799605 CCGGCGGTCG
*
21799615 CTCTGTCACCCGCTTC
1 CTCTGTCACCCACTTC
*
21799631 CTCTGTCGCCCACTTC
1 CTCTGTCACCCACTTC
21799647 CTCT
1 CTCT
21799651 ATTTACGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.50, G:0.11, T:0.33
Consensus pattern (16 bp):
CTCTGTCACCCACTTC
Found at i:21803511 original size:39 final size:40
Alignment explanation
Indices: 21803387--21803516 Score: 106
Period size: 39 Copynumber: 3.2 Consensus size: 40
21803377 TTTAGATTTG
21803387 TTGT-AAAACGCCGCTGAAGAACGGTACTTTTAGCGACGT
1 TTGTGAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGT
* * ** * * * *
21803426 TTGTGAAAAAGGCACCGCTAAAGGTCATGTTC-TTTGGC-A-TT
1 TTGTG-AAAA--CGCCGCTGAAGAAC-GGTACTTTTAGCGACGT
*
21803467 TTTTGTAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGT
1 TTGTG-AAAACGCCGCTGAAGAACGGTACTTTTAGCGACGT
21803508 TTGTGAAAA
1 TTGTGAAAA
21803517 AGGCACCGCT
Statistics
Matches: 64, Mismatches: 19, Indels: 15
0.65 0.19 0.15
Matches are distributed among these distances:
38 3 0.05
39 19 0.30
40 5 0.08
41 18 0.28
42 1 0.02
43 15 0.23
44 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
TTGTGAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGT
Found at i:21803524 original size:82 final size:82
Alignment explanation
Indices: 21803382--21803542 Score: 313
Period size: 82 Copynumber: 2.0 Consensus size: 82
21803372 TATCATTTAG
21803382 ATTTGTTGTAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGTTTGTGAAAAAGGCACCGCTAA
1 ATTTGTTGTAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGTTTGTGAAAAAGGCACCGCTAA
21803447 AGGTCATGTTCTTTGGC
66 AGGTCATGTTCTTTGGC
*
21803464 ATTTTTTGTAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGTTTGTGAAAAAGGCACCGCTAA
1 ATTTGTTGTAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGTTTGTGAAAAAGGCACCGCTAA
21803529 AGGTCATGTTCTTT
66 AGGTCATGTTCTTT
21803543 AGCGGCGCTT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (82 bp):
ATTTGTTGTAAAACGCCGCTGAAGAACGGTACTTTTAGCGACGTTTGTGAAAAAGGCACCGCTAA
AGGTCATGTTCTTTGGC
Found at i:21803544 original size:43 final size:43
Alignment explanation
Indices: 21803415--21803546 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 43
21803405 GAACGGTACT
21803415 TTTAGCGACGTTTGTGAAAAAGGCACCGCTAAAGGTCATGTTC
1 TTTAGCGACGTTTGTGAAAAAGGCACCGCTAAAGGTCATGTTC
* * * * * * ** * *
21803458 TTTGGC-A-TTTTTTGTAAAA--CGCCGCTGAAGAAC-GGTAC
1 TTTAGCGACGTTTGTGAAAAAGGCACCGCTAAAGGTCATGTTC
21803496 TTTTAGCGACGTTTGTGAAAAAGGCACCGCTAAAGGTCATGTTC
1 -TTTAGCGACGTTTGTGAAAAAGGCACCGCTAAAGGTCATGTTC
21803540 TTTAGCG
1 TTTAGCG
21803547 GCGCTTCTCT
Statistics
Matches: 63, Mismatches: 20, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
38 3 0.05
39 15 0.24
40 1 0.02
41 18 0.29
42 1 0.02
43 22 0.35
44 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TTTAGCGACGTTTGTGAAAAAGGCACCGCTAAAGGTCATGTTC
Found at i:21813793 original size:55 final size:55
Alignment explanation
Indices: 21813709--21813820 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
21813699 AAAAACTGAT
21813709 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
1 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
21813764 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
1 CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
21813819 CA
1 CA
21813821 GATAATTCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (55 bp):
CATGCATTACTTTATAATGGTATATTTTGATCTTCTAGTGGGTAACATTATACAA
Found at i:21823361 original size:43 final size:43
Alignment explanation
Indices: 21823265--21823372 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 43
21823255 ATCTTATTAG
* *
21823265 AATATAATATCCCATAATAATATCCTATTAGAAATTAAATTACTAA
1 AATATAATAT-CC-T-ATAATATCCCATTAGAAATCAAATTACTAA
* * * * *
21823311 GAGATAATATCCTATAATATCCCATTAGGAATCCAATTGCTAA
1 AATATAATATCCTATAATATCCCATTAGAAATCAAATTACTAA
*
21823354 AATATAATATCCCATAATA
1 AATATAATATCCTATAATA
21823373 ATATTCTAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 41 0.79
44 1 0.02
45 2 0.04
46 8 0.15
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (43 bp):
AATATAATATCCTATAATATCCCATTAGAAATCAAATTACTAA
Found at i:21825940 original size:35 final size:34
Alignment explanation
Indices: 21825901--21825984 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 34
21825891 TCCATAGTCG
*
21825901 GTTATTTGACTAGCGCTAGGCGCAAAACATCGTC
1 GTTATTTGACTAGCGCTAGGCGCAAAACATCATC
* *
21825935 AGTTATCTGACTAGCGCTAGGTGCAAAACATCATC
1 -GTTATTTGACTAGCGCTAGGCGCAAAACATCATC
21825970 GATTCATTTGACTAG
1 G-TT-ATTTGACTAG
21825985 TGCTGGGCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 1 0.02
35 33 0.77
36 9 0.21
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (34 bp):
GTTATTTGACTAGCGCTAGGCGCAAAACATCATC
Found at i:21826085 original size:76 final size:75
Alignment explanation
Indices: 21825938--21826086 Score: 174
Period size: 76 Copynumber: 2.0 Consensus size: 75
21825928 CATCGTCAGT
* * *
21825938 TATCTGACTAGCGCTAGGTGCAAAACATCATCGATTCATTTGACTAGTGCTGGGCACATTATTAT
1 TATCTGACTAGCGCTAGGTG-AAAACATCATCAATTCATCTGACTAGTGCTAGGCACATTATTAT
21826003 AATTGTCGGTA
65 AATTGTCGGTA
* * * * * *
21826014 TATCTGACTAGCGCTGGGTG-AAACTTCTGTCAATTTATCTGACTAGTGCTAGGCGCATTCTCTA
1 TATCTGACTAGCGCTAGGTGAAAACATC-ATCAATTCATCTGACTAGTGCTAGGCACATTAT-TA
*
21826078 TATTTGTCG
64 TAATTGTCG
21826087 ATTCATACAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
74 6 0.10
75 26 0.43
76 29 0.48
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (75 bp):
TATCTGACTAGCGCTAGGTGAAAACATCATCAATTCATCTGACTAGTGCTAGGCACATTATTATA
ATTGTCGGTA
Found at i:21827242 original size:16 final size:16
Alignment explanation
Indices: 21827197--21827252 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
21827187 CGTTTCGTTC
21827197 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* **
21827213 GCTATAATTTAATAGA
1 GCTGTAATGGAATAGA
21827229 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
21827245 ACTGTAAT
1 GCTGTAAT
21827253 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:21827285 original size:45 final size:44
Alignment explanation
Indices: 21827234--21827326 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
21827224 ATAGAGCTGT
21827234 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
21827279 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
21827323 AATG
1 AATG
21827327 ATGTTATAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:21827522 original size:17 final size:18
Alignment explanation
Indices: 21827481--21827527 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
21827471 TTATTATTAA
21827481 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
21827499 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
*
21827517 AT-TAATATAAT
1 ATATAATTTAAT
21827528 TATTCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:21827544 original size:55 final size:54
Alignment explanation
Indices: 21827435--21827551 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 54
21827425 GATTATTAAT
* *
21827435 ATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTA
* * *
21827491 ATAAAAATATATAATTTAATAAAATTATTAATATAATTATTCTT-ATATGAATTTA
1 ATAAAAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTA
*
21827546 GTAAAA
1 ATAAAA
21827552 TCATAATATA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 4 0.08
55 29 0.55
56 20 0.38
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (54 bp):
ATAAAAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTA
Found at i:21850292 original size:9 final size:8
Alignment explanation
Indices: 21850277--21850301 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21850267 TAAAACTTAA
21850277 ATTTTTTT
1 ATTTTTTT
21850285 ATTTTTTT
1 ATTTTTTT
21850293 ATTTTTTT
1 ATTTTTTT
21850301 A
1 A
21850302 AATTACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (8 bp):
ATTTTTTT
Found at i:21854200 original size:26 final size:27
Alignment explanation
Indices: 21854144--21854334 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
21854134 GGATACAACA
21854144 ATCATTTTACCCTATGGGGGTATTTC-
1 ATCATTTTACCCTATGGGGGTATTTCG
*
21854170 AGTCATTTTACCATAT-GGGGTATTTCG
1 A-TCATTTTACCCTATGGGGGTATTTCG
* *
21854197 GTCATTCTA-CCTATGGGGGTA-TTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
21854222 ATCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
21854249 ATCATTTTACCCTATGGGAGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
21854276 ATCAATTTATCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * **
21854303 GTCATTCTACCCTATAAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
21854330 ATCAT
1 ATCAT
21854335 AATAGTGTAA
Statistics
Matches: 141, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
25 15 0.11
26 36 0.26
27 90 0.64
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTCG
Found at i:21860765 original size:17 final size:17
Alignment explanation
Indices: 21860743--21860775 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21860733 GCAAGGGTGT
21860743 TGGTGTGAGTAGATGCA
1 TGGTGTGAGTAGATGCA
21860760 TGGTGTGAGTAGATGC
1 TGGTGTGAGTAGATGC
21860776 GTGGGCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.42, T:0.30
Consensus pattern (17 bp):
TGGTGTGAGTAGATGCA
Found at i:21861394 original size:22 final size:19
Alignment explanation
Indices: 21861355--21861396 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
21861345 TGCAAAGTTG
21861355 ATAATAGTTAATATATATT
1 ATAATAGTTAATATATATT
21861374 ATAATAGATATAATTATATATT
1 ATAATAG-T-TAA-TATATATT
21861396 A
1 A
21861397 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 3 0.15
22 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATAATAGTTAATATATATT
Found at i:21870388 original size:20 final size:20
Alignment explanation
Indices: 21870363--21870400 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21870353 TCAAGGGAAT
21870363 AGTGGAAGAAAATGAAGAAC
1 AGTGGAAGAAAATGAAGAAC
**
21870383 AGTGGAAGGGAATGAAGA
1 AGTGGAAGAAAATGAAGA
21870401 GAGAAAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.37, T:0.11
Consensus pattern (20 bp):
AGTGGAAGAAAATGAAGAAC
Found at i:21873111 original size:31 final size:31
Alignment explanation
Indices: 21873052--21873114 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
21873042 TAAACAGGTT
***
21873052 AACTAAATCAAACTTCCATGGTCCCAAAAGC
1 AACTAAATCAAACTTCCACAATCCCAAAAGC
* *
21873083 AACTAAATCAATCTTCCACAATCTCAAAAGC
1 AACTAAATCAAACTTCCACAATCCCAAAAGC
21873114 A
1 A
21873115 TAAAATTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (31 bp):
AACTAAATCAAACTTCCACAATCCCAAAAGC
Found at i:21874309 original size:29 final size:30
Alignment explanation
Indices: 21874221--21874297 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
21874211 AAGTTTGTTA
*
21874221 TATGAGGACACCTTTGTGGCTATCTAATGT
1 TATGTGGACACCTTTGTGGCTATCTAATGT
*
21874251 TATGTGGACGCCTTTGTGGCTATCTAATGT
1 TATGTGGACACCTTTGTGGCTATCTAATGT
*
21874281 TAT-TGGACTCCTTTGTG
1 TATGTGGACACCTTTGTG
21874298 TTTATCTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 13 0.30
30 31 0.70
ACGTcount: A:0.18, C:0.17, G:0.25, T:0.40
Consensus pattern (30 bp):
TATGTGGACACCTTTGTGGCTATCTAATGT
Found at i:21880545 original size:58 final size:60
Alignment explanation
Indices: 21880483--21880599 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 60
21880473 ATCATTTTAA
* *
21880483 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGATGAAACTTAATATTAAATC
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATGAAACTTAATATTAAATC
* ** *
21880541 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATGAAACTTAATATTAAA
21880600 ATAGTCATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
58 20 0.40
60 1 0.02
61 29 0.58
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.40
Consensus pattern (60 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATGAAACTTAATATTAAATC
Found at i:21880685 original size:68 final size:70
Alignment explanation
Indices: 21880541--21880679 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 70
21880531 ATATTAAATC
** * *
21880541 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAAAATAGTC
1 TATTAAATTAATAGAATATCCATCTA-AAGATAAATATTAAAATAAATTTAATATTAAAATAG-C
*
21880606 ATTTTAA
64 ATTATAA
*
21880613 TATTAAATTAATAGAATA-CCAT-T-AAGATAAGTATTAAAATAAATTTAATATT-AAATA-CAT
1 TATTAAATTAATAGAATATCCATCTAAAGATAAATATTAAAATAAATTTAATATTAAAATAGCAT
*
21880673 TAAAA
66 TATAA
21880678 TA
1 TA
21880680 ATATTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
65 8 0.13
67 5 0.08
68 26 0.43
70 1 0.02
71 2 0.03
72 18 0.30
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (70 bp):
TATTAAATTAATAGAATATCCATCTAAAGATAAATATTAAAATAAATTTAATATTAAAATAGCAT
TATAA
Found at i:21885762 original size:29 final size:29
Alignment explanation
Indices: 21885701--21885765 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
21885691 ATTAGATAAC
* **
21885701 CACAAAGGCATCCTTATAACAGAGATCGC
1 CACAAAGGCATCCTTATAACAGAAATCAA
21885730 CACAAAGGCATCCTTATAACAGAAATCAA
1 CACAAAGGCATCCTTATAACAGAAATCAA
21885759 CACAAAG
1 CACAAAG
21885766 CTTTCTTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.45, C:0.26, G:0.14, T:0.15
Consensus pattern (29 bp):
CACAAAGGCATCCTTATAACAGAAATCAA
Found at i:21888189 original size:11 final size:11
Alignment explanation
Indices: 21888175--21888212 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
21888165 TATACTTTAA
21888175 TTAATATTGAT
1 TTAATATTGAT
*
21888186 TTAATATT-AA
1 TTAATATTGAT
*
21888196 TTAATCTTGAT
1 TTAATATTGAT
21888207 TTAATA
1 TTAATA
21888213 ATAACTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (11 bp):
TTAATATTGAT
Found at i:21888195 original size:21 final size:21
Alignment explanation
Indices: 21888171--21888212 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21888161 GTTTTATACT
21888171 TTAATTAATATTGATTTAATA
1 TTAATTAATATTGATTTAATA
*
21888192 TTAATTAATCTTGATTTAATA
1 TTAATTAATATTGATTTAATA
21888213 ATAACTCATT
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:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTAATATTGATTTAATA
Found at i:21899269 original size:36 final size:35
Alignment explanation
Indices: 21899200--21899276 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
21899190 GGGTTCTTTA
*
21899200 TTGTTTGTTATTTGTTTTTGAATGTGCTAGGTTCG
1 TTGTTTGTTATTTGTTTTTGAATGTGATAGGTTCG
* *
21899235 TTGTTTGTTATTTGTTTTTTGAA-GATGATGGGTTCT
1 TTGTTTGTTATTTG-TTTTTGAATG-TGATAGGTTCG
21899271 TTGTTT
1 TTGTTT
21899277 TGAAGATTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 15 0.41
36 22 0.59
ACGTcount: A:0.12, C:0.04, G:0.25, T:0.60
Consensus pattern (35 bp):
TTGTTTGTTATTTGTTTTTGAATGTGATAGGTTCG
Found at i:21899692 original size:30 final size:32
Alignment explanation
Indices: 21899633--21899692 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
21899623 GTCGTTAAGC
**
21899633 TCAGGTACCAATATAGTGGACGGAAAAAAAGT
1 TCAGGTACCAATATAGTGGACAAAAAAAAAGT
*
21899665 TCAGGTACCAATCT-G-GGACAAAAAAAAA
1 TCAGGTACCAATATAGTGGACAAAAAAAAA
21899693 CCATAAGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 1 0.04
32 13 0.52
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.17
Consensus pattern (32 bp):
TCAGGTACCAATATAGTGGACAAAAAAAAAGT
Found at i:21900741 original size:13 final size:13
Alignment explanation
Indices: 21900725--21900760 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
21900715 TTATTTAAGA
*
21900725 TTATCATTTCCTT
1 TTATTATTTCCTT
21900738 TTATTATTTCCTT
1 TTATTATTTCCTT
21900751 TTATTATTTC
1 TTATTATTTC
21900761 AATAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTATTTCCTT
Found at i:21908090 original size:25 final size:25
Alignment explanation
Indices: 21908056--21908111 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
21908046 GCTAACGATT
21908056 TCAGCTCTTATGAGCTTACCAATAC
1 TCAGCTCTTATGAGCTTACCAATAC
* *
21908081 TCAGCTCTTATGAGCTTACCATTAT
1 TCAGCTCTTATGAGCTTACCAATAC
21908106 TCAGCT
1 TCAGCT
21908112 TGGAGGAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (25 bp):
TCAGCTCTTATGAGCTTACCAATAC
Found at i:21911031 original size:15 final size:16
Alignment explanation
Indices: 21910990--21911033 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
21910980 ATTATCTCAA
21910990 ATTATGAATATGTGTGT
1 ATTATG-ATATGTGTGT
*
21911007 ATTGTGATATGTGTGT
1 ATTATGATATGTGTGT
21911023 A-TATGATATGT
1 ATTATGATATGT
21911034 AACCATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.36
16 11 0.44
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (16 bp):
ATTATGATATGTGTGT
Found at i:21916249 original size:7 final size:6
Alignment explanation
Indices: 21916195--21916222 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21916185 CCATTGAAAT
21916195 AAAAGG AAAAGG AAAAGG AAAAGG AAAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAA
21916223 ACGAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:21917128 original size:3 final size:3
Alignment explanation
Indices: 21917120--21917145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21917110 TGAAAATGAG
21917120 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
21917146 ACACACCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21943864 original size:10 final size:10
Alignment explanation
Indices: 21943849--21943873 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21943839 CAAATCTAAC
21943849 ATTATGTAAA
1 ATTATGTAAA
21943859 ATTATGTAAA
1 ATTATGTAAA
21943869 ATTAT
1 ATTAT
21943874 TAAGCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:21944036 original size:55 final size:56
Alignment explanation
Indices: 21943865--21944067 Score: 306
Period size: 56 Copynumber: 3.6 Consensus size: 56
21943855 TAAAATTATG
21943865 TAAAATTATTAAG-CCAAAAATATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
1 TAAAATTATTAAGTCC-AAAA-ATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
* **
21943922 TAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAA-TTATCAAA-ATATG
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATA-AAC
* *
21943977 TAAAATTATTAAG-CCAAAAATTGTATTAATGGTTAGTAAAATTTATGAAATAAAC
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
21944032 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
1 TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
21944068 CGGTTAGGGT
Statistics
Matches: 132, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
54 27 0.20
55 43 0.33
56 44 0.33
57 16 0.12
58 2 0.02
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (56 bp):
TAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTTATCAAATAAAC
Found at i:21944056 original size:110 final size:113
Alignment explanation
Indices: 21943856--21944067 Score: 376
Period size: 110 Copynumber: 1.9 Consensus size: 113
21943846 AACATTATGT
*
21943856 AAAATTATGTAAAATTATTAAGCCAAAAATATTGTGTTAATGGTTAGTAAAATTTATCAAATAAA
1 AAAATTATGTAAAATTATTAAGCCAAAAATATTGTATTAATGGTTAGTAAAATTTATCAAATAAA
*
21943921 CTAAAATTATTAAGTCCAGAAATTGTGTTAATGGTTAGTAAAATTATC
66 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
21943969 AAAA-TATGTAAAATTATTAAGCC-AAAA-ATTGTATTAATGGTTAGTAAAATTTATGAAATAAA
1 AAAATTATGTAAAATTATTAAGCCAAAAATATTGTATTAATGGTTAGTAAAATTTATCAAATAAA
21944031 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
66 CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTA
21944068 CGGTTAGGGT
Statistics
Matches: 96, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
110 69 0.72
111 4 0.04
112 19 0.20
113 4 0.04
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (113 bp):
AAAATTATGTAAAATTATTAAGCCAAAAATATTGTATTAATGGTTAGTAAAATTTATCAAATAAA
CTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:21944114 original size:29 final size:29
Alignment explanation
Indices: 21944069--21944164 Score: 156
Period size: 29 Copynumber: 3.3 Consensus size: 29
21944059 TAATGGTTAC
* *
21944069 GGTTAGGGTTAGAGTTTTTAGGTAATTTA
1 GGTTAGGGTTAGGGTTTTTAGTTAATTTA
*
21944098 GGTTAGGGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTAGGGTTTTTAGTTAATTTA
*
21944127 GGTTAGAGTTAGGGTTTTTAGTTAATTTA
1 GGTTAGGGTTAGGGTTTTTAGTTAATTTA
21944156 GGTTAGGGT
1 GGTTAGGGT
21944165 GCCCGTCCAC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTAGGGTTTTTAGTTAATTTA
Found at i:21944663 original size:22 final size:22
Alignment explanation
Indices: 21944638--21944688 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
21944628 AAATATGGGT
21944638 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
21944660 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
21944682 TTGAGAG
1 TTGAGAG
21944689 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:21950757 original size:18 final size:18
Alignment explanation
Indices: 21950734--21950771 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21950724 GATGATTGCT
21950734 TAAGTCCATATATGGATC
1 TAAGTCCATATATGGATC
21950752 TAAGTCCATATATGGATC
1 TAAGTCCATATATGGATC
21950770 TA
1 TA
21950772 TATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (18 bp):
TAAGTCCATATATGGATC
Found at i:21972443 original size:22 final size:22
Alignment explanation
Indices: 21972415--21972459 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21972405 GAACCCCAAC
*
21972415 TGAATTGTTTGAGGTGATTAGA
1 TGAATTGTTTGAGGAGATTAGA
21972437 TGAATTGTTTGAGGAGATTAGA
1 TGAATTGTTTGAGGAGATTAGA
21972459 T
1 T
21972460 AAACATGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (22 bp):
TGAATTGTTTGAGGAGATTAGA
Found at i:21973776 original size:27 final size:27
Alignment explanation
Indices: 21973712--21973770 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
21973702 CGCCACACAT
* *
21973712 GCTTTTCTTTCATGTTTTACCACAAAG
1 GCTTTTCTTTCATGATTCACCACAAAG
21973739 GCTTTTCTTTCATGATTCACCACAAAG
1 GCTTTTCTTTCATGATTCACCACAAAG
21973766 GCTTT
1 GCTTT
21973771 CATTTCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (27 bp):
GCTTTTCTTTCATGATTCACCACAAAG
Found at i:21975760 original size:21 final size:21
Alignment explanation
Indices: 21975730--21975771 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21975720 GATACCTGAT
* *
21975730 AAAAGGTATCGTTACTTTTTG
1 AAAAGATATCGATACTTTTTG
21975751 AAAAGATATCGATACTTTTTG
1 AAAAGATATCGATACTTTTTG
21975772 TCATTGTTTG
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:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
AAAAGATATCGATACTTTTTG
Found at i:21976362 original size:24 final size:24
Alignment explanation
Indices: 21976330--21976380 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
21976320 ACTACGTAGA
* *
21976330 CATAGAACCATTGTGTCTGAATTG
1 CATAAAACCATTGTGTCTAAATTG
21976354 CATAAAACCATTGTGTCTAAATTG
1 CATAAAACCATTGTGTCTAAATTG
21976378 CAT
1 CAT
21976381 TAACAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (24 bp):
CATAAAACCATTGTGTCTAAATTG
Found at i:21979345 original size:8 final size:9
Alignment explanation
Indices: 21979332--21979588 Score: 145
Period size: 8 Copynumber: 29.1 Consensus size: 9
21979322 GTCGATCTGT
21979332 TATGTT-TG
1 TATGTTATG
21979340 TATGTTATG
1 TATGTTATG
*
21979349 TATATTATTG
1 TATGTTA-TG
21979359 TTTATG-TATG
1 --TATGTTATG
* *
21979369 TCTATTATG
1 TATGTTATG
*
21979378 TCTGTTATG
1 TATGTTATG
* *
21979387 AATATTACTGTG
1 TATGTTA---TG
21979399 TATG-TATG
1 TATGTTATG
21979407 TATG-TATG
1 TATGTTATG
21979415 TATG-TATG
1 TATGTTATG
21979423 TATG-TATG
1 TATGTTATG
21979431 TATG-TATG
1 TATGTTATG
21979439 TATG-TATG
1 TATGTTATG
21979447 TATG-TATG
1 TATGTTATG
21979455 TATG-TATG
1 TATGTTATG
*
21979463 TATATTATTG
1 TATGTTA-TG
21979473 TTATG-TATG
1 -TATGTTATG
*
21979482 TATATTATG
1 TATGTTATG
21979491 TATGTTATG
1 TATGTTATG
* *
21979500 TATATTA-C
1 TATGTTATG
21979508 TAT-TTATG
1 TATGTTATG
*
21979516 TATG-TCTG
1 TATGTTATG
21979524 T-TAG-TATG
1 TAT-GTTATG
21979532 TTATG-TATG
1 -TATGTTATG
*
21979541 TATATTATG
1 TATGTTATG
21979550 TATGTTATG
1 TATGTTATG
* *
21979559 TTTATTACTG
1 TATGTTA-TG
21979569 TTTATG-TATG
1 --TATGTTATG
21979579 TATGTTATG
1 TATGTTATG
21979588 T
1 T
21979589 TTATTACTGT
Statistics
Matches: 202, Mismatches: 25, Indels: 43
0.75 0.09 0.16
Matches are distributed among these distances:
7 4 0.02
8 93 0.46
9 74 0.37
10 13 0.06
11 9 0.04
12 9 0.04
ACGTcount: A:0.24, C:0.02, G:0.19, T:0.54
Consensus pattern (9 bp):
TATGTTATG
Found at i:21979374 original size:20 final size:19
Alignment explanation
Indices: 21979340--21979592 Score: 177
Period size: 20 Copynumber: 13.2 Consensus size: 19
21979330 GTTATGTTTG
21979340 TATGTTATGTATATTATTGTT
1 TATG-TATGTATATTA-TGTT
* *
21979361 TATGTATGTCTATTATGTC
1 TATGTATGTATATTATGTT
* * *
21979380 TGT-TATGAATATTACTGTG
1 TATGTATGTATATTA-TGTT
*
21979399 TATGTATGTAT-GTATG--
1 TATGTATGTATATTATGTT
*
21979415 TATGTATGTAT-GTATGTAT
1 TATGTATGTATATTATGT-T
*
21979434 GTATGTATGTAT-GTATGTAT
1 -TATGTATGTATATTATGT-T
21979454 GTATGTATGTATATTAT-TGT
1 -TATGTATGTATATTATGT-T
21979474 TATGTATGTATATTATG--
1 TATGTATGTATATTATGTT
*
21979491 TATGTTATGTATATTACTATT
1 TATG-TATGTATATTA-TGTT
* * *
21979512 TATGTATGTCTGTTAGTATGT
1 TATGTATGTATATTA-TGT-T
21979533 TATGTATGTATATTATG--
1 TATGTATGTATATTATGTT
*
21979550 TATGTTATGTTTATTACTGTT
1 TATG-TATGTATATTA-TGTT
*
21979571 TATGTATGTATGTTATGTT
1 TATGTATGTATATTATGTT
21979590 TAT
1 TAT
21979593 TACTGTTTAA
Statistics
Matches: 194, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
16 16 0.08
17 8 0.04
18 32 0.16
19 38 0.20
20 71 0.37
21 29 0.15
ACGTcount: A:0.25, C:0.02, G:0.19, T:0.55
Consensus pattern (19 bp):
TATGTATGTATATTATGTT
Found at i:21979406 original size:4 final size:4
Alignment explanation
Indices: 21979397--21979588 Score: 164
Period size: 4 Copynumber: 46.8 Consensus size: 4
21979387 AATATTACTG
21979397 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
21979445 TGTA TGTA TGTA TGTA TGTA TATTA TTGTTA TGTA TGTA TATTA TGTA
1 TGTA TGTA TGTA TGTA TGTA T-GTA -TG-TA TGTA TGTA T-GTA TGTA
* * * *
21979493 TGTTA TGTA TAT- TACTA TTTA TGTA TGTC TGT- TAGTA TGTTA TGTA
1 TG-TA TGTA TGTA T-GTA TGTA TGTA TGTA TGTA T-GTA TG-TA TGTA
*
21979539 TGTA TATTA TGTA TGTTA TGT- T-TA T-TA CTGT- T-TA TGTA TGTA TGTTA
1 TGTA T-GTA TGTA TG-TA TGTA TGTA TGTA -TGTA TGTA TGTA TGTA TG-TA
21979586 TGT
1 TGT
21979589 TTATTACTGT
Statistics
Matches: 159, Mismatches: 11, Indels: 36
0.77 0.05 0.17
Matches are distributed among these distances:
2 2 0.01
3 8 0.05
4 117 0.74
5 29 0.18
6 3 0.02
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (4 bp):
TGTA
Found at i:21979572 original size:10 final size:9
Alignment explanation
Indices: 21979459--21979601 Score: 65
Period size: 9 Copynumber: 14.9 Consensus size: 9
21979449 TGTATGTATG
*
21979459 TATGTATAT
1 TATGTTTAT
21979468 TAT-TGTTAT
1 TATGT-TTAT
*
21979477 GTATGTATAT
1 -TATGTTTAT
* *
21979487 TATGTATGT
1 TATGTTTAT
*
21979496 TATGTATAT
1 TATGTTTAT
*
21979505 TACTATTTAT
1 TA-TGTTTAT
*
21979515 GTATGTCTGTTAG
1 -TATG--T-TTAT
21979528 TATG-TTAT
1 TATGTTTAT
*
21979536 GTATGTATAT
1 -TATGTTTAT
* *
21979546 TATGTATGT
1 TATGTTTAT
21979555 TATGTTTAT
1 TATGTTTAT
21979564 TACTGTTTAT
1 TA-TGTTTAT
* *
21979574 GTATGTATGT
1 -TATGTTTAT
21979584 TATGTTTAT
1 TATGTTTAT
21979593 TACTGTTTA
1 TA-TGTTTA
21979602 AAATATGTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
8 4 0.04
9 54 0.52
10 33 0.32
11 5 0.05
12 5 0.05
13 3 0.03
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (9 bp):
TATGTTTAT
Found at i:21979609 original size:59 final size:59
Alignment explanation
Indices: 21979360--21979613 Score: 193
Period size: 59 Copynumber: 4.4 Consensus size: 59
21979350 ATATTATTGT
** * * * * *
21979360 TTATGTATGTCTATTATGTCTGTTATGAATATTACTGTGTATGTATGTATG-TATGTAT-
1 TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGTATGTATGTTA-GTATA
* ** * * * * *
21979418 GTATGTATGT-ATGTATGTATG-TATGTAT-GTATGTATGTATGTATGTATATTA-T-TG
1 TTATGTATGTAAAATATGTATGTTATGTATATTA-CTATTTATGTATGTATGTTAGTATA
* * * *
21979473 TTATGTATGTATATTATGTATGTTATGTATATTACTATTTATGTATGTCTGTTAGTATG
1 TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGTATGTATGTTAGTATA
* * * * *
21979532 TTATGTATGTATATTATGTATGTTATGTTTATTACTGTTTATGTATGTATGTTATGTTTA
1 TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGTATGTATGTTA-GTATA
21979592 TTACTGT-T-TAAAATATGTATGT
1 TTA-TGTATGTAAAATATGTATGT
21979614 ATATTACAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
54 1 0.01
55 12 0.08
56 28 0.17
57 32 0.20
58 12 0.08
59 65 0.41
60 7 0.04
61 3 0.02
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.54
Consensus pattern (59 bp):
TTATGTATGTAAAATATGTATGTTATGTATATTACTATTTATGTATGTATGTTAGTATA
Found at i:21979615 original size:34 final size:30
Alignment explanation
Indices: 21979423--21979599 Score: 142
Period size: 29 Copynumber: 6.0 Consensus size: 30
21979413 TGTATGTATG
*
21979423 TATGTATGTATG-TATGTATGTATGTA-TGTATG
1 TATGTATGTATGTTATGT-T-TAT-TACTGT-TA
*
21979455 TATGTATGTATATTAT-TGTTATGTA-TG-TA
1 TATGTATGTATGTTATGT-TTAT-TACTGTTA
* *
21979484 TAT-TATGTATGTTATGTATATTACTATT-
1 TATGTATGTATGTTATGTTTATTACTGTTA
* *
21979512 TATGTATGTCTGTTAGTATGTTATGTA-TG-TA
1 TATGTATGTATGTTA-TGT-TTAT-TACTGTTA
21979543 TAT-TATGTATGTTATGTTTATTACTGTT-
1 TATGTATGTATGTTATGTTTATTACTGTTA
21979571 TATGTATGTATGTTATGTTTATTACTGTT
1 TATGTATGTATGTTATGTTTATTACTGTT
21979600 TAAAATATGT
Statistics
Matches: 121, Mismatches: 12, Indels: 27
0.76 0.08 0.17
Matches are distributed among these distances:
27 4 0.03
28 27 0.22
29 44 0.36
30 13 0.11
31 15 0.12
32 15 0.12
33 3 0.02
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.55
Consensus pattern (30 bp):
TATGTATGTATGTTATGTTTATTACTGTTA
Found at i:21987273 original size:14 final size:14
Alignment explanation
Indices: 21987254--21987284 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
21987244 TTCTTAGTCA
21987254 GTTCGGTTCACTTG
1 GTTCGGTTCACTTG
21987268 GTTCGGTTCACTTG
1 GTTCGGTTCACTTG
21987282 GTT
1 GTT
21987285 TATATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.29, T:0.45
Consensus pattern (14 bp):
GTTCGGTTCACTTG
Found at i:21989725 original size:26 final size:26
Alignment explanation
Indices: 21989689--21989740 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
21989679 AGGAGATAGG
21989689 ATCTCACTGGCATCCCATATCCACAT
1 ATCTCACTGGCATCCCATATCCACAT
21989715 ATCTCACTGGCATCCCATATCCACAT
1 ATCTCACTGGCATCCCATATCCACAT
21989741 GCTTTAGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.38, G:0.08, T:0.27
Consensus pattern (26 bp):
ATCTCACTGGCATCCCATATCCACAT
Found at i:21990749 original size:67 final size:67
Alignment explanation
Indices: 21990648--21990782 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
21990638 TGGAAAATTT
*
21990648 GATGGTTTGATTTTGTTAACATACTATGGATAATTAGATGGTTTGATTTTGTTGGATCATTTTGA
1 GATGGTTTGATTTTGTTAACATACTATAGATAATTAGATGGTTTGATTTTGTTGGATCATTTTGA
21990713 TG
66 TG
* * * *
21990715 GATGGTTTTATTTTGTTAACATACTGTAGATAATTTGATGGTTTTATTTTGTTGGATCATTTTGA
1 GATGGTTTGATTTTGTTAACATACTATAGATAATTAGATGGTTTGATTTTGTTGGATCATTTTGA
21990780 TG
66 TG
21990782 G
1 G
21990783 TTGTATTTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (67 bp):
GATGGTTTGATTTTGTTAACATACTATAGATAATTAGATGGTTTGATTTTGTTGGATCATTTTGA
TG
Found at i:21990759 original size:36 final size:34
Alignment explanation
Indices: 21990643--21990767 Score: 107
Period size: 36 Copynumber: 3.6 Consensus size: 34
21990633 ATTGATGGAA
21990643 AATTTGATGGTTTGATTTTGTTAACATACTATGGAT
1 AATTTGATGGTTTGATTTTGTTAACATACT-T-GAT
* *
21990679 AATTAGATGGTTTGATTTTGTTGGATCAT--TT--T
1 AATTTGATGGTTTGATTTTGTT--AACATACTTGAT
* * *
21990711 GA-TGGATGGTTTTATTTTGTTAACATACTGTAGAT
1 AATTTGATGGTTTGATTTTGTTAACATACT-T-GAT
*
21990746 AATTTGATGGTTTTATTTTGTT
1 AATTTGATGGTTTGATTTTGTT
21990768 GGATCATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
29 4 0.06
31 18 0.25
32 3 0.04
35 3 0.04
36 40 0.56
38 4 0.06
ACGTcount: A:0.24, C:0.04, G:0.21, T:0.51
Consensus pattern (34 bp):
AATTTGATGGTTTGATTTTGTTAACATACTTGAT
Found at i:21990792 original size:14 final size:13
Alignment explanation
Indices: 21990748--21990795 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
21990738 CTGTAGATAA
21990748 TTTGATGGTTTTAT
1 TTTGATGG-TTTAT
* * *
21990762 TTTGTTGGATCAT
1 TTTGATGGTTTAT
21990775 TTTGATGGTTGTAT
1 TTTGATGGTT-TAT
21990789 TTTGATG
1 TTTGATG
21990796 TACAGTTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.15, C:0.02, G:0.25, T:0.58
Consensus pattern (13 bp):
TTTGATGGTTTAT
Found at i:21991726 original size:48 final size:49
Alignment explanation
Indices: 21991623--21991730 Score: 141
Period size: 51 Copynumber: 2.2 Consensus size: 49
21991613 GGAAAAATGA
*
21991623 AAGA-GATGGCAGAGAAAAGGAAAGAGAAAGAGACAAGAATGAAAAATGTTG
1 AAGACGAT-GCAGAGAAAACGAAAGAGAAAGAGACAAG-A-GAAAAATGTTG
*
21991674 AAGACGATGCAGGGAAAACGAAAGAGAAAGTAG-CAAG-GAAAAATGTTG
1 AAGACGATGCAGAGAAAACGAAAGAGAAAG-AGACAAGAGAAAAATGTTG
21991722 AAGACGATG
1 AAGACGATG
21991731 GTGAAGAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
48 20 0.38
51 28 0.53
52 5 0.09
ACGTcount: A:0.52, C:0.06, G:0.31, T:0.10
Consensus pattern (49 bp):
AAGACGATGCAGAGAAAACGAAAGAGAAAGAGACAAGAGAAAAATGTTG
Found at i:21992195 original size:17 final size:18
Alignment explanation
Indices: 21992161--21992199 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
21992151 CGAATATCAC
*
21992161 ATAT-TTAAAATATAAAT
1 ATATATTAAAAAATAAAT
21992178 ATATATTAAAAAAT-AAT
1 ATATATTAAAAAATAAAT
21992195 ATATA
1 ATATA
21992200 ACAAATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATTAAAAAATAAAT
Found at i:22002008 original size:24 final size:24
Alignment explanation
Indices: 22001957--22002008 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22001947 AATCAAAGTC
* * *
22001957 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACG
*
22001981 AAATATATTATACTCATAAATACG
1 AAATATATTATACTAATAAATACG
22002005 AAAT
1 AAAT
22002009 CTTCTAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACG
Found at i:22002692 original size:17 final size:17
Alignment explanation
Indices: 22002670--22002704 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22002660 CTATAGAGAT
22002670 ATAATAAAATA-TTAAAA
1 ATAAT-AAATACTTAAAA
22002687 ATAATAAATACTTAAAA
1 ATAATAAATACTTAAAA
22002704 A
1 A
22002705 AAGAGACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATAAATACTTAAAA
Found at i:22010349 original size:11 final size:11
Alignment explanation
Indices: 22010329--22010372 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
22010319 AGATAAATGT
*
22010329 TATTTAATTAA
1 TATTTTATTAA
22010340 TATTTTATTAA
1 TATTTTATTAA
* *
22010351 GATTTTTATTAT
1 TA-TTTTATTAA
22010363 TATTTTATTA
1 TATTTTATTA
22010373 TTAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:22012751 original size:22 final size:23
Alignment explanation
Indices: 22012704--22012751 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
22012694 CATTCAATTA
**
22012704 AAAACCAACCAAAATCACTTTAC
1 AAAACCAACCAAAATCACAATAC
22012727 AAAA-CAACCAAAAATCACAAT-C
1 AAAACCAACC-AAAATCACAATAC
22012749 AAA
1 AAA
22012752 GCTTCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.12
Consensus pattern (23 bp):
AAAACCAACCAAAATCACAATAC
Found at i:22015525 original size:28 final size:30
Alignment explanation
Indices: 22015494--22015549 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
22015484 TATGTTAATT
22015494 AATTATAAAATATATT-ATTAT-TTATTCA
1 AATTATAAAATATATTAATTATATTATTCA
* **
22015522 AATTGTAATTTATATTAATTATATTATT
1 AATTATAAAATATATTAATTATATTATT
22015550 ATATTATGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 5 0.22
30 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTATAAAATATATTAATTATATTATTCA
Found at i:22015841 original size:23 final size:23
Alignment explanation
Indices: 22015809--22015852 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22015799 TAATTATCAT
*
22015809 TAAAATAATAAAGTAAA-TAAACA
1 TAAAAGAATAAAG-AAACTAAACA
22015832 TAAAAGAATAAAGAAACTAAA
1 TAAAAGAATAAAGAAACTAAA
22015853 AGAGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (23 bp):
TAAAAGAATAAAGAAACTAAACA
Found at i:22015854 original size:17 final size:18
Alignment explanation
Indices: 22015822--22015860 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22015812 AATAATAAAG
*
22015822 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
*
22015840 TAAAGAAAC-TAAAAGAG
1 TAAAGAAACATAAAAGAA
22015857 TAAA
1 TAAA
22015861 AAGAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:22016293 original size:22 final size:24
Alignment explanation
Indices: 22016265--22016308 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
22016255 TATGGCAAGA
22016265 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
22016287 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
22016309 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:22017744 original size:19 final size:19
Alignment explanation
Indices: 22017720--22017762 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
22017710 TCACAGGGCG
*
22017720 GTGTGACAGAGCCCAGGCT
1 GTGTGACAGAGCCCAGGCC
22017739 GTGTGACAGAGCCCAGGCC
1 GTGTGACAGAGCCCAGGCC
22017758 GTGTG
1 GTGTG
22017763 GCTCAGGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (19 bp):
GTGTGACAGAGCCCAGGCC
Found at i:22029455 original size:18 final size:18
Alignment explanation
Indices: 22029434--22029473 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22029424 GATTGAGAGT
* * *
22029434 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAAAA
22029452 GAAAAGAAAAGTGAAAAA
1 GAAAAGAAAAGTGAAAAA
22029470 GAAA
1 GAAA
22029474 TTGAAGAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAAAA
Found at i:22041677 original size:5 final size:5
Alignment explanation
Indices: 22041669--22041698 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
22041659 GTACAAAGTA
*
22041669 AAATA AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
22041699 CTAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:22042142 original size:23 final size:23
Alignment explanation
Indices: 22042116--22042164 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
22042106 AAAAGACTCA
22042116 AACGCAAAAATTAAGCAAAATAC
1 AACGCAAAAATTAAGCAAAATAC
*
22042139 AACGCGAAAATTAAGCAAAATAC
1 AACGCAAAAATTAAGCAAAATAC
22042162 AAC
1 AAC
22042165 AACAATTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.59, C:0.18, G:0.10, T:0.12
Consensus pattern (23 bp):
AACGCAAAAATTAAGCAAAATAC
Found at i:22042423 original size:44 final size:44
Alignment explanation
Indices: 22042360--22042506 Score: 269
Period size: 44 Copynumber: 3.4 Consensus size: 44
22042350 TGTAGGCTTT
*
22042360 CAAAAAATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
*
22042404 CAAAACATGCTCAAATCACCTAAACTCAAAACACTGAGTCATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
22042448 CAAAACATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
1 CAAAACATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
22042492 CAAAACATGCT-AAAT
1 CAAAACATGCTCAAAT
22042507 ATCTCTACTT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
43 4 0.04
44 96 0.96
ACGTcount: A:0.45, C:0.29, G:0.07, T:0.20
Consensus pattern (44 bp):
CAAAACATGCTCAAATCACCTAAACTCAAAATACTGAGTCATCC
Found at i:22042435 original size:26 final size:26
Alignment explanation
Indices: 22042404--22042478 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
22042394 TGAGTCATCC
22042404 CAAAACATGCTCAAATCACCTAAACT
1 CAAAACATGCTCAAATCACCTAAACT
* * *
22042430 CAAAACA--CT-GAGTCA--T---CC
1 CAAAACATGCTCAAATCACCTAAACT
22042448 CAAAACATGCTCAAATCACCTAAACT
1 CAAAACATGCTCAAATCACCTAAACT
22042474 CAAAA
1 CAAAA
22042479 TACTGAGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 16
0.61 0.11 0.28
Matches are distributed among these distances:
18 8 0.23
20 2 0.06
21 5 0.14
23 5 0.14
24 2 0.06
26 13 0.37
ACGTcount: A:0.47, C:0.31, G:0.05, T:0.17
Consensus pattern (26 bp):
CAAAACATGCTCAAATCACCTAAACT
Found at i:22042964 original size:14 final size:14
Alignment explanation
Indices: 22042945--22042978 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22042935 GTAGAGGACC
22042945 GGAGGTGGACCAGT
1 GGAGGTGGACCAGT
* *
22042959 GGAGGTGGATCGGT
1 GGAGGTGGACCAGT
22042973 GGAGGT
1 GGAGGT
22042979 AGCTTGATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.56, T:0.18
Consensus pattern (14 bp):
GGAGGTGGACCAGT
Found at i:22043078 original size:7 final size:7
Alignment explanation
Indices: 22043066--22043118 Score: 83
Period size: 7 Copynumber: 7.9 Consensus size: 7
22043056 GCAGTAAAAC
22043066 AAAACTT
1 AAAACTT
22043073 AAAACTT
1 AAAACTT
*
22043080 AAAACAT
1 AAAACTT
22043087 AAAA-TT
1 AAAACTT
22043093 AAAACTT
1 AAAACTT
22043100 AAAACTT
1 AAAACTT
22043107 AAAAC-T
1 AAAACTT
22043113 AAAACT
1 AAAACT
22043119 AAATGTAGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 11 0.26
7 31 0.74
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAACTT
Found at i:22043096 original size:20 final size:20
Alignment explanation
Indices: 22043060--22043118 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
22043050 TGTCGGGCAG
*
22043060 TAAAACA-AAACTTAAAACT
1 TAAAACATAAAATTAAAACT
22043079 TAAAACATAAAATTAAAACT
1 TAAAACATAAAATTAAAACT
* *
22043099 TAAAACTTAAAACTAAAACT
1 TAAAACATAAAATTAAAACT
22043119 AAATGTAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAACATAAAATTAAAACT
Found at i:22043097 original size:27 final size:26
Alignment explanation
Indices: 22043060--22043121 Score: 99
Period size: 27 Copynumber: 2.4 Consensus size: 26
22043050 TGTCGGGCAG
22043060 TAAAAC-AAAACTTAAAACTTAAAAC
1 TAAAACTAAAACTTAAAACTTAAAAC
*
22043085 ATAAAATTAAAACTTAAAACTTAAAAC
1 -TAAAACTAAAACTTAAAACTTAAAAC
22043112 TAAAACTAAA
1 TAAAACTAAA
22043122 TGTAGTGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.23
Consensus pattern (26 bp):
TAAAACTAAAACTTAAAACTTAAAAC
Found at i:22052873 original size:18 final size:18
Alignment explanation
Indices: 22052837--22052874 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22052827 TATTAATATA
*
22052837 ATTATTTAATATTACAAT
1 ATTATTTAATAATACAAT
22052855 ATTATTTTAATAATA-AAT
1 ATTA-TTTAATAATACAAT
22052873 AT
1 AT
22052875 ATAGATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTATTTAATAATACAAT
Found at i:22058552 original size:14 final size:14
Alignment explanation
Indices: 22058529--22058586 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
22058519 TCACAATTTG
22058529 ATTCTCAATTTGTT
1 ATTCTCAATTTGTT
* *
22058543 GTTCTGAATTTGTT
1 ATTCTCAATTTGTT
*
22058557 ATTCTCAA-TTGTCA
1 ATTCTCAATTTGT-T
*
22058571 ATTCTCAATTTATT
1 ATTCTCAATTTGTT
22058585 AT
1 AT
22058587 CCTAAATTCC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 4 0.11
14 28 0.80
15 3 0.09
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (14 bp):
ATTCTCAATTTGTT
Found at i:22058575 original size:28 final size:28
Alignment explanation
Indices: 22058544--22058610 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
22058534 CAATTTGTTG
* * * **
22058544 TTCTGAATTTGTTATTCTCAATTGTCAA
1 TTCTGAATTTATTATCCTAAATTCCCAA
*
22058572 TTCTCAATTTATTATCCTAAATTCCCAA
1 TTCTGAATTTATTATCCTAAATTCCCAA
22058600 TTCCTGAATTT
1 TT-CTGAATTT
22058611 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (28 bp):
TTCTGAATTTATTATCCTAAATTCCCAA
Found at i:22062663 original size:24 final size:24
Alignment explanation
Indices: 22062632--22062843 Score: 136
Period size: 24 Copynumber: 8.8 Consensus size: 24
22062622 CTATATAACA
22062632 GGAAGCTCACAAAGAGCCATATCG
1 GGAAGCTCACAAAGAGCCATATCG
22062656 GGAAGCTCACAAAGAG-CATATCG
1 GGAAGCTCACAAAGAGCCATATCG
* * * *
22062679 AGAAGCTTATC--AGGGCTATATAACG
1 GGAAGCTCA-CAAAGAGCCATAT--CG
*
22062704 GGAAGCTCA-TAAGAGCCATAAT-G
1 GGAAGCTCACAAAGAGCCAT-ATCG
* * *
22062727 AGGAAGTTCATAAAGAACCATATCG
1 -GGAAGCTCACAAAGAGCCATATCG
*
22062752 GGAAGCTCATAAAGAGCCATATAACG
1 GGAAGCTCACAAAGAGCCATAT--CG
* * *
22062778 GG-AGCTC-CGAATAACCATACATCG
1 GGAAGCTCACAAAGAGCCAT--ATCG
* **
22062802 GGAAGTTCA-AGCGAG-CACTATCG
1 GGAAGCTCACAAAGAGCCA-TATCG
22062825 GGAAGCTCACAAAGAGCCA
1 GGAAGCTCACAAAGAGCCA
22062844 ATTTAATAGG
Statistics
Matches: 143, Mismatches: 26, Indels: 37
0.69 0.13 0.18
Matches are distributed among these distances:
22 3 0.02
23 31 0.22
24 64 0.45
25 37 0.26
26 8 0.06
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
GGAAGCTCACAAAGAGCCATATCG
Found at i:22062796 original size:73 final size:74
Alignment explanation
Indices: 22062619--22062866 Score: 172
Period size: 73 Copynumber: 3.4 Consensus size: 74
22062609 ACCCTTTCTC
* * * * * * *
22062619 GAGCTATATAACAGGAAGCTCACAAAGAGCCAT--ATCGGGAAGCTCACAAAGAGCA-TATCGAG
1 GAGCCATATAACGGGAAGCTCA-GAAGAACCATACATCGGGAAGTTCA-AAAGACCACTATCGGG
*
22062681 AAGCTTATC--A
64 AAGCTCA-CAAA
* * * *
22062691 GGGCTATATAACGGGAAGCTCATAAGAGCCATA-AT-GAGGAAGTTCATAAAGAACCA-TATCGG
1 GAGCCATATAACGGGAAGCTCAGAAGAACCATACATCG-GGAAGTTCA-AAAG-ACCACTATCGG
*
22062753 GAAGCTCATAAA
63 GAAGCTCACAAA
* * ** *
22062765 GAGCCATATAACGGG-AGCTCCGAATAACCATACATCGGGAAGTTCAAGCGAGCACTATCGGGAA
1 GAGCCATATAACGGGAAGCTCAGAAGAACCATACATCGGGAAGTTCAAAAGACCACTATCGGGAA
22062829 GCTCACAAA
66 GCTCACAAA
* **
22062838 GAGCCAATTTAATAGGAAGCTCACGAAGA
1 GAGCC-ATATAACGGGAAGCTCA-GAAGA
22062867 GCCTATAATT
Statistics
Matches: 141, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
71 10 0.07
72 37 0.26
73 52 0.37
74 32 0.23
75 6 0.04
76 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (74 bp):
GAGCCATATAACGGGAAGCTCAGAAGAACCATACATCGGGAAGTTCAAAAGACCACTATCGGGAA
GCTCACAAA
Found at i:22067312 original size:23 final size:23
Alignment explanation
Indices: 22067286--22067332 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
22067276 TTATGCTAAC
22067286 GAATTACTTGATTATAATAAAAT
1 GAATTACTTGATTATAATAAAAT
* *
22067309 GAATTACTTTATTATACTAAAAT
1 GAATTACTTGATTATAATAAAAT
22067332 G
1 G
22067333 CCACTGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (23 bp):
GAATTACTTGATTATAATAAAAT
Found at i:22068504 original size:22 final size:22
Alignment explanation
Indices: 22068474--22068542 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
22068464 TATACACTAT
22068474 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
* *
22068496 TATATAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
* *
22068518 TAAACAGATAGCACTAATGTGC
1 TAAACAGAGAGCACTAAAGTGC
22068540 TAA
1 TAA
22068543 TAATTAGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 3 0.08
22 34 0.87
23 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:22083061 original size:14 final size:16
Alignment explanation
Indices: 22083042--22083081 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
22083032 CTCGAGTGTT
22083042 TTTATTTTTA-TTT-A
1 TTTATTTTTACTTTCA
22083056 TTTA-TTTTACTTTCA
1 TTTATTTTTACTTTCA
22083071 TATTATTTTTA
1 T-TTATTTTTA
22083082 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 2 0.09
16 3 0.14
17 5 0.23
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTTTACTTTCA
Found at i:22083632 original size:7 final size:7
Alignment explanation
Indices: 22083620--22083663 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
22083610 TTTCATTTAG
22083620 TTTTATA
1 TTTTATA
22083627 TTTTATTTA
1 TTTTA--TA
22083636 TTTTTATA
1 -TTTTATA
22083644 TTTTATA
1 TTTTATA
22083651 TTTTATA
1 TTTTATA
22083658 TTTTAT
1 TTTTAT
22083664 TTTGATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 25 0.74
8 2 0.06
9 2 0.06
10 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTATA
Found at i:22083634 original size:17 final size:16
Alignment explanation
Indices: 22083609--22083665 Score: 73
Period size: 17 Copynumber: 3.6 Consensus size: 16
22083599 AACCAAAGTG
*
22083609 ATTTCATTTAGTTTTAT
1 ATTTTATTTA-TTTTAT
22083626 ATTTTATTTATTTTTAT
1 ATTTTATTTA-TTTTAT
22083643 ATTTTA--TATTTTAT
1 ATTTTATTTATTTTAT
22083657 ATTTTATTT
1 ATTTTATTT
22083666 TGATTTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 12 0.33
15 2 0.06
16 1 0.03
17 21 0.58
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (16 bp):
ATTTTATTTATTTTAT
Found at i:22083641 original size:6 final size:6
Alignment explanation
Indices: 22083615--22083690 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 6
22083605 AGTGATTTCA
*
22083615 TTTAGT TTTATAT TTTA-- TTTATT TTTATAT TTTATAT TTTATAT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTAT-T TTTAT-T TTTAT-T TTTATT
* * * *
22083665 TTGATT TTGATT TTGATT TTGATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
22083691 GGTTTTGGTT
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.06
6 35 0.55
7 25 0.39
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (6 bp):
TTTATT
Found at i:22083691 original size:6 final size:6
Alignment explanation
Indices: 22083657--22083727 Score: 90
Period size: 6 Copynumber: 12.0 Consensus size: 6
22083647 TATATTTTAT
* *
22083657 ATTTT- ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG GTTTTG GTTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * *
22083704 GTTTTG GTTTTG GTTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG
22083728 TGTTTGTGTT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
5 5 0.08
6 58 0.92
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.68
Consensus pattern (6 bp):
ATTTTG
Found at i:22083733 original size:18 final size:18
Alignment explanation
Indices: 22083663--22083761 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
22083653 TTATATTTTA
*
22083663 TTTTGATTTTGAT-TTTGA
1 TTTTGATTTTG-TGTTTGG
22083681 TTTTGATTTTG-GTTTTGG
1 TTTTGATTTTGTG-TTTGG
*
22083699 TTTTGGTTTTG-GTTTTGG
1 TTTTGATTTTGTG-TTTGG
22083717 TTTTGATTTTGTGTTT-G
1 TTTTGATTTTGTGTTTGG
*
22083734 TGTTTG-TGTTTGTGTTTGC
1 T-TTTGAT-TTTGTGTTTGG
22083753 TTTTG-TTTT
1 TTTTGATTTT
22083762 TATTCATTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 13
0.81 0.05 0.15
Matches are distributed among these distances:
17 6 0.08
18 63 0.89
19 2 0.03
ACGTcount: A:0.05, C:0.01, G:0.25, T:0.69
Consensus pattern (18 bp):
TTTTGATTTTGTGTTTGG
Found at i:22083757 original size:6 final size:5
Alignment explanation
Indices: 22083658--22083761 Score: 64
Period size: 6 Copynumber: 17.8 Consensus size: 5
22083648 ATATTTTATA
*
22083658 TTTTA TTTTG ATTTTG ATTTTG ATTTTG ATTTTGG TTTTGG TTTTGG TTTTGG
1 TTTTG TTTTG -TTTTG -TTTTG -TTTTG -TTTT-G TTTT-G TTTT-G TTTT-G
22083711 TTTTGG TTTTG ATTTTG TGTTTG TGTTTG TGTTTG TGTTTG CTTTTG TTTT
1 TTTT-G TTTTG -TTTTG T-TTTG T-TTTG T-TTTG T-TTTG -TTTTG TTTT
22083762 TATTCATTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
5 10 0.11
6 81 0.87
7 2 0.02
ACGTcount: A:0.06, C:0.01, G:0.24, T:0.69
Consensus pattern (5 bp):
TTTTG
Found at i:22084736 original size:15 final size:13
Alignment explanation
Indices: 22084717--22084749 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
22084707 TTGAAAAAAT
22084717 TAAAAAAAGAGAAA
1 TAAAAAAAG-GAAA
22084731 TAAAAAAAGGAAA
1 TAAAAAAAGGAAA
22084744 -AAAAAA
1 TAAAAAA
22084750 GAAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 4 0.21
14 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (13 bp):
TAAAAAAAGGAAA
Found at i:22084744 original size:23 final size:24
Alignment explanation
Indices: 22084718--22084762 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
22084708 TGAAAAAATT
* *
22084718 AAAAAAAGAGAAATAA-AAAAAGG
1 AAAAAAAAAGAAAAAAGAAAAAGG
22084741 AAAAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAGAAAAAAGAAAAA
22084763 ATATATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAAGAAAAAGG
Found at i:22088127 original size:25 final size:25
Alignment explanation
Indices: 22088093--22088140 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
22088083 GCAGCATTGT
*
22088093 CCTAGATCTCAGCTACTTCCTGCTA
1 CCTAGATCTCAGCTACCTCCTGCTA
22088118 CCTAGATCTCAGCTACCTCCTGC
1 CCTAGATCTCAGCTACCTCCTGC
22088141 AGTTGCTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.19, C:0.40, G:0.12, T:0.29
Consensus pattern (25 bp):
CCTAGATCTCAGCTACCTCCTGCTA
Found at i:22091524 original size:10 final size:9
Alignment explanation
Indices: 22091511--22091566 Score: 51
Period size: 10 Copynumber: 6.0 Consensus size: 9
22091501 TTTACCCTTT
22091511 TTTATTTTAA
1 TTTATTTT-A
*
22091521 TTTAATTTA
1 TTTATTTTA
22091530 TTTATTATTA
1 TTTATT-TTA
*
22091540 TTTATTATA
1 TTTATTTTA
*
22091549 -TTATTTATT
1 TTTATTT-TA
22091558 TTTATTTTA
1 TTTATTTTA
22091567 CTAATCTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
8 5 0.14
9 10 0.27
10 22 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTATTTTA
Found at i:22091576 original size:23 final size:22
Alignment explanation
Indices: 22091509--22091593 Score: 91
Period size: 23 Copynumber: 3.6 Consensus size: 22
22091499 CTTTTACCCT
22091509 TTTTTATTTTAATTTAATTTATTTA
1 TTTTTATTTT-A-TTAA-TTATTTA
*
22091534 TTATTA-TTTATTATATTATTTA
1 TTTTTATTTTATTA-ATTATTTA
*
22091556 TTTTTATTTTACTAATCTATTTA
1 TTTTTATTTTATTAAT-TATTTA
22091579 TTTTTATTTTTATTA
1 TTTTTA-TTTTATTA
22091594 CTCTTATACT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
22 17 0.33
23 20 0.38
24 10 0.19
25 5 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTATTTTATTAATTATTTA
Found at i:22097176 original size:60 final size:60
Alignment explanation
Indices: 22097083--22097203 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
22097073 TGTCAGCAGG
*
22097083 TGTAGTAGCTTGGGCCACATCAGCTTCATCCTTATTAGATTCAACATGTACAAATTCGGT
1 TGTAGTAGCTTGAGCCACATCAGCTTCATCCTTATTAGATTCAACATGTACAAATTCGGT
*
22097143 TGTAGTAGCTTGAGTCACATCAGCTTCATCCTTATTAGATTCAACATGTACAAATTCGGT
1 TGTAGTAGCTTGAGCCACATCAGCTTCATCCTTATTAGATTCAACATGTACAAATTCGGT
22097203 T
1 T
22097204 TTCTCCACTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (60 bp):
TGTAGTAGCTTGAGCCACATCAGCTTCATCCTTATTAGATTCAACATGTACAAATTCGGT
Found at i:22104203 original size:13 final size:14
Alignment explanation
Indices: 22104135--22104196 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 14
22104125 GCACCAACAA
*
22104135 AAAAAAATCCAAA-
1 AAAAAAATCAAAAT
22104148 AAAAAAATCAAAA-
1 AAAAAAATCAAAAT
* ** * *
22104161 CAACTAATTAAGAT
1 AAAAAAATCAAAAT
22104175 AAAAAAATCAAAAT
1 AAAAAAATCAAAAT
22104189 AAAAAAAT
1 AAAAAAAT
22104197 ATAATAACAT
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
13 20 0.54
14 17 0.46
ACGTcount: A:0.74, C:0.10, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAAAAATCAAAAT
Found at i:22110790 original size:252 final size:252
Alignment explanation
Indices: 22110303--22110795 Score: 675
Period size: 252 Copynumber: 2.0 Consensus size: 252
22110293 AATGAGGCAT
**
22110303 ATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCTGCCAAGCCAAAATATCCTCGTTTTCCTCT
1 ATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCCACCAAGCCAAAATATCCTCGTTTTCCTCT
*
22110368 CCTTGGCAAGCTCAAACAAGCTTTTGGCTATGGGATCATGGGACAATCCCTCTCGAATGCACTCC
66 CCTTGGCAAGCTCAAACAAGCTTTTGGCTATGGGATCATGGGACAATCCCTCTCAAATGCACTCC
* * * *
22110433 AATAAGGAACCATCAGGTTGGTTGATTGTCACAAATTCCATCTTTCGGTTAAGGGCATCCACCAC
131 AATAAGGAACCATCAGCTTGGTTGATTGCCACAAATTCCATCTTTCGGCTAAGGGCATCCACCAA
* *
22110498 AATGTAGGCACTCCCTAGCTTATATGCCATTTTAAAATCAAACTCATAATAAGACAC
196 AATGTAGGCACTCCCTAGATTATATGCCATTGTAAAATCAAACTCATAATAAGACAC
* * * * **
22110555 ATAGAGGCGGTGCCCATGAGTGTATAGCAATTCCCCATCAAGCCAAAATCTCTTC-TTTTTTTCC
1 ATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCCACCAAGCCAAAATATCCTCGTTTTCCT-C
** * *
22110619 TCCTTGGCAAGCTCAATTAAGCTTTTGGCTGTGGGATCATGGGACAATCCCTCTCAAATGCGCTC
65 TCCTTGGCAAGCTCAAACAAGCTTTTGGCTATGGGATCATGGGACAATCCCTCTCAAATGCACTC
* * * * * * *
22110684 TAATAAGGAACCATCAGCTTGGTTGATTGCCGCAAATTCCATTTTTTGGCTATGTGCATCCTCCA
130 CAATAAGGAACCATCAGCTTGGTTGATTGCCACAAATTCCATCTTTCGGCTAAGGGCATCCACCA
* * * * *
22110749 AAATGTTGGCATTCCTTGGATTATACT-CCATTGTGAAATCAAACTCA
195 AAATGTAGGCACTCCCTAGATTATA-TGCCATTGTAAAATCAAACTCA
22110796 GCTAGAAAAA
Statistics
Matches: 208, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
251 5 0.02
252 202 0.97
253 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (252 bp):
ATAGAGGCGATGCCCATGAGTGTATAGCAATTCCCCACCAAGCCAAAATATCCTCGTTTTCCTCT
CCTTGGCAAGCTCAAACAAGCTTTTGGCTATGGGATCATGGGACAATCCCTCTCAAATGCACTCC
AATAAGGAACCATCAGCTTGGTTGATTGCCACAAATTCCATCTTTCGGCTAAGGGCATCCACCAA
AATGTAGGCACTCCCTAGATTATATGCCATTGTAAAATCAAACTCATAATAAGACAC
Found at i:22114240 original size:48 final size:48
Alignment explanation
Indices: 22114171--22114377 Score: 245
Period size: 48 Copynumber: 4.3 Consensus size: 48
22114161 TCAGAATAAA
* * * * * *
22114171 AACAGATTTCTCGGTGGCCTGCACATAGTCCGTACCACCTTTGTGTAAT
1 AACAGA-TTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
* * *
22114220 AACAGATTCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
* * * * *
22114268 AACAGGTTATTGATGGCCTGCACACAGTCCGTGCCATCCTTATATCAT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
* *
22114316 AACA-AATATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCAT
1 AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
*
22114363 AACAGAATATCGGTG
1 AACAGATTATCGGTG
22114378 CGCATAGTAG
Statistics
Matches: 137, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
47 40 0.29
48 91 0.66
49 6 0.04
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
AACAGATTATCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCAT
Found at i:22114349 original size:95 final size:96
Alignment explanation
Indices: 22114185--22114367 Score: 253
Period size: 95 Copynumber: 1.9 Consensus size: 96
22114175 GATTTCTCGG
* * * * * *
22114185 TGGCCTGCACATAGTCCGTACCACCTTTGTGTAATAACAGATTCTCGGTGGCCTGCACATAGTCC
1 TGGCCTGCACACAGTCCGTACCACCTTTATATAATAACAGAATATCGGTGGCCTGCACACAGTCC
*
22114250 GTGCCACCCTTGTATCTTAACAGGTTATTGA
66 GTGCCACCCTTGTATCATAACAGGTTATTGA
* *
22114281 TGGCCTGCACACAGTCCGTGCCATCC-TTATATCATAACA-AATATCGGTGGCCTGCACACAGTC
1 TGGCCTGCACACAGTCCGTACCA-CCTTTATATAATAACAGAATATCGGTGGCCTGCACACAGTC
*
22114344 CGTGCCACCCTTGTGTCATAACAG
65 CGTGCCACCCTTGTATCATAACAG
22114368 AATATCGGTG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
95 43 0.57
96 31 0.41
97 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (96 bp):
TGGCCTGCACACAGTCCGTACCACCTTTATATAATAACAGAATATCGGTGGCCTGCACACAGTCC
GTGCCACCCTTGTATCATAACAGGTTATTGA
Found at i:22119770 original size:21 final size:21
Alignment explanation
Indices: 22119745--22119788 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
22119735 TCCTTATAAA
*
22119745 CCGAACATTAAGGCTAAAATT
1 CCGAACACTAAGGCTAAAATT
22119766 CCGAACACTAAGGCTAAAATT
1 CCGAACACTAAGGCTAAAATT
22119787 CC
1 CC
22119789 TAAAATACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (21 bp):
CCGAACACTAAGGCTAAAATT
Found at i:22121216 original size:57 final size:56
Alignment explanation
Indices: 22121155--22121267 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
22121145 AAGGATGGAG
22121155 AAAAAAAAGGTTGGGGGTGAGCCGTGACCGGTTTGGTCGCAGTCAGGCGGCACCAGC
1 AAAAAAAAGGTT-GGGGTGAGCCGTGACCGGTTTGGTCGCAGTCAGGCGGCACCAGC
22121212 AAAAAAAAGGTTGGGGTGAGCCGTGACCGGTTTGGTCGCAGTCAGGCGGCACCAGC
1 AAAAAAAAGGTTGGGGTGAGCCGTGACCGGTTTGGTCGCAGTCAGGCGGCACCAGC
22121268 CTGACATCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 44 0.79
57 12 0.21
ACGTcount: A:0.25, C:0.21, G:0.38, T:0.16
Consensus pattern (56 bp):
AAAAAAAAGGTTGGGGTGAGCCGTGACCGGTTTGGTCGCAGTCAGGCGGCACCAGC
Found at i:22129866 original size:98 final size:98
Alignment explanation
Indices: 22129696--22129988 Score: 523
Period size: 98 Copynumber: 3.0 Consensus size: 98
22129686 TACAATAAAA
*
22129696 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
22129761 CTTTAGAATCTCAAACTCGGAATATTTCCTTTT
66 CTTTAGAATCTCAAACTCGGAATATTTCCTTTT
*
22129794 CTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* *
22129859 CTCTAGAATCTTAAACTCGGAATATTTCCTTTT
66 CTTTAGAATCTCAAACTCGGAATATTTCCTTTT
*
22129892 CTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
1 CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
* *
22129957 CTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CTTTAGAATCTCAAACTCGGAATATTTCCTTT
22129989 ATTATTTTAA
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 185 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (98 bp):
CTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTC
CTTTAGAATCTCAAACTCGGAATATTTCCTTTT
Found at i:22130279 original size:9 final size:9
Alignment explanation
Indices: 22130265--22130289 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22130255 TGAAAATGCT
22130265 ATAATAACA
1 ATAATAACA
22130274 ATAATAACA
1 ATAATAACA
22130283 ATAATAA
1 ATAATAA
22130290 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:22131360 original size:19 final size:19
Alignment explanation
Indices: 22131336--22131467 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
22131326 AATCATATAT
22131336 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
22131355 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
22131374 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22131393 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
22131414 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
22131433 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22131452 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
22131468 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22131420 original size:59 final size:59
Alignment explanation
Indices: 22131329--22131466 Score: 221
Period size: 59 Copynumber: 2.4 Consensus size: 59
22131319 ATTACAAAAT
*
22131329 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
22131384 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
22131443 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
22131467 CCTCAAAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.14
59 58 0.76
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:22134721 original size:25 final size:25
Alignment explanation
Indices: 22134688--22134735 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
22134678 AATTTAGCCA
* * * *
22134688 TTTTTATTTTATTTTTATATTTTTG
1 TTTTAATTTAATTTCTACATTTTTG
22134713 TTTTAATTTAATTTCTACATTTT
1 TTTTAATTTAATTTCTACATTTT
22134736 AAATTTTCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTAATTTAATTTCTACATTTTTG
Found at i:22138619 original size:21 final size:21
Alignment explanation
Indices: 22138594--22138645 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
22138584 TTGGTTGTTT
22138594 TTCATATTATTCT-TATTTTTA
1 TTCATATTATTCTGTA-TTTTA
*
22138615 TTCATTTTA-TCTGTATTTTA
1 TTCATATTATTCTGTATTTTA
22138635 TT-ATGATTATT
1 TTCAT-ATTATT
22138646 ATATCGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 11 0.42
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (21 bp):
TTCATATTATTCTGTATTTTA
Found at i:22140927 original size:45 final size:45
Alignment explanation
Indices: 22140871--22140965 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
22140861 TACTATGTGA
* *
22140871 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
22140916 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
22140961 ACCGA
1 ACCGA
22140966 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:22153561 original size:48 final size:48
Alignment explanation
Indices: 22153493--22153588 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
22153483 CAAATTTACC
* *
22153493 AATCCTAATTGTAATCCCAAGTTGACTAATGCAGAGTTGCAGACAAAT
1 AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
*
22153541 AATCCTAACTGTAATTCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
1 AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
22153589 TTATTTTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (48 bp):
AATCCTAACTGTAATCCCAAGTTGACCAATGCAGAGTTGCAGACAAAT
Found at i:22160204 original size:40 final size:40
Alignment explanation
Indices: 22160127--22160201 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
22160117 TGAAAGTGCT
* *
22160127 TATATAAATATCATAATTAACCACTCTTTTGAAAAATCTA
1 TATATAAATATCACAATTAACCACTCTTTTAAAAAATCTA
* * *
22160167 TATATACATATCGCAATTAATCACT-TTTTAAAAAA
1 TATATAAATATCACAATTAACCACTCTTTTAAAAAA
22160202 ATCAATTTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
39 9 0.30
40 21 0.70
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (40 bp):
TATATAAATATCACAATTAACCACTCTTTTAAAAAATCTA
Found at i:22160648 original size:39 final size:40
Alignment explanation
Indices: 22160527--22160654 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
22160517 ATAAAAAACA
**
22160527 CCGCTAAAAATCAATCATTAGCGGCGCTTTT-AGAAAAGCG
1 CCGCTAAAAATCAAGAATTAGCGGCGCTTTTCA-AAAAGCG
* * **
22160567 CCGCTAAAGATCAAGTATTCTCGGCGCTTTTCTAAAAA-CG
1 CCGCTAAAAATCAAGAATTAGCGGCGCTTTTC-AAAAAGCG
*
22160607 CCGCTAAAAAT-GAGAATTAGCGGCG-TTTTCCAAAAAGCG
1 CCGCTAAAAATCAAGAATTAGCGGCGCTTTT-CAAAAAGCG
22160646 CCGC-AAAAA
1 CCGCTAAAAA
22160655 CCGAAGCCCA
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
38 14 0.19
39 17 0.23
40 38 0.51
41 4 0.05
42 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (40 bp):
CCGCTAAAAATCAAGAATTAGCGGCGCTTTTCAAAAAGCG
Found at i:22160912 original size:41 final size:41
Alignment explanation
Indices: 22160685--22160909 Score: 355
Period size: 41 Copynumber: 5.5 Consensus size: 41
22160675 TTTTGTTAGT
* * *
22160685 TTGGGACTTTAGCGGCGTTT-TCCAAAAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTCT-GAAGAAGCGCCGCTAATGC
22160726 TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
22160767 TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
*
22160808 TTGGGTCTTTAGCGGCGCTTCTGAAGAAGCGCCGCTAATGC
1 TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
* *
22160849 TTAGGTCTTTAGCGGCGCTTT-TGAAGAAGCGCCGCTAATTC
1 TTGGGTCTTTAGCGGCG-TTTCTGAAGAAGCGCCGCTAATGC
*
22160890 TTGGGTCTTTAGCGTCGTTT
1 TTGGGTCTTTAGCGGCGTTT
22160910 TTGGAAANNN
Statistics
Matches: 173, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
40 3 0.02
41 167 0.97
42 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (41 bp):
TTGGGTCTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATGC
Found at i:22165312 original size:23 final size:22
Alignment explanation
Indices: 22165269--22165312 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
22165259 CTTTTCTTTT
22165269 TTTATTTTATATCAATGGCCAG
1 TTTATTTTATATCAATGGCCAG
* *
22165291 TTTATTATTTTATCAATTGCCA
1 TTTATT-TTATATCAATGGCCA
22165313 ATCAAACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTATTTTATATCAATGGCCAG
Found at i:22166815 original size:6 final size:6
Alignment explanation
Indices: 22166804--22166829 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
22166794 AACATAATAT
22166804 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
22166830 CATTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:22167105 original size:43 final size:43
Alignment explanation
Indices: 22167048--22167316 Score: 385
Period size: 43 Copynumber: 6.3 Consensus size: 43
22167038 GTCAAATTTA
* * * *
22167048 TAGCGGCGTTTGTAATAGAAGCGCCGCTAAAGGTCCTAGTTTT
1 TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
* * * *
22167091 TAGCGGCGTCTGTAAGAAAAGCGCTGCTAAAGGTATTGGTCTT
1 TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
* *
22167134 TAGCGGCGTTTGTGAGAGAAGCGCCGCTAAAGGTATTGGTCTT
1 TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
* * *
22167177 TAGCAGCGTTCGTGAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
*
22167220 TAGCGGCGTTTGTAGGAGAAGCGCCGCTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
** *
22167263 TAGCGGCGTTTGTGGGAGAAGCGCCACTAAAGGTCTTGGTCTT
1 TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
22167306 TAGCGGCGTTT
1 TAGCGGCGTTT
22167317 TTTTCTATAA
Statistics
Matches: 205, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTAAGAGAAGCGCCGCTAAAGGTCTTGGTCTT
Found at i:22168952 original size:96 final size:95
Alignment explanation
Indices: 22168698--22168965 Score: 292
Period size: 95 Copynumber: 2.8 Consensus size: 95
22168688 GTTTGTCAAT
* * * * * *
22168698 TAAATTAATTATAAATTTTT-CAAAATTGGATTAGGTTTCGTGTTTATTGTTTTTTAAGAAAAAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTA-GGGTTTTTAAGAAAGAA
* *
22168762 TCAATTAAATTAGGGTTTAAGGTTACTTGAG
65 TCAAATAAATTAGGGTTCAAGGTTACTTGAG
* ** * * *
22168793 TAATTTAA-T-T-AATTTAAAAAAAAAATTAGATTAAGGTTTAGAGTTAAGGGTTTTTAAGGAAG
1 TAAATTAATTATAAATTT--TTAAAAAATTAGATT-AGGTTTAGTGTTTAGGGTTTTTAAGAAAG
* *
22168855 AATTAAATAAATTAGGGTTCAGGGTTACTTGAG
63 AATCAAATAAATTAGGGTTCAAGGTTACTTGAG
* *
22168888 TAAATTAATTATAAATTTTTATAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGTAAGAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATTA-GGTTTAGTGTTTAGGGTTTTTAAGAAAGAA
22168953 CTCAAATAAATTA
65 -TCAAATAAATTA
22168966 ATGTTTGGGG
Statistics
Matches: 140, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
92 5 0.04
93 1 0.01
94 1 0.01
95 65 0.46
96 51 0.36
97 12 0.09
98 5 0.04
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.41
Consensus pattern (95 bp):
TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTAGGGTTTTTAAGAAAGAAT
CAAATAAATTAGGGTTCAAGGTTACTTGAG
Found at i:22169240 original size:126 final size:126
Alignment explanation
Indices: 22169010--22169426 Score: 708
Period size: 126 Copynumber: 3.3 Consensus size: 126
22169000 TTGTTAATTT
* * *
22169010 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCCTGAAAAAATAGTTTCAAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* *
22169075 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGTAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
22169136 AAAGAAGCTCGCACGTGGACGCGCTTTTGCTACAGTAACTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
22169201 GTTTCTGAGCAAATGGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
22169262 AAAGAAGCTCCCACGCGGACGTGCTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
22169327 GATTCTGAGAAAATAGTGTCAAAAACGCTTTAAACAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
22169388 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
22169427 GCATGTTTGG
Statistics
Matches: 272, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 272 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Done.