Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 15 of 770
Found at i:3891433 original size:20 final size:18
Alignment explanation
Indices: 3891313--3891434 Score: 77
Period size: 19 Copynumber: 6.4 Consensus size: 18
3891303 CAAATTTTAT
3891313 ATTTTTATAATTTTCTTACA
1 ATTTTTATAA-TTT-TTACA
*
3891333 ATTTTATAAAATTTTATA-A
1 ATTTT-TATAATTTT-TACA
* * *
3891352 ATTTTTCTATATTTCTA-T
1 ATTTTTATA-ATTTTTACA
3891370 ATATTTTATAATTTTTACA
1 AT-TTTTATAATTTTTACA
* *
3891389 ATTTTTTTAAAATTTTACA
1 ATTTTTAT-AATTTTTACA
*
3891408 ATTTTTTCTAATTTTTAACA
1 A-TTTTTATAATTTTT-ACA
*
3891428 ACTTTTA
1 ATTTTTA
3891435 AATATTTTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
18 17 0.21
19 39 0.49
20 20 0.25
21 4 0.05
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTATAATTTTTACA
Found at i:3898403 original size:21 final size:21
Alignment explanation
Indices: 3898374--3898413 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3898364 TGATATCATC
* *
3898374 ATTTAAAAAACTTAAAAAAGT
1 ATTTAAAAAAATAAAAAAAGT
*
3898395 ATTTTAAAAAATAAAAAAA
1 ATTTAAAAAAATAAAAAAA
3898414 TTATAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTTAAAAAAATAAAAAAAGT
Found at i:3898507 original size:9 final size:10
Alignment explanation
Indices: 3898493--3898517 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3898483 AAAATTTTTT
3898493 TAAAAAGCTA
1 TAAAAAGCTA
3898503 TAAAAAGCTA
1 TAAAAAGCTA
3898513 TAAAA
1 TAAAA
3898518 TATTAGAAAG
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:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (10 bp):
TAAAAAGCTA
Found at i:3899134 original size:34 final size:34
Alignment explanation
Indices: 3899096--3899176 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
3899086 ATAGTATTTA
* *
3899096 ATTATGCTTTTAACAAAACAATACGGTAGCAATC
1 ATTATGCTTATAACAAAACAATACAGTAGCAATC
** *
3899130 ATTATGCTTATAACAATTCAATACAGTAGCAATT
1 ATTATGCTTATAACAAAACAATACAGTAGCAATC
* *
3899164 AATACGCTTATAA
1 ATTATGCTTATAA
3899177 TAGTTCAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (34 bp):
ATTATGCTTATAACAAAACAATACAGTAGCAATC
Found at i:3899184 original size:34 final size:34
Alignment explanation
Indices: 3899114--3899195 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
3899104 TTTAACAAAA
* * *
3899114 CAATACGGTAGCAATCATTATGCTTATAACAATT
1 CAATACAGTAGCAATCAATACGCTTATAACAATT
* * *
3899148 CAATACAGTAGCAATTAATACGCTTATAATAGTT
1 CAATACAGTAGCAATCAATACGCTTATAACAATT
3899182 CAACT-CAGTAGCAA
1 CAA-TACAGTAGCAA
3899196 AAGTCATGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 40 0.98
35 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (34 bp):
CAATACAGTAGCAATCAATACGCTTATAACAATT
Found at i:3917507 original size:21 final size:22
Alignment explanation
Indices: 3917469--3917517 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
3917459 TTTAATTTTG
* *
3917469 AAAAATTGAATGACTAAATTAA
1 AAAAATTGAATAACTAAATGAA
* *
3917491 AAAAATT-AATAATTAAATGAC
1 AAAAATTGAATAACTAAATGAA
3917512 AAAAAT
1 AAAAAT
3917518 ATAACTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (22 bp):
AAAAATTGAATAACTAAATGAA
Found at i:3919251 original size:21 final size:23
Alignment explanation
Indices: 3919227--3919277 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
3919217 AAAAATATTT
3919227 TTTAAAATA-CTA-ATATAAATA
1 TTTAAAATAGCTATATATAAATA
* *
3919248 TTT--AATAGTTATATTTAAATA
1 TTTAAAATAGCTATATATAAATA
3919269 TTTAAAATA
1 TTTAAAATA
3919278 TAGTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 4 0.17
20 2 0.08
21 14 0.58
23 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TTTAAAATAGCTATATATAAATA
Found at i:3919592 original size:13 final size:13
Alignment explanation
Indices: 3919541--3919592 Score: 63
Period size: 12 Copynumber: 4.1 Consensus size: 13
3919531 TTTAAACCAA
3919541 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
3919554 A-TTCTCAAAAGC
1 ACTTTTCAAAAGC
*
3919566 ACTTTTTC-ACAGC
1 AC-TTTTCAAAAGC
3919579 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
3919592 A
1 A
3919593 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 16 0.50
13 12 0.38
14 4 0.12
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:3921076 original size:18 final size:18
Alignment explanation
Indices: 3921053--3921089 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3921043 GTGACCATCA
*
3921053 ATAACTAACTAACAGAAG
1 ATAACTAACTAACAAAAG
*
3921071 ATAACTAATTAACAAAAG
1 ATAACTAACTAACAAAAG
3921089 A
1 A
3921090 ATGAATTGAT
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:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (18 bp):
ATAACTAACTAACAAAAG
Found at i:3922999 original size:18 final size:18
Alignment explanation
Indices: 3922973--3923013 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3922963 AAGAATGTCT
*
3922973 TGAGTAAGCATCGACAAA
1 TGAGAAAGCATCGACAAA
3922991 TGAGAAAGCATCGACAAA
1 TGAGAAAGCATCGACAAA
3923009 TGAGA
1 TGAGA
3923014 TATAATGCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (18 bp):
TGAGAAAGCATCGACAAA
Found at i:3924428 original size:114 final size:114
Alignment explanation
Indices: 3924228--3924455 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
3924218 TGGTGTATAA
*
3924228 TGTAAGAAAAGTAATACGAAAAAGAAATGAAAGTAATGTGGTAGAGACCGAGACCGAGACCAAGA
1 TGTAAGAAAAGTAATACGAAAAAGAAATGAAAGTAATGTGGTAGAGACAGAGACCGAGACCAAGA
3924293 CCAAGATCCAAAGCCATTGGTTTGAAAGGTAAAATGACTTGGCTCCTTC
66 CCAAGATCCAAAGCCATTGGTTTGAAAGGTAAAATGACTTGGCTCCTTC
3924342 TGTAAGAAAAGTAATACGAAAAAGAAATGAAAGTAATGTGGTAGAGACAGAGACCGAGACCAAGA
1 TGTAAGAAAAGTAATACGAAAAAGAAATGAAAGTAATGTGGTAGAGACAGAGACCGAGACCAAGA
3924407 CCAAGATCCAAAGCCATTGGTTTGAAAGGTAAAATGACTTGGCTCCTTC
66 CCAAGATCCAAAGCCATTGGTTTGAAAGGTAAAATGACTTGGCTCCTTC
3924456 ATTTTTAGTC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (114 bp):
TGTAAGAAAAGTAATACGAAAAAGAAATGAAAGTAATGTGGTAGAGACAGAGACCGAGACCAAGA
CCAAGATCCAAAGCCATTGGTTTGAAAGGTAAAATGACTTGGCTCCTTC
Found at i:3927344 original size:3 final size:3
Alignment explanation
Indices: 3927336--3927361 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3927326 AACATATACA
3927336 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
3927362 AATTCAAAGT
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:3929346 original size:16 final size:18
Alignment explanation
Indices: 3929303--3929337 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3929293 TTTAATGGCG
3929303 AAATAGAAATAATAGTTT
1 AAATAGAAATAATAGTTT
3929321 AAATAAGAAA-AATAGTT
1 AAAT-AGAAATAATAGTT
3929338 AATAGGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATAGAAATAATAGTTT
Found at i:3930874 original size:20 final size:21
Alignment explanation
Indices: 3930841--3930880 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3930831 TTTTGTAATT
3930841 TTATTCTTGGGTTT-TGTTTA
1 TTATTCTTGGGTTTCTGTTTA
3930861 TTATT-TTGGTGTTTCTGTTT
1 TTATTCTTGG-GTTTCTGTTT
3930881 GGGCTGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (21 bp):
TTATTCTTGGGTTTCTGTTTA
Found at i:3931412 original size:45 final size:44
Alignment explanation
Indices: 3931321--3931465 Score: 143
Period size: 45 Copynumber: 3.2 Consensus size: 44
3931311 TCTGCTCCAC
*
3931321 TGCAACTTCAGGGAGATAA-GACTTATAACTTCAACTTGCCCTAT
1 TGCAACTTCAGGG-GATAAGGACTTATAACTTCAACCTGCCCTAT
*
3931365 TGCAACTTCAGAGGGATAAGGACTTGTAACTTCAACCTGTCCC-AT
1 TGCAACTTCAG-GGGATAAGGACTTATAACTTCAACCTG-CCCTAT
* * * * * *
3931410 TGCAACTTTAGGGGGATAAGG-TTTATAGCTTTAACTCTGCTCTAC
1 TGCAACTTCA-GGGGATAAGGACTTATAACTTCAAC-CTGCCCTAT
*
3931455 TGCAATTTCAG
1 TGCAACTTCAG
3931466 AAACATAAGA
Statistics
Matches: 84, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
44 29 0.35
45 51 0.61
46 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGGATAAGGACTTATAACTTCAACCTGCCCTAT
Found at i:3931558 original size:43 final size:43
Alignment explanation
Indices: 3931497--3931578 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
3931487 CAATCCACGT
* *
3931497 CAATGCAACTTTAGGGAGATA-AGAATTGTGGCTTCAATCGCTA
1 CAATGCAACTTTAAGGAGA-AGAGAATTGTAGCTTCAATCGCTA
* * *
3931540 CAATGCCATTTTAAGGAGAAGAGATTTGTAGCTTCAATC
1 CAATGCAACTTTAAGGAGAAGAGAATTGTAGCTTCAATC
3931579 TACTCCGCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
CAATGCAACTTTAAGGAGAAGAGAATTGTAGCTTCAATCGCTA
Found at i:3931650 original size:88 final size:88
Alignment explanation
Indices: 3931511--3932050 Score: 742
Period size: 88 Copynumber: 6.1 Consensus size: 88
3931501 GCAACTTTAG
* * ** * *
3931511 GGAGATAAGAATTGTGGCTTC-AATCGCTACAATGCCATTTTAAGGAGAAGAGATTTGTAGCTTC
1 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
*
3931575 AATCTACTCCGCTAGAACTTCAA
66 GATCTACTCCGCTAGAACTTCAA
** *
3931598 GGAGATAAAAATTATGGCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAGAGATTTGTAGCTTC
1 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
*
3931663 GATCTACTCCACTAGAACTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * * *
3931686 AGAGATACGAATTATGGCTTCGAGCCGTTCCAATGTCATTTTAGGGAGAAGAGATTTGTAGCCTC
1 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
* *
3931751 GACCTACTTCGCTAGAACTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * * * * *
3931774 GGAGATACGAATTGTGGCTTCGAGCCACTCCAAAGCCATTTTAGGGAGAAAAAATTTGTAGCCTC
1 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
* *
3931839 GGTCTACTCCGCTAGAATTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* * * * *
3931862 GGAGATACGAATTGTGGCTTCGAGCCGCTCTAATGCCATTTCAGGGAGAAGAGATTTGCAGCTTT
1 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
* *
3931927 GATCTACTCCACTAGAGCTTCAA
66 GATCTACTCCGCTAGAACTTCAA
* *
3931950 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAGAGATTTGTAACTTC
1 GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
3932015 GATCTACTCCGCT-GAAACTTCAA
66 GATCTACTCCGCTAG-AACTTCAA
*
3932038 GGAGATACAAATT
1 GGAGATACGAATT
3932051 GTTGATTTCA
Statistics
Matches: 399, Mismatches: 52, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
87 20 0.05
88 379 0.95
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
GGAGATACGAATTATGGCTTCGAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCTTC
GATCTACTCCGCTAGAACTTCAA
Found at i:3931664 original size:44 final size:44
Alignment explanation
Indices: 3931614--3931752 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
3931604 AAAAATTATG
3931614 GCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAGAGATTTGTA
* ** * * * * **
3931658 GCTTCGATCTACTCCACTAG-AACTTCAAAGAGATACGA-ATTATG--
1 GCTTCGAGCCGCTCCAAT-GTCATTTTAGGGAGA-A-GAGATT-TGTA
*
3931702 GCTTCGAGCCGTTCCAATGTCATTTTAGGGAGAAGAGATTTGTA
1 GCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAGAGATTTGTA
*
3931746 GCCTCGA
1 GCTTCGA
3931753 CCTACTTCGC
Statistics
Matches: 67, Mismatches: 20, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
42 4 0.06
43 5 0.07
44 49 0.73
45 5 0.07
46 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
GCTTCGAGCCGCTCCAATGTCATTTTAGGGAGAAGAGATTTGTA
Found at i:3942135 original size:88 final size:88
Alignment explanation
Indices: 3942037--3942441 Score: 634
Period size: 88 Copynumber: 4.6 Consensus size: 88
3942027 ACAAGATTCG
* * * * * *
3942037 CCGTCTTCGATCTGCTCCACCATTACTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTACCCT
1 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCT
* *
3942102 ACTACTTAAGGGGTTAAGGCTCA
66 ACTGCTTAGGGGGTTAAGGCTCA
** *
3942125 CTATTTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAA-TTTCTAACCTGTTACCC
1 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AACCTGTTACCC
*
3942189 TACTGCTTAGGGGGTTAAGACTCA
65 TACTGCTTAGGGGGTTAAGGCTCA
*
3942213 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTGTTACCCT
1 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCT
3942278 ACTGCTTAGGGGGTTAAGGCTCA
66 ACTGCTTAGGGGGTTAAGGCTCA
*
3942301 CCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCT
1 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCT
3942366 AC-GCTTAGGGGGGTTAAGGCTCA
66 ACTGCTTA-GGGGGTTAAGGCTCA
* *
3942389 CCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCA
3942442 GTCTGTTTCC
Statistics
Matches: 292, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
87 9 0.03
88 280 0.96
89 3 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (88 bp):
CCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTACCCT
ACTGCTTAGGGGGTTAAGGCTCA
Found at i:3942208 original size:44 final size:44
Alignment explanation
Indices: 3942062--3942375 Score: 170
Period size: 44 Copynumber: 7.2 Consensus size: 44
3942052 TCCACCATTA
* * *
3942062 CTTAGGGAGATAAGATCTATAATTT-TCAGCCTGTTACCCTACTA
1 CTTAGGGAGATAAGATCTGTAATTTCT-AACCTGTTACCCTACTG
* * ** * * * *
3942106 CTTAAGGG-GTTAAGGCTCACTATTTTC-GATCTGCT-CCGCTACTG
1 CTT-AGGGAGATAA-GATCTGTAATTTCTAACCTGTTACC-CTACTG
3942150 CTTAGGGAGATAAGATCTGTAATTTCTAACCTGTTACCCTACTG
1 CTTAGGGAGATAAGATCTGTAATTTCTAACCTGTTACCCTACTG
* * * * * * *
3942194 CTTAGGGGGTTAAGACTCACCGT--CTTC-GATCTGCT-CCGCTACTG
1 CTTAGGGAGATAAGA-T--CTGTAATTTCTAACCTGTTACC-CTACTG
*
3942238 CTTAGGGAGATAAGATCTGTAATTTCCAACCTGTTACCCTACTG
1 CTTAGGGAGATAAGATCTGTAATTTCTAACCTGTTACCCTACTG
* * * * * * * *
3942282 CTTAGGGGGTTAAGGCTCACCGT--CTT-TGATCTGCT-CCGCTACTG
1 CTTAGGGAGATAA-GAT--CTGTAATTTCTAACCTGTTACC-CTACTG
3942326 CTTAGGGAGATAAGATCTGTAATTT-TCAACCTGTTACCCTAC-G
1 CTTAGGGAGATAAGATCTGTAATTTCT-AACCTGTTACCCTACTG
3942369 CTTAGGG
1 CTTAGGG
3942376 GGGTTAAGGC
Statistics
Matches: 198, Mismatches: 49, Indels: 47
0.67 0.17 0.16
Matches are distributed among these distances:
41 6 0.03
43 36 0.18
44 124 0.63
45 26 0.13
47 6 0.03
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (44 bp):
CTTAGGGAGATAAGATCTGTAATTTCTAACCTGTTACCCTACTG
Found at i:3942482 original size:44 final size:45
Alignment explanation
Indices: 3942420--3942516 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
3942410 ATTGCTTAGG
** *
3942420 GAGATAAGATCTGTAATCTTCAGTCTG-TTTCCTTGCTACCTCAG-
1 GAGATAAGATCTGTAATCTTCAACCTGCTCT-CTTGCTACCTCAGA
3942464 GAAGATAAGA-CT-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTGT-AATCTTCAACCTGCTCTCTTGCTACCTCAGA
3942509 GAGATAAG
1 GAGATAAG
3942517 GCTGTGAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 34 0.74
45 11 0.24
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (45 bp):
GAGATAAGATCTGTAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:3944075 original size:21 final size:21
Alignment explanation
Indices: 3944049--3944088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3944039 TCCACGATCC
* *
3944049 TTTTTTTGTTGTTTTTGCTTT
1 TTTTTTTGCTGTATTTGCTTT
3944070 TTTTTTTGCTGTATTTGCT
1 TTTTTTTGCTGTATTTGCT
3944089 ACATTATGAT
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:0.03, C:0.07, G:0.15, T:0.75
Consensus pattern (21 bp):
TTTTTTTGCTGTATTTGCTTT
Found at i:3951956 original size:14 final size:15
Alignment explanation
Indices: 3951927--3951957 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3951917 AAAATTAGCC
3951927 AAAAGCATATAAATT
1 AAAAGCATATAAATT
3951942 AAAAGCATA-AAATT
1 AAAAGCATATAAATT
3951956 AA
1 AA
3951958 CTTGCTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAGCATATAAATT
Found at i:3958947 original size:2 final size:2
Alignment explanation
Indices: 3958942--3958972 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3958932 TTGGGGTTTT
3958942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3958973 TCAAAAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3962166 original size:54 final size:54
Alignment explanation
Indices: 3962102--3962210 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
3962092 CACTTTTGGG
*
3962102 GCATTTTCTACTTTTGAAAAATGTTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
1 GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
*
3962156 GCATTTTCTACTTTTGAAAAGTATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
1 GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
3962210 G
1 G
3962211 TACTTTTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (54 bp):
GCATTTTCTACTTTTGAAAAATATTTTTTTCCCTCAAAAACGTCTTGTTTAGGA
Found at i:3968510 original size:23 final size:23
Alignment explanation
Indices: 3968480--3968544 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
3968470 CCGTTAGAAT
3968480 AAAAAAAAAGAAATTAAAAGCCA
1 AAAAAAAAAGAAATTAAAAGCCA
* * *
3968503 AAAAAAAATA-AAATAAAAAACCT
1 AAAAAAAA-AGAAATTAAAAGCCA
*
3968526 CAAAAAAAAGAAA-TAAAAG
1 AAAAAAAAAGAAATTAAAAG
3968545 GTCCAATGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 5 0.15
23 28 0.82
24 1 0.03
ACGTcount: A:0.77, C:0.08, G:0.06, T:0.09
Consensus pattern (23 bp):
AAAAAAAAAGAAATTAAAAGCCA
Found at i:3970385 original size:31 final size:30
Alignment explanation
Indices: 3970345--3970409 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
3970335 AAATACATGT
*
3970345 TATTTTATACAT-ATAATTTTTGTTAAAATC
1 TATTTTATACATAATAATGTTT-TTAAAATC
*
3970375 TATTTGTATACATAATTATGTTTTTAAAATC
1 TATTT-TATACATAATAATGTTTTTAAAATC
3970406 TATT
1 TATT
3970410 GCATATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 19 0.61
32 7 0.23
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (30 bp):
TATTTTATACATAATAATGTTTTTAAAATC
Found at i:3974030 original size:36 final size:36
Alignment explanation
Indices: 3973956--3974036 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 36
3973946 ATTTCAAAAA
3973956 TAATATTATTTTAATATATTTAATATTAAATTTAATT
1 TAATATTATTTTAATATATTT-ATATTAAATTTAATT
*
3973993 TAATACTTATTTTGATAGTATTT-TATT-AATTTAATT
1 TAATA-TTATTTTAATA-TATTTATATTAAATTTAATT
3974029 TAATATTA
1 TAATATTA
3974037 AATCTGGTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
35 3 0.07
36 14 0.34
37 9 0.22
38 10 0.24
39 5 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (36 bp):
TAATATTATTTTAATATATTTATATTAAATTTAATT
Found at i:3976400 original size:43 final size:44
Alignment explanation
Indices: 3976339--3976459 Score: 183
Period size: 43 Copynumber: 2.8 Consensus size: 44
3976329 AAAATCTGCC
3976339 TAAAAAAGAGAAGAAGATAATCTTGGGTTGTTGGA-AAAAGAATT
1 TAAAAAA-AGAAGAAGATAATCTTGGGTTGTTGGACAAAAGAATT
*
3976383 TAAAAAAAGGAGAAGATAATCTTGGGTTGTT-GACAAAAGAATT
1 TAAAAAAAGAAGAAGATAATCTTGGGTTGTTGGACAAAAGAATT
* * *
3976426 TTAAAAAAGAAGAAGATAAACATGGGTTGTTGGA
1 TAAAAAAAGAAGAAGATAATCTTGGGTTGTTGGA
3976460 TTTACCCTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
42 2 0.03
43 59 0.84
44 9 0.13
ACGTcount: A:0.47, C:0.03, G:0.25, T:0.25
Consensus pattern (44 bp):
TAAAAAAAGAAGAAGATAATCTTGGGTTGTTGGACAAAAGAATT
Found at i:3978019 original size:39 final size:39
Alignment explanation
Indices: 3977965--3978044 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
3977955 TGATATACTA
* *
3977965 AGAAAAAAACTATAACACCCCTCGCCCGGTCCGGTAATC
1 AGAAAAAAACTATAACACCCCTCACCCAGTCCGGTAATC
*
3978004 AGAAAAAAACTATAACACCCCTCACCTAGTCCGGTAATC
1 AGAAAAAAACTATAACACCCCTCACCCAGTCCGGTAATC
3978043 AG
1 AG
3978045 GCCCGAGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (39 bp):
AGAAAAAAACTATAACACCCCTCACCCAGTCCGGTAATC
Found at i:3981333 original size:36 final size:36
Alignment explanation
Indices: 3981293--3981369 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
3981283 TCCGCACCTT
*
3981293 ATCAATATAACCGAAGTAAAATGTTCTAT-GCACCCC
1 ATCAATATAACCGAAGTAAAATGTGC-ATCGCACCCC
* * *
3981329 ATCAATATAGCTGAAGTAAAATGTGCATCGCACCTC
1 ATCAATATAACCGAAGTAAAATGTGCATCGCACCCC
3981365 ATCAA
1 ATCAA
3981370 ATGTTCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 34 0.94
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (36 bp):
ATCAATATAACCGAAGTAAAATGTGCATCGCACCCC
Found at i:3982525 original size:17 final size:18
Alignment explanation
Indices: 3982503--3982548 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
3982493 TATTTTGAAA
3982503 TTAAAAAAATAT-ATTAT
1 TTAAAAAAATATGATTAT
* *
3982520 TTAAAAAAATGTGATTTT
1 TTAAAAAAATATGATTAT
3982538 TTAAATAAAAT
1 TTAAA-AAAAT
3982549 TTATCTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 9 0.36
19 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
TTAAAAAAATATGATTAT
Found at i:3982782 original size:13 final size:13
Alignment explanation
Indices: 3982766--3982792 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3982756 TTTTTTTGGA
3982766 TGATTTTAATTTT
1 TGATTTTAATTTT
3982779 TGATTTTAATTTT
1 TGATTTTAATTTT
3982792 T
1 T
3982793 TAGGAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TGATTTTAATTTT
Found at i:3983970 original size:123 final size:123
Alignment explanation
Indices: 3983748--3983991 Score: 371
Period size: 123 Copynumber: 2.0 Consensus size: 123
3983738 CTAGTTTACA
* * * * *
3983748 GAAATAGGGTTCCGAAACCGCATTTTTCGACATCGACAAAAGTTGGGTCATTACAATTTCTTCCT
1 GAAATAGGGTTCCAAAACCACATTTTTCGACATCGAAAAAAGTCGAGTCATTACAATTTCTTCCT
* * * *
3983813 ACATGACCCATCTTCCTTCGCATTTCCTGGTGTATCTTCCATTTTCCTATTTGATTCT
66 ACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATTCT
* * *
3983871 GAAATGGGGTTCCAAAACCACATTTTTCGACATTGAAAAAAGTCGAGTCGTTACAATTTCTTCCT
1 GAAATAGGGTTCCAAAACCACATTTTTCGACATCGAAAAAAGTCGAGTCATTACAATTTCTTCCT
*
3983936 ACATGACCCGTATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATT
66 ACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATT
3983992 TCTCAAGCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
123 108 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (123 bp):
GAAATAGGGTTCCAAAACCACATTTTTCGACATCGAAAAAAGTCGAGTCATTACAATTTCTTCCT
ACATGACCCATATTCCTTCGCATTGCCTGATGTATCATCCATTTTCCTATTTGATTCT
Found at i:3984754 original size:26 final size:29
Alignment explanation
Indices: 3984714--3984766 Score: 85
Period size: 26 Copynumber: 1.9 Consensus size: 29
3984704 CATTTTTTAG
3984714 AAAATATAAGAAATATATATA-AATTCTA
1 AAAATATAAGAAATATATATATAATTCTA
3984742 AAAAT-TAA-AAATATATATATAATTC
1 AAAATATAAGAAATATATATATAATTC
3984767 AAACATACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 11 0.46
27 8 0.33
28 5 0.21
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATATAAGAAATATATATATAATTCTA
Found at i:3985486 original size:12 final size:12
Alignment explanation
Indices: 3985456--3985488 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
3985446 TATATATTTT
3985456 AAAATT-ATATA
1 AAAATTAATATA
3985467 AAAA-TAATATA
1 AAAATTAATATA
3985478 AAAATTAATAT
1 AAAATTAATAT
3985489 GGGCGGGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:3993531 original size:6 final size:6
Alignment explanation
Indices: 3993483--3993530 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
3993473 TAACAACACC
*
3993483 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG AGAGAG
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG
3993531 AATCGAATAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:3994963 original size:22 final size:22
Alignment explanation
Indices: 3994938--3994990 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
3994928 AAAAAGAAGA
3994938 AAAGAAAAAAAT-ATAGAAAAAT
1 AAAGAAAAAAATAAT-GAAAAAT
* * *
3994960 AAAGAGATAAATAATGTAAAAT
1 AAAGAAAAAAATAATGAAAAAT
3994982 AGAAGAAAA
1 A-AAGAAAA
3994991 TAATTAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAGAAAAAAATAATGAAAAAT
Found at i:3995256 original size:28 final size:28
Alignment explanation
Indices: 3995224--3995317 Score: 73
Period size: 28 Copynumber: 3.3 Consensus size: 28
3995214 TAACTAATTG
3995224 AGATACCAACTTGGGAAAAAAATAGTTT
1 AGATACCAACTTGGGAAAAAAATAGTTT
* * * * *
3995252 AGATATC-ATTTGTGACAAAAAAAAATTT
1 AGATACCAACTTGGGA-AAAAAATAGTTT
* *** *
3995280 AGATATCAAGAAGGAAAAAAAGATAGTTT
1 AGATACCAACTTGGGAAAAAA-ATAGTTT
3995309 AGATACCAA
1 AGATACCAA
3995318 TTTGTGAGTT
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
27 6 0.12
28 28 0.56
29 16 0.32
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (28 bp):
AGATACCAACTTGGGAAAAAAATAGTTT
Found at i:3999635 original size:26 final size:26
Alignment explanation
Indices: 3999599--3999682 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
3999589 CATGAAATTC
3999599 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
3999625 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
3999651 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
3999677 TTATCA
1 TTATCA
3999683 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4009095 original size:40 final size:40
Alignment explanation
Indices: 4009010--4009147 Score: 109
Period size: 40 Copynumber: 3.5 Consensus size: 40
4009000 CTCGAGAATA
* ** * **
4009010 TAAAGTGGATAGAATTCATTCCTGATTCACTATAAT-ACC
1 TAAAGTGGATAGGATTTGTTCCTGATTAACTATGGTAACC
* * *
4009049 TCAAAGTGGATAGGATTTGTTTCTGATTAACTATGGT-GCTT
1 T-AAAGTGGATAGGATTTGTTCCTGATTAACTATGGTAAC-C
* * * * *
4009090 TAAAGTGAATATGATTTATTCCTGATTCATTATGGTAACC
1 TAAAGTGGATAGGATTTGTTCCTGATTAACTATGGTAACC
*
4009130 TAAGGTGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
4009148 ACCTGAAAAG
Statistics
Matches: 75, Mismatches: 21, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
39 1 0.01
40 72 0.96
41 2 0.03
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTAACTATGGTAACC
Found at i:4009253 original size:77 final size:78
Alignment explanation
Indices: 4009112--4009262 Score: 277
Period size: 77 Copynumber: 1.9 Consensus size: 78
4009102 GATTTATTCC
*
4009112 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCGCTACA
1 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
*
4009177 GTTACATGATATA
66 ATTACATGATATA
4009190 TGATTCATTATGGTAACCTAAGGTGGATAGG-TTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
4009254 ATTACATGA
66 ATTACATGA
4009263 GATGTGACTC
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
77 40 0.56
78 31 0.44
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
ATTACATGATATA
Found at i:4011592 original size:27 final size:27
Alignment explanation
Indices: 4011521--4011593 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
4011511 TTTTAACCCT
*
4011521 TATTTATACTTTAATATATTTTATGTAA
1 TATTTATA-TTAAATATATTTTATGTAA
*
4011549 TATTTATATTAAGTATATTTCTAT-TGAA
1 TATTTATATTAAATATATTT-TATGT-AA
4011577 -ATTTAT-TTAAAATATAT
1 TATTTATATT-AAATATAT
4011594 AAAAGTATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.05
27 24 0.62
28 13 0.33
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (27 bp):
TATTTATATTAAATATATTTTATGTAA
Found at i:4011881 original size:19 final size:20
Alignment explanation
Indices: 4011842--4011883 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4011832 CTTCACGATA
4011842 TTATGTTTAAAATAAATATT
1 TTATGTTTAAAATAAATATT
* *
4011862 TTATTTTTAAAA-ATATATT
1 TTATGTTTAAAATAAATATT
4011881 TTA
1 TTA
4011884 ATAACAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTATGTTTAAAATAAATATT
Found at i:4012633 original size:12 final size:12
Alignment explanation
Indices: 4012616--4012646 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4012606 TTTGATGAAT
4012616 TATATGTATGTA
1 TATATGTATGTA
4012628 TATATGTATGTA
1 TATATGTATGTA
*
4012640 TGTATGT
1 TATATGT
4012647 TTGTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (12 bp):
TATATGTATGTA
Found at i:4013534 original size:37 final size:37
Alignment explanation
Indices: 4013493--4013567 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4013483 GTGTAAATGA
4013493 TAGCCTTTAACCTGTAAAAGTTTATGTCAGGACATGG
1 TAGCCTTTAACCTGTAAAAGTTTATGTCAGGACATGG
4013530 TAGCCTTTAACCTGTAAAAGTTTATGTCAGGACATGG
1 TAGCCTTTAACCTGTAAAAGTTTATGTCAGGACATGG
4013567 T
1 T
4013568 TTATGTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (37 bp):
TAGCCTTTAACCTGTAAAAGTTTATGTCAGGACATGG
Found at i:4018264 original size:52 final size:52
Alignment explanation
Indices: 4018205--4018309 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
4018195 ATAGAAGCTC
4018205 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
1 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
4018257 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
1 AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
4018309 A
1 A
4018310 TGAATGAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (52 bp):
AAAATGTATACAATTTGACAGAAACTTAAGCTACTATTAATCAACACTAAGA
Found at i:4032374 original size:30 final size:30
Alignment explanation
Indices: 4032338--4032396 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4032328 TATTTTATTA
*
4032338 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
4032368 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTTTAAAGGCATTT
4032397 TCTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:4036027 original size:20 final size:20
Alignment explanation
Indices: 4035990--4036032 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4035980 TTTAGTTGAA
*
4035990 ATGGTTGTGGATAGAT-GGC
1 ATGGTTGTGGATAAATGGGC
*
4036009 ATGGTATGTGTATAAATGGGC
1 ATGGT-TGTGGATAAATGGGC
4036030 ATG
1 ATG
4036033 TTTTGGTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.26, C:0.05, G:0.37, T:0.33
Consensus pattern (20 bp):
ATGGTTGTGGATAAATGGGC
Found at i:4054285 original size:2 final size:2
Alignment explanation
Indices: 4054278--4054313 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4054268 AGCATATAAA
*
4054278 CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4054314 GGTATTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
CT
Found at i:4059619 original size:58 final size:57
Alignment explanation
Indices: 4059550--4059693 Score: 202
Period size: 55 Copynumber: 2.5 Consensus size: 57
4059540 TTAATCAAAT
* *
4059550 TTGCATTCATAAATAAAGTTGTTTTTATTTATTTATTTATGTTTCATTGAATGTTTTG
1 TTGCATTCATAAATAAAGTTG-TTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
* * *
4059608 TTGCATTCATAAATAAAGTTG-TGT-TTTCTTTACTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
* *
4059663 TTACATTCATAAATAAAGTTATTTTATTTAT
1 TTGCATTCATAAATAAAGTTGTTTTATTTAT
4059694 GCTTTCATTG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
55 46 0.61
56 4 0.05
57 4 0.05
58 21 0.28
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (57 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATTTACTTATGCTTCATTGAATGTTTTG
Found at i:4059664 original size:55 final size:52
Alignment explanation
Indices: 4059581--4059775 Score: 225
Period size: 55 Copynumber: 3.7 Consensus size: 52
4059571 TTTTTATTTA
* *
4059581 TTTATTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGTTGTGTTTT
1 TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAG-TG-GTTTT
* * *
4059635 CTTTACTTATGCTTCATTGATTGTTTTGTTACATTCATAAATAAA---GTTAT
1 -TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
* * *
4059685 TTTATTTATGCTTTCATTGATTGTTTTGTTGCATTTATAAATATAGTGGTGTT
1 TTTATTTATGC-TTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
* * *
4059738 TTTAATTATGTTTCATTGTTTGTTTTTGTTGCATTCAT
1 TTTATTTATGCTTCATTGATTG-TTTTGTTGCATTCAT
4059776 TTTTTTCGGT
Statistics
Matches: 120, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 10 0.08
50 34 0.28
52 10 0.08
53 26 0.22
55 40 0.33
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.56
Consensus pattern (52 bp):
TTTATTTATGCTTCATTGATTGTTTTGTTGCATTCATAAATAAAGTGGTTTT
Found at i:4070125 original size:15 final size:15
Alignment explanation
Indices: 4070105--4070160 Score: 89
Period size: 14 Copynumber: 3.9 Consensus size: 15
4070095 CGATGAATTT
4070105 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
4070120 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
4070134 ATTGAATTTATATTG
1 ATTGAATTTATATTG
4070149 ATTGAA-TTATAT
1 ATTGAATTTATAT
4070161 AATATACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:4070137 original size:29 final size:27
Alignment explanation
Indices: 4070101--4070158 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
4070091 TATGCGATGA
4070101 ATTTATTGAATTTATATTGATTGAAATT
1 ATTTATTGAATTTATATTGATTG-AATT
4070129 ATTTGATTGAATTTATATTGATTGAATT
1 ATTT-ATTGAATTTATATTGATTGAATT
4070157 AT
1 AT
4070159 ATAATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
ATTTATTGAATTTATATTGATTGAATT
Found at i:4070573 original size:23 final size:23
Alignment explanation
Indices: 4070544--4070604 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
4070534 AGACACTTTA
4070544 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
4070567 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
4070588 TGTGTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
4070605 TTTATGTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 26 0.72
22 1 0.03
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:4070612 original size:21 final size:21
Alignment explanation
Indices: 4070543--4070614 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
4070533 TAGACACTTT
4070543 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGT-TTT-AGGCACCTC
* * *
4070566 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTTTTAGGCACCTC
* * *
4070587 GTGTGTCGTTTTAGGCACTTT
1 ATGTGTCGTTTTAGGCACCTC
4070608 ATGTGTC
1 ATGTGTC
4070615 ATATACTGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 32 0.78
22 1 0.02
23 8 0.20
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGTCGTTTTAGGCACCTC
Found at i:4073945 original size:60 final size:60
Alignment explanation
Indices: 4073881--4074009 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
4073871 CCCGAAGGCT
*
4073881 AACTGAAGCACACAAGTGTTAAACGGAAGCCCGAAGGCTAAATGAAGCACACAAGTGCTA
1 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAATGAAGCACACAAGTGCTA
*
4073941 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTA
1 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAATGAAGCACACAAGTGCTA
*
4074001 AACGGAAGC
1 AACTGAAGC
4074010 CCGAAGGCTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (60 bp):
AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAAATGAAGCACACAAGTGCTA
Found at i:4073949 original size:39 final size:39
Alignment explanation
Indices: 4073826--4073949 Score: 169
Period size: 39 Copynumber: 3.2 Consensus size: 39
4073816 ACATCGTAAT
* * * *
4073826 CTGAAGCCTGAAGTCTAGCTGAAGCACATAAGTGCTAAA
1 CTGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAA
*
4073865 C-GAAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAA
1 CTG-AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAA
* *
4073904 CGGAAGCCCGAAGGCTAAATGAAGCACACAAGTGCTAAA
1 CTGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAA
4073943 CTGAAGC
1 CTGAAGC
4073950 ACACAAGTGC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 73 0.97
40 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.15
Consensus pattern (39 bp):
CTGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAA
Found at i:4073975 original size:99 final size:99
Alignment explanation
Indices: 4073844--4074027 Score: 332
Period size: 99 Copynumber: 1.9 Consensus size: 99
4073834 TGAAGTCTAG
* *
4073844 CTGAAGCACATAAGTGCTAAACGAAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
4073909 GCCCGAAGGCTAAATGAAGCACACAAGTGCTAAA
66 GCCCGAAGGCTAAATGAAGCACACAAGTGCTAAA
*
4073943 CTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
1 CTGAAGCACACAAGTGCTAAACGAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
*
4074008 GCCCGAAGGCTAACTGAAGC
66 GCCCGAAGGCTAAATGAAGC
4074028 TCATCAGAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 81 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (99 bp):
CTGAAGCACACAAGTGCTAAACGAAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAA
GCCCGAAGGCTAAATGAAGCACACAAGTGCTAAA
Found at i:4073984 original size:39 final size:39
Alignment explanation
Indices: 4073941--4074027 Score: 174
Period size: 39 Copynumber: 2.2 Consensus size: 39
4073931 ACAAGTGCTA
4073941 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCT
1 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCT
4073980 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCT
1 AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCT
4074019 AACTGAAGC
1 AACTGAAGC
4074028 TCATCAGAGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.10
Consensus pattern (39 bp):
AACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCT
Found at i:4075925 original size:188 final size:188
Alignment explanation
Indices: 4075608--4075983 Score: 734
Period size: 188 Copynumber: 2.0 Consensus size: 188
4075598 CGCCATCAGG
*
4075608 GCCTAATCATCCTGGTTCACTGATTTCCTTGCGAGACATCTGCAAAATGAAAAAACCACAACAGA
1 GCCTAATCATCCTGATTCACTGATTTCCTTGCGAGACATCTGCAAAATGAAAAAACCACAACAGA
4075673 AAACAGAGGCAAAATATGAAAAGAAATCAAAAGATTTCTTTCCCAGATTGTAAATCACTTACAAA
66 AAACAGAGGCAAAATATGAAAAGAAATCAAAAGATTTCTTTCCCAGATTGTAAATCACTTACAAA
4075738 GGGTTATAAAAACCCATCTTTTTCTGATTTGTAATACATGATTTTCCAGAGAGAAATA
131 GGGTTATAAAAACCCATCTTTTTCTGATTTGTAATACATGATTTTCCAGAGAGAAATA
4075796 GCCTAATCATCCTGATTCACTGATTTCCTTGCGAGACATCTGCAAAATGAAAAAACCACAACAGA
1 GCCTAATCATCCTGATTCACTGATTTCCTTGCGAGACATCTGCAAAATGAAAAAACCACAACAGA
4075861 AAACAGAGGCAAAATATGAAAAGAAATCAAAAGATTTCTTTCCCAGATTGTAAATCACTTACAAA
66 AAACAGAGGCAAAATATGAAAAGAAATCAAAAGATTTCTTTCCCAGATTGTAAATCACTTACAAA
*
4075926 GGGTTATAAAACCCCATCTTTTTCTGATTTGTAATACATGATTTTCCAGAGAGAAATA
131 GGGTTATAAAAACCCATCTTTTTCTGATTTGTAATACATGATTTTCCAGAGAGAAATA
4075984 TACATACAGA
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (188 bp):
GCCTAATCATCCTGATTCACTGATTTCCTTGCGAGACATCTGCAAAATGAAAAAACCACAACAGA
AAACAGAGGCAAAATATGAAAAGAAATCAAAAGATTTCTTTCCCAGATTGTAAATCACTTACAAA
GGGTTATAAAAACCCATCTTTTTCTGATTTGTAATACATGATTTTCCAGAGAGAAATA
Found at i:4079519 original size:9 final size:9
Alignment explanation
Indices: 4079505--4079534 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4079495 AATATTATTC
4079505 ATTAAATTA
1 ATTAAATTA
4079514 ATTAAATTA
1 ATTAAATTA
*
4079523 ACTAAATTA
1 ATTAAATTA
4079532 ATT
1 ATT
4079535 TTTCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAAATTA
Found at i:4081757 original size:3 final size:3
Alignment explanation
Indices: 4081749--4081793 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
4081739 GGCAAAAATC
4081749 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4081794 CGATTTACCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4082233 original size:13 final size:14
Alignment explanation
Indices: 4082207--4082236 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4082197 TGAAGTTAAT
4082207 TTTATAGTTTTTAG
1 TTTATAGTTTTTAG
4082221 TTTATAG-TTTTAG
1 TTTATAGTTTTTAG
4082234 TTT
1 TTT
4082237 TTCGGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (14 bp):
TTTATAGTTTTTAG
Found at i:4088378 original size:16 final size:16
Alignment explanation
Indices: 4088357--4088387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4088347 AAATTAATCG
*
4088357 AATTAACCTAAAAATT
1 AATTAAACTAAAAATT
4088373 AATTAAACTAAAAAT
1 AATTAAACTAAAAAT
4088388 CAACTAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAACTAAAAATT
Found at i:4088635 original size:17 final size:17
Alignment explanation
Indices: 4088615--4088648 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4088605 TTATCTCTCG
4088615 ACCTCGTTTATCCTAAA
1 ACCTCGTTTATCCTAAA
4088632 ACCTCGTTTATCCTAAA
1 ACCTCGTTTATCCTAAA
4088649 TGACTTCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (17 bp):
ACCTCGTTTATCCTAAA
Found at i:4089529 original size:20 final size:18
Alignment explanation
Indices: 4089493--4089537 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
4089483 AACACAAAGC
4089493 AATAAAAAATGAAAACGA
1 AATAAAAAATGAAAACGA
*
4089511 AATAAAAACATGTAAAACGC
1 AATAAAAA-ATG-AAAACGA
4089531 AATAAAA
1 AATAAAA
4089538 CAAGCTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.33
19 3 0.12
20 13 0.54
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (18 bp):
AATAAAAAATGAAAACGA
Found at i:4089537 original size:19 final size:18
Alignment explanation
Indices: 4089491--4089539 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
4089481 TAAACACAAA
*
4089491 GCAATAAAAAATGAAAAC
1 GCAATAAAACATGAAAAC
*
4089509 GAAATAAAAACATGTAAAAC
1 GCAAT-AAAACATG-AAAAC
4089529 GCAATAAAACA
1 GCAATAAAACA
4089540 AGCTTGTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 9 0.35
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (18 bp):
GCAATAAAACATGAAAAC
Found at i:4097115 original size:30 final size:30
Alignment explanation
Indices: 4097081--4097141 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
4097071 TCCTTAACTC
4097081 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
4097111 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
4097141 A
1 A
4097142 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:4098212 original size:16 final size:16
Alignment explanation
Indices: 4098191--4098222 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4098181 TCAATTAATC
*
4098191 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
4098207 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
4098223 AAATCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:4106965 original size:19 final size:19
Alignment explanation
Indices: 4106941--4106979 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4106931 AATCTATATG
4106941 ACTCAGCTAGATAGATTCA
1 ACTCAGCTAGATAGATTCA
4106960 ACTCAGCTAGATAGATTCA
1 ACTCAGCTAGATAGATTCA
4106979 A
1 A
4106980 GGTTGCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTCAGCTAGATAGATTCA
Found at i:4107141 original size:26 final size:26
Alignment explanation
Indices: 4107105--4107158 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
4107095 ACAAGAAGTA
4107105 AATTTGATCATTGCGTGTATTTTCAG
1 AATTTGATCATTGCGTGTATTTTCAG
4107131 AATTTGATCATTGCGTGTATTTTCAG
1 AATTTGATCATTGCGTGTATTTTCAG
4107157 AA
1 AA
4107159 GCTACAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
AATTTGATCATTGCGTGTATTTTCAG
Found at i:4108883 original size:19 final size:18
Alignment explanation
Indices: 4108833--4108883 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
4108823 GATTATTTGA
*
4108833 TTTCTTGTTTTTCATTTAT
1 TTTCTT-TTTTTTATTTAT
4108852 TTTCTTTTCTTTTATTTAT
1 TTTCTTTT-TTTTATTTAT
4108871 TTTCTTATTTTTT
1 TTTCTT-TTTTTT
4108884 TAATATAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTTTTATTTAT
Found at i:4125530 original size:51 final size:49
Alignment explanation
Indices: 4125359--4125590 Score: 252
Period size: 49 Copynumber: 4.7 Consensus size: 49
4125349 CTGGTAAGCA
* * * * *
4125359 TAGTAGCCTGCACTTAATACTACACATGTAACCAATTATTTG-GCACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTA-TCGAGTACACG
* * **
4125408 TAGGAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GAGTACACG
* * * *
4125458 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGAGTACACG
* * *
4125509 TACTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACG
*
4125558 TAGTAGCCTGCACTTAGTACTTCACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
4125591 TCACAATAGA
Statistics
Matches: 150, Mismatches: 27, Indels: 12
0.79 0.14 0.06
Matches are distributed among these distances:
49 70 0.47
50 44 0.29
51 36 0.24
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACG
Found at i:4125867 original size:27 final size:27
Alignment explanation
Indices: 4125837--4125890 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4125827 TCATACAACC
* *
4125837 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
4125864 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
4125891 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:4131352 original size:22 final size:22
Alignment explanation
Indices: 4131326--4131369 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4131316 AATTGATGTA
4131326 GAGTACATAAATTTTATGTATT
1 GAGTACATAAATTTTATGTATT
4131348 GAGTACATAAATTTTATGTATT
1 GAGTACATAAATTTTATGTATT
4131370 ATCAAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (22 bp):
GAGTACATAAATTTTATGTATT
Found at i:4139228 original size:5 final size:5
Alignment explanation
Indices: 4139218--4139243 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4139208 TTAAATTTTT
4139218 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
4139244 TATTTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:4145557 original size:28 final size:28
Alignment explanation
Indices: 4145523--4145585 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
4145513 TCTCATATTA
4145523 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
4145551 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
4145579 ATGGGGT
1 ATGGGGT
4145586 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:4149860 original size:6 final size:6
Alignment explanation
Indices: 4149851--4149883 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
4149841 ATCTATGTCT
*
4149851 ACGGCC ACGGCC ACGGCC ACGACC ACGGCC ACG
1 ACGGCC ACGGCC ACGGCC ACGGCC ACGGCC ACG
4149884 CACATTACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.48, G:0.30, T:0.00
Consensus pattern (6 bp):
ACGGCC
Found at i:4150963 original size:28 final size:28
Alignment explanation
Indices: 4150932--4150992 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
4150922 TCCCATATTA
4150932 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
4150960 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
4150988 ATGGG
1 ATGGG
4150993 ATTGATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:4151158 original size:24 final size:25
Alignment explanation
Indices: 4151112--4151158 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4151102 AAAAGAAATA
*
4151112 GAAAAACAAGGAAAAATGGCGAAAG
1 GAAAAACAAGGAAAAATAGCGAAAG
* *
4151137 GAAAAATAA-GAAAAATATCGAA
1 GAAAAACAAGGAAAAATAGCGAA
4151159 GCTCGGAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.64, C:0.06, G:0.21, T:0.09
Consensus pattern (25 bp):
GAAAAACAAGGAAAAATAGCGAAAG
Found at i:4159792 original size:2 final size:2
Alignment explanation
Indices: 4159785--4159823 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4159775 AGTTAACCTT
4159785 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4159824 TTCATTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:4173832 original size:25 final size:25
Alignment explanation
Indices: 4173799--4173848 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
4173789 AATATAGAAA
4173799 AATAATATATAACCTAAAATAAAAT
1 AATAATATATAACCTAAAATAAAAT
4173824 AATAATATATAACCTAAAATAAAAT
1 AATAATATATAACCTAAAATAAAAT
4173849 TTAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (25 bp):
AATAATATATAACCTAAAATAAAAT
Found at i:4175249 original size:14 final size:14
Alignment explanation
Indices: 4175176--4175259 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 14
4175166 GTATTTTATA
4175176 AAATTATAACAAAA-
1 AAATTATAA-AAAAT
** **
4175190 AAATTATATTATTT
1 AAATTATAAAAAAT
4175204 AAATTATAAAAAATTCT
1 AAATTATAAAAAA---T
4175221 AAATTTATGATAAAAATT
1 AAA-TTAT-A-AAAAA-T
4175239 AAATTATAAAAAAT
1 AAATTATAAAAAAT
4175253 AAATTAT
1 AAATTAT
4175260 GTGTTATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
13 1 0.02
14 25 0.46
15 5 0.09
16 1 0.02
17 8 0.15
18 8 0.15
19 1 0.02
20 5 0.09
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (14 bp):
AAATTATAAAAAAT
Found at i:4177788 original size:31 final size:29
Alignment explanation
Indices: 4177748--4177823 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 29
4177738 AAATTTTAGG
* * *
4177748 TTAAATTTTATATTTT-AATTCGATTAGTT
1 TTAATTTTTATATTTTGAATTCG-TCAATT
* *
4177777 TTAATATTTTTATTTTTTGAATTTGTCAATT
1 TT-A-ATTTTTATATTTTGAATTCGTCAATT
4177808 TTAATTTTTATATTTT
1 TTAATTTTTATATTTT
4177824 TTTTAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 14 0.37
30 2 0.05
31 17 0.45
32 5 0.13
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (29 bp):
TTAATTTTTATATTTTGAATTCGTCAATT
Found at i:4179202 original size:3 final size:3
Alignment explanation
Indices: 4179194--4179244 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
4179184 TTATAGACTG
4179194 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4179242 ATA
1 ATA
4179245 TATTTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4182198 original size:25 final size:26
Alignment explanation
Indices: 4182162--4182210 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
4182152 ATTACAGGAA
* *
4182162 TCTGTCTGTTGACATGT-TTTCTCTG
1 TCTGTCTATTGACACGTCTTTCTCTG
4182187 TCTGTCTATTGACACGTCTTTCTC
1 TCTGTCTATTGACACGTCTTTCTC
4182211 ACAACTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.10, C:0.24, G:0.16, T:0.49
Consensus pattern (26 bp):
TCTGTCTATTGACACGTCTTTCTCTG
Found at i:4183089 original size:18 final size:18
Alignment explanation
Indices: 4183066--4183109 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
4183056 CTCACAATGG
4183066 AGTAGTGAAAGTATGGAA
1 AGTAGTGAAAGTATGGAA
4183084 AGTAGTGAAAGTATGGAA
1 AGTAGTGAAAGTATGGAA
*
4183102 AGAAGTGA
1 AGTAGTGA
4183110 TCGGAACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.20
Consensus pattern (18 bp):
AGTAGTGAAAGTATGGAA
Found at i:4195709 original size:12 final size:13
Alignment explanation
Indices: 4195682--4195710 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4195672 AATAGACAAA
4195682 AAAACAGCACAGC
1 AAAACAGCACAGC
4195695 AAAACAGCA-AGC
1 AAAACAGCACAGC
4195707 AAAA
1 AAAA
4195711 GAATAGGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.62, C:0.24, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAACAGCACAGC
Found at i:4197711 original size:2 final size:2
Alignment explanation
Indices: 4197704--4197729 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4197694 TTTCAAATTT
4197704 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
4197730 CTTTTAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4198854 original size:132 final size:132
Alignment explanation
Indices: 4198342--4198869 Score: 459
Period size: 131 Copynumber: 4.0 Consensus size: 132
4198332 TCACAATTAT
* * * * * * *
4198342 TAAAAATCCC-TT-AAACGAAGGCGATA-TGCGATATTTGGTAATTAGCGGAATCGCGCCCTAAC
1 TAAAAA-CCCTTTAAAACGAAGGCAATACT-CGATGTTTGATAATTCGAGGAATAGTGCCCTAAC
* * * * *
4198404 ATGCTGGGTTGCAATTTTCCGTTTGCTT-AAAATAATCAAATA-TCCCTTCAAAATTTCACTCGT
64 GTGCTGGGTTGCAATTTCCCGTTTG-TTCAAAACAATCGAATACT-CCTTCGAAATTTCACTCGT
*
4198467 GTCTTC
127 GTTTTC
* *
4198473 TAAAAATCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGA-GAATCA-TGCCCTATCG
1 TAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGGAAT-AGTGCCCTAACG
* * ** * * * * * **
4198536 TGCTAGTTTGTGACTTCTCGTTTGCTCAAAACAATCGAATATTCCTT-TAGGTTTTCACTCGTGT
65 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATACTCCTTCGA-AATTTCACTCGTGT
4198600 TTAT-
129 TT-TC
* * * * *
4198604 TAAAAA-CCTTCCAAAACGAAGACAATACTCGGTGTTTGATAATTC-AGAAATCGTGCCCTAACG
1 TAAAAACCCTT-TAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGGAATAGTGCCCTAACG
* * ** * * * * **
4198667 TGTTGAGTTGTGATTTCTCGTTTTTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGTT
65 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATACTCCTTCGAAATTTCACTCGTGTT
4198732 TTC
130 TTC
* ** * *
4198735 TAAAAACCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGAGGAATAGTACCCTATCGT
1 TAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGGAATAGTGCCCTAACGT
* *
4198800 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATAGCT-CTTCGAAATTTCACTCGTATT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATA-CTCCTTCGAAATTTCACTCGTGTT
4198864 TTC
130 TTC
4198867 TAA
1 TAA
4198870 GGTGAGGCAA
Statistics
Matches: 316, Mismatches: 65, Indels: 31
0.77 0.16 0.08
Matches are distributed among these distances:
130 10 0.03
131 199 0.63
132 105 0.33
133 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (132 bp):
TAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGGAATAGTGCCCTAACGT
GCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCGAATACTCCTTCGAAATTTCACTCGTGTTT
TC
Found at i:4205300 original size:17 final size:17
Alignment explanation
Indices: 4205264--4205298 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4205254 GTCATGTGTC
4205264 TTATTTCTTTTACATAT
1 TTATTTCTTTTACATAT
*
4205281 TTATTTTTTTTA-ATAT
1 TTATTTCTTTTACATAT
4205297 TT
1 TT
4205299 TACTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTCTTTTACATAT
Found at i:4207754 original size:21 final size:21
Alignment explanation
Indices: 4207703--4207758 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
4207693 AAAATTCTTT
*
4207703 AAAAACTTT-AAAAATGCTAA
1 AAAAACTTTAAAAAATGCGAA
* *
4207723 AAATTATTTTAAAAAATGCGAA
1 AAA-AACTTTAAAAAATGCGAA
*
4207745 AAAAAGTTTAAAAA
1 AAAAACTTTAAAAA
4207759 TATTCTTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 13 0.45
22 13 0.45
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
AAAAACTTTAAAAAATGCGAA
Found at i:4207883 original size:16 final size:17
Alignment explanation
Indices: 4207855--4207889 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
4207845 AAAATCAACC
4207855 AATTTATTTTTTTTTAA
1 AATTTATTTTTTTTTAA
4207872 AATTTA-TTTTTTTTAA
1 AATTTATTTTTTTTTAA
4207888 AA
1 AA
4207890 AATAGTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTATTTTTTTTTAA
Found at i:4207890 original size:17 final size:17
Alignment explanation
Indices: 4207855--4207890 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4207845 AAAATCAACC
*
4207855 AATTTATTTTTTTTTAA
1 AATTTATTTTTTTTAAA
4207872 AATTTATTTTTTTTAAA
1 AATTTATTTTTTTTAAA
4207889 AA
1 AA
4207891 ATAGTCCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTATTTTTTTTAAA
Found at i:4211358 original size:2 final size:2
Alignment explanation
Indices: 4211351--4211379 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4211341 AAAATAGATA
4211351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4211380 ATGGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4211417 original size:25 final size:25
Alignment explanation
Indices: 4211384--4211459 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
4211374 TATATAATGG
* * *
4211384 TTTAAAATAAATAACATATAAAATA
1 TTTAGAATAAATAATATATAAAAAA
*
4211409 TTTAGAATAAATAATATGTAAAAGAAA
1 TTTAGAATAAATAATATAT-AAA-AAA
* *
4211436 TTTGGAATAAATAATGTATAAAAA
1 TTTAGAATAAATAATATATAAAAA
4211460 CCGTTTAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 18 0.43
26 6 0.14
27 18 0.43
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (25 bp):
TTTAGAATAAATAATATATAAAAAA
Found at i:4211511 original size:25 final size:24
Alignment explanation
Indices: 4211483--4211601 Score: 89
Period size: 24 Copynumber: 4.8 Consensus size: 24
4211473 AAAATTTATG
*
4211483 TATATGAATAATCCAAAATAAATAA
1 TATAT-AATAATTCAAAATAAATAA
* *
4211508 TATATAA-AAGTTTAAAGTAAGA-AGA
1 TATATAATAA-TTCAAAATAA-ATA-A
4211533 TATATAAATAATTTCAAAATAAATAA
1 TATAT-AATAA-TTCAAAATAAATAA
* * **
4211559 GATATAATAGTTTGAAATAAATAA
1 TATATAATAATTCAAAATAAATAA
*
4211583 TATATGAAGAATTCAAAAT
1 TATAT-AATAATTCAAAAT
4211602 GAGTAATAGT
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
23 2 0.03
24 26 0.36
25 25 0.35
26 8 0.11
27 11 0.15
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (24 bp):
TATATAATAATTCAAAATAAATAA
Found at i:4211586 original size:50 final size:50
Alignment explanation
Indices: 4211483--4211601 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 50
4211473 AAAATTTATG
* *
4211483 TATATGAATAATCCAAAATAAATAATATATAAAAGTTTAAAGTAAGAAGA
1 TATATGAATAATTCAAAATAAATAAGATATAAAAGTTTAAAGTAAGAAGA
* *
4211533 TATATAAATAATTTCAAAATAAATAAGATATAATAGTTTGAAA-TAA-ATA-A
1 TATATGAATAA-TTCAAAATAAATAAGATATAAAAGTTT-AAAGTAAGA-AGA
*
4211583 TATATGAAGAATTCAAAAT
1 TATATGAATAATTCAAAAT
4211602 GAGTAATAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
49 8 0.13
50 21 0.35
51 28 0.47
52 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (50 bp):
TATATGAATAATTCAAAATAAATAAGATATAAAAGTTTAAAGTAAGAAGA
Found at i:4214630 original size:46 final size:46
Alignment explanation
Indices: 4214563--4214737 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
4214553 TGTAACCCGC
4214563 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
4214609 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * ** *
4214659 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
4214702 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
4214738 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.58
47 24 0.23
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:4214684 original size:93 final size:93
Alignment explanation
Indices: 4214571--4214741 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
4214561 GCCCATAAGT
** *
4214571 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
4214636 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
4214664 GAACTTGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
4214729 CGAGTTCGGATGC
66 CGAGCTCGGATGC
4214742 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:4216337 original size:13 final size:14
Alignment explanation
Indices: 4216319--4216347 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4216309 TTTTTGTTGT
4216319 TTCTGCTTGG-TTC
1 TTCTGCTTGGCTTC
4216332 TTCTGCTTGGCTTC
1 TTCTGCTTGGCTTC
4216346 TT
1 TT
4216348 TCGTTTGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.24, G:0.21, T:0.55
Consensus pattern (14 bp):
TTCTGCTTGGCTTC
Found at i:4230964 original size:23 final size:25
Alignment explanation
Indices: 4230938--4230984 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
4230928 ACGTTTGGTT
*
4230938 TGTTT-CTTTT-TTATTTTTCTTGC
1 TGTTTGCTTTTATTATTTTACTTGC
4230961 TGTTTGCTTTTATTATTTTACTTG
1 TGTTTGCTTTTATTATTTTACTTG
4230985 TTCCAGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 5 0.24
25 11 0.52
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (25 bp):
TGTTTGCTTTTATTATTTTACTTGC
Found at i:4243138 original size:175 final size:173
Alignment explanation
Indices: 4242595--4243142 Score: 707
Period size: 175 Copynumber: 3.2 Consensus size: 173
4242585 TCTATTTAGC
* * * *
4242595 ATTGCTTATGGCTCAATAAATTTAGGTCCAATATAAATATTATATAAAATACATTAAATTTTAAA
1 ATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAAT-CATTAAATTATAAA
* * * * *
4242660 TAAGAGTTAAAAATAT-TCTGACTCCGAAAA-TGTTTTTTTTTTTGTAAAAAAGGCAATAGTTTT
65 TAAGAGTTAAAAATATCTTTGACTCC-AAAAGTGGTTTTTTTTTT-TCAAACA--CAATAGCTTT
*
4242723 TGGGTTTGGATTGAAAAACAATTTTAACTTCAAAAATGGTCTGTTT-T
126 TGGGTTTGGATTGAAAAACAATTTTAACTTCAAAAATAGTCTGTTTGT
* * * * * *
4242770 ACGTTGCTTATGGCTCAATAAATTCAGGTCCAATATAAATATTAGATAATAT-ATTAGATTAAAA
1 A--TTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAATCATTAAATTATAA
* *
4242834 ATAAGAGTTAAAAATATCTTTGACTCCAAAAGT-G--TTTTTTTTACAAACATAATAGCTTTTGG
64 ATAAGAGTTAAAAATATCTTTGACTCCAAAAGTGGTTTTTTTTTTTCAAACACAATAGCTTTTGG
* * *
4242896 GTTTGGATTG-AAAACAATTTTAACTTTAAAAATAATCTATTTTGT
129 GTTTGGATTGAAAAACAATTTTAACTTCAAAAATAGTCT-GTTTGT
* *
4242941 ATTGCTTATGACTCAATAAATTCAGATTCAATATAAATATTATATAAAATGCATTATATTATAAA
1 ATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAAT-CATTAAATTATAAA
*
4243006 TAAGAGTTAAAAATATCTTTGACTCCAAAAGTGGTTTTTTTTTTTCAAACACAATAGCTATTGGG
65 TAAGAGTTAAAAATATCTTTGACTCCAAAAGTGGTTTTTTTTTTTCAAACACAATAGCTTTTGGG
* *
4243071 TTTGAATTGAAAAACAATTTTAACTTCACAAATAGTCTGTTCTGT
130 TTTGGATTGAAAAACAATTTTAACTTCAAAAATAGTCTGTT-TGT
*
4243116 ATTACTTATGACTCAATAAATTCAGAT
1 ATTGCTTATGACTCAATAAATTCAGAT
4243143 AAAATACATT
Statistics
Matches: 327, Mismatches: 33, Indels: 26
0.85 0.09 0.07
Matches are distributed among these distances:
169 69 0.21
170 24 0.07
171 45 0.14
172 5 0.02
173 8 0.02
174 36 0.11
175 85 0.26
176 9 0.03
177 46 0.14
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (173 bp):
ATTGCTTATGACTCAATAAATTCAGATCCAATATAAATATTATATAAAATCATTAAATTATAAAT
AAGAGTTAAAAATATCTTTGACTCCAAAAGTGGTTTTTTTTTTTCAAACACAATAGCTTTTGGGT
TTGGATTGAAAAACAATTTTAACTTCAAAAATAGTCTGTTTGT
Found at i:4250274 original size:2 final size:2
Alignment explanation
Indices: 4250267--4250321 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
4250257 ACGAACATGC
4250267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4250309 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
4250322 AATTTAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4251819 original size:29 final size:28
Alignment explanation
Indices: 4251778--4251845 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
4251768 TTATTTTTTT
* *
4251778 ATTTTTTATTTTGAAGTAAATAGGA-TA
1 ATTTTTTATTTTGAAGCAAATAAGATTA
4251805 CATTTTTTAATTTTGAAGCAAATAAGATTA
1 -ATTTTTT-ATTTTGAAGCAAATAAGATTA
4251835 ATTTTTT-TTTT
1 ATTTTTTATTTT
4251846 AGTTTAGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 4 0.11
28 7 0.19
29 23 0.64
30 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (28 bp):
ATTTTTTATTTTGAAGCAAATAAGATTA
Found at i:4253927 original size:23 final size:23
Alignment explanation
Indices: 4253890--4253933 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4253880 TTGCCTCAAC
4253890 ATGTACATATATTATACTTATAA
1 ATGTACATATATTATACTTATAA
*
4253913 ATGTACCATAT-TTATATTTAT
1 ATGTA-CATATATTATACTTAT
4253934 GAAACTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (23 bp):
ATGTACATATATTATACTTATAA
Found at i:4255046 original size:25 final size:25
Alignment explanation
Indices: 4255038--4255091 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
4255028 AAATAATTTT
4255038 AAAAATTATAAAAATAAAAAATTCA
1 AAAAATTATAAAAATAAAAAATTCA
*
4255063 AAAAATT-TAAAATTTATAAAAATTCA
1 AAAAATTATAAAA-ATA-AAAAATTCA
4255089 AAA
1 AAA
4255092 GAATAGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 9 0.35
26 12 0.46
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAATTATAAAAATAAAAAATTCA
Found at i:4255049 original size:9 final size:9
Alignment explanation
Indices: 4255026--4255086 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
4255016 TGTTATGATA
4255026 ATAAATAATT
1 ATAAA-AATT
*
4255036 TTAAAAATT
1 ATAAAAATT
4255045 ATAAAAA-T
1 ATAAAAATT
4255053 A-AAAAATT
1 ATAAAAATT
4255061 CA-AAAAATT
1 -ATAAAAATT
*
4255070 -TAAAATTT
1 ATAAAAATT
4255078 ATAAAAATT
1 ATAAAAATT
4255087 CAAAAGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
7 5 0.12
8 9 0.21
9 25 0.58
10 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4255059 original size:16 final size:16
Alignment explanation
Indices: 4255038--4255085 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
4255028 AAATAATTTT
4255038 AAAAATTATAAAAATA
1 AAAAATTATAAAAATA
*
4255054 AAAAATTCA-AAAAATTT
1 AAAAATT-ATAAAAA-TA
*
4255071 AAAATTTATAAAAAT
1 AAAAATTATAAAAAT
4255086 TCAAAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTATAAAAATA
Found at i:4255191 original size:25 final size:26
Alignment explanation
Indices: 4255163--4255268 Score: 78
Period size: 25 Copynumber: 4.1 Consensus size: 26
4255153 TAGTTAATAT
4255163 TTTTATTAAAAAATAAT-AATTTAAA
1 TTTTATTAAAAAATAATAAATTTAAA
* *
4255188 TTTTTTTAAAAATTAATGATTAAATTTAACA
1 TTTTATT-AAAA--AAT-AATAAATTTAA-A
* *
4255219 TTTT-TT-AAAGATAA-AAAATTAAA
1 TTTTATTAAAAAATAATAAATTTAAA
* *
4255242 TTTAATTAAAAAATAATGAA-TTAAA
1 TTTTATTAAAAAATAATAAATTTAAA
4255267 TT
1 TT
4255269 AAGAAAAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
23 4 0.06
24 9 0.14
25 21 0.33
26 8 0.12
28 6 0.09
29 2 0.03
30 9 0.14
31 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (26 bp):
TTTTATTAAAAAATAATAAATTTAAA
Found at i:4255210 original size:24 final size:26
Alignment explanation
Indices: 4255156--4255214 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
4255146 AATGTTTTAG
4255156 TTAATATTTTTATTAAAAAATAATAAT
1 TTAA-ATTTTTATTAAAAAATAATAAT
* *
4255183 TTAAATTTTT-TTAAAAATTAATGA-
1 TTAAATTTTTATTAAAAAATAATAAT
4255207 TTAAATTT
1 TTAAATTT
4255215 AACATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 8 0.27
25 12 0.40
26 6 0.20
27 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TTAAATTTTTATTAAAAAATAATAAT
Found at i:4255215 original size:30 final size:30
Alignment explanation
Indices: 4255169--4255246 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
4255159 ATATTTTTAT
*
4255169 TAAAAAATAATAATTTAA-ATTTTTTTAAAAA
1 TAAAAAATTA-AATTTAACA-TTTTTTAAAAA
* ** *
4255200 TTAATGATTAAATTTAACATTTTTTAAAGA
1 TAAAAAATTAAATTTAACATTTTTTAAAAA
4255230 TAAAAAATTAAATTTAA
1 TAAAAAATTAAATTTAA
4255247 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAAAAATTAAATTTAACATTTTTTAAAAA
Found at i:4255286 original size:20 final size:20
Alignment explanation
Indices: 4255240--4255288 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4255230 TAAAAAATTA
* *
4255240 AATTTAATTAAAAAATAATG
1 AATTAAATTAAAAAATAAGG
*
4255260 AATTAAATTAAGAAA-AAGG
1 AATTAAATTAAAAAATAAGG
4255279 AATGTAAATT
1 AAT-TAAATT
4255289 TTAAAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
AATTAAATTAAAAAATAAGG
Found at i:4259858 original size:16 final size:17
Alignment explanation
Indices: 4259827--4259860 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4259817 CACTGAATTC
*
4259827 ACATTAATCTACATAGA
1 ACATTAAACTACATAGA
4259844 ACATTAAAC-ACATAGA
1 ACATTAAACTACATAGA
4259860 A
1 A
4259861 GTAAGCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
ACATTAAACTACATAGA
Found at i:4262446 original size:15 final size:15
Alignment explanation
Indices: 4262408--4262453 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
4262398 AAAAAACTGT
* *
4262408 AAAATTAAATATTGA
1 AAAATTAAGTATTAA
*
4262423 AAAATTAAGTGTTAA
1 AAAATTAAGTATTAA
*
4262438 AAAATTAAGTAGTAA
1 AAAATTAAGTATTAA
4262453 A
1 A
4262454 TTTAAGTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (15 bp):
AAAATTAAGTATTAA
Found at i:4264262 original size:12 final size:12
Alignment explanation
Indices: 4264244--4264292 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
4264234 CTAAGAGTGG
4264244 TAAAGTAAATAA
1 TAAAGTAAATAA
*
4264256 AAAAGTAAATAA
1 TAAAGTAAATAA
*
4264268 TAAA-TAAAGAA
1 TAAAGTAAATAA
*
4264279 TAAAGTAAAAAA
1 TAAAGTAAATAA
4264291 TA
1 TA
4264293 TATATATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAAGTAAATAA
Found at i:4264291 original size:19 final size:19
Alignment explanation
Indices: 4264250--4264292 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4264240 GTGGTAAAGT
*
4264250 AAATAAAAAAGTAAATAAT
1 AAATAAAAAAGTAAATAAA
*
4264269 AAATAAAGAA-TAAAGTAAA
1 AAATAAAAAAGTAAA-TAAA
4264288 AAATA
1 AAATA
4264293 TATATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAATAAAAAAGTAAATAAA
Found at i:4264307 original size:26 final size:23
Alignment explanation
Indices: 4264244--4264304 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
4264234 CTAAGAGTGG
* *
4264244 TAAAGTAAATAAAAAAGTAAATAA
1 TAAA-TAAATAATAAAGTAAAAAA
*
4264268 TAAATAAAGAATAAAGTAAAAAA
1 TAAATAAATAATAAAGTAAAAAA
* *
4264291 TATATATATAATAA
1 TAAATAAATAATAA
4264305 TAATCAAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.25
Consensus pattern (23 bp):
TAAATAAATAATAAAGTAAAAAA
Found at i:4274713 original size:34 final size:33
Alignment explanation
Indices: 4274662--4274791 Score: 127
Period size: 34 Copynumber: 3.8 Consensus size: 33
4274652 CACAAAATTA
*
4274662 TTTTTAAAAA-ACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
* *
4274694 TTTCTTAAAAACTCTAAACCTTAATTTAATTTAT
1 TTT-TTAAAAACTCTAAACCCTAATTTAATTAAT
* * **
4274728 TTATTTAAAACCCCTAAAAACTAATTTAATTAATT
1 TT-TTTAAAAACTCTAAACCCTAATTTAATTAA-T
* *
4274763 TTTTTAAAAAAAATCTAAACCCTGATTTA
1 TTTTT--AAAAACTCTAAACCCTAATTTA
4274792 TTTTTTAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
32 3 0.04
33 7 0.09
34 47 0.61
35 4 0.05
36 16 0.21
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.42
Consensus pattern (33 bp):
TTTTTAAAAACTCTAAACCCTAATTTAATTAAT
Done.