Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 51 of 173
Found at i:14132270 original size:21 final size:21
Alignment explanation
Indices: 14132244--14132319 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
14132234 AATCATATCT
14132244 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
14132265 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
*
14132286 TTTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
*
14132305 TCTAAGATTACATAT
1 TCTAAGATTGCATAT
14132320 CCTTGAAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 17 0.34
21 33 0.66
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:14132279 original size:19 final size:20
Alignment explanation
Indices: 14132221--14132313 Score: 107
Period size: 21 Copynumber: 4.5 Consensus size: 20
14132211 AAATTAAATC
* *
14132221 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
14132241 TCTTCTAAGATTGCATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
14132265 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
*
14132286 TTTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
14132305 TCTAAGATT
1 TCTAAGATT
14132314 ACATATCCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.25
21 31 0.48
23 11 0.17
24 7 0.11
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:14132318 original size:19 final size:19
Alignment explanation
Indices: 14132257--14132320 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
14132247 AAGATTGCAT
*
14132257 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATT--AC
* *
14132278 ATATCATATTTAAGATTGC
1 ATATCATATCTAAGATTAC
14132297 ATATCATATCTAAGATTAC
1 ATATCATATCTAAGATTAC
14132316 ATATC
1 ATATC
14132321 CTTGAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 22 0.58
21 16 0.42
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTAC
Found at i:14132710 original size:17 final size:17
Alignment explanation
Indices: 14132688--14132720 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14132678 TTTTATAAAA
14132688 TAATATT-TATTTAATTT
1 TAATATTATA-TTAATTT
14132705 TAATATTATATTAATT
1 TAATATTATATTAATT
14132721 AAATTATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATATTATATTAATTT
Found at i:14132725 original size:22 final size:23
Alignment explanation
Indices: 14132690--14132735 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
14132680 TTATAAAATA
* * *
14132690 ATATTTATTTAATTTTAA-TATT
1 ATATTAATTAAATTATAATTATT
14132712 ATATTAATTAAATTATAATTATT
1 ATATTAATTAAATTATAATTATT
14132735 A
1 A
14132736 AATATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATTAATTAAATTATAATTATT
Found at i:14149439 original size:21 final size:22
Alignment explanation
Indices: 14149415--14149455 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14149405 CAGCCAATAT
*
14149415 TGTTTCTTGACC-CTGATTTCC
1 TGTTCCTTGACCTCTGATTTCC
14149436 TGTTCCTTGACCTCTGATTT
1 TGTTCCTTGACCTCTGATTT
14149456 GTCTAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.10, C:0.27, G:0.15, T:0.49
Consensus pattern (22 bp):
TGTTCCTTGACCTCTGATTTCC
Found at i:14151540 original size:29 final size:29
Alignment explanation
Indices: 14151498--14151555 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
14151488 GACATGGCCA
14151498 TTAAAAATCACTAAATTAGCAATTGAATG
1 TTAAAAATCACTAAATTAGCAATTGAATG
14151527 TTAAAAATCACTAAATTAGCAATTGAATG
1 TTAAAAATCACTAAATTAGCAATTGAATG
14151556 CTAACATGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (29 bp):
TTAAAAATCACTAAATTAGCAATTGAATG
Found at i:14156485 original size:18 final size:18
Alignment explanation
Indices: 14156462--14156497 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14156452 GTTGAATTAT
14156462 GATGTTTTATGGTAGAAA
1 GATGTTTTATGGTAGAAA
14156480 GATGTTTTATGGTAGAAA
1 GATGTTTTATGGTAGAAA
14156498 ATGAAAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (18 bp):
GATGTTTTATGGTAGAAA
Found at i:14163028 original size:68 final size:68
Alignment explanation
Indices: 14162893--14163021 Score: 215
Period size: 68 Copynumber: 1.9 Consensus size: 68
14162883 GCAAATAGAC
*
14162893 CATTAAAAGGAGTTAGTAGATAAGTATGATTAGTCATCAATGGAAAATTAAATAAATAAAAATAT
1 CATTAAAAGGAGTTAGTAGATAAGTATGATTAGTCACCAATGGAAAATTAAATAAATAAAAATAT
14162958 TAA
66 TAA
* *
14162961 CATTAAGAA-GAGTTAGTAGATAAGTATGGTTAGTCACCAATGGAAAATTAAATAAAGAAAA
1 CATTAA-AAGGAGTTAGTAGATAAGTATGATTAGTCACCAATGGAAAATTAAATAAATAAAA
14163022 TGATTAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 55 0.96
69 2 0.04
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.27
Consensus pattern (68 bp):
CATTAAAAGGAGTTAGTAGATAAGTATGATTAGTCACCAATGGAAAATTAAATAAATAAAAATAT
TAA
Found at i:14164130 original size:24 final size:24
Alignment explanation
Indices: 14164109--14164173 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
14164099 TTTTCGATAT
*
14164109 TGGCTCGCTTGAGCTTCCCGATTA
1 TGGCTCGCATGAGCTTCCCGATTA
*
14164133 TGGCTCGGATGAGCTTCCC-ATTA
1 TGGCTCGCATGAGCTTCCCGATTA
* * *
14164156 TAGCTCGAAAGAGCTTCC
1 TGGCTCGCATGAGCTTCC
14164174 TATTTACATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (24 bp):
TGGCTCGCATGAGCTTCCCGATTA
Found at i:14169158 original size:13 final size:13
Alignment explanation
Indices: 14169140--14169165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14169130 AATAATGCTT
14169140 TTGGTCTTCGAAA
1 TTGGTCTTCGAAA
14169153 TTGGTCTTCGAAA
1 TTGGTCTTCGAAA
14169166 ACAGGTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTGGTCTTCGAAA
Found at i:14170484 original size:3 final size:3
Alignment explanation
Indices: 14170468--14170538 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
14170458 TAAATGAGTA
* * * *
14170468 AAT AAT AGT TAT AAT AAT AAT AAT AAT AAT ACAA AACT AAT AGT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT AAT
14170514 AAT -AT AAT AAT -AT AAT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AA
14170539 ATAAATATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
2 5 0.09
3 42 0.78
4 7 0.13
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14172184 original size:44 final size:43
Alignment explanation
Indices: 14172115--14172318 Score: 149
Period size: 44 Copynumber: 4.6 Consensus size: 43
14172105 TCGTTTTAAT
* ** *
14172115 CTGCTCCATTGCAACTTCATTGAGATAGGATTAATTGCTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAGG-TTAGTTGCTTCAAC
* *
14172159 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGAT-AGGTTAGTTGCTTCAAC
* * * * ** *
14172203 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTCGTGGCTTTGAT
1 CTGCTCCACTGCAACTTCAGGGAGAT-AGGTTAGTTGCTTCAAC
* * * * * **
14172247 CTGCCCCACCGCAACTTCAGGGGGATAAGACTT-GTTTTCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGAT-AG-GTTAG-TTGCTTCAAC
* *
14172292 CTGTTCGACTGCAACTTCAGGGAGATA
1 CTGCTCCACTGCAACTTCAGGGAGATA
14172319 AGACTTGATA
Statistics
Matches: 127, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
44 96 0.76
45 31 0.24
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAGGTTAGTTGCTTCAAC
Found at i:14172228 original size:88 final size:88
Alignment explanation
Indices: 14172115--14172318 Score: 194
Period size: 88 Copynumber: 2.3 Consensus size: 88
14172105 TCGTTTTAAT
* ** * * *
14172115 CTGCTCCATTGCAACTTCATTGAGATAGGATTAATTGCTTCAACCTGCTCCACTGCAACTTCAGG
1 CTGCTCCACTGCAACTTCAGAGAGATAGG-TTAATGGCTTCAACCTGCCCCACCGCAACTTCAGG
**
14172180 GAGATAAGGTTTG-TTACTTCAAC
65 GAGATAAGACTTGTTTACTTCAAC
* ** ** *
14172203 CTGCTCTACTGCAACTTCAGAGAGATAAGGTTCGTGGCTTTGATCTGCCCCACCGCAACTTCAGG
1 CTGCTCCACTGCAACTTCAGAGAGAT-AGGTTAATGGCTTCAACCTGCCCCACCGCAACTTCAGG
* * **
14172268 GGGATAAGACTTGTTTTCTTCAGT
65 GAGATAAGACTTGTTTACTTCAAC
* * *
14172292 CTGTTCGACTGCAACTTCAGGGAGATA
1 CTGCTCCACTGCAACTTCAGAGAGATA
14172319 AGACTTGATA
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
88 60 0.65
89 33 0.35
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (88 bp):
CTGCTCCACTGCAACTTCAGAGAGATAGGTTAATGGCTTCAACCTGCCCCACCGCAACTTCAGGG
AGATAAGACTTGTTTACTTCAAC
Found at i:14172319 original size:89 final size:88
Alignment explanation
Indices: 14172159--14172320 Score: 216
Period size: 89 Copynumber: 1.8 Consensus size: 88
14172149 TTGCTTCAAC
* * ** *
14172159 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTACTTCAACCTGCTCTACTGCAACTTCAGA
1 CTGCCCCACCGCAACTTCAGGGAGATAAGACTTGTTACTTCAACCTGCTCGACTGCAACTTCAGA
14172224 GAGATAAGGTTCGTGGCTTTGAT
66 GAGATAAGGTTCGTGGCTTTGAT
* * ** *
14172247 CTGCCCCACCGCAACTTCAGGGGGATAAGACTTGTTTTCTTCAGTCTGTTCGACTGCAACTTCAG
1 CTGCCCCACCGCAACTTCAGGGAGATAAGACTTG-TTACTTCAACCTGCTCGACTGCAACTTCAG
*
14172312 GGAGATAAG
65 AGAGATAAG
14172321 ACTTGATATG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 29 0.47
89 33 0.53
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (88 bp):
CTGCCCCACCGCAACTTCAGGGAGATAAGACTTGTTACTTCAACCTGCTCGACTGCAACTTCAGA
GAGATAAGGTTCGTGGCTTTGAT
Found at i:14172524 original size:50 final size:50
Alignment explanation
Indices: 14172436--14173013 Score: 387
Period size: 50 Copynumber: 11.6 Consensus size: 50
14172426 AGTCTAATTA
* ** * *
14172436 ACTGCAATGTC-GAGGAAGTAAGATTCGCTATTCTAGCTTCAATTTGTTCC
1 ACTGCAATGCCAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * * * **
14172486 ACTACATTGCCAGGGAAGTAAAATTCGCTGTTGTAGCTTTTAAGT-T-TTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGC-TTCAA-TCTGTTCC
* * * * ** *
14172536 ATTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGTTTCAATCTGTTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * **
14172586 ACTGC-ATCGCCAGGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTTA
1 ACTGCAAT-GCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * * * *
14172636 ATTCCAATGTC-GAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTCCC
1 ACTGCAATGCCAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * * * **
14172686 ACTGCACTGCTAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* ** * * *
14172736 ATTGCAATG-TTGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTCCC
1 ACTGCAATGCCAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
** * * * **
14172786 ACTGCACCGCCAGGGAAGTAAGATTCGCCATTGTAGCTTCAATATTTTTA
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * * * *
14172836 ATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAACTTCAATCTGTTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* ** * *
14172886 ACTACACCGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTGTTCC
1 ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * * * * * *
14172936 ACTAC-ATCGCCAGGGAGGTAAGGTTCACCGTTGTAGATTCAATCTATTTC
1 ACTGCAAT-GCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
* * ** *
14172986 ACTGTAATTCCAAAGAAGTAGGATTCGC
1 ACTGCAATGCCAGGGAAGTAAGATTCGC
14173014 TGCCCACAGA
Statistics
Matches: 395, Mismatches: 120, Indels: 26
0.73 0.22 0.05
Matches are distributed among these distances:
48 1 0.00
49 10 0.03
50 371 0.94
51 12 0.03
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
ACTGCAATGCCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
Found at i:14172559 original size:100 final size:100
Alignment explanation
Indices: 14172433--14172928 Score: 643
Period size: 100 Copynumber: 5.0 Consensus size: 100
14172423 TTTAGTCTAA
* * * * * * **
14172433 TTAACTGCAATGTCGAGGAAGTAAGATTCGCTATTCTAGCTTCAATTTGTTCCACTACATTGCCA
1 TTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
14172498 GGGAAGTAAAATTCGCTGTTGTAGCTTTTAA-GTTT
66 GGGAAGTAAGATTCGCCGTTGTAGC-TTCAATATTT
* * * *
14172533 TTAATTGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGTTTCAATCTGTTCCACTGCATCGCCA
1 TTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
14172598 GGGAAGTAAGATTTGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATATTT
* * * * * *
14172633 TTAATTCCAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTCCCACTGCACTGCTA
1 TTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
14172698 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATTTTT
66 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATATTT
* * * *
14172733 TTAATTGCAATGTTGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTCCCACTGCACCGCCA
1 TTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
*
14172798 GGGAAGTAAGATTCGCCATTGTAGCTTCAATATTT
66 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATATTT
* * *
14172833 TTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTACACCGCCA
1 TTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
14172898 GGGAAGTAAGATTCACTGTTGTAGCTTCAAT
66 GGGAAGTAAGATTCGCCGTTGTAGCTTCAAT
14172929 CTGTTCCACT
Statistics
Matches: 350, Mismatches: 45, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
99 4 0.01
100 346 0.99
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
TTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATATTT
Found at i:14174007 original size:108 final size:108
Alignment explanation
Indices: 14173813--14174034 Score: 345
Period size: 108 Copynumber: 2.1 Consensus size: 108
14173803 GAAAAATGCT
* *
14173813 TGAAAAATATTATCAAAATGGACAAGATGAAATTTCATTGAGAACAAAGCTCGCAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTCATTGAGAACAAAGCTCGAAATGAATAAAT
* * *
14173878 TAATCAAGATAGCAAATTTTGCTAAGGTACGAAATGAATAAGA
66 TAATCAAGATAGCAAACTTTGCTAAGATACGAAATAAATAAGA
* * * ** *
14173921 TGAAAAAGATTATCACAATGGACAAGATGGAATTTTATTGAGAGTAAAGCTTGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTCATTGAGAACAAAGCTCGAAATGAATAAAT
14173986 TAATCAAGATAGCAAACTTTGCTAAGATACGAAATAAATAAGA
66 TAATCAAGATAGCAAACTTTGCTAAGATACGAAATAAATAAGA
14174029 TGAAAA
1 TGAAAA
14174035 CAGGTGCCCC
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAGATGAAATTTCATTGAGAACAAAGCTCGAAATGAATAAAT
TAATCAAGATAGCAAACTTTGCTAAGATACGAAATAAATAAGA
Found at i:14174721 original size:10 final size:9
Alignment explanation
Indices: 14174687--14174719 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
14174677 CCGGTAGAGG
*
14174687 TTTTTAGGT
1 TTTTTTGGT
14174696 TTTTTTGGT
1 TTTTTTGGT
14174705 TTTTTTGGT
1 TTTTTTGGT
14174714 TTTTTT
1 TTTTTT
14174720 TGCGCCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.18, T:0.79
Consensus pattern (9 bp):
TTTTTTGGT
Found at i:14176043 original size:31 final size:32
Alignment explanation
Indices: 14176005--14176067 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
14175995 GTATGTACTG
* *
14176005 AAATGTAATGGAAAAG-ATGCATGCAAAAAAA
1 AAATGTAATGCAAAAGCATGAATGCAAAAAAA
*
14176036 AAATGTAATGCAAATGCATGAATGCAAAAAAA
1 AAATGTAATGCAAAAGCATGAATGCAAAAAAA
14176068 GAGGTGTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 14 0.50
32 14 0.50
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.17
Consensus pattern (32 bp):
AAATGTAATGCAAAAGCATGAATGCAAAAAAA
Found at i:14177094 original size:9 final size:8
Alignment explanation
Indices: 14177071--14177095 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14177061 ATCCACTTTC
14177071 GACAAAAA
1 GACAAAAA
14177079 GACAAAAA
1 GACAAAAA
14177087 GACAAAAA
1 GACAAAAA
14177095 G
1 G
14177096 TAATAAACTC
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:0.72, C:0.12, G:0.16, T:0.00
Consensus pattern (8 bp):
GACAAAAA
Found at i:14178174 original size:4 final size:4
Alignment explanation
Indices: 14178165--14178205 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
14178155 ATAATAAAAC
14178165 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
14178206 AGAGATGAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:14178421 original size:14 final size:14
Alignment explanation
Indices: 14178402--14178428 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14178392 CGAAGAATAC
14178402 ATATATATTTATGT
1 ATATATATTTATGT
14178416 ATATATATTTATG
1 ATATATATTTATG
14178429 AGAGTAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
ATATATATTTATGT
Found at i:14178703 original size:3 final size:3
Alignment explanation
Indices: 14178687--14178760 Score: 64
Period size: 3 Copynumber: 24.7 Consensus size: 3
14178677 TAAATGAGTA
* * * *
14178687 AAT AAT AGT TAT AAT AAT AAT AAT AAT AAT AAT ACAA AACT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA-T AAT AAT
14178734 -AT AAT -AT AAT AAT -AT AAT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
14178761 ATAAATATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 5 0.09
3 45 0.79
4 7 0.12
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14178745 original size:8 final size:8
Alignment explanation
Indices: 14178696--14178754 Score: 52
Period size: 8 Copynumber: 7.1 Consensus size: 8
14178686 AAATAATAGT
14178696 TATAATAA
1 TATAATAA
14178704 TAATAATAA
1 T-ATAATAA
14178713 TAATAATACA
1 T-ATAATA-A
14178723 -A-AACTAA
1 TATAA-TAA
14178730 TAGT-ATAA
1 TA-TAATAA
14178738 TATAATAA
1 TATAATAA
14178746 TATAATAA
1 TATAATAA
14178754 T
1 T
14178755 GAATAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
7 4 0.09
8 23 0.52
9 16 0.36
10 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (8 bp):
TATAATAA
Found at i:14178763 original size:11 final size:10
Alignment explanation
Indices: 14178697--14178764 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 10
14178687 AATAATAGTT
14178697 ATAATAAT-A
1 ATAATAATAA
14178706 ATAATAAT-A
1 ATAATAATAA
14178715 ATAATACA-AA
1 ATAATA-ATAA
14178725 ACTAATAGTATAA
1 A-TAATA--ATAA
14178738 TATAATAATATA
1 -ATAATAATA-A
14178750 ATAATGAATAA
1 ATAAT-AATAA
14178761 ATAA
1 ATAA
14178765 ATATAAAATG
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
9 15 0.30
10 3 0.06
11 18 0.36
12 6 0.12
13 7 0.14
14 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
ATAATAATAA
Found at i:14180604 original size:84 final size:83
Alignment explanation
Indices: 14180497--14180675 Score: 214
Period size: 84 Copynumber: 2.1 Consensus size: 83
14180487 CAAAAACGCT
* * * * *
14180497 GCTAAAGACCATGTTGTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTCTTTAGCG
1 GCTAAAGAACATGGTATTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGGTCTTTAGCG
14180562 GCGTTTTTTTCTAAGCGCC
66 GCGTTTTTTT-TAAGCGCC
* * ****** * *
14180581 GCTAAATAACATGGTATTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTG
1 GCTAAAGAACATGGTATTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGGTCTTTAGCG
14180646 GCGTTTTTTTTAAGCGCC
66 GCGTTTTTTTTAAGCGCC
14180664 GCTAAAGAACAT
1 GCTAAAGAACAT
14180676 TATCTTTAGT
Statistics
Matches: 79, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
83 19 0.24
84 60 0.76
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (83 bp):
GCTAAAGAACATGGTATTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGGTCTTTAGCG
GCGTTTTTTTTAAGCGCC
Found at i:14180685 original size:41 final size:42
Alignment explanation
Indices: 14180535--14180684 Score: 230
Period size: 42 Copynumber: 3.6 Consensus size: 42
14180525 TAGAAAAAAA
* *
14180535 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
14180577 CGCCGCTAAATAACATGGTATTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
14180619 CGCCGCTAAAGAACATGGTCTTTAGTGGCGTTTTTTT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
**
14180660 CGCCGCTAAAGAACATTATCTTTAG
1 CGCCGCTAAAGAACATGGTCTTTAG
14180685 TAGTGCTTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 27 0.27
42 72 0.73
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:14181059 original size:21 final size:21
Alignment explanation
Indices: 14181012--14181061 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
14181002 TTTTGCTCTG
* * *
14181012 CTCTGTTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
14181033 CGCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
14181054 CTCTGCTT
1 CTCTGCTT
14181062 TAAGTTGTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.42, G:0.20, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:14186537 original size:16 final size:16
Alignment explanation
Indices: 14186516--14187138 Score: 220
Period size: 16 Copynumber: 38.4 Consensus size: 16
14186506 GATTTAGGAA
14186516 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
14186532 TAAGTTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
* *
14186550 TAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
* *
14186568 TAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
*
14186586 T-A-TTATGAAACTTATG
1 TAAGTTATG-TA-TTATG
* *
14186602 TAAATTATGTCTTATG
1 TAAGTTATGTATTATG
14186618 TAAGTTATGTAAATTATG
1 TAAGTTATGT--ATTATG
14186636 T-A-TTATGTAAGTTATG
1 TAAGTTATGT-A-TTATG
*
14186652 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
*
14186668 TAAGTTATGTAAGTTGTG
1 TAAGTTATGT-A-TTATG
* **
14186686 T-A-TTATTTACACATG
1 TAAGTTATGTA-TTATG
*
14186701 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
* * *
14186717 CAAGTCATGTAGGCTATG
1 TAAGTTATGTA--TTATG
*
14186735 T-A-TTATGTAAATTACAAGGG
1 TAAGTTATGT--ATT---A-TG
14186755 TAAG-T-TGT-TTAGTGG
1 TAAGTTATGTATTA-T-G
14186770 TAAGTATAAATG-AGTTATG
1 TAAGT-T--ATGTA-TTATG
14186789 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
14186805 CAAGTTATGTA--A-G
1 TAAGTTATGTATTATG
** ** *
14186818 TCCGACAAG-A-TATG
1 TAAGTTATGTATTATG
*
14186832 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
14186848 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
14186864 TAAGTTAAGTATTATG
1 TAAGTTATGTATTATG
14186880 T-A---A-G--TTATG
1 TAAGTTATGTATTATG
*
14186889 TAAGTTGTGTATTATG
1 TAAGTTATGTATTATG
14186905 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
* *
14186921 TAAGTTATGTAAGTCTG
1 TAAGTTATGT-ATTATG
*
14186938 ACAAGTTATGTATAATAT-
1 -TAAGTTATGTAT--TATG
14186956 TAA-TTA---ATTATG
1 TAAGTTATGTATTATG
14186968 TAAGTTATGTATTATATTAATG
1 TAAGTTATG-----TATT-ATG
*
14186990 TCAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
14187006 TAAGTTATTTAAGTTATG
1 TAAGTTATGT-A-TTATG
* *
14187024 TAAGTTGTTTATTATG
1 TAAGTTATGTATTATG
* *
14187040 TGAGTTATGCAATTTATG
1 TAAGTTATG-TA-TTATG
* * *
14187058 TAGGCTATATATTATG
1 TAAGTTATGTATTATG
14187074 TAAG---T-TATTATG
1 TAAGTTATGTATTATG
*
14187086 TTA-TTATGTAAGTTAT-
1 TAAGTTATGT-A-TTATG
* *
14187102 TATGTTAT-TATGATG
1 TAAGTTATGTATTATG
14187117 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
14187133 TAAGTT
1 TAAGTT
14187139 TATATATAAG
Statistics
Matches: 461, Mismatches: 74, Indels: 144
0.68 0.11 0.21
Matches are distributed among these distances:
9 6 0.01
10 1 0.00
11 4 0.01
12 14 0.03
13 11 0.02
14 12 0.03
15 22 0.05
16 214 0.46
17 41 0.09
18 100 0.22
19 9 0.02
20 8 0.02
21 8 0.02
22 11 0.02
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:14186541 original size:9 final size:9
Alignment explanation
Indices: 14186516--14187138 Score: 266
Period size: 9 Copynumber: 72.7 Consensus size: 9
14186506 GATTTAGGAA
14186516 TAAGTTATG
1 TAAGTTATG
14186525 T-A-TTATG
1 TAAGTTATG
14186532 TAAGTTATG
1 TAAGTTATG
14186541 TAAGTTATG
1 TAAGTTATG
*
14186550 TAAGTTGTG
1 TAAGTTATG
*
14186559 TAAGTTGTG
1 TAAGTTATG
*
14186568 TAAGTTGTG
1 TAAGTTATG
*
14186577 TAAGTTGTG
1 TAAGTTATG
14186586 T-A-TTATG
1 TAAGTTATG
* *
14186593 AAACTTATG
1 TAAGTTATG
*
14186602 TAAATTATG
1 TAAGTTATG
*
14186611 T--CTTATG
1 TAAGTTATG
14186618 TAAGTTATG
1 TAAGTTATG
*
14186627 TAAATTATG
1 TAAGTTATG
14186636 T-A-TTATG
1 TAAGTTATG
14186643 TAAGTTATG
1 TAAGTTATG
*
14186652 TAAGTTGTG
1 TAAGTTATG
14186661 T-A-TTATG
1 TAAGTTATG
14186668 TAAGTTATG
1 TAAGTTATG
*
14186677 TAAGTTGTG
1 TAAGTTATG
*
14186686 T-A-TTATT
1 TAAGTTATG
*
14186693 TACA--CATG
1 TA-AGTTATG
*
14186701 TAAGTTGTG
1 TAAGTTATG
14186710 T-A-TTATG
1 TAAGTTATG
* *
14186717 CAAGTCATG
1 TAAGTTATG
* *
14186726 TAGGCTATG
1 TAAGTTATG
14186735 T-A-TTATG
1 TAAGTTATG
* *
14186742 TAAATTACAAGGG
1 TAAGTT---A-TG
*
14186755 TAAGTTGT-
1 TAAGTTATG
* *
14186763 TTAG-T-GG
1 TAAGTTATG
**
14186770 TAAGTATAAA
1 TAAGT-TATG
*
14186780 TGAGTTATG
1 TAAGTTATG
14186789 TAAGTTATG
1 TAAGTTATG
14186798 T-A-TTATG
1 TAAGTTATG
*
14186805 CAAGTTATG
1 TAAGTTATG
**
14186814 TAAG-TCCG
1 TAAGTTATG
* *
14186822 ACAAGATATG
1 -TAAGTTATG
*
14186832 TAAGTTGTG
1 TAAGTTATG
14186841 T-A-TTATG
1 TAAGTTATG
14186848 TAAGTTATG
1 TAAGTTATG
14186857 T-A-TTATG
1 TAAGTTATG
*
14186864 TAAGTTAAG
1 TAAGTTATG
14186873 T-A-TTATG
1 TAAGTTATG
14186880 TAAGTTATG
1 TAAGTTATG
*
14186889 TAAGTTGTG
1 TAAGTTATG
14186898 T-A-TTATG
1 TAAGTTATG
14186905 TAAGTTATG
1 TAAGTTATG
14186914 T-A-TTATG
1 TAAGTTATG
14186921 TAAGTTATG
1 TAAGTTATG
*
14186930 TAAG-TCTG
1 TAAGTTATG
*
14186938 ACAAGTTATG
1 -TAAGTTATG
*
14186948 TATAATATTAAT-
1 --TAA-GTT-ATG
14186960 TAA-TTATG
1 TAAGTTATG
14186968 TAAGTTATG
1 TAAGTTATG
*
14186977 TATTATATTAATG
1 TA--A-GTT-ATG
*
14186990 TCAGTTATG
1 TAAGTTATG
14186999 T-A-TTATG
1 TAAGTTATG
*
14187006 TAAGTTATT
1 TAAGTTATG
14187015 TAAGTTATG
1 TAAGTTATG
*
14187024 TAAGTTGT-
1 TAAGTTATG
*
14187032 TTA-TTATG
1 TAAGTTATG
*
14187040 TGAGTTATG
1 TAAGTTATG
* *
14187049 CAATTTATG
1 TAAGTTATG
* * *
14187058 TAGGCTATA
1 TAAGTTATG
14187067 T-A-TTATG
1 TAAGTTATG
14187074 TAAGTTAT-
1 TAAGTTATG
*
14187082 TATGTTATTATG
1 TAAG---TTATG
14187094 TAAGTTAT-
1 TAAGTTATG
*
14187102 TATGTTAT-
1 TAAGTTATG
*
14187110 T-A-TGATG
1 TAAGTTATG
14187117 TAAGTTATG
1 TAAGTTATG
14187126 T-A-TTATG
1 TAAGTTATG
14187133 TAAGTT
1 TAAGTT
14187139 TATATATAAG
Statistics
Matches: 463, Mismatches: 85, Indels: 132
0.68 0.12 0.19
Matches are distributed among these distances:
6 3 0.01
7 99 0.21
8 62 0.13
9 256 0.55
10 14 0.03
11 9 0.02
12 8 0.02
13 12 0.03
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14186545 original size:25 final size:25
Alignment explanation
Indices: 14186516--14187134 Score: 171
Period size: 25 Copynumber: 24.4 Consensus size: 25
14186506 GATTTAGGAA
14186516 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
14186541 TAAGTTATGTAAGTTGTGTAAGTTGTG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* *
14186568 TAAGTTGTGTAAGTTGTGT-A-TTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
14186593 AAACTTATGTAAATTATGT--CTTATG
1 TAAGTTATGT--ATTATGTAAGTTATG
14186618 TAAGTTATGTAAATTATGT-A-TTATG
1 TAAGTTATGT--ATTATGTAAGTTATG
*
14186643 TAAGTTATGTAAGTTGTGT-A-TTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* *
14186668 TAAGTTATGTAAGTTGTGTATTATTTACACATG
1 TAAGTTATGT-A-TTATGTA--AGTT----ATG
* * *
14186701 TAAGTTGTGTATTATGCAAGTCATG
1 TAAGTTATGTATTATGTAAGTTATG
* * * *
14186726 TAGGCTATGTATTATGTAAATTACAAGGG
1 TAAGTTATGTATTATGTAAGTT---A-TG
**
14186755 TAAG-T-TGT-TTAGTGGTAAGTATAAA
1 TAAGTTATGTATTA-T-GTAAGT-TATG
*
14186780 TGAGTTATGTAAGTTATGT-A-TTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * ** * *
14186805 CAAGTTATGTAAGTCCGACAAGATATG
1 TAAGTTATGT-ATTATG-TAAGTTATG
*
14186832 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
14186857 T-A-TTATGTAAGTTAAGT-A-TTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
*
14186880 TAAGTTATGTAAGTTGTGT-A-TTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
14186905 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
** *
14186930 TAAGTCTGA-CAAGTTATGTATA-ATAT-
1 TAAGT-T-ATGTA-TTATGTA-AGTTATG
14186956 TAA-TTA---ATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
14186977 T-A-TTA--TATTAATGTCAGTTATG
1 TAAGTTATGTATT-ATGTAAGTTATG
*
14186999 T-A-TTATGTAAGTTATTTAAGTTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
14187024 TAAGTTGTTTATTATGTGAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* * * *
14187049 CAATTTATGTAGGCTATAT-A-TTATG
1 TAAGTTATGTA--TTATGTAAGTTATG
14187074 TAAGTTATTATGTTATTATGTAAGTTAT-
1 TAAG---TTATG-TATTATGTAAGTTATG
* *
14187102 TATGTTAT-TATGATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
14187126 T-A-TTATGTA
1 TAAGTTATGTA
14187135 AGTTTATATA
Statistics
Matches: 462, Mismatches: 73, Indels: 120
0.71 0.11 0.18
Matches are distributed among these distances:
19 1 0.00
20 14 0.03
21 5 0.01
22 20 0.04
23 33 0.07
24 13 0.03
25 222 0.48
26 24 0.05
27 73 0.16
28 20 0.04
29 16 0.03
30 3 0.01
31 5 0.01
32 1 0.00
33 12 0.03
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:14186995 original size:22 final size:21
Alignment explanation
Indices: 14186958--14187004 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
14186948 TATAATATTA
14186958 ATTA-ATTATGTAAGTTATGT
1 ATTATATTATGTAAGTTATGT
*
14186978 ATTATATTAATGTCAGTTATGT
1 ATTATATT-ATGTAAGTTATGT
14187000 ATTAT
1 ATTAT
14187005 GTAAGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 3 0.12
22 17 0.71
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (21 bp):
ATTATATTATGTAAGTTATGT
Found at i:14187084 original size:12 final size:12
Alignment explanation
Indices: 14187067--14187124 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
14187057 GTAGGCTATA
14187067 TATTATGTAAGT
1 TATTATGTAAGT
14187079 TATTA--T--GT
1 TATTATGTAAGT
14187087 TATTATGTAAGT
1 TATTATGTAAGT
*
14187099 TATTATGTTA-T
1 TATTATGTAAGT
*
14187110 TATGATGTAAGT
1 TATTATGTAAGT
14187122 TAT
1 TAT
14187125 GTATTATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
8 7 0.18
10 2 0.05
11 9 0.24
12 20 0.53
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (12 bp):
TATTATGTAAGT
Found at i:14187112 original size:23 final size:20
Alignment explanation
Indices: 14187067--14187138 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
14187057 GTAGGCTATA
14187067 TATTATGTAAGTTATTATGT
1 TATTATGTAAGTTATTATGT
14187087 TATTATGTAAGTTATTATGT
1 TATTATGTAAGTTATTATGT
* *
14187107 TATTATG-ATGTAAGTTATG-
1 TATTATGTAAGTTA-TTATGT
14187126 TATTATGTAAGTT
1 TATTATGTAAGTT
14187139 TATATATAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.24
20 35 0.76
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (20 bp):
TATTATGTAAGTTATTATGT
Found at i:14187252 original size:15 final size:15
Alignment explanation
Indices: 14187217--14187259 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
14187207 AAAGTTTTGA
*
14187217 AAAAATATATAAATT
1 AAAAATATATATATT
**
14187232 TTAAATATATATATT
1 AAAAATATATATATT
*
14187247 AAAAATGTATATA
1 AAAAATATATATA
14187260 AATATTAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAAAATATATATATT
Found at i:14187523 original size:69 final size:69
Alignment explanation
Indices: 14187435--14187645 Score: 325
Period size: 69 Copynumber: 3.1 Consensus size: 69
14187425 TGGGGTGATA
* * *
14187435 TATTAAAAATATA-AGTGTTAATATTTAGAAAATAACATTTACAATTATTTTTCAAATTGTAAAA
1 TATTCAAAATATAGA-TGTTAATATTTAGAAAATAACATTTACAATTATTTTTAAAATTATAAAA
14187499 TTTAT
65 TTTAT
* * * *
14187504 TATTCCAAATATAGATGTTATTATTTAGAAAATAACATTTACAATCATTTCTAAAATTATAAAAT
1 TATTCAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTATTTTTAAAATTATAAAAT
14187569 TTAT
66 TTAT
* *
14187573 TATTGAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTTTTTTTAAAATTATAAAAT
1 TATTCAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTATTTTTAAAATTATAAAAT
14187638 TTAT
66 TTAT
14187642 TATT
1 TATT
14187646 AATAAAATTT
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
69 127 0.99
70 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (69 bp):
TATTCAAAATATAGATGTTAATATTTAGAAAATAACATTTACAATTATTTTTAAAATTATAAAAT
TTAT
Found at i:14190534 original size:14 final size:14
Alignment explanation
Indices: 14190515--14190578 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
14190505 ACCCTTAAAT
14190515 CCCTAAATCCTAAC
1 CCCTAAATCCTAAC
14190529 CCCTAAATCACTAA-
1 CCCTAAATC-CTAAC
* * *
14190543 CTCTTAACCCTTAAC
1 CCCTAAATCC-TAAC
* *
14190558 CCCTAACTACTAAC
1 CCCTAAATCCTAAC
14190572 CCCTAAA
1 CCCTAAA
14190579 CCTTAAATCC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
13 1 0.03
14 28 0.74
15 9 0.24
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAATCCTAAC
Found at i:14190535 original size:22 final size:22
Alignment explanation
Indices: 14190505--14190594 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 22
14190495 CCCTAACCCG
*
14190505 ACCCTTAAATCCCTAAATCCTA
1 ACCCCTAAATCCCTAAATCCTA
* * *
14190527 ACCCCTAAATCACTAACTCTTA
1 ACCCCTAAATCCCTAAATCCTA
* * * *
14190549 A-CCCTTAACCCCTAACTACTA
1 ACCCCTAAATCCCTAAATCCTA
* *
14190570 ACCCCTAAA-CCTTAAATCCCA
1 ACCCCTAAATCCCTAAATCCTA
14190591 ACCC
1 ACCC
14190595 TCAAAATTAA
Statistics
Matches: 53, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
21 28 0.53
22 25 0.47
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (22 bp):
ACCCCTAAATCCCTAAATCCTA
Found at i:14190900 original size:14 final size:15
Alignment explanation
Indices: 14190872--14190942 Score: 78
Period size: 15 Copynumber: 4.9 Consensus size: 15
14190862 CTAGTTAATC
14190872 TAAACCTTAAA-CCA
1 TAAACCTTAAACCCA
14190886 TAAA-CTTAAACCCA
1 TAAACCTTAAACCCA
*
14190900 TAAACCCTAAACCCA
1 TAAACCTTAAACCCA
*
14190915 TAAACCCTT-AACACA
1 TAAA-CCTTAAACCCA
14190930 T-AACCTTTAAACC
1 TAAACC-TTAAACC
14190943 TTAAACCCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
13 8 0.17
14 15 0.31
15 22 0.46
16 3 0.06
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCTTAAACCCA
Found at i:14190905 original size:8 final size:8
Alignment explanation
Indices: 14190892--14190921 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14190882 ACCATAAACT
14190892 TAAACCCA
1 TAAACCCA
14190900 TAAACCC-
1 TAAACCCA
14190907 TAAACCCA
1 TAAACCCA
14190915 TAAACCC
1 TAAACCC
14190922 TTAACACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAACCCA
Found at i:14190997 original size:15 final size:15
Alignment explanation
Indices: 14190962--14191000 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
14190952 GGCCTTTATA
14190962 CCATAAACC-ATAAC
1 CCATAAACCTATAAC
* *
14190976 CCCTAAACCTATAAT
1 CCATAAACCTATAAC
14190991 CCATAAACCT
1 CCATAAACCT
14191001 TAAAATGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCTATAAC
Found at i:14191512 original size:113 final size:114
Alignment explanation
Indices: 14191229--14191907 Score: 925
Period size: 114 Copynumber: 6.0 Consensus size: 114
14191219 ATTTTAAATC
* *
14191229 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCATAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * **
14191294 GTTGGGTTTAGGTTTTTTTGCGGCGCTTTACCAACAACGCCGCTAAATC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *
14191343 CCTGAGAATTAGCGGCGCTTTCTTACAAAACGCCACTAAATCCTCGAAAGCTCAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTTCTTA-AAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGT
* *
14191408 CGTTGGGCTTAGGTTTTTTTGCGGCAC-TTCCCAAAAACGCCACTAAAGA
65 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
14191457 CTTGAGCATTAGCGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * *
14191522 GTTAGGCTTAGGTTTTTTTGTGGTGCTTTACCAAAAACGCCGCTAAAGA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * *** * **
14191571 CCTGAGAATTAGAGGCG-TATTCTTAAAAACGCCGCTAAATTGTCGAAAGCTCAGTAAACAACGT
1 CCTGAGCATTAGCGGCGCT-TTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGT
* * *
14191635 CGTTGAGCTTAGG-TTTTTTGCGGCGCTTTCCTAAAAACGCCGCTAAGGA
65 CGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
14191684 CCTGAGCATTAGCGGCACTTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * *
14191749 GTTGGGCATAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAATA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * * *
14191798 CCTTAGCATTAGCGGCACTTTATTAAAAACGCCGCGAAACCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* ***
14191863 GTTGGGCTTAGG-TTTTTTGTGGCGCTTTCTGGAAAACGCCGCTAA
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
14191908 TGCTTATTTT
Statistics
Matches: 493, Mismatches: 67, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
113 183 0.37
114 250 0.51
115 60 0.12
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (114 bp):
CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:14191728 original size:227 final size:226
Alignment explanation
Indices: 14191229--14191907 Score: 957
Period size: 227 Copynumber: 3.0 Consensus size: 226
14191219 ATTTTAAATC
* *
14191229 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCATAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * *
14191294 GTTGGGTTTAGGTTTTTTTGCGGCGCTTTACCAACAACGCCGCTAAATCCCTGAGAATTAGCGGC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTACCAAAAACGCCGCTAAATACCTGAGAATTAGCGGC
*
14191359 GCTTTCTTACAAAACGCCACTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
131 G-TTTCTTA-AAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG-TT
* * *
14191424 TTTTGCGGCAC-TTCCCAAAAACGCCACTAAAGA
193 TTTTGCGGCGCTTTCCTAAAAACGCCGCTAAAGA
* *
14191457 CTTGAGCATTAGCGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * * *
14191522 GTTAGGCTTAGGTTTTTTTGTGGTGCTTTACCAAAAACGCCGCTAAAGACCTGAGAATTAGAGGC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTACCAAAAACGCCGCTAAATACCTGAGAATTAGCGGC
** * ** *
14191587 GTATTCTTAAAAACGCCGCTAAATTGTCGAAAGCTCAGTAAACAACGTCGTTGAGCTTAGGTTTT
131 GT-TTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTT
*
14191652 TTGCGGCGCTTTCCTAAAAACGCCGCTAAGGA
195 TTGCGGCGCTTTCCTAAAAACGCCGCTAAAGA
* *
14191684 CCTGAGCATTAGCGGCACTTCCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * * *
14191749 GTTGGGCATAGGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAATACCTTAGCATTAGCGGC
66 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTACCAAAAACGCCGCTAAATACCTGAGAATTAGCGGC
* * * * *
14191814 ACTTTATTAAAAACGCCGCGAAACCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTT
131 -GTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTT
* *
14191879 TTGTGGCGCTTT-CTGGAAAACGCCGCTAA
195 TTGCGGCGCTTTCCT-AAAAACGCCGCTAA
14191908 TGCTTATTTT
Statistics
Matches: 397, Mismatches: 50, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
226 14 0.04
227 257 0.65
228 126 0.32
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (226 bp):
CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTTAGGTTTTTTTGCGGCGCTTTACCAAAAACGCCGCTAAATACCTGAGAATTAGCGGC
GTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
TGCGGCGCTTTCCTAAAAACGCCGCTAAAGA
Found at i:14193767 original size:20 final size:22
Alignment explanation
Indices: 14193738--14193791 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
14193728 AGTTAATATA
*
14193738 ATTTATTATTTTAA-TTTATT-
1 ATTTAATATTTTAATTTTATTG
14193758 ATTTAATATTTTAATTTTATTG
1 ATTTAATATTTTAATTTTATTG
*
14193780 ATGTAATATTTT
1 ATTTAATATTTT
14193792 TAAATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 13 0.43
21 6 0.20
22 11 0.37
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTAATATTTTAATTTTATTG
Found at i:14193774 original size:13 final size:13
Alignment explanation
Indices: 14193736--14193761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14193726 ATAGTTAATA
14193736 TAATTTATTATTT
1 TAATTTATTATTT
14193749 TAATTTATTATTT
1 TAATTTATTATTT
14193762 AATATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TAATTTATTATTT
Found at i:14193789 original size:22 final size:20
Alignment explanation
Indices: 14193744--14193791 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
14193734 TATAATTTAT
*
14193744 TATTTTAATTTATTATTTAA
1 TATTTTAATTTATTATGTAA
14193764 TATTTTAATTTTATTGATGTAA
1 TATTTTAA-TTTATT-ATGTAA
14193786 TATTTT
1 TATTTT
14193792 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
21 6 0.24
22 11 0.44
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TATTTTAATTTATTATGTAA
Found at i:14195550 original size:42 final size:42
Alignment explanation
Indices: 14195491--14195604 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
14195481 TTACATGGCT
* **
14195491 TGGGCACACGCCCGTGTCCCTGCTTGTGTGACTCACAC-GACC
1 TGGGCACACGCCTGTGTCCCTGCCCGTGTGACTCACACAG-CC
* *
14195533 TGGGCATACGCTTGTGTCCCTGCCCGTGTGACTCACACAGCC
1 TGGGCACACGCCTGTGTCCCTGCCCGTGTGACTCACACAGCC
* *
14195575 TGGGCACACGCCTGTGTCCTTGGCCGTGTG
1 TGGGCACACGCCTGTGTCCCTGCCCGTGTG
14195605 GTATTGTACC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (42 bp):
TGGGCACACGCCTGTGTCCCTGCCCGTGTGACTCACACAGCC
Found at i:14198092 original size:18 final size:18
Alignment explanation
Indices: 14198059--14198100 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14198049 AATTTAGGCG
*
14198059 TGTGGG-TCACATGGGCA
1 TGTGGGCTCACACGGGCA
14198076 TGTGGGCTCACACGGGCA
1 TGTGGGCTCACACGGGCA
14198094 TGTGGGC
1 TGTGGGC
14198101 CTATATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.14, C:0.21, G:0.43, T:0.21
Consensus pattern (18 bp):
TGTGGGCTCACACGGGCA
Found at i:14203110 original size:13 final size:13
Alignment explanation
Indices: 14203092--14203116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14203082 TATAAAAGTA
14203092 AAAATAAAATAAG
1 AAAATAAAATAAG
14203105 AAAATAAAATAA
1 AAAATAAAATAA
14203117 AAGCATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAATAAAATAAG
Found at i:14205117 original size:3 final size:3
Alignment explanation
Indices: 14205109--14205133 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14205099 TTTATAATAT
14205109 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
14205134 AAACTAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14205589 original size:22 final size:24
Alignment explanation
Indices: 14205561--14205604 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
14205551 TATGGCAAGA
14205561 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
14205583 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
14205605 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:14207083 original size:21 final size:18
Alignment explanation
Indices: 14207037--14207073 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14207027 ATGAAAGAAT
14207037 AAATG-ATACTGATGATG
1 AAATGTATACTGATGATG
*
14207054 AAATGTATACTGGTGATG
1 AAATGTATACTGATGATG
14207072 AA
1 AA
14207074 GAGTCGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.30
Consensus pattern (18 bp):
AAATGTATACTGATGATG
Found at i:14219677 original size:17 final size:17
Alignment explanation
Indices: 14219655--14219687 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14219645 GTTAGTTAAC
14219655 ATTGTCATCGCATTTTT
1 ATTGTCATCGCATTTTT
*
14219672 ATTGTCATCGTATTTT
1 ATTGTCATCGCATTTT
14219688 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (17 bp):
ATTGTCATCGCATTTTT
Found at i:14223095 original size:16 final size:16
Alignment explanation
Indices: 14223074--14223104 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14223064 AAATTGAATA
14223074 CGATTCACATATTATT
1 CGATTCACATATTATT
14223090 CGATTCACATATTAT
1 CGATTCACATATTAT
14223105 ATCATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (16 bp):
CGATTCACATATTATT
Found at i:14223213 original size:39 final size:41
Alignment explanation
Indices: 14223160--14223241 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 41
14223150 GATTCAAAAT
* *
14223160 TACCAAAGTCTAAACA-TGGTACAAAAGTGC-ATTCAGGGG
1 TACCAAAGTATAAACAGGGGTACAAAAGTGCAATTCAGGGG
* ** *
14223199 TACCGAAGTATAAACAGGGGTACGTATGTGCAATTCAGGGG
1 TACCAAAGTATAAACAGGGGTACAAAAGTGCAATTCAGGGG
14223240 TA
1 TA
14223242 ATGAAGTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 14 0.40
40 10 0.29
41 11 0.31
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
TACCAAAGTATAAACAGGGGTACAAAAGTGCAATTCAGGGG
Found at i:14223240 original size:41 final size:41
Alignment explanation
Indices: 14223186--14223276 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
14223176 TGGTACAAAA
* *
14223186 GTGC-ATTCAGGGGTACCGAAGTA-TAAACAGGGGTACGTAT
1 GTGCAATTCAGGGGTAACGAAGTACT-AACAGGGGCACGTAT
*
14223226 GTGCAATTCAGGGGTAATGAAGTACTAACAGGGGCACGTAT
1 GTGCAATTCAGGGGTAACGAAGTACTAACAGGGGCACGTAT
14223267 GTGCAATTCA
1 GTGCAATTCA
14223277 ACAATATTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 4 0.09
41 41 0.89
42 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (41 bp):
GTGCAATTCAGGGGTAACGAAGTACTAACAGGGGCACGTAT
Found at i:14236090 original size:11 final size:11
Alignment explanation
Indices: 14236075--14236111 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
14236065 AAGACCCTCT
*
14236075 CATCCCTCAAT
1 CATCCCTCAAG
14236086 CATCCCTCAAG
1 CATCCCTCAAG
*
14236097 CATCCATCAAG
1 CATCCCTCAAG
14236108 CATC
1 CATC
14236112 ATTCTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.30, C:0.43, G:0.05, T:0.22
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:14242847 original size:29 final size:28
Alignment explanation
Indices: 14242805--14243086 Score: 296
Period size: 29 Copynumber: 9.8 Consensus size: 28
14242795 CCATATATGG
*
14242805 ATCCCTTTTCATATTCGATGGTTGAAGCC
1 ATCCCTTTTCATATTCGATGGTCGAA-CC
* *
14242834 ATCCCTTTTCATATTTGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTCG-AACC
*
14242863 ATCCCTTTTCATA-TCTGATGGTCGAAACA
1 ATCCCTTTTCATATTC-GATGGTCG-AACC
* * **
14242892 ATCCCTTTTTATATTTGATGGTCGTCGCC
1 ATCCCTTTTCATATTCGATGGTCG-AACC
* *
14242921 ATCCCTTTTCATATTCGATGGTTGAAACA
1 ATCCCTTTTCATATTCGATGGTCG-AACC
* * *
14242950 ATCCCTTTTTATATGCGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTCG-AACC
*
14242979 ATCCCTTTTCATATTCGATGGTTGAAACC
1 ATCCCTTTTCATATTCGATGGTCG-AACC
*
14243008 ATCCCTTTTCATATTCGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTCG-AACC
* *
14243037 AACCCTTTTCATATTCGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTCG-AACC
* *
14243066 ATCCCTTTTCATGTTCAATGG
1 ATCCCTTTTCATATTCGATGG
14243087 GCATCGATAC
Statistics
Matches: 212, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
28 1 0.00
29 209 0.99
30 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (28 bp):
ATCCCTTTTCATATTCGATGGTCGAACC
Found at i:14242896 original size:58 final size:58
Alignment explanation
Indices: 14242805--14243086 Score: 404
Period size: 58 Copynumber: 4.9 Consensus size: 58
14242795 CCATATATGG
* *
14242805 ATCCCTTTTCATATTCGATGGTTGAAGCCATCCCTTTTCATATTTGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACC
* * * * *
14242863 ATCCCTTTTCATA-TCTGATGGTCGAAACAATCCCTTTTTATATTTGATGGTCGTCGCC
1 ATCCCTTTTCATATTC-GATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACC
* * *
14242921 ATCCCTTTTCATATTCGATGGTTGAAACAATCCCTTTTTATATGCGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACC
14242979 ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACC
1 ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACC
* * ** * *
14243037 AACCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATGTTCAATGG
1 ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGG
14243087 GCATCGATAC
Statistics
Matches: 204, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
57 2 0.01
58 200 0.98
59 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (58 bp):
ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACC
Found at i:14242954 original size:87 final size:87
Alignment explanation
Indices: 14242805--14243086 Score: 345
Period size: 87 Copynumber: 3.2 Consensus size: 87
14242795 CCATATATGG
* ** *
14242805 ATCCCTTTTCATATTCGATGGTTGAAGCCATCCCTTTTCATATTTGATGGTCGTCACCATCCCTT
1 ATCCCTTTTCATATTCGATGGTTGAAGCCATCCCTTTTCATATTCGATGGTCGAAACAATCCCTT
** *
14242870 TTCATATCTGATGGTCGAAACA
66 TTCATATCTGATGGTCGTCACC
* * * ** *
14242892 ATCCCTTTTTATATTTGATGGTCGTCGCCATCCCTTTTCATATTCGATGGTTGAAACAATCCCTT
1 ATCCCTTTTCATATTCGATGGTTGAAGCCATCCCTTTTCATATTCGATGGTCGAAACAATCCCTT
*
14242957 TTTATATGC-GATGGTCGTCACC
66 TTCATAT-CTGATGGTCGTCACC
* * *
14242979 ATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCATATTCGATGGTCGTCACCAA-CCCT
1 ATCCCTTTTCATATTCGATGGTTGAAGCCATCCCTTTTCATATTCGATGGTCG-AAACAATCCCT
14243043 TTTCATAT-TCGATGGTCGTCACC
65 TTTCATATCT-GATGGTCGTCACC
* *
14243066 ATCCCTTTTCATGTTCAATGG
1 ATCCCTTTTCATATTCGATGG
14243087 GCATCGATAC
Statistics
Matches: 165, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
87 160 0.97
88 5 0.03
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGGTTGAAGCCATCCCTTTTCATATTCGATGGTCGAAACAATCCCTT
TTCATATCTGATGGTCGTCACC
Found at i:14252727 original size:26 final size:26
Alignment explanation
Indices: 14252708--14252756 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14252698 ATAATCAAGT
14252708 TAATTTATGATTAA-CAATAATAATA
1 TAATTTATGATTAAGCAATAATAATA
* *
14252733 TATTTTATGATTAAGCAATCATAA
1 TAATTTATGATTAAGCAATAATAA
14252757 AAATCAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (26 bp):
TAATTTATGATTAAGCAATAATAATA
Found at i:14254828 original size:40 final size:40
Alignment explanation
Indices: 14254745--14255007 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
14254735 TTGAATGCTG
* * * * * *
14254745 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
14254785 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
14254825 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
14254865 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
14254905 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
14254945 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
14254984 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
14255008 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:14255027 original size:79 final size:80
Alignment explanation
Indices: 14254784--14255042 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
14254774 AAGTGAATAT
* * * * * * *
14254784 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
14254848 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
14254864 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
14254929 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
14254944 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
14255008 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
14255023 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
14255043 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:14262751 original size:40 final size:40
Alignment explanation
Indices: 14262668--14262930 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
14262658 TTGAATGCTG
* * * * * *
14262668 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
14262708 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
14262748 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
14262788 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
14262828 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
14262868 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
14262907 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
14262931 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:14262950 original size:79 final size:80
Alignment explanation
Indices: 14262707--14262965 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
14262697 AAGTGAATAT
* * * * * * *
14262707 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
14262771 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
14262787 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
14262852 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
14262867 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
14262931 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
14262946 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
14262966 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:14266589 original size:17 final size:16
Alignment explanation
Indices: 14266549--14266598 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14266539 TATGTATGTG
*
14266549 AGATAAAAAATAATTTT
1 AGATAAAAAAT-ATTAT
*
14266566 A-ATAAAAGATATATAT
1 AGATAAAAAATAT-TAT
14266582 AGATAAAAAATATTAT
1 AGATAAAAAATATTAT
14266598 A
1 A
14266599 CAGGAATGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 2 0.07
16 15 0.54
17 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AGATAAAAAATATTAT
Found at i:14269480 original size:12 final size:12
Alignment explanation
Indices: 14269460--14269494 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
14269450 AGGATTGCAA
14269460 ATTTCCATTTTC
1 ATTTCCATTTTC
*
14269472 ATTTTCATTTTC
1 ATTTCCATTTTC
*
14269484 ATTTCTATTTT
1 ATTTCCATTTT
14269495 TGGAAACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:14275507 original size:38 final size:38
Alignment explanation
Indices: 14275451--14275546 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
14275441 TATAAGCTTT
* * *
14275451 CATCTCATGGCAAACCACTACCCTTAAAACTAGGGACA
1 CATCCCATGACAAACCACTACCCTTAAAACTAGGAACA
*
14275489 CATCCCATGACAAGCCACTACCCTTAAAACTAGGAACA
1 CATCCCATGACAAACCACTACCCTTAAAACTAGGAACA
14275527 CATCCCATGACAAACCACTA
1 CATCCCATGACAAACCACTA
14275547 TGCTAGAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.39, C:0.34, G:0.10, T:0.17
Consensus pattern (38 bp):
CATCCCATGACAAACCACTACCCTTAAAACTAGGAACA
Found at i:14275564 original size:38 final size:38
Alignment explanation
Indices: 14275451--14275564 Score: 122
Period size: 38 Copynumber: 3.0 Consensus size: 38
14275441 TATAAGCTTT
* * * * *
14275451 CATCTCATGGCAAACCACTACCCTTAAAACTAGGGACA
1 CATCCCATGACAAACCACTACCCTGAAAACTAAGAACA
* * *
14275489 CATCCCATGACAAGCCACTACCCTTAAAACTAGGAACA
1 CATCCCATGACAAACCACTACCCTGAAAACTAAGAACA
**
14275527 CATCCCATGACAAACCACTATGCTAGAAAAC-AAGAACA
1 CATCCCATGACAAACCACTACCCT-GAAAACTAAGAACA
14275565 AGGCTGAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 61 0.92
39 5 0.08
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (38 bp):
CATCCCATGACAAACCACTACCCTGAAAACTAAGAACA
Found at i:14293219 original size:22 final size:23
Alignment explanation
Indices: 14293187--14293233 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
14293177 AACTATAATA
14293187 TTTTACATTTTTCCCCCAA-ACTT
1 TTTTACA-TTTTCCCCCAATACTT
14293210 TTTTAC-TTTTCCCCCAATACTT
1 TTTTACATTTTCCCCCAATACTT
14293232 TT
1 TT
14293234 ACTCCCTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.48
22 6 0.26
23 6 0.26
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTACATTTTCCCCCAATACTT
Found at i:14293250 original size:30 final size:31
Alignment explanation
Indices: 14293214--14293272 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
14293204 AAACTTTTTT
* *
14293214 ACTTTTCCCCCAATACTTTTACTC-CCTCCC
1 ACTTTTCCCACAAAACTTTTACTCTCCTCCC
*
14293244 ACTTTTCCTACAAAACTTTTACTCTCCTC
1 ACTTTTCCCACAAAACTTTTACTCTCCTC
14293273 ACATCCCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (31 bp):
ACTTTTCCCACAAAACTTTTACTCTCCTCCC
Found at i:14303057 original size:21 final size:21
Alignment explanation
Indices: 14303031--14303071 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14303021 AGACGAGCAA
* *
14303031 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14303052 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14303072 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14308535 original size:28 final size:28
Alignment explanation
Indices: 14308503--14308558 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
14308493 TATTTTTTAG
14308503 GAATGTTTTTCTATTATTATAGCATGTT
1 GAATGTTTTTCTATTATTATAGCATGTT
14308531 GAATGTTTTTCTATTATTATAGCATGTT
1 GAATGTTTTTCTATTATTATAGCATGTT
14308559 TATTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.54
Consensus pattern (28 bp):
GAATGTTTTTCTATTATTATAGCATGTT
Found at i:14308564 original size:25 final size:26
Alignment explanation
Indices: 14308508--14308565 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
14308498 TTTAGGAATG
*
14308508 TTTTTCTATTATTATAGCATGTTGAATG
1 TTTTTCTATTATTATAGCATGTT--ATA
14308536 TTTTTCTATTATTATAGCATGTT-TA
1 TTTTTCTATTATTATAGCATGTTATA
14308561 TTTTT
1 TTTTT
14308566 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
28 23 0.79
ACGTcount: A:0.22, C:0.07, G:0.10, T:0.60
Consensus pattern (26 bp):
TTTTTCTATTATTATAGCATGTTATA
Found at i:14308624 original size:28 final size:27
Alignment explanation
Indices: 14308557--14308624 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
14308547 TTATAGCATG
* *
14308557 TTTATTTTTATTTTAAAAATAGGAATTTT
1 TTTA-TTTT-TTTTAAAAATAGGAAATTA
*
14308586 TTGTATTTTTTTTAAACATAGGAAATTA
1 TT-TATTTTTTTTAAAAATAGGAAATTA
*
14308614 TTTATTATTTT
1 TTTATTTTTTT
14308625 ATCAGTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 6 0.18
30 2 0.06
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.59
Consensus pattern (27 bp):
TTTATTTTTTTTAAAAATAGGAAATTA
Found at i:14310972 original size:26 final size:28
Alignment explanation
Indices: 14310918--14311213 Score: 121
Period size: 27 Copynumber: 10.4 Consensus size: 28
14310908 TAAGAACAAG
* * *
14310918 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
14310946 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* * *
14310972 AATTATATTTTAGTATTATATATTATGATTT
1 AATTATA-TTTA--ATAATATATTATTATTA
* * *
14311003 TATTAGTAAATTCATATAAGA-A-TATTTATTAA
1 AATTA-T--ATTTA-ATAATATATTA-TTATT-A
* * *
14311035 CAATTTTATTAAATTATATATT-TTATTA
1 -AATTATATTTAATAATATATTATTATTA
* * *
14311063 AATTATATTTTATAACA-ATTA-TGTTA
1 AATTATATTTAATAATATATTATTATTA
* * * *
14311089 AATTATATTTTAGTATTATATTATGATTT
1 AATTATA-TTTAATAATATATTATTATTA
* * *
14311118 TATTAGTAAATTCATATAAGA-A-TATTTATTAA
1 AATTA-T--ATTTA-ATAATATATTA-TTATT-A
* * *
14311150 CAATTTTATTAAATTATATATT-TTATTA
1 -AATTATATTTAATAATATATTATTATTA
14311178 AATTATATTTAATAAT-TATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
14311204 AATTATATTT
1 AATTATATTT
14311214 TAGTATCATA
Statistics
Matches: 196, Mismatches: 45, Indels: 56
0.66 0.15 0.19
Matches are distributed among these distances:
26 41 0.21
27 43 0.22
28 20 0.10
29 29 0.15
30 20 0.10
31 21 0.11
32 12 0.06
33 9 0.05
34 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:14311072 original size:43 final size:43
Alignment explanation
Indices: 14311024--14311122 Score: 112
Period size: 43 Copynumber: 2.2 Consensus size: 43
14311014 TCATATAAGA
*
14311024 ATATTTATTAACAATTTTATTAAATTATATATTT-TATTAAATT
1 ATATTTATTAACAATTATATTAAATTATAT-TTTATATTAAATT
* *
14311067 ATATTT-TATAACAATTATGTTAAATTATATTTTAGTATTATATT
1 ATATTTAT-TAACAATTATATTAAATTATATTTTA-TATTAAATT
14311111 ATGATTTTATTA
1 AT-A-TTTATTA
14311123 GTAAATTCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
42 4 0.09
43 26 0.55
44 10 0.21
45 1 0.02
46 5 0.11
47 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (43 bp):
ATATTTATTAACAATTATATTAAATTATATTTTATATTAAATT
Found at i:14311075 original size:15 final size:17
Alignment explanation
Indices: 14311037--14311070 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14311027 TTTATTAACA
14311037 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
14311054 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
14311071 TTTATAACAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:14311084 original size:16 final size:15
Alignment explanation
Indices: 14311037--14311084 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
14311027 TTTATTAACA
*
14311037 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
14311054 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
14311069 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
14311085 GTTAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:14311150 original size:115 final size:117
Alignment explanation
Indices: 14310835--14311322 Score: 752
Period size: 117 Copynumber: 4.3 Consensus size: 117
14310825 AAGTAGATTA
14310835 TAAATTATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATTATATATTATGA--TT-TT
1 TAAATTATATTTAATAATAATTATGTTAAATTATA-TTT-TAGTATTATATATTATGATTTTATT
* *
14310896 AGTAAATTCATATAAG---A---A-CAAGAATTTTATTAAATTATATATTATTAT
64 AGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT-TTAT
*
14310944 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
14311009 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* *
14311061 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTA-T-TATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
14311124 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* * *
14311176 TAAATTATATTTAATAATTATTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
*
14311241 TAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
*
14311293 TAAATTATATATT-ATAACAATTATGTTAAA
1 TAAATTATAT-TTAATAATAATTATGTTAAA
14311323 ATATGATTAA
Statistics
Matches: 351, Mismatches: 14, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
108 18 0.05
109 27 0.08
110 12 0.03
111 18 0.05
114 1 0.00
115 110 0.31
116 1 0.00
117 139 0.40
118 25 0.07
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (117 bp):
TAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
Found at i:14311172 original size:17 final size:17
Alignment explanation
Indices: 14311152--14311305 Score: 76
Period size: 17 Copynumber: 9.2 Consensus size: 17
14311142 TTTATTAACA
14311152 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
14311169 ATTTTATTAAA-T-TAT
1 ATTTTATTAAATTATAT
*
14311184 A-TTTAAT-AATTAT-T
1 ATTTTATTAAATTATAT
14311198 A--TT-TTAAATTATAT
1 ATTTTATTAAATTATAT
*
14311212 -TTTAGTATCATATATTATGAT
1 ATTT--TAT--TAAATTAT-AT
* *
14311233 TTTATTAGTAAATTCATAT
1 ATT-TTATTAAATT-ATAT
*** * * *
14311252 AAGAATATT-TATTAAAA
1 -ATTTTATTAAATTATAT
14311269 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
14311286 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
14311303 ATT
1 ATT
14311306 ATAACAATTA
Statistics
Matches: 101, Mismatches: 19, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
12 1 0.01
13 10 0.10
14 9 0.09
15 6 0.06
16 6 0.06
17 39 0.39
18 4 0.04
19 10 0.10
20 9 0.09
21 4 0.04
22 2 0.02
23 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:14311235 original size:232 final size:227
Alignment explanation
Indices: 14310835--14311322 Score: 772
Period size: 232 Copynumber: 2.1 Consensus size: 227
14310825 AAGTAGATTA
* *
14310835 TAAATTATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
*
14310899 AAATTCATATAAGAACAAGAATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAA
66 AAATTCATATAAGAACAACAATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAA
*
14310964 TTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATT
131 TTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAGTAAATTCATATAAGAATATT
*
14311029 TATTAACAATTTTATTAAATTATATATTTTAT
196 TATTAAAAATTTTATTAAATTATATATTTTAT
14311061 TAAATTATATTTTATAACAATTATGTTAAATTATA-TTT-TAGTA-T-TATATTATGATTTTATT
1 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTATAGTATTATATATTATGA--TT-TT
*
14311122 AGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT-TTATTAAATTATAT
63 AGTAAATTCATATAAG---A---A-CAACAATTTTATTAAATTATATATTATTATTAAATTATAT
*
14311186 TTAATAATTATTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAGTAAATTCATA
121 TTAATAATAATTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAGTAAATTCATA
14311251 TAAGAATATTTATTAAAAATTTTATTAAATTATATATTTTAT
186 TAAGAATATTTATTAAAAATTTTATTAAATTATATATTTTAT
*
14311293 TAAATTATATATTATAACAATTATGTTAAA
1 TAAATTATATTTTATAACAATTATGTTAAA
14311323 ATATGATTAA
Statistics
Matches: 243, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
223 10 0.04
224 1 0.00
225 7 0.03
226 43 0.18
227 10 0.04
229 1 0.00
232 148 0.61
233 23 0.09
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (227 bp):
TAAATTATATTTTATAACAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
AAATTCATATAAGAACAACAATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAA
TTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAGTAAATTCATATAAGAATATT
TATTAAAAATTTTATTAAATTATATATTTTAT
Found at i:14311385 original size:232 final size:232
Alignment explanation
Indices: 14310918--14311379 Score: 742
Period size: 232 Copynumber: 2.0 Consensus size: 232
14310908 TAAGAACAAG
14310918 AATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
1 AATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
* *
14310983 AGTATTATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAA
66 AGTATCATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAA
* * *
14311048 TTATATATTTTATTAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATTATATTAT
131 TTATATATTTTATTAAATTATATATTATAACAATTATGTTAAA-TATATATTAGAATTATATTAT
* *
14311113 GATTTTATTAGTAAATTCATATAAGAATATTTATTAAC
195 GATTTTATTAATAAATTCATATAAGAATATTTAATAAC
*
14311151 AATTTTATTAAATTATATATT-TTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTT
1 AATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
14311215 AGTATCATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAA
66 AGTATCATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAA
14311280 TTATATATTTTATTAAATTATATATTATAACAATTATGTTAAA-ATATGATTA-AATTAT-TTAT
131 TTATATATTTTATTAAATTATATATTATAACAATTATGTTAAATATAT-ATTAGAATTATATTAT
* * *
14311342 TATTTATATTAAT-AA-TCTTATTA-AA-ATTTAATAAC
195 GATTT-TATTAATAAATTCATATAAGAATATTTAATAAC
14311377 AAT
1 AAT
14311380 AACAATAATC
Statistics
Matches: 216, Mismatches: 11, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
226 12 0.06
227 2 0.01
228 6 0.03
229 10 0.05
230 15 0.07
231 3 0.01
232 147 0.68
233 21 0.10
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (232 bp):
AATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
AGTATCATATATTATGATTTTATTAGTAAATTCATATAAGAATATTTATTAAAAATTTTATTAAA
TTATATATTTTATTAAATTATATATTATAACAATTATGTTAAATATATATTAGAATTATATTATG
ATTTTATTAATAAATTCATATAAGAATATTTAATAAC
Found at i:14311494 original size:39 final size:41
Alignment explanation
Indices: 14311450--14311554 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 41
14311440 TTCCTTATGT
* *
14311450 TATTACACCTCTATTCCATTCAACCAAACACAAGAA-TACC
1 TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
14311490 -ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACC
1 TATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTACC
14311535 TATTACGCCTCTATTCCATT
1 TATTACGCCTCTATTCCATT
14311555 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
41 4 0.07
44 19 0.34
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (41 bp):
TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
Found at i:14311529 original size:44 final size:46
Alignment explanation
Indices: 14311466--14311556 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
14311456 ACCTCTATTC
*
14311466 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
14311510 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
14311556 C
1 C
14311557 GCATCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:14311557 original size:16 final size:16
Alignment explanation
Indices: 14311536--14311570 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14311526 AGAATTACCT
*
14311536 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
14311552 ATTACGCATCTATTCC
1 ATTACGCATCTATTCC
14311568 ATT
1 ATT
14311571 TACTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.31, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:14314640 original size:24 final size:24
Alignment explanation
Indices: 14314578--14314629 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14314568 TTTCTAGAAG
* **
14314578 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAACATAATAT
14314602 ATTTAGTATTTATTAACATAATAT
1 ATTTAGTATTTATTAACATAATAT
14314626 ATTT
1 ATTT
14314630 GACTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAACATAATAT
Found at i:14319008 original size:24 final size:24
Alignment explanation
Indices: 14318974--14319025 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
14318964 TTTCTAGAAG
* **
14318974 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
14318998 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
14319022 ATTT
1 ATTT
14319026 GAATTTGATT
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:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:14319036 original size:24 final size:24
Alignment explanation
Indices: 14318991--14319036 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14318981 ATTTATGAGT
*
14318991 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAGAATTTATTAAC
14319015 ATAATATATTT-GAATTTGATTA
1 ATAATATATTTAGAATTT-ATTA
14319037 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAGAATTTATTAAC
Found at i:14320063 original size:3 final size:3
Alignment explanation
Indices: 14320057--14320093 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14320047 ATAATAATAA
14320057 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14320094 GTCTAATGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14320572 original size:23 final size:23
Alignment explanation
Indices: 14320546--14320593 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
14320536 TCTCACTATT
14320546 CATCATTTTGGCACATTCATACC
1 CATCATTTTGGCACATTCATACC
14320569 CATCATTTTGGCACATTCATACC
1 CATCATTTTGGCACATTCATACC
14320592 CA
1 CA
14320594 CCTTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.33
Consensus pattern (23 bp):
CATCATTTTGGCACATTCATACC
Found at i:14323410 original size:21 final size:20
Alignment explanation
Indices: 14323357--14323412 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
14323347 GCTAAATAAT
*
14323357 TATAAATAGTAATATA-TGA
1 TATAAATAGTAATAAATTGA
* *
14323376 TAAAAATA-TAATAAATTGT
1 TATAAATAGTAATAAATTGA
14323395 TGATAAATAGTAATAAAT
1 T-ATAAATAGTAATAAAT
14323413 GTTTAATAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.20
19 10 0.33
20 6 0.20
21 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
TATAAATAGTAATAAATTGA
Found at i:14323421 original size:21 final size:21
Alignment explanation
Indices: 14323358--14323421 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
14323348 CTAAATAATT
* *
14323358 ATAAATAGTAATATATG-ATA
1 ATAAATAGTAATAAATGTTTA
*
14323378 A-AAATA-TAATAAAT-TGTTG
1 ATAAATAGTAATAAATGT-TTA
14323397 ATAAATAGTAATAAATGTTTA
1 ATAAATAGTAATAAATGTTTA
14323418 ATAA
1 ATAA
14323422 CATAATAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 7 0.20
19 7 0.20
20 6 0.17
21 14 0.40
22 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
ATAAATAGTAATAAATGTTTA
Found at i:14335905 original size:13 final size:13
Alignment explanation
Indices: 14335887--14335913 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14335877 CACAAACGAT
14335887 AAAATTTTCACAC
1 AAAATTTTCACAC
14335900 AAAATTTTCACAC
1 AAAATTTTCACAC
14335913 A
1 A
14335914 TATAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:14343750 original size:13 final size:13
Alignment explanation
Indices: 14343732--14343758 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14343722 CACAAACGGT
14343732 AAAATTTTCACAC
1 AAAATTTTCACAC
14343745 AAAATTTTCACAC
1 AAAATTTTCACAC
14343758 A
1 A
14343759 TATAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:14351061 original size:19 final size:19
Alignment explanation
Indices: 14351015--14351061 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
14351005 AAATAGTTAA
*
14351015 TTAAATTATTTAATTATATT
1 TTAAATT-TTGAATTATATT
*
14351035 TTACATTTTGAAGTTAT-TT
1 TTAAATTTTGAA-TTATATT
14351054 TTAAATTT
1 TTAAATTT
14351062 AAATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTAAATTTTGAATTATATT
Found at i:14351984 original size:24 final size:24
Alignment explanation
Indices: 14351932--14351984 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
14351922 CTAAAATGCA
14351932 TCCTCCACCACCAATGTATCACCC
1 TCCTCCACCACCAATGTATCACCC
* * *
14351956 ACCTCCACCTCTC-ATGTATCATCC
1 TCCTCCACCAC-CAATGTATCACCC
14351980 TCCTC
1 TCCTC
14351985 AAATATATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.21, C:0.49, G:0.04, T:0.26
Consensus pattern (24 bp):
TCCTCCACCACCAATGTATCACCC
Found at i:14352977 original size:20 final size:21
Alignment explanation
Indices: 14352942--14352980 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14352932 CGTTTCATAT
*
14352942 ATAATATCACATTCAATTTTC
1 ATAATAGCACATTCAATTTTC
14352963 ATAATAGCA-ATTCAATTT
1 ATAATAGCACATTCAATTT
14352981 AACATCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (21 bp):
ATAATAGCACATTCAATTTTC
Found at i:14355498 original size:20 final size:19
Alignment explanation
Indices: 14355475--14355532 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
14355465 TTTTAGAAAC
14355475 ATTAACTTTTAAGAATCAAA
1 ATTAA-TTTTAAGAATCAAA
* * * *
14355495 ATTAAATTTAACATTAAAAA
1 ATTAATTTTAAGAAT-CAAA
14355515 ATTAATTTTAAGAATCAA
1 ATTAATTTTAAGAATCAA
14355533 GACTAAATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.36
Consensus pattern (19 bp):
ATTAATTTTAAGAATCAAA
Found at i:14360912 original size:9 final size:9
Alignment explanation
Indices: 14360898--14360946 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
14360888 GTTAAACGAA
14360898 TCGAGTTAT
1 TCGAGTTAT
*
14360907 TCGAGTTAA
1 TCGAGTTAT
14360916 TCGAGTTAT
1 TCGAGTTAT
*
14360925 TCGAGTTAA
1 TCGAGTTAT
14360934 TCGAGTTAT
1 TCGAGTTAT
14360943 TCGA
1 TCGA
14360947 ATCAACTCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14360919 original size:18 final size:18
Alignment explanation
Indices: 14360896--14360946 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
14360886 GAGTTAAACG
14360896 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
14360914 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
14360932 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
14360947 ATCAACTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:14361119 original size:30 final size:31
Alignment explanation
Indices: 14361085--14361145 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
14361075 AACCCTTTTT
* * *
14361085 ACTTTTCCCTCAAAACTTTTACT-CCTTCCC
1 ACTTTCCCCCCAAAACCTTTACTCCCTTCCC
14361115 ACTTTCCCCCCAAAACCTTTACTCCCTTCCC
1 ACTTTCCCCCCAAAACCTTTACTCCCTTCCC
14361146 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACCTTTACTCCCTTCCC
Found at i:14369235 original size:2 final size:2
Alignment explanation
Indices: 14369228--14369266 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
14369218 CACATAGGTA
*
14369228 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
14369267 CTGTCCGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:14380011 original size:24 final size:25
Alignment explanation
Indices: 14379952--14380011 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
14379942 CTCACCACAG
*
14379952 CTCGTATGAGCTTATCGATTTGCAA
1 CTCGTATGAGCTTATCCATTTGCAA
* * *
14379977 CTCATAGGAGCTTA-CCATTTATC-A
1 CTCGTATGAGCTTATCCATTT-GCAA
14380001 CTCGTATGAGC
1 CTCGTATGAGC
14380012 CTACATGCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (25 bp):
CTCGTATGAGCTTATCCATTTGCAA
Found at i:14382948 original size:14 final size:14
Alignment explanation
Indices: 14382923--14382962 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
14382913 ATTTAATAAA
* *
14382923 TAAAAATAAAAATC
1 TAAAACTAAAAGTC
14382937 TTAAAACTAAAAGTC
1 -TAAAACTAAAAGTC
14382952 TAAAACTAAAA
1 TAAAACTAAAA
14382963 CACACGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAAACTAAAAGTC
Found at i:14384025 original size:12 final size:12
Alignment explanation
Indices: 14384008--14384033 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14383998 CTTCTACTTC
14384008 AAAAAAAAAAGA
1 AAAAAAAAAAGA
14384020 AAAAAAAAAAGA
1 AAAAAAAAAAGA
14384032 AA
1 AA
14384034 GGTTCCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:14394307 original size:19 final size:19
Alignment explanation
Indices: 14394276--14394313 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14394266 TATAATTCCA
*
14394276 AAAATATGAAAAAGTAAAT
1 AAAATATGAAAAAGAAAAT
14394295 AAAATAT-ATAAAAGAAAAT
1 AAAATATGA-AAAAGAAAAT
14394314 GAAAGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AAAATATGAAAAAGAAAAT
Found at i:14394706 original size:18 final size:18
Alignment explanation
Indices: 14394683--14394722 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14394673 TGTGGCTTTT
* *
14394683 GTTCATGTTTCAAAGTTC
1 GTTCATCTTTCAAAATTC
14394701 GTTCATCTTTCAAAATTC
1 GTTCATCTTTCAAAATTC
14394719 GTTC
1 GTTC
14394723 TTACTTCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (18 bp):
GTTCATCTTTCAAAATTC
Found at i:14394857 original size:48 final size:49
Alignment explanation
Indices: 14394763--14394859 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 49
14394753 TACCTTGAGT
* * *
14394763 CTGTTGAATCCTTTATCGTTGCAAGATTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCGTTATCATTGCAAGATTAGGCTGACTTAGGCGTTTTTA
** *
14394812 CTGTTGAATCCGTTATCATTGTGAG-TTAGGCTGATTTAGGCGTTTTTA
1 CTGTTGAATCCGTTATCATTGCAAGATTAGGCTGACTTAGGCGTTTTTA
14394860 AGCAAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 21 0.50
49 21 0.50
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (49 bp):
CTGTTGAATCCGTTATCATTGCAAGATTAGGCTGACTTAGGCGTTTTTA
Found at i:14427650 original size:58 final size:57
Alignment explanation
Indices: 14427560--14427748 Score: 209
Period size: 58 Copynumber: 3.2 Consensus size: 57
14427550 AAAAAAAAGG
** *
14427560 AAAAAGTTTAGGCCTTAATGTGAGAACAATTGCCAAGTTCACGGACTAATTTGGATAA
1 AAAAAGTTTAGGCCCCAATGTGAGAACAATTGCCAAGTTCA-GGACTAACTTGGATAA
* * *
14427618 AAAAAGTTTAGGCCCCAATTTGAGAACAATTGCCAAGTTTAGAGCCTAACTTGGATAAA
1 AAAAAGTTTAGGCCCCAATGTGAGAACAATTGCCAAGTTCAG-GACTAACTTGGAT-AA
* * * **
14427677 AAAAAGTTTAAGCTCCAATGTGAGAA-AACTTGTCAAGTTCAAAACCTAACTTGGATAA
1 AAAAAGTTTAGGCCCCAATGTGAGAACAA-TTGCCAAGTTCAGGA-CTAACTTGGATAA
14427735 AAAATATGTTTAGG
1 AAAA-A-GTTTAGG
14427749 TTTCAATATG
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
57 1 0.01
58 56 0.51
59 47 0.43
60 6 0.05
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (57 bp):
AAAAAGTTTAGGCCCCAATGTGAGAACAATTGCCAAGTTCAGGACTAACTTGGATAA
Found at i:14427714 original size:59 final size:59
Alignment explanation
Indices: 14427560--14427738 Score: 202
Period size: 59 Copynumber: 3.1 Consensus size: 59
14427550 AAAAAAAAGG
* ** ** *
14427560 AAAAAGTTTAGGCCTTAATGTGAGAACAATTGCCAAGTTCACGGA-CTAATTTGGAT-AA
1 AAAAAGTTTAAGCCCCAATGTGAGAACAATTGCCAAGTTCA-AAACCTAACTTGGATAAA
* * * * *
14427618 AAAAAGTTTAGGCCCCAATTTGAGAACAATTGCCAAGTTTAGAGCCTAACTTGGATAAA
1 AAAAAGTTTAAGCCCCAATGTGAGAACAATTGCCAAGTTCAAAACCTAACTTGGATAAA
* *
14427677 AAAAAGTTTAAGCTCCAATGTGAGAA-AACTTGTCAAGTTCAAAACCTAACTTGGATAAA
1 AAAAAGTTTAAGCCCCAATGTGAGAACAA-TTGCCAAGTTCAAAACCTAACTTGGATAAA
14427736 AAA
1 AAA
14427739 TATGTTTAGG
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.01
58 49 0.47
59 54 0.52
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (59 bp):
AAAAAGTTTAAGCCCCAATGTGAGAACAATTGCCAAGTTCAAAACCTAACTTGGATAAA
Found at i:14427774 original size:60 final size:59
Alignment explanation
Indices: 14427605--14427778 Score: 156
Period size: 59 Copynumber: 2.9 Consensus size: 59
14427595 AGTTCACGGA
* * * * * * * *
14427605 CTAATTTGGAT-AAAAAAAGTTTAGGCCCCAATTTGAGAACAA-TTGCCAAGTTTAGAGC
1 CTAACTTGGATAAAAAAAAGTTTAAGCTCCAATATGAGAA-AACTTACCAAGTTCAAAAC
* **
14427663 CTAACTTGGATAAAAAAAAGTTTAAGCTCCAATGTGAGAAAACTTGTCAAGTTCAAAAC
1 CTAACTTGGATAAAAAAAAGTTTAAGCTCCAATATGAGAAAACTTACCAAGTTCAAAAC
* * * * *
14427722 CTAACTTGGATAAAAAATATGTTTAGGTTTCAATATGAGAATAGC-TACCAAGTTCAA
1 CTAACTTGGATAAAAAA-AAGTTTAAGCTCCAATATGAGAA-AACTTACCAAGTTCAA
14427779 GCCCAAAATA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
58 12 0.12
59 54 0.56
60 28 0.29
61 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (59 bp):
CTAACTTGGATAAAAAAAAGTTTAAGCTCCAATATGAGAAAACTTACCAAGTTCAAAAC
Found at i:14430258 original size:30 final size:32
Alignment explanation
Indices: 14430215--14430289 Score: 136
Period size: 31 Copynumber: 2.4 Consensus size: 32
14430205 TCTCCATGAT
14430215 TAAAATAAATTATATCATTTTACC-AAAAAAA
1 TAAAATAAATTATATCATTTTACCAAAAAAAA
14430246 TAAAAT-AATTATATCATTTTACCAAAAAAAA
1 TAAAATAAATTATATCATTTTACCAAAAAAAA
14430277 TAAAATAAATTAT
1 TAAAATAAATTAT
14430290 GTCAAACATG
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
30 17 0.40
31 19 0.45
32 6 0.14
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (32 bp):
TAAAATAAATTATATCATTTTACCAAAAAAAA
Found at i:14439491 original size:41 final size:41
Alignment explanation
Indices: 14439416--14439734 Score: 414
Period size: 41 Copynumber: 7.9 Consensus size: 41
14439406 GACCTTTTGG
* * **
14439416 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATGCTTG
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
14439457 GAGC-TTTAGCGGCGTTTCT-AAAAATGTGCCGCTAATGTTCA
1 G-GCTTTTAGCGGCGTTTTTGAAAAA-GCGCCGCTAATGCTCA
*
14439498 GGCTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
14439539 GGCTTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
14439580 GGCTTTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
14439621 GGCTTTTAGCGGCATTTTTTAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
14439662 TGCTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAA---TCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
14439700 GACTTTTAGCGACGTTTTTGAAAAAGCGCCGCTAA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
14439735 GTAATGCATT
Statistics
Matches: 248, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
38 34 0.14
40 6 0.02
41 202 0.81
42 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (41 bp):
GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:14439770 original size:20 final size:19
Alignment explanation
Indices: 14439742--14439787 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
14439732 TAAGTAATGC
*
14439742 ATTTTATTTGTCTATTTACT
1 ATTTAATTTGTCTATTTA-T
*
14439762 ATTTAATTTGTTTATTTAT
1 ATTTAATTTGTCTATTTAT
14439781 A-TTAATT
1 ATTTAATT
14439788 AAAATTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTAATTTGTCTATTTAT
Found at i:14440278 original size:7 final size:7
Alignment explanation
Indices: 14440263--14440294 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14440253 TAAATAATGT
14440263 TTAGGGG
1 TTAGGGG
*
14440270 TTTGGGG
1 TTAGGGG
14440277 TTAGGGG
1 TTAGGGG
14440284 TTAGGGG
1 TTAGGGG
14440291 TTAG
1 TTAG
14440295 AGTTAGAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.53, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:14440313 original size:20 final size:20
Alignment explanation
Indices: 14440276--14440314 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14440266 GGGGTTTGGG
* * *
14440276 GTTAGGGGTTAGGGGTTAGA
1 GTTAGAGGTTAAGAGTTAGA
14440296 GTTAGAGGTTAAGAGTTAG
1 GTTAGAGGTTAAGAGTTAG
14440315 TGATTTAAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.31
Consensus pattern (20 bp):
GTTAGAGGTTAAGAGTTAGA
Found at i:14441999 original size:15 final size:15
Alignment explanation
Indices: 14441981--14442010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14441971 TTATGATTTA
14441981 GGGTTTAAGAGATAG
1 GGGTTTAAGAGATAG
*
14441996 GGGTTTAGGAGATAG
1 GGGTTTAAGAGATAG
14442011 TTTAAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (15 bp):
GGGTTTAAGAGATAG
Found at i:14445570 original size:43 final size:42
Alignment explanation
Indices: 14445510--14445597 Score: 115
Period size: 43 Copynumber: 2.1 Consensus size: 42
14445500 CTTTGAGTTC
* *
14445510 ATTACAAGATTTCCTTGATTAA-ATAAATGTATTATATATTTT
1 ATTACAAGATTTACTTGATTAAGA-AAATGCATTATATATTTT
* *
14445552 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTA-CAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
14445595 ATT
1 ATT
14445598 GCCTTGCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 4 0.10
43 35 0.88
44 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.45
Consensus pattern (42 bp):
ATTACAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Done.