Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 54 of 290
Found at i:17010458 original size:135 final size:135
Alignment explanation
Indices: 17010301--17010815 Score: 676
Period size: 135 Copynumber: 3.8 Consensus size: 135
17010291 TGTCGATCCA
* * * * * * * *
17010301 TGGAGATAAGATTCA-CCGAAATTTGGTCTGC-TCTGCTCCTGCTTAGCGAAAATAAGACCTGGT
1 TGGAGATAAGATT-ATCCAAAATTCGATCTGCTTC-ACTCCTGCTCAGTGAAGATAAGATCTGGT
* * * * **
17010364 ATATTTAGTCTGCTCCACTCCTGCTTAGTGAAAATAAAGCTGATGATTGGAATCTGTTTAATCGC
64 ATATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGC
17010429 CGGTACG
129 CGGTACG
* * *
17010436 TGTAGATAAGATTATCCAAAATTCGATCTGCTTCACTCTTGCTCAATGAAGATAAGATCTGGTAT
1 TGGAGATAAGATTATCCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTAT
* * *
17010501 ATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCCG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCCG
17010566 GTACG
131 GTACG
* * * *
17010571 TGGAGATAAGATTCTCCAAAATTCGATCTACTTCACTCCTACTCAGTGAAGATAATATCTGGTAT
1 TGGAGATAAGATTATCCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTAT
* *
17010636 ATTTAGCCTGCTCCACTCC-GACTCAGTGAAGATAAAGTTGATGATTGGAATCTGCTCCATCGCT
66 ATTTAGCCTGCTCCACTCCTG-CTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCC
*
17010700 GGTACA
130 GGTACG
* * * *
17010706 TGGAGATAAGATTCTCCAAAACTCGATCTGTTTCACTCCTGCTCAGTGAAGATAAGATCGGGTAT
1 TGGAGATAAGATTATCCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTAT
* * *
17010771 GTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGAT
17010816 ATCTGTCTTT
Statistics
Matches: 335, Mismatches: 41, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
134 2 0.01
135 330 0.99
136 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (135 bp):
TGGAGATAAGATTATCCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTAT
ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGGAATCTGCTCCATCGCCG
GTACG
Found at i:17019909 original size:32 final size:32
Alignment explanation
Indices: 17019850--17019910 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
17019840 ATTAAATGAA
*
17019850 ATAATAAAAAATAATGAAAATATATAATAAGC
1 ATAATAAAAAATAATGAAAATAAATAATAAGC
* *
17019882 ATAATAAATAATAGTGTAAAA-AAATAATA
1 ATAATAAAAAATAATG-AAAATAAATAATA
17019911 CAATAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (32 bp):
ATAATAAAAAATAATGAAAATAAATAATAAGC
Found at i:17021536 original size:133 final size:132
Alignment explanation
Indices: 17021336--17021785 Score: 500
Period size: 133 Copynumber: 3.4 Consensus size: 132
17021326 GAAAATAGAC
* * * * * **
17021336 CTGGTAATATTTGTCTGCTCCACT--TGCTTAGTGAAAATAAAGCTGATGATTGGAATCTGTTTA
1 CTGGTAAT-TTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATT-GAATCTGCTCC
* * *
17021399 ATCGCCGGTACGTGTAGATAGATTATCCAAAATTCGATCTGCTTCACTCTTGCTCAATGAAGATA
64 ATCGCCGGTACGTGGAGATAGATTCTCCAAAATTCGATCTGCTTCACTCTTGCTCAGTGAAGATA
17021464 AGAT
129 AGAT
* * *
17021468 CTGGTAATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGAAATCTGCTCCA
1 CTGGTAATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTG-AATCTGCTCCA
* * *
17021533 TCGCCGGTA-GTGGAGATAAGATTCTCCAAAATTCGATCTACTTCACTCCTACTCAGTGAAGATA
65 TCGCCGGTACGTGGAGAT-AGATTCTCCAAAATTCGATCTGCTTCACTCTTGCTCAGTGAAGATA
*
17021597 ATAT
129 AGAT
* * *
17021601 CTGGTATTTTAGCCTCGCTCCACTCC-GACTCAGTGAAGATAAAGTTGATGATTGGATCTGCTCC
1 CTGGTAATTTAGCCT-GCTCCACTCCTG-CTCAGTGAAGATAAAGCTGATGATTGAATCTGCTCC
* * * * *
17021665 A-CTGCTGGTACATGGATGATAGATTCT-C-AAACTCGATCTGTTTCACTCTCGCTCTAGTGAAG
64 ATC-GCCGGTACGTGGA-GATAGATTCTCCAAAATTCGATCTGCTTCACTCTTGCTC-AGTGAAG
17021727 ATAAGAT
126 ATAAGAT
* * * *
17021734 CGGGTATGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
1 CTGGTA-ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGAT
17021786 ATGTCTTTTA
Statistics
Matches: 271, Mismatches: 35, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
131 12 0.04
132 37 0.14
133 166 0.61
134 53 0.20
135 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (132 bp):
CTGGTAATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAAGCTGATGATTGAATCTGCTCCAT
CGCCGGTACGTGGAGATAGATTCTCCAAAATTCGATCTGCTTCACTCTTGCTCAGTGAAGATAAG
AT
Found at i:17031349 original size:133 final size:135
Alignment explanation
Indices: 17030996--17031450 Score: 621
Period size: 135 Copynumber: 3.4 Consensus size: 135
17030986 AAAGACAGAT
* * * *
17030996 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGTTAAACATACCCGATCTTATCTTCAC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
* * * * *
17031061 TGAGCAGGAGTGAAACAGATCGAGTTTTGGAGAATCTTATC-GCATGTACCAGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTACACGTACCGGCGATGGAGCAGA
17031125 TTCCA
131 TTCCA
* *
17031130 ATCATCAACTTTATCTTCACTGAGTC-GGAGTGGAGGCAGGCTAAATATACCAGATATTATCTTC
1 ATCATCAACCTTATCTTCACTGAG-CAGGAGTGGA-GCAGGCTAAATATACCAGATCTTATCTTC
* * *
17031194 ACTGAGTAGGAGTGAAGTAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCA
64 ACTGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTACACGTACCGGCGATGGAGCA
17031259 -ATTCCA
129 GATTCCA
* *
17031265 ATCATCAACCTTA-CTTCACTGAGCAGGAGTGGAGTAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
* * ** *
17031329 TGAGCAAGAGTGAAGCAGATCGAATTTTGGATAATCTTATCTACACGTACCGGCGATTAAACAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTACACGTACCGGCGATGGAGCAGA
17031394 TTCCA
131 TTCCA
* * * * * *
17031399 ATCATCAGCTTTATTTTCACTAAGCAGGAGTGGAGCCGACTAAATATACCAG
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAG
17031451 TTTATTTTCG
Statistics
Matches: 283, Mismatches: 32, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
133 84 0.30
134 65 0.23
135 116 0.41
136 18 0.06
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (135 bp):
ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTACACGTACCGGCGATGGAGCAGA
TTCCA
Found at i:17032918 original size:32 final size:32
Alignment explanation
Indices: 17032860--17032942 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 32
17032850 CATTTTTTAA
17032860 ATTATTTTC-CTATTATTTA-T-TG--TATTAT
1 ATTA-TTTCACTATTATTTATTATGCTTATTAT
*
17032888 -TTTTTTACACTATTATTTATTATGCTTATTAT
1 ATTATTT-CACTATTATTTATTATGCTTATTAT
* *
17032920 ATTATTTCATTATTTTTTATTAT
1 ATTATTTCACTATTATTTATTAT
17032943 TTCATTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
26 3 0.07
27 3 0.07
28 10 0.23
29 1 0.02
30 2 0.05
32 20 0.45
33 5 0.11
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.65
Consensus pattern (32 bp):
ATTATTTCACTATTATTTATTATGCTTATTAT
Found at i:17035252 original size:38 final size:41
Alignment explanation
Indices: 17035186--17035262 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 41
17035176 CTTTATATAA
17035186 CACAGTTTTCATCATAACAATCATATCTC-AATCATGTCAT
1 CACAGTTTTCATCATAACAATCATATCTCAAATCATGTCAT
*
17035226 CACAG-TTTCATCATAGC-ATCATATCTCAAATCATGTC
1 CACAGTTTTCATCATAACAATCATATCTCAAATCATGTC
17035263 CATTTCATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 10 0.29
39 20 0.57
40 5 0.14
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (41 bp):
CACAGTTTTCATCATAACAATCATATCTCAAATCATGTCAT
Found at i:17047721 original size:21 final size:21
Alignment explanation
Indices: 17047697--17047741 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17047687 GCTGGCTCAT
*
17047697 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
* *
17047718 CATGTTTTTCTGGGACTCTAG
1 CATGTTGTTCTGGGACTCCAG
17047739 CAT
1 CAT
17047742 TTGATCCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:17054138 original size:22 final size:22
Alignment explanation
Indices: 17054110--17054157 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
17054100 AAAAAAAAAT
17054110 ATTATAATTAATTTCAAGTAAC
1 ATTATAATTAATTTCAAGTAAC
17054132 ATTATAATTAATTTCAAGTAAC
1 ATTATAATTAATTTCAAGTAAC
17054154 ATTA
1 ATTA
17054158 ATATGAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (22 bp):
ATTATAATTAATTTCAAGTAAC
Found at i:17054166 original size:22 final size:22
Alignment explanation
Indices: 17054110--17054167 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
17054100 AAAAAAAAAT
*
17054110 ATTATAATTAATTTCAAGTAAC
1 ATTATAATGAATTTCAAGTAAC
*
17054132 ATTATAATTAATTTCAAGTAAC
1 ATTATAATGAATTTCAAGTAAC
17054154 ATTA-ATATGAATTT
1 ATTATA-ATGAATTT
17054168 ATGTATTTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTATAATGAATTTCAAGTAAC
Found at i:17057373 original size:17 final size:16
Alignment explanation
Indices: 17057351--17057384 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
17057341 ATCCAAGTCG
17057351 GCTACTTTATTCTCAGT
1 GCTACTTTATTC-CAGT
17057368 GCTACTTTATTCCAGT
1 GCTACTTTATTCCAGT
17057384 G
1 G
17057385 TACAAGCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (16 bp):
GCTACTTTATTCCAGT
Found at i:17059046 original size:24 final size:24
Alignment explanation
Indices: 17058999--17059046 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17058989 TAATATATCA
* *
17058999 ATTTTTTTATATTTTAAGATTTTT
1 ATTTTTTTATATTATAAGAATTTT
17059023 ATTTTTTTA-ATTATAAGAAATTTT
1 ATTTTTTTATATTATAAG-AATTTT
17059047 GCATTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTTTTATATTATAAGAATTTT
Found at i:17059067 original size:23 final size:23
Alignment explanation
Indices: 17059002--17059068 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
17058992 TATATCAATT
* *
17059002 TTTTTATATTTTAAG-ATTTTTA
1 TTTTTATAATTTAAGAATTTTCA
*
17059024 TTTTTTTAATTATAAGAAATTTTGCA
1 TTTTTATAATT-TAAG-AATTTT-CA
17059050 -TTTTATAATTTAAGAATTT
1 TTTTTATAATTTAAGAATTT
17059069 AGATTTATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 9 0.24
23 9 0.24
24 4 0.11
25 14 0.38
26 1 0.03
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (23 bp):
TTTTTATAATTTAAGAATTTTCA
Found at i:17064578 original size:49 final size:49
Alignment explanation
Indices: 17064525--17064707 Score: 177
Period size: 50 Copynumber: 3.7 Consensus size: 49
17064515 CTGGTACGAA
*
17064525 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACG
** ** * *
17064574 TAGTAGCCTGCACATAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGCGACC-AATTATCCGGTACACG
* ** * * * * *
17064624 TAATAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* * *
17064675 TAGTAGCCTGCACTTAGTATTACACATGCGACC
1 TAGTAGCCTGCACATAGTACTACACACGCGACC
17064708 TCACAATAGA
Statistics
Matches: 107, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
49 30 0.28
50 42 0.39
51 35 0.33
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:17066712 original size:17 final size:20
Alignment explanation
Indices: 17066690--17066733 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
17066680 TCATACAAAT
17066690 TAAGAA-AGAAA-AAG-AAA
1 TAAGAAGAGAAATAAGAAAA
17066707 TAAGAAGAGAAATAAGAAAA
1 TAAGAAGAGAAATAAGAAAA
17066727 TAAGAAG
1 TAAGAAG
17066734 TCACGCAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 5 0.21
19 3 0.12
20 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.09
Consensus pattern (20 bp):
TAAGAAGAGAAATAAGAAAA
Found at i:17074481 original size:2 final size:2
Alignment explanation
Indices: 17074474--17074534 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
17074464 CAAGAACTAT
17074474 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17074516 GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
17074535 GGAGGGAGGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17074539 original size:4 final size:4
Alignment explanation
Indices: 17074532--17074561 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
17074522 GAGAGAGAGA
17074532 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GA
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GA
17074562 TGCATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:17092534 original size:5 final size:5
Alignment explanation
Indices: 17092524--17092570 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
17092514 TATTTGCTTC
17092524 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TG
17092571 TGGTGATGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TGATA
Found at i:17094269 original size:19 final size:20
Alignment explanation
Indices: 17094245--17094293 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
17094235 TGTAGTTTTT
*
17094245 AAATTATAAAAATTT-TAAA
1 AAATTATAAAAATTTAAAAA
*
17094264 AAATTAT-AGAATTTAAAAA
1 AAATTATAAAAATTTAAAAA
17094283 AAATTATAAAA
1 AAATTATAAAA
17094294 CATTATAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 17 0.68
20 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAATTTAAAAA
Found at i:17094311 original size:27 final size:27
Alignment explanation
Indices: 17094250--17094319 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 27
17094240 TTTTTAAATT
*
17094250 ATAAAAATTTTAAAAAATTATAGAATTTA
1 ATAAAAATTATAAAAAATTATAGAA--TA
* *
17094279 AAAAAAATTATAAAACATTATAGAGA-A
1 ATAAAAATTATAAAAAATTATAGA-ATA
17094306 ATAAAAATTA-AAAA
1 ATAAAAATTATAAAA
17094320 GAAAGTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 10 0.28
29 21 0.58
30 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (27 bp):
ATAAAAATTATAAAAAATTATAGAATA
Found at i:17094311 original size:29 final size:29
Alignment explanation
Indices: 17094252--17094312 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
17094242 TTTAAATTAT
* **
17094252 AAAAATTTTAAAAAATTATAGAATTTAAA
1 AAAAATTATAAAAAATTATAGAAAATAAA
*
17094281 AAAAATTATAAAACATTATAGAGAAATAAA
1 AAAAATTATAAAAAATTATAGA-AAATAAA
17094311 AA
1 AA
17094313 TTAAAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAATTATAAAAAATTATAGAAAATAAA
Found at i:17097654 original size:15 final size:15
Alignment explanation
Indices: 17097634--17097673 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
17097624 ACTCCATTCC
17097634 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
17097649 CTTTAGTCATGGTAA
1 CTTTAGTCATGGTAA
17097664 CTTTAGTCAT
1 CTTTAGTCAT
17097674 TGCTTGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATGGTAA
Found at i:17101711 original size:25 final size:26
Alignment explanation
Indices: 17101675--17101755 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
17101665 TGAAATTCCC
17101675 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17101701 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17101726 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17101752 ATCA
1 ATCA
17101756 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
25 25 0.46
26 29 0.54
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17106640 original size:12 final size:12
Alignment explanation
Indices: 17106623--17106653 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17106613 AGTACTACCT
17106623 CGGCCTCGACCA
1 CGGCCTCGACCA
17106635 CGGCCTCGACCA
1 CGGCCTCGACCA
*
17106647 CAGCCTC
1 CGGCCTC
17106654 TTCCCTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.52, G:0.23, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:17106911 original size:22 final size:22
Alignment explanation
Indices: 17106883--17106925 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17106873 CTATCTCTAA
17106883 GGTTTAGTACTAACTACAGTAC
1 GGTTTAGTACTAACTACAGTAC
17106905 GGTTTAGTACTAACTACAGTA
1 GGTTTAGTACTAACTACAGTA
17106926 TAGTTCAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (22 bp):
GGTTTAGTACTAACTACAGTAC
Found at i:17106935 original size:22 final size:22
Alignment explanation
Indices: 17106888--17106935 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17106878 TCTAAGGTTT
* *
17106888 AGTACTAACTACAGTACGGTTT
1 AGTACTAACTACAGTACAGTTC
*
17106910 AGTACTAACTACAGTATAGTTC
1 AGTACTAACTACAGTACAGTTC
17106932 AGTA
1 AGTA
17106936 TATAAAACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (22 bp):
AGTACTAACTACAGTACAGTTC
Found at i:17107114 original size:22 final size:21
Alignment explanation
Indices: 17107089--17107129 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17107079 CTCCTTTAAA
17107089 CAGGAAATTTATTTTCAAAAGT
1 CAGG-AATTTATTTTCAAAAGT
* *
17107111 CAGGATTTTTTTTTCAAAA
1 CAGGAATTTATTTTCAAAA
17107130 AAATACCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (21 bp):
CAGGAATTTATTTTCAAAAGT
Found at i:17109865 original size:26 final size:26
Alignment explanation
Indices: 17109835--17109916 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
17109825 TGAAATTCCC
*
17109835 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
17109861 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
17109887 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
17109913 ATCA
1 ATCA
17109917 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:17113527 original size:16 final size:16
Alignment explanation
Indices: 17113506--17113539 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17113496 CGTACTGATT
*
17113506 AATTCAATTTTTTTTA
1 AATTCAAGTTTTTTTA
17113522 AATTCAAGTTTTTTTA
1 AATTCAAGTTTTTTTA
17113538 AA
1 AA
17113540 AAGATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTCAAGTTTTTTTA
Found at i:17118611 original size:15 final size:17
Alignment explanation
Indices: 17118578--17118616 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
17118568 TTTAATTAAT
17118578 AAAAATATAAGAATATA
1 AAAAATATAAGAATATA
*
17118595 AAAAATATTA-AAT-TA
1 AAAAATATAAGAATATA
17118610 AAAAATA
1 AAAAATA
17118617 ATTATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAAATATAAGAATATA
Found at i:17122984 original size:43 final size:43
Alignment explanation
Indices: 17122904--17123094 Score: 258
Period size: 43 Copynumber: 4.4 Consensus size: 43
17122894 TTATTTAAAA
* *
17122904 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGTTAAATGTCATGACCTTTAGCGGCACTTTTCCCAC
* * *
17122947 AAACACCATTAAATGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGTTAAATGTCATGACCTTTAGCGGCACTTTTCCCAC
*
17122990 AAACGCCGTTAAATGTCATGACCTTTAGCGGCATTTTTCCCAC
1 AAACGCCGTTAAATGTCATGACCTTTAGCGGCACTTTTCCCAC
* * **
17123033 AAACGCCGCT-AATGGTCATGACCTTTAGCGGCGCTAATCCCAC
1 AAACGCCGTTAAAT-GTCATGACCTTTAGCGGCACTTTTCCCAC
* *
17123076 AAACGCCGCTAAAGGTCAT
1 AAACGCCGTTAAATGTCAT
17123095 AAAATTTTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.02
43 126 0.96
44 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGTTAAATGTCATGACCTTTAGCGGCACTTTTCCCAC
Found at i:17123051 original size:86 final size:86
Alignment explanation
Indices: 17122904--17123094 Score: 294
Period size: 86 Copynumber: 2.2 Consensus size: 86
17122894 TTATTTAAAA
*
17122904 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTTCCCACAAACACCATTAAATGTCATGAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTTCCCACAAACACCACTAAATGTCATGAC
**
17122969 CTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCTAATCCCAC
* * * * *
17122990 AAACGCCGTTAAATGTCATGACCTTTAGCGGCATTTTTCCCACAAACGCCGCT-AATGGTCATGA
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTTCCCACAAACACCACTAAAT-GTCATGA
17123054 CCTTTAGCGGCGCTAATCCCAC
65 CCTTTAGCGGCGCTAATCCCAC
17123076 AAACGCCGCTAAAGGTCAT
1 AAACGCCGCTAAAGGTCAT
17123095 AAAATTTTAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 3 0.03
86 91 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGGCACTTTTCCCACAAACACCACTAAATGTCATGAC
CTTTAGCGGCGCTAATCCCAC
Found at i:17123136 original size:41 final size:40
Alignment explanation
Indices: 17123085--17123164 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
17123075 CAAACGCCGC
**
17123085 TAAAGGTCATAAAATTTTAAAAAAATTATTAT-AAAATATTA
1 TAAAGGTCATAAAAAATT--AAAAATTATTATCAAAATATTA
* *
17123126 TAAAGTTCATAAAAAATTAAAATTTATTATCAAAATATT
1 TAAAGGTCATAAAAAATTAAAAATTATTATCAAAATATT
17123165 GAGAAGAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 11 0.32
40 8 0.24
41 15 0.44
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TAAAGGTCATAAAAAATTAAAAATTATTATCAAAATATTA
Found at i:17123671 original size:23 final size:23
Alignment explanation
Indices: 17123641--17123889 Score: 247
Period size: 23 Copynumber: 10.9 Consensus size: 23
17123631 AAACAGATGC
* *
17123641 CAATTTACAACATTTAAGCACTT
1 CAATTTACAGCATTTAAACACTT
17123664 CAATTTACAGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
17123687 CAATTTGCAGCACTTT-AACA-TCT
1 CAATTTACAGCA-TTTAAACACT-T
* * *
17123710 CAATTAACAACATTTATACAAC-T
1 CAATTTACAGCATTTAAAC-ACTT
* *
17123733 CAA-TTACAGCAATAAAACA-TCT
1 CAATTTACAGCATTTAAACACT-T
* **
17123755 CAATTTCCAGCAACTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* * *
17123778 CAATTTGCAGTACTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
17123801 CAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
* *
17123824 TAATTTACAACATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
**
17123847 CAATTTATGGCATTTAAACACTT
1 CAATTTACAGCATTTAAACACTT
*
17123870 CAATTTGCAGCATTTAAACA
1 CAATTTACAGCATTTAAACA
17123890 ACAGCATCCA
Statistics
Matches: 186, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.01
22 18 0.10
23 162 0.87
24 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (23 bp):
CAATTTACAGCATTTAAACACTT
Found at i:17123759 original size:22 final size:23
Alignment explanation
Indices: 17123703--17123759 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
17123693 GCAGCACTTT
* *
17123703 AACATCTCAATTAACAACATTTA
1 AACATCTCAATTAACAACAATAA
* * *
17123726 TACAACTCAATT-ACAGCAATAA
1 AACATCTCAATTAACAACAATAA
17123748 AACATCTCAATT
1 AACATCTCAATT
17123760 TCCAGCAACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (23 bp):
AACATCTCAATTAACAACAATAA
Found at i:17125661 original size:30 final size:30
Alignment explanation
Indices: 17125627--17125728 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
17125617 TTAAAAATAA
*
17125627 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-CT
* *
17125657 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTCT
* * *
17125687 AAATTTCACTTAGACCCCTAAAATTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTC-TCT
17125717 AAATTTCATTTT
1 AAATTTCATTTT
17125729 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
30 59 0.97
31 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTCT
Found at i:17125742 original size:29 final size:28
Alignment explanation
Indices: 17125627--17125743 Score: 92
Period size: 30 Copynumber: 4.0 Consensus size: 28
17125617 TTAAAAATAA
* * *
17125627 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTT-AACCCTAAA-TTTTCTT
* *
17125657 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCC-TAAATTTTC-TT
* *
17125687 AAATTTCA-CTTAGACCCCTAAAATTTCATT
1 AAATTTCATTTTA-A-CCCTAAATTTTC-TT
*
17125717 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTAACCCTAAATTTTCT
17125744 AAAAATTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
28 1 0.01
29 19 0.27
30 44 0.63
31 6 0.09
ACGTcount: A:0.31, C:0.21, G:0.03, T:0.44
Consensus pattern (28 bp):
AAATTTCATTTTAACCCTAAATTTTCTT
Found at i:17126123 original size:3 final size:3
Alignment explanation
Indices: 17126115--17126172 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
17126105 GCTAGACTTT
17126115 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAAA GAAA GAA -AA -AA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA G-AA G-AA GAA GAA GAA GAA
*
17126162 AAA GAA -AA GAA
1 GAA GAA GAA GAA
17126173 ATAATAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.12
3 29 0.60
4 13 0.27
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17126133 original size:10 final size:10
Alignment explanation
Indices: 17126118--17126146 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17126108 AGACTTTGAA
17126118 GAAGAAGAAG
1 GAAGAAGAAG
17126128 GAAGAAGAAG
1 GAAGAAGAAG
17126138 GAAGAAGAA
1 GAAGAAGAA
17126147 AGAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:17126149 original size:7 final size:7
Alignment explanation
Indices: 17126115--17126168 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
17126105 GCTAGACTTT
17126115 GAAG-AA
1 GAAGAAA
*
17126121 GAAGAAG
1 GAAGAAA
17126128 GAAG-AA
1 GAAGAAA
*
17126134 GAAGGAA
1 GAAGAAA
17126141 GAAGAAA
1 GAAGAAA
17126148 GAAAGAAA
1 G-AAGAAA
*
17126156 AAAGAAA
1 GAAGAAA
17126163 -AAGAAA
1 GAAGAAA
17126169 AGAAATAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 15 0.37
7 20 0.49
8 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:17126460 original size:11 final size:10
Alignment explanation
Indices: 17126438--17126505 Score: 73
Period size: 11 Copynumber: 6.3 Consensus size: 10
17126428 GGCCCAGCAG
17126438 AGAAAAAAAA
1 AGAAAAAAAA
17126448 AGAAAAGAAAA
1 AGAAAA-AAAA
*
17126459 AGAAGAAAAAG
1 AGAA-AAAAAA
*
17126470 AGAAGGAAAAA
1 AGAA-AAAAAA
17126481 AGAAGGAAAAAA
1 AGAA--AAAAAA
17126493 AGAAAAAAAA
1 AGAAAAAAAA
17126503 AGA
1 AGA
17126506 GGTTCAATTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
10 15 0.29
11 24 0.47
12 12 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:17126671 original size:16 final size:17
Alignment explanation
Indices: 17126645--17126682 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17126635 TTATATTTAT
17126645 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
17126662 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
17126678 ATTTT
1 ATTTT
17126683 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:17126879 original size:18 final size:17
Alignment explanation
Indices: 17126835--17127350 Score: 202
Period size: 17 Copynumber: 29.5 Consensus size: 17
17126825 TCTATAATCC
17126835 TCGTGCTTTT-AAAAATT
1 TCGTG-TTTTCAAAAATT
*
17126852 CTCATG-TTTCAAAAATCT
1 -TCGTGTTTTCAAAAAT-T
17126870 TCGTGTTTTC-AAAATT
1 TCGTGTTTTCAAAAATT
*
17126886 CTAGTG-TTTCAAAAATTT
1 -TCGTGTTTTCAAAAA-TT
*
17126904 TCTTGTTTTCAGAAAAAAATT
1 TCGTGTTTTC----AAAAATT
*
17126925 TCGTGTTTT-ATAAATT
1 TCGTGTTTTCAAAAATT
* **
17126941 TCCGTATTTTCAAAAAAA
1 T-CGTGTTTTCAAAAATT
*
17126959 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAA-TT
*
17126978 TCGTGTTTTCAAAAAAAATGA
1 TCGTGTTTTC---AAAAAT-T
*
17126999 CCGTG-TTTCAAAAATT
1 TCGTGTTTTCAAAAATT
***
17127015 TCCGTGTTAAAAAAAAATCT
1 T-CGTGTT-TTCAAAAAT-T
*
17127035 TCGTATTTTCAAAAAAAATT
1 TCGTGTTTTC---AAAAATT
17127055 T-GTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAAT-T
17127071 TCGTGTTTTCAAAAATT
1 TCGTGTTTTCAAAAATT
*
17127088 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAA-AATT
*
17127106 TCGTGTTTTCAAAAACT
1 TCGTGTTTTCAAAAATT
* ** **
17127123 CCGGTGATTTAAAAAAAAA
1 TC-GTG-TTTTCAAAAATT
*
17127142 TCGT-TTTCTAAAAAATT
1 TCGTGTTT-TCAAAAATT
17127159 TCCGTG-TTTCAAAAATTT
1 T-CGTGTTTTCAAAAA-TT
17127177 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAA-TT
*
17127194 TCGTGTTTTTAAAAATT
1 TCGTGTTTTCAAAAATT
*
17127211 CTCGTATTTT---AAATT
1 -TCGTGTTTTCAAAAATT
* *
17127226 T--T-TTTTAAGAAAAAAAT
1 TCGTGTTTT---CAAAAATT
*
17127243 T-GTG-TTTCAAAAAAATG
1 TCGTGTTTTC--AAAAATT
*
17127260 TCTTGTTTT-AAAAATT
1 TCGTGTTTTCAAAAATT
*
17127276 CTCGTG-TTTCAAAAATG
1 -TCGTGTTTTCAAAAATT
17127293 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAA-TT
**
17127310 TCGTG-TTTCTGAAATT
1 TCGTGTTTTCAAAAATT
17127326 TCCGTG-TTT-AAAAATT
1 T-CGTGTTTTCAAAAATT
17127342 CTCGTGTTT
1 -TCGTGTTT
17127351 AAAAAAAAAA
Statistics
Matches: 382, Mismatches: 55, Indels: 123
0.68 0.10 0.22
Matches are distributed among these distances:
11 4 0.01
12 1 0.00
14 1 0.00
15 11 0.03
16 56 0.15
17 142 0.37
18 96 0.25
19 32 0.08
20 9 0.02
21 25 0.07
22 5 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
TCGTGTTTTCAAAAATT
Found at i:17126897 original size:16 final size:16
Alignment explanation
Indices: 17126846--17126899 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
17126836 CGTGCTTTTA
17126846 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
17126862 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
17126880 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
17126896 AAAA
1 AAAA
17126900 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:17126976 original size:36 final size:38
Alignment explanation
Indices: 17126892--17127019 Score: 109
Period size: 38 Copynumber: 3.4 Consensus size: 38
17126882 AATTCTAGTG
* * * ** *
17126892 TTTCAAAAATTTTCTTGTTTTCAGAAAAAAAT-TTCGTG
1 TTTCAAAAATTTCCGTATTTTCA-AAAAAAATCACCGTC
* * *
17126930 TTTTATAAATTTCCGTATTTTC-AAAAAAATCA-TGTC
1 TTTCAAAAATTTCCGTATTTTCAAAAAAAATCACCGTC
* * * *
17126966 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTG
1 TTTCAAAAATTTCCGTATTTTCAAAAAAAATCACCGTC
17127004 TTTCAAAAATTTCCGT
1 TTTCAAAAATTTCCGT
17127020 GTTAAAAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
36 28 0.39
37 9 0.13
38 34 0.48
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (38 bp):
TTTCAAAAATTTCCGTATTTTCAAAAAAAATCACCGTC
Found at i:17127008 original size:38 final size:35
Alignment explanation
Indices: 17126856--17127208 Score: 150
Period size: 36 Copynumber: 9.8 Consensus size: 35
17126846 AAAATTCTCA
* ***
17126856 TGTTTCAAAAATCTTCGTGTTTTCAAAATTCTA-G
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAAAATACG
* *
17126890 TGTTTCAAAAATTTTCTTGTTTTCAGAAAAAAATTTCG
1 TGTTTCAAAAATTTTCGTGTTTTC--AAAAAAA-TACG
* * * * *
17126928 TGTTTTATAAATTTCCGTATTTTCAAAAAAATCATG
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAAAAT-ACG
*
17126964 TCTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCG
1 TGTTTCAAAAATTTTCGTGTTTTC-AAAAAAAT-A-CG
* ** *
17127002 TGTTTCAAAAATTTCCGTG-TTAAAAAAAAATCTTCG
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAAAA--TACG
* * ** *
17127038 TATTTTCAAAAAAAATTT-GTG-TTTCAAAAATCTTCG
1 T-GTTTC--AAAAATTTTCGTGTTTTCAAAAAAATACG
* ** *
17127074 TGTTTTCAAAAA-TTTCG-GTGTTTCAAAGATTTTCG
1 TG-TTTCAAAAATTTTCGTGT-TTTCAAAAAAATACG
* * * *
17127109 TGTTTTCAAAAA-CTCCGGTGATTT-AAAAAAAAATCG
1 TG-TTTCAAAAATTTTC-GTGTTTTCAAAAAAATA-CG
* ** *
17127145 T-TTTCTAAAAAATTTCCGTG-TTTCAAAAATTTTCG
1 TGTTTC--AAAAATTTTCGTGTTTTCAAAAAAATACG
* *
17127180 TGTTTTAAAAATTTTCGTGTTTTTAAAAA
1 TGTTTCAAAAATTTTCGTGTTTTCAAAAA
17127209 TTCTCGTATT
Statistics
Matches: 243, Mismatches: 51, Indels: 49
0.71 0.15 0.14
Matches are distributed among these distances:
33 4 0.02
34 44 0.18
35 46 0.19
36 73 0.30
37 20 0.08
38 49 0.20
39 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (35 bp):
TGTTTCAAAAATTTTCGTGTTTTCAAAAAAATACG
Found at i:17127030 original size:74 final size:74
Alignment explanation
Indices: 17126892--17127031 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
17126882 AATTCTAGTG
* ** * * ***
17126892 TTTCAAAAATTTTCTTGTTTTCAGAAAAAAATTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAGAAAAAAATACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
17126957 AATCATGTC
66 AATCATGTC
*
17126966 TTTCAAAAATTTTCGTGTTTTCA-AAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAGAAAAAAAT-ACCGTGTTTCAAAAATTTCCGTATTAAAAAAA
17127030 AA
65 AA
17127032 TCTTCGTATT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 8 0.14
74 48 0.86
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (74 bp):
TTTCAAAAATTTTCGTGTTTTCAGAAAAAAATACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
AATCATGTC
Found at i:17127085 original size:57 final size:56
Alignment explanation
Indices: 17126970--17127077 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 56
17126960 CATGTCTTTC
* *
17126970 AAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAA
1 AAAAATCTTCGTATTTTCAAAAAAAAT-ACCGTGTTTCAAAAATTTCCGTGTTAAAA
**
17127027 AAAAATCTTCGTATTTTCAAAAAAAAT-TTGTGTTTCAAAAATCTT-CGTGTT
1 AAAAATCTTCGTATTTTCAAAAAAAATACCGTGTTTCAAAAAT-TTCCGTGTT
17127078 TTCAAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 19 0.41
56 2 0.04
57 25 0.54
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (56 bp):
AAAAATCTTCGTATTTTCAAAAAAAATACCGTGTTTCAAAAATTTCCGTGTTAAAA
Found at i:17127095 original size:35 final size:34
Alignment explanation
Indices: 17126858--17127350 Score: 157
Period size: 35 Copynumber: 14.1 Consensus size: 34
17126848 AATTCTCATG
* *
17126858 TTTCAAAAATCTTCGTGTTTTCAAAATTC-TAGTG-
1 TTTCAAAAAT-TTCGTG-TTTCAAAAATCTTCGTGT
*
17126892 TTTCAAAAATTTTCTTGTTTTCAGAAAAAAAT-TTCGTGT
1 TTTCAAAAA-TTTCGTG-TTTC----AAAAATCTTCGTGT
* * ** *
17126931 TTT-ATAAATTTCCGTATTTTCAAAAA-AATCATGT
1 TTTCAAAAATTT-CGT-GTTTCAAAAATCTTCGTGT
***
17126965 CTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTG-
1 -TTTCAAAAA-TTTCGTG-TTTC---AAAAATCTTCGTGT
** *
17127004 TTTCAAAAATTTCCGTGTTAAAAAAAAATCTTCGTAT
1 TTTCAAAAATTT-CGTGTT--TCAAAAATCTTCGTGT
17127041 TTTCAAAAAAAATTT-GTGTTTCAAAAATCTTCGTGT
1 TTTC---AAAAATTTCGTGTTTCAAAAATCTTCGTGT
* *
17127077 TTTCAAAAATTTCGGTGTTTCAAAGATTTTCGTGT
1 TTTCAAAAATTTC-GTGTTTCAAAAATCTTCGTGT
* * * ***
17127112 TTTCAAAAACTCCGGTGATTTAAAAAAAAATCGT-T
1 TTTCAAAAATTTC-GTG-TTTCAAAAATCTTCGTGT
* *
17127147 TTCTAAAAAATTTCCGTGTTTCAAAAATTTTCGTGT
1 TT-TCAAAAATTT-CGTGTTTCAAAAATCTTCGTGT
* *
17127183 TTT-AAAAATTTTCGTGTTTTTAAAAAT-TCTCGTAT
1 TTTCAAAAA-TTTCGTG-TTTCAAAAATCT-TCGTGT
* * **
17127218 TTT---AAATTT--TTTTTAAGAAAAAAATT-GTG-
1 TTTCAAAAATTTCGTGTTT--CAAAAATCTTCGTGT
* * *
17127247 TTTCAAAAAAATGTCTTGTTTTAAAAAT-TCTCGTG-
1 TTTC--AAAAATTTCGTGTTTCAAAAATCT-TCGTGT
* * *
17127282 TTTCAAAAATGTCGTGTTTTAAAAATTTTCGTG-
1 TTTCAAAAATTTCGTGTTTCAAAAATCTTCGTGT
**
17127315 TTTCTGAAATTTCCGTGTTT-AAAAAT-TCTCGTGT
1 TTTCAAAAATTT-CGTGTTTCAAAAATCT-TCGTGT
17127349 TT
1 TT
17127351 AAAAAAAAAA
Statistics
Matches: 357, Mismatches: 52, Indels: 100
0.70 0.10 0.20
Matches are distributed among these distances:
29 6 0.02
30 3 0.01
31 6 0.02
32 5 0.01
33 58 0.16
34 60 0.17
35 81 0.23
36 65 0.18
37 16 0.04
38 37 0.10
39 8 0.02
40 12 0.03
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (34 bp):
TTTCAAAAATTTCGTGTTTCAAAAATCTTCGTGT
Found at i:17127272 original size:16 final size:16
Alignment explanation
Indices: 17127253--17127307 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
17127243 TGTGTTTCAA
17127253 AAAAATGTCTTGTTTT
1 AAAAATGTCTTGTTTT
*
17127269 AAAAAT-TCTCGTGTTTC
1 AAAAATGTCT--TGTTTT
*
17127286 AAAAATGTCGTGTTTT
1 AAAAATGTCTTGTTTT
17127302 AAAAAT
1 AAAAAT
17127308 TTTCGTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.09
16 17 0.52
17 11 0.33
18 2 0.06
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (16 bp):
AAAAATGTCTTGTTTT
Found at i:17127273 original size:33 final size:33
Alignment explanation
Indices: 17127236--17127356 Score: 113
Period size: 33 Copynumber: 3.7 Consensus size: 33
17127226 TTTTTTAAGA
*
17127236 AAAAAAT-T-GTGTTTCAAAAAAATGTCTTGTTTT
1 AAAAAATCTCGTGTTTC--AAAAATGTCGTGTTTT
*
17127269 AAAAATTCTCGTGTTTCAAAAATGTCGTGTTTT
1 AAAAAATCTCGTGTTTCAAAAATGTCGTGTTTT
* * ** *
17127302 AAAAATTTTCGTGTTTCTGAAATTTCCGTG-TTT
1 AAAAAATCTCGTGTTTCAAAAATGT-CGTGTTTT
* *
17127335 AAAAATTCTCGTGTTTAAAAAA
1 AAAAAATCTCGTGTTTCAAAAA
17127357 AAAACTTTCA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
33 63 0.84
34 5 0.07
35 7 0.09
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (33 bp):
AAAAAATCTCGTGTTTCAAAAATGTCGTGTTTT
Found at i:17127340 original size:16 final size:16
Alignment explanation
Indices: 17127266--17127355 Score: 78
Period size: 16 Copynumber: 5.5 Consensus size: 16
17127256 AATGTCTTGT
17127266 TTTAAAAA-TTCTCGTG
1 TTTAAAAATTTC-CGTG
*
17127282 TTTCAAAAATGT-CGTG
1 TTT-AAAAATTTCCGTG
*
17127298 TTTTAAAAATTTTCGTG
1 -TTTAAAAATTTCCGTG
**
17127315 TTTCTGAAATTTCCGTG
1 TTT-AAAAATTTCCGTG
17127332 TTTAAAAA-TTCTCGTG
1 TTTAAAAATTTC-CGTG
17127348 TTTAAAAA
1 TTTAAAAA
17127356 AAAAACTTTC
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 32 0.52
17 25 0.41
18 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (16 bp):
TTTAAAAATTTCCGTG
Found at i:17139710 original size:314 final size:305
Alignment explanation
Indices: 17139389--17140089 Score: 790
Period size: 314 Copynumber: 2.2 Consensus size: 305
17139379 AATTTTTTAA
* * * *
17139389 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTAAATTTA
** * ***
17139454 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-ATTTTT-G-TT-T-TTCA
66 TGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTGCCGAGATTTTTAGTTTATGTTCA
17139513 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT
131 AAATCAACTCATATTGCGAG--A-G-G-TGAG--TCAAG-C-CGTTGA---ATTTTT---TTTTT
*
17139578 TAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTT
181 TAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTT
17139643 TATGTTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
246 TATG-TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* ** * *
17139704 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAAATTT-
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTAAATTTA
** *
17139767 T-TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTA
66 TGTT--TTAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT-------GCCGA-G-ATTTTTA
** ** * * * *
17139831 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAA
120 GTTTATGTTCAAAATCAACTCATATTGCGAGAGGTGAGTCAAGCCGTTGAATTTTTTTTTTTAAA
*
17139896 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTTTG
185 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATG
17139961 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
250 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * * *
17140017 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG--GACATGCTGAGGTATTTTAAATT
17140082 TATGTTTT
64 TATGTTTT
17140090 TTTCAATCTA
Statistics
Matches: 325, Mismatches: 39, Indels: 43
0.80 0.10 0.11
Matches are distributed among these distances:
312 2 0.01
313 57 0.18
314 190 0.58
316 20 0.06
317 7 0.02
318 2 0.01
320 4 0.01
321 1 0.00
322 5 0.02
324 4 0.01
325 7 0.02
326 2 0.01
327 3 0.01
328 1 0.00
329 20 0.06
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (305 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACATGCTGAGGTATTTTAAATTTA
TGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTGCCGAGATTTTTAGTTTATGTTCA
AAATCAACTCATATTGCGAGAGGTGAGTCAAGCCGTTGAATTTTTTTTTTTAAAAAATCAACTCA
TATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTTAAATTGA
CTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:17139768 original size:383 final size:382
Alignment explanation
Indices: 17139010--17139999 Score: 1738
Period size: 383 Copynumber: 2.6 Consensus size: 382
17139000 CTTTCCAAGG
*
17139010 AAAATCAACTCATA-TGCGAGAAATGAGTTGAGCCTCGGGCACGCCGAGGTA-TTTTAGTTTATG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTATG
*
17139073 TTTTAAATTGGCTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
17139137 TCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAAAAAA
131 TCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT-AAAAAA
17139202 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTT
195 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTT
17139267 TAAATTGACTCATAGTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
260 TAAATTGACTCATAGTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCA
17139332 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
325 TATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
*
17139390 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTAT
17139455 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
65 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
17139520 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAAAAA
130 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAAAAA
17139585 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTT
195 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATG-TT
*
17139650 TTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTC
259 TTAAATTGACTCATAGTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTC
17139715 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTTTTAAA
324 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
17139773 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTATG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTATG
*
17139838 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAAAAATCAA
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAAATCAA
** * ** * ***
17139903 CTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT-AGTTTTTGTTTTAA
130 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTT-TAAAAA
** * *
17139967 ATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
194 ATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
17140000 TTTAATTTTT
Statistics
Matches: 584, Mismatches: 19, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
380 14 0.02
381 21 0.04
382 102 0.17
383 273 0.47
384 174 0.30
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (382 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTATG
TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAAC
TCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAAAAAT
CAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTATGTTTT
AAATTGACTCATAGTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACTCAT
ATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
Found at i:17139909 original size:54 final size:54
Alignment explanation
Indices: 17139848--17140053 Score: 151
Period size: 54 Copynumber: 3.5 Consensus size: 54
17139838 TTTTAAATTG
17139848 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAAAAATCA
** * *** ***
17139902 ACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTTTGTTTTAA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT---------TTTA---ATTTTT--TTTTT-TCAAAA
**
17139967 ATTG
51 ATCA
*
17139971 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAAAAATCA
* *
17140025 ACTCATATTGCAAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
17140054 CGGCTCACAT
Statistics
Matches: 112, Mismatches: 25, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
54 58 0.52
55 4 0.04
57 6 0.05
60 1 0.01
63 1 0.01
66 6 0.05
68 5 0.04
69 31 0.28
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (54 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAAAAATCA
Found at i:17139937 original size:123 final size:123
Alignment explanation
Indices: 17139772--17140089 Score: 521
Period size: 123 Copynumber: 2.6 Consensus size: 123
17139762 AATTTTTTAA
17139772 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
*
17139836 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
17139894 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
17139959 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * ** * * *
17140017 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCAC--GCCGAGGTATTTTTAGTT
17140082 TATGTTTT
64 TATGTTTT
17140090 TTTCAATCTA
Statistics
Matches: 181, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
122 37 0.20
123 122 0.67
125 22 0.12
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:17139993 original size:191 final size:192
Alignment explanation
Indices: 17139010--17139931 Score: 1732
Period size: 192 Copynumber: 4.8 Consensus size: 192
17139000 CTTTCCAAGG
*
17139010 AAAATCAACTCATA-TGCGAGAAATGAGTTGAGCCTC-GGGCACGCCGAGGTA-TTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
*
17139072 GTTTTAAATTGGCTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAATCAA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
17139136 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
131 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
17139198 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
*
17139263 GTTTTAAATTGACTCATAGTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
17139328 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
131 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
*
17139390 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
17139455 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
17139520 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT-AA
131 CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
17139581 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
17139646 GTTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 G-TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
17139711 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTTTTAAA
130 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
17139773 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
*
17139837 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTTTCAAAAATCA
66 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAAATCA
17139902 ACTCATATTGCGAGAAATGAGTTGAGCCTC
130 ACTCATATTGCGAGAAATGAGTTGAGCCTC
17139932 GGGGCACGCC
Statistics
Matches: 720, Mismatches: 7, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
188 14 0.02
189 21 0.03
190 70 0.10
191 211 0.29
192 404 0.56
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAA
CTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
Found at i:17140217 original size:176 final size:185
Alignment explanation
Indices: 17140012--17140422 Score: 493
Period size: 191 Copynumber: 2.2 Consensus size: 185
17140002 TAATTTTTGT
*
17140012 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * *
17140076 TCAATTTATG-TTTT-TTTC-AATCT-A-TAC-T-TTTC-AAAAATCAACTTATATTGCGAGAGG
64 TCAAATTATGTTTTTATTTCTAATCTAATTACGTGTTTCAAAAAATCAACTCATATTGCAAGAGG
*
17140133 TGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
129 TGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
* *
17140190 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* ** * *
17140254 AAATTCTGTTTTTAATTTCTGTTTTTTTAATTTCTGTGTTTCAAAAAAAATCAACTCATATTGCA
66 AAATTATGTTTTT-ATTTC---TAATCTAATTAC-GTGTTTC--AAAAAATCAACTCATATTGCA
* * **
17140319 AGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTGT
124 AGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
*
17140381 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
17140423 TTTAATTTCT
Statistics
Matches: 196, Mismatches: 18, Indels: 23
0.83 0.08 0.10
Matches are distributed among these distances:
176 58 0.30
177 7 0.04
178 5 0.03
179 4 0.02
183 2 0.01
184 1 0.01
185 2 0.01
187 1 0.01
188 4 0.02
190 2 0.01
191 77 0.39
193 33 0.17
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (185 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AAATTATGTTTTTATTTCTAATCTAATTACGTGTTTCAAAAAATCAACTCATATTGCAAGAGGTG
AGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:17140261 original size:87 final size:90
Alignment explanation
Indices: 17140012--17140261 Score: 316
Period size: 91 Copynumber: 2.8 Consensus size: 90
17140002 TAATTTTTGT
*
17140012 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* * **
17140076 TCAATTTATGTTTTTTTCAATCTATAC
64 TCAATTTCTGCTTTACTCAATCTATAC
* *
17140103 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
*
17140165 TCAATTTCTGCTTTACT-AAT-TCTAC
64 TCAATTTCTGCTTTACTCAATCTATAC
* *
17140190 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
17140254 AAATTCTG
66 AATTTCTG
17140262 TTTTTAATTT
Statistics
Matches: 141, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.23
88 3 0.02
89 27 0.19
91 41 0.29
93 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (90 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGCTTTACTCAATCTATAC
Found at i:17140273 original size:13 final size:13
Alignment explanation
Indices: 17140257--17140290 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
17140247 TCTTTTCAAA
17140257 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
17140270 TTCTGTTTTTTTAAT
1 TTCTG--TTTTTAAT
17140285 TTCTGT
1 TTCTGT
17140291 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
15 13 0.68
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:17140282 original size:15 final size:15
Alignment explanation
Indices: 17140262--17140290 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17140252 TCAAATTCTG
17140262 TTTTTAATTTCTGTT
1 TTTTTAATTTCTGTT
17140277 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
17140291 GTTTCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTCTGTT
Found at i:17140450 original size:54 final size:55
Alignment explanation
Indices: 17140366--17140583 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
17140356 TCAATTTCTA
*
17140366 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
17140421 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCAATAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
17140475 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
17140526 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
17140581 CTT
1 CTT
17140584 GGCTCACGTG
Statistics
Matches: 146, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
50 12 0.08
51 33 0.23
52 2 0.01
53 2 0.01
54 46 0.32
55 42 0.29
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:17140885 original size:30 final size:31
Alignment explanation
Indices: 17140851--17140952 Score: 113
Period size: 30 Copynumber: 3.4 Consensus size: 31
17140841 TAAAAAATAA
*
17140851 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
17140881 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
17140911 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
*
17140941 AAATTTTATTTT
1 AAATTTCATTTT
17140953 AATCCTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 4 0.07
30 56 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:17141345 original size:3 final size:3
Alignment explanation
Indices: 17141337--17141394 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
17141327 GCTAGACTTT
17141337 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAAA GAAA GAA -AA -AA GAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA G-AA G-AA GAA GAA GAA GAA
*
17141384 AAA GAA -AA GAA
1 GAA GAA GAA GAA
17141395 ATAATAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.12
3 29 0.60
4 13 0.27
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17141355 original size:10 final size:10
Alignment explanation
Indices: 17141340--17141368 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
17141330 AGACTTTGAA
17141340 GAAGAAGAAG
1 GAAGAAGAAG
17141350 GAAGAAGAAG
1 GAAGAAGAAG
17141360 GAAGAAGAA
1 GAAGAAGAA
17141369 AGAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:17141371 original size:7 final size:7
Alignment explanation
Indices: 17141337--17141390 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
17141327 GCTAGACTTT
17141337 GAAG-AA
1 GAAGAAA
*
17141343 GAAGAAG
1 GAAGAAA
17141350 GAAG-AA
1 GAAGAAA
*
17141356 GAAGGAA
1 GAAGAAA
17141363 GAAGAAA
1 GAAGAAA
17141370 GAAAGAAA
1 G-AAGAAA
*
17141378 AAAGAAA
1 GAAGAAA
17141385 -AAGAAA
1 GAAGAAA
17141391 AGAAATAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 15 0.37
7 20 0.49
8 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:17141492 original size:15 final size:14
Alignment explanation
Indices: 17141471--17141509 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
17141461 GCAGCCCAAG
17141471 AAAAAACAACAAAAA
1 AAAAAACAA-AAAAA
*
17141486 CAAAAACAAAAAAA
1 AAAAAACAAAAAAA
17141500 AAAGAAACAA
1 AAA-AAACAA
17141510 GCCCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.85, C:0.13, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAAA
Found at i:17141645 original size:11 final size:11
Alignment explanation
Indices: 17141629--17141684 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
17141619 AGCCCAGCAG
17141629 AGAAAAAAAAA
1 AGAAAAAAAAA
*
17141640 AGAAAAGAAAA
1 AGAAAAAAAAA
* *
17141651 AGAAGAAAAAG
1 AGAAAAAAAAA
*
17141662 AGAAGGAAAAAA
1 AGAA-AAAAAAA
17141674 AGAAAAAAAAA
1 AGAAAAAAAAA
17141685 GAGAGGTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:17141656 original size:14 final size:14
Alignment explanation
Indices: 17141633--17141680 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
17141623 CAGCAGAGAA
*
17141633 AAAAAAAAGAAAAG
1 AAAAAGAAGAAAAG
17141647 AAAAAGAAGAAAAAG
1 AAAAAGAAG-AAAAG
* * *
17141662 AGAAGGAAAAAAAG
1 AAAAAGAAGAAAAG
17141676 AAAAA
1 AAAAA
17141681 AAAAGAGAGG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGAAAAG
Found at i:17141661 original size:20 final size:19
Alignment explanation
Indices: 17141631--17141686 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
17141621 CCCAGCAGAG
17141631 AAAAA-AAAAAGAAAAGAA
1 AAAAAGAAAAAGAAAAGAA
*
17141649 AAAGAAGAAAAAGAGAAGGAA
1 AAA-AAGAAAAAGA-AAAGAA
17141670 AAAAAGAAAAA-AAAAGA
1 AAAAAGAAAAAGAAAAGA
17141687 GAGGTTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 7 0.21
19 3 0.09
20 15 0.45
21 8 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAGAA
Found at i:17141854 original size:16 final size:17
Alignment explanation
Indices: 17141828--17141865 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17141818 TTATATTTAT
17141828 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
17141845 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
17141861 ATTTT
1 ATTTT
17141866 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:17142061 original size:18 final size:18
Alignment explanation
Indices: 17142017--17142540 Score: 224
Period size: 17 Copynumber: 29.8 Consensus size: 18
17142007 TCTATAATCC
*
17142017 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
17142035 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
17142052 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
17142069 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
17142086 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
17142107 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * **
17142124 CCGTATTTTCAAAAA-AA
1 TCGTGTTTTCAAAAATTT
*
17142141 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
17142160 TCGTGTTTTCAAAAAAAATGA
1 TCGTGTTTTC---AAAAATTT
*
17142181 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
17142198 CCGTGTTAAAAAAAAATCT
1 TCGTGTT-TTCAAAAATTT
* *
17142217 TCGTATTTTCAAAAAAATT
1 TCGTGTTTTC-AAAAATTT
*
17142236 TCGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
17142253 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
17142270 TC-TGTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
* *
17142288 TCTTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * ***
17142305 CCGGTGATTTTAAAAAAAAA
1 TC-GTG-TTTTCAAAAATTT
*
17142325 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
17142343 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
17142360 TTGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
17142377 TCGTGTTTTTAAAAATTC
1 TCGTGTTTTCAAAAATTT
*
17142395 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
** **
17142410 T--T-TTTAAGAAAAAAAT
1 TCGTGTTT-TCAAAAATTT
* *
17142426 T-GTG-TTTCAAAAAAATG
1 TCGTGTTTTC-AAAAATTT
** *
17142443 TATTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
17142460 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
*
17142477 TCGTGTTTT-AAAAAATT
1 TCGTGTTTTCAAAAATTT
**
17142494 TCGTG-TTTCTGAAATTT
1 TCGTGTTTTCAAAAATTT
* *
17142511 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
17142527 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
17142541 AAAAACTTTC
Statistics
Matches: 380, Mismatches: 86, Indels: 81
0.69 0.16 0.15
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 6 0.02
16 30 0.08
17 173 0.46
18 92 0.24
19 44 0.12
20 5 0.01
21 26 0.07
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:17142079 original size:16 final size:16
Alignment explanation
Indices: 17142028--17142081 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
17142018 CGTGCTTTTA
17142028 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
17142044 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
17142062 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
17142078 AAAA
1 AAAA
17142082 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:17142158 original size:36 final size:38
Alignment explanation
Indices: 17142118--17142201 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
17142108 CGTGTTTTAT
*
17142118 AAATTTCCGTATTTTC-AAAAAAATCA-TGTCTTTCAA
1 AAATTTCCGTATTTTCAAAAAAAATCACCGTCTTTCAA
* * * *
17142154 AAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAA
1 AAATTTCCGTATTTTCAAAAAAAATCACCGTCTTTCAA
17142192 AAATTTCCGT
1 AAATTTCCGT
17142202 GTTAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 14 0.35
37 9 0.22
38 17 0.43
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (38 bp):
AAATTTCCGTATTTTCAAAAAAAATCACCGTCTTTCAA
Found at i:17142203 original size:38 final size:37
Alignment explanation
Indices: 17142038--17142282 Score: 140
Period size: 36 Copynumber: 6.7 Consensus size: 37
17142028 AAAATTCTCA
*
17142038 TGTTTCAAAAATCTT-CGTGTTTTC---AAAATTCTA-G
1 TGTTTCAAAAAT-TTCCGTGTTTTCAAAAAAAATC-ACG
* * * **
17142072 TGTTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCG
1 TGTTTCAAAAATTTCCGTGTTTTCA-AAAAAAATCACG
* * * *
17142110 TGTTTTATAAATTTCCGTATTTTC-AAAAAAATCATG
1 TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATCACG
* * *
17142146 TCTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCG
1 TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATCA-CG
* *
17142184 TGTTTCAAAAATTTCCGTG--TTAAAAAAAAATCTTCG
1 TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATC-ACG
* *
17142220 TATTTTCAAAAAAATTT-CGTG-TTTC---AAAAATCTTCG
1 T-GTTTC--AAAAATTTCCGTGTTTTCAAAAAAAATC-ACG
*
17142256 TGTTTTCAAAAATTTCTGTG-TTTCAAA
1 TG-TTTCAAAAATTTCCGTGTTTTCAAA
17142283 GATTTTCTTG
Statistics
Matches: 165, Mismatches: 28, Indels: 32
0.73 0.12 0.14
Matches are distributed among these distances:
33 2 0.01
34 28 0.17
35 7 0.04
36 57 0.35
37 13 0.08
38 48 0.29
39 10 0.06
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (37 bp):
TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATCACG
Found at i:17142212 original size:74 final size:75
Alignment explanation
Indices: 17142074--17142249 Score: 196
Period size: 74 Copynumber: 2.4 Consensus size: 75
17142064 AATTCTAGTG
* * *** * * **
17142074 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTA-TTAAAAAAA
17142139 AATCAT-GT-C
65 AATCATCGTAC
*
17142148 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
* *
17142213 ATCTTCGTAT
66 ATCATCGTAC
*
17142223 TTTCAAAAAAATTTCGTG-TTTCAAAAA
1 TTTC-AAAAATTTTCGTGTTTTCAAAAA
17142250 TCTTCGTGTT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
73 12 0.14
74 49 0.57
75 13 0.15
76 12 0.14
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (75 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
ATCATCGTAC
Found at i:17142356 original size:36 final size:35
Alignment explanation
Indices: 17142071--17142356 Score: 129
Period size: 36 Copynumber: 7.8 Consensus size: 35
17142061 CAAAATTCTA
* * **
17142071 GTGTTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTC
1 GTGTTTCAAAAATTTCCGTG-TTTCA-AAAAAA-AATC
* * * *
17142109 GTGTTTTATAAATTTCCGTATTTTCAAAAAAATCAT-
1 GTGTTTCAAAAATTTCCGT-GTTTCAAAAAAA-AATC
* * *
17142145 GTCTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACC
1 GTGTTTCAAAAATTTCCGTG-TTTCAAAAAAAA--ATC
17142183 GTGTTTCAAAAATTTCCGTG-TT-AAAAAAAAATCTTC
1 GTGTTTCAAAAATTTCCGTGTTTCAAAAAAAAA---TC
* ***
17142219 GTATTTTCAAAAAAATTT-CGTGTTTC-AAAAATCTTC
1 GT-GTTTC--AAAAATTTCCGTGTTTCAAAAAAAAATC
* * ***
17142255 GTGTTTTCAAAAATTTCTGTGTTTC-AAAGATTTTC
1 GTG-TTTCAAAAATTTCCGTGTTTCAAAAAAAAATC
* * *
17142290 TTGTTTTCAAAAA-CTCCGGTGATTTTAAAAAAAAATC
1 GTG-TTTCAAAAATTTCC-GTG-TTTCAAAAAAAAATC
17142327 GT-TTTCTAAAAAATTTCCGTGTTTCAAAAA
1 GTGTTTC--AAAAATTTCCGTGTTTCAAAAA
17142357 TTTTTGTGTT
Statistics
Matches: 191, Mismatches: 36, Indels: 44
0.70 0.13 0.16
Matches are distributed among these distances:
33 1 0.01
34 10 0.05
35 42 0.22
36 50 0.26
37 28 0.15
38 45 0.24
39 15 0.08
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41
Consensus pattern (35 bp):
GTGTTTCAAAAATTTCCGTGTTTCAAAAAAAAATC
Found at i:17142555 original size:20 final size:20
Alignment explanation
Indices: 17142532--17142570 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17142522 AATTCTCGTG
17142532 TTTTAAAAAAAAAACTTTCA
1 TTTTAAAAAAAAAACTTTCA
** *
17142552 TTTTTTAAAAAAAATTTTC
1 TTTTAAAAAAAAAACTTTC
17142571 GTGCTTCAAA
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:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTTAAAAAAAAAACTTTCA
Found at i:17142581 original size:17 final size:17
Alignment explanation
Indices: 17142561--17142598 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
17142551 ATTTTTTAAA
*
17142561 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
17142577 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
17142594 AAAAA
1 AAAAA
17142599 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:17145746 original size:26 final size:26
Alignment explanation
Indices: 17145710--17145819 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
17145700 CATGAAATTC
*
17145710 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
17145736 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
17145762 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
17145788 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
17145814 TTATCA
1 TTATCA
17145820 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:17147496 original size:41 final size:41
Alignment explanation
Indices: 17147412--17147536 Score: 135
Period size: 41 Copynumber: 3.0 Consensus size: 41
17147402 TAATTTCACC
* * *
17147412 TTTTGCGGCG-TTTTAAAAAACAACGCCACTATAGTTTAGTT
1 TTTTGCGGCGTTTTTAATAAA-AACGCCACTATAGCTTAATT
* *
17147453 TTTTGCGGCGTTTTTGATAAAAACGCCACTATAACTTAATT
1 TTTTGCGGCGTTTTTAATAAAAACGCCACTATAGCTTAATT
* * ** * *
17147494 TTTTGTGGCATTTTTCCTAAAAACGCCATTATTGCTTAATT
1 TTTTGCGGCGTTTTTAATAAAAACGCCACTATAGCTTAATT
17147535 TT
1 TT
17147537 AATTTTTTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 63 0.89
42 8 0.11
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (41 bp):
TTTTGCGGCGTTTTTAATAAAAACGCCACTATAGCTTAATT
Found at i:17147571 original size:18 final size:18
Alignment explanation
Indices: 17147533--17147571 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17147523 TATTGCTTAA
*
17147533 TTTTAATTTTTTTGTTAT
1 TTTTAATTTTTTTATTAT
17147551 TTTTAATATTTTTTATT-T
1 TTTTAAT-TTTTTTATTAT
17147569 TTT
1 TTT
17147572 CTTTCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTAATTTTTTTATTAT
Found at i:17147684 original size:7 final size:7
Alignment explanation
Indices: 17147674--17147727 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
17147664 AAATATTATT
*
17147674 TTTTTAG
1 TTTTTAA
17147681 TTTTTAA
1 TTTTTAA
17147688 TTTTTAA
1 TTTTTAA
17147695 TTTTTAA
1 TTTTTAA
17147702 TTTTTAA
1 TTTTTAA
17147709 TTTTTAA
1 TTTTTAA
17147716 TTTTTAA
1 TTTTTAA
17147723 TTTTT
1 TTTTT
17147728 TTGAGCATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:17147746 original size:9 final size:8
Alignment explanation
Indices: 17147681--17147753 Score: 57
Period size: 7 Copynumber: 9.2 Consensus size: 8
17147671 ATTTTTTTAG
17147681 TTTTT-AA
1 TTTTTAAA
17147688 TTTTT-AA
1 TTTTTAAA
17147695 TTTTT-AA
1 TTTTTAAA
17147702 TTTTT-AA
1 TTTTTAAA
17147709 TTTTT-AA
1 TTTTTAAA
*
17147716 TTTTTAATT
1 TTTTTAA-A
*
17147725 TTTTTGAGCA
1 TTTTT-A-AA
17147735 TTTTTATAA
1 TTTTTA-AA
17147744 TTTTTAAA
1 TTTTTAAA
17147752 TT
1 TT
17147754 ATCATATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
7 33 0.58
8 5 0.09
9 13 0.23
10 6 0.11
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.68
Consensus pattern (8 bp):
TTTTTAAA
Found at i:17148314 original size:21 final size:21
Alignment explanation
Indices: 17148283--17148348 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
17148273 TATAACACTT
*
17148283 AACCCCAAACCCATAAGCCTTA
1 AACCCC-AACCCATAAACCTTA
* *
17148305 AACCCCAACCCTTAAACCATA
1 AACCCCAACCCATAAACCTTA
** *
17148326 AACCATAATCCATAAACCTTA
1 AACCCCAACCCATAAACCTTA
17148347 AA
1 AA
17148349 ATAGTAACTC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 30 0.83
22 6 0.17
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (21 bp):
AACCCCAACCCATAAACCTTA
Found at i:17148389 original size:14 final size:14
Alignment explanation
Indices: 17148367--17148411 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
17148357 TCATACACTT
17148367 TAAACCCTAAA-TAA
1 TAAACCCTAAACT-A
*
17148381 TATACCCTAAACTA
1 TAAACCCTAAACTA
17148395 TAAACCCTAAACTA
1 TAAACCCTAAACTA
17148409 TAA
1 TAA
17148412 TGATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:17148545 original size:14 final size:14
Alignment explanation
Indices: 17148505--17148552 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
17148495 ACTAATTAAT
*
17148505 CTAAACCCTAAACTT
1 CTAAACCCTAAA-TC
* **
17148520 CTAATCATTAAATC
1 CTAAACCCTAAATC
17148534 CTAAACCCTAAATC
1 CTAAACCCTAAATC
17148548 CTAAA
1 CTAAA
17148553 ACATGAACCA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 17 0.65
15 9 0.35
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (14 bp):
CTAAACCCTAAATC
Found at i:17148626 original size:11 final size:11
Alignment explanation
Indices: 17148610--17148641 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17148600 TAAACCCCAA
*
17148610 CCTTAAACTAC
1 CCTTAAACCAC
17148621 CCTTAAACCAC
1 CCTTAAACCAC
17148632 CCTTAAACCA
1 CCTTAAACCA
17148642 TGATCCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (11 bp):
CCTTAAACCAC
Found at i:17149117 original size:40 final size:39
Alignment explanation
Indices: 17149038--17149138 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 39
17149028 GTTTTTTTGT
* *
17149038 GGCGTTTTTTAAAAACGCCGCTAAAGATCAAGCATTAGC
1 GGCGTTTTTTAAAAGCGCCGCTAAAGATCAACCATTAGC
* **
17149077 GGCGTTTTTTATAAAGCGCCGCTAAAGGTGTACC-TATAGC
1 GGCGTTTTTTA-AAAGCGCCGCTAAAGATCAACCAT-TAGC
* *
17149117 GGC-ATTTTTAAAAGTGCCGCTA
1 GGCGTTTTTTAAAAGCGCCGCTA
17149139 CAGCAACTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
38 11 0.21
39 18 0.34
40 24 0.45
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (39 bp):
GGCGTTTTTTAAAAGCGCCGCTAAAGATCAACCATTAGC
Found at i:17149180 original size:94 final size:95
Alignment explanation
Indices: 17149075--17149368 Score: 304
Period size: 115 Copynumber: 2.9 Consensus size: 95
17149065 TCAAGCATTA
* * *
17149075 GCGGCG-TTTTTTATAAAGCGCCGCTAAAGGTGTACCTATAGCGGCATTTTT-AAAAGTGCCGCT
1 GCGGCGCTTTTTGA-AAAACGCCGCTAAAGGTGTACCTATAGCGGCATTTTTAAAAAGCGCCGCT
* *
17149138 ACAGCAACTAAAAGGTCAATAAAACTCTTTT
65 AAAGCAACAAAAAGGTCAATAAAACTCTTTT
17149169 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCATTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCATTTTTAAAAAGCGCCGCTA
*
17149234 AAGCCACAAAAAGGTCAATATAAAATGACGTCGTTTTGTAAAACTCTTTT
66 AAGCAACAAAAAGGTC-A-AT-AAA--A---------------CTCTTTT
*
17149284 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAAAAAGCGCCGCTA
1 GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCATTTTTAAAAAGCGCCGCTA
* *
17149349 AAGCCACTAAAAGGTCAATA
66 AAGCAACAAAAAGGTCAATA
17149369 CAAAACGATG
Statistics
Matches: 170, Mismatches: 8, Indels: 26
0.83 0.04 0.13
Matches are distributed among these distances:
94 42 0.25
95 31 0.18
96 1 0.01
97 2 0.01
98 3 0.02
100 1 0.01
112 1 0.01
113 2 0.01
114 1 0.01
115 86 0.51
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (95 bp):
GCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCATTTTTAAAAAGCGCCGCTA
AAGCAACAAAAAGGTCAATAAAACTCTTTT
Found at i:17149361 original size:115 final size:115
Alignment explanation
Indices: 17149157--17149541 Score: 673
Period size: 115 Copynumber: 3.3 Consensus size: 115
17149147 AAAAGGTCAA
*
17149157 TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCATTTTTAA
1 TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
* * *
17149222 AAAGCGCCGCTAAAGCCACAAAAAGGTCAATATAAAATGACGTCGTTTTG
66 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTG
17149272 TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
1 TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
* *
17149337 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGATGTTGTTTTG
66 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTG
*
17149387 TAAAACTCTTTTGCGGCGTTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
1 TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
* *
17149452 GAAGCGCTGCTAAAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTG
66 AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTG
17149502 TAAAACTCTTTTGCGGCGCTTTTT-AGAAAACGCCGCTAAA
1 TAAAACTCTTTTGCGGCGCTTTTTGA-AAAACGCCGCTAAA
17149542 AACCTGTTTT
Statistics
Matches: 257, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
114 1 0.00
115 256 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (115 bp):
TAAAACTCTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAGGTGTACCTATAGCGGCGTTTTTAA
AAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAATGACGTTGTTTTG
Found at i:17154203 original size:35 final size:35
Alignment explanation
Indices: 17154157--17154224 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
17154147 ATAGGTTAAC
17154157 TTAACCATGGATTGCTTGAATATGTTATTTGTAGT
1 TTAACCATGGATTGCTTGAATATGTTATTTGTAGT
17154192 TTAACCATGGATTGCTTGAATATGTTATTTGTA
1 TTAACCATGGATTGCTTGAATATGTTATTTGTA
17154225 ATTGCTAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (35 bp):
TTAACCATGGATTGCTTGAATATGTTATTTGTAGT
Found at i:17167800 original size:13 final size:14
Alignment explanation
Indices: 17167770--17167802 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
17167760 TAATATTATT
17167770 ATATTAATTATAAA
1 ATATTAATTATAAA
*
17167784 ATATTAA-TATCAA
1 ATATTAATTATAAA
17167797 ATATTA
1 ATATTA
17167803 TAAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAATTATAAA
Found at i:17168223 original size:11 final size:11
Alignment explanation
Indices: 17168195--17168236 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
17168185 TGAGATGCTA
17168195 AATAAAAAATT
1 AATAAAAAATT
*
17168206 AAAAAAAAATT
1 AATAAAAAATT
*
17168217 -ATTAAAAATT
1 AATAAAAAATT
17168227 AATAAGAAAA
1 AATAA-AAAA
17168237 CTTATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 8 0.32
11 13 0.52
12 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AATAAAAAATT
Found at i:17168787 original size:19 final size:19
Alignment explanation
Indices: 17168765--17168802 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17168755 GCATATTAAA
* *
17168765 ATATTAAAATAATATATAT
1 ATATTAAAAAAATACATAT
17168784 ATATTAAAAAAATACATAT
1 ATATTAAAAAAATACATAT
17168803 TAATTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATTAAAAAAATACATAT
Found at i:17171046 original size:14 final size:14
Alignment explanation
Indices: 17171027--17171053 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17171017 ATTTAGCTCC
17171027 TAAAATTATTTTTT
1 TAAAATTATTTTTT
17171041 TAAAATTATTTTT
1 TAAAATTATTTTT
17171054 AAAATTTTAG
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:0.00, T:0.63
Consensus pattern (14 bp):
TAAAATTATTTTTT
Found at i:17171054 original size:12 final size:13
Alignment explanation
Indices: 17171027--17171059 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
17171017 ATTTAGCTCC
17171027 TAAAATTATTTTTT
1 TAAAATTA-TTTTT
17171041 TAAAATTA-TTTT
1 TAAAATTATTTTT
17171053 TAAAATT
1 TAAAATT
17171060 TTAGCTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TAAAATTATTTTT
Found at i:17171137 original size:18 final size:17
Alignment explanation
Indices: 17171080--17171157 Score: 70
Period size: 18 Copynumber: 4.6 Consensus size: 17
17171070 TTATATATTC
*
17171080 TTTA-AAATTTAAAAAA
1 TTTATAAATTTTAAAAA
* *
17171096 ATTATAATTTTTAAAAA
1 TTTATAAATTTTAAAAA
* *
17171113 -ATATAAATTTTGAAATA
1 TTTATAAATTTT-AAAAA
17171130 TTTATAAATATTTAAAAA
1 TTTATAAAT-TTTAAAAA
*
17171148 TTTAAAAATT
1 TTTATAAATT
17171158 ATTTTGACTT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
16 12 0.24
17 15 0.31
18 19 0.39
19 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (17 bp):
TTTATAAATTTTAAAAA
Found at i:17171340 original size:14 final size:15
Alignment explanation
Indices: 17171323--17171352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17171313 ATAATTTAAA
17171323 TAACTC-AATTCGAT
1 TAACTCAAATTCGAT
17171337 TAACTCAAATTCGAT
1 TAACTCAAATTCGAT
17171352 T
1 T
17171353 TTTATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (15 bp):
TAACTCAAATTCGAT
Found at i:17171854 original size:15 final size:14
Alignment explanation
Indices: 17171834--17171871 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
17171824 TTCACTGCTG
17171834 CTTTTTCATTTTTTT
1 CTTTTTC-TTTTTTT
17171849 CTTTTTCTTTTTTT
1 CTTTTTCTTTTTTT
*
17171863 -TTTTGCTTT
1 CTTTTTCTTT
17171872 GGGTGTCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 7 0.32
15 7 0.32
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (14 bp):
CTTTTTCTTTTTTT
Found at i:17175377 original size:21 final size:21
Alignment explanation
Indices: 17175351--17175391 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17175341 AGACGAGCAA
* *
17175351 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
17175372 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
17175392 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:17182516 original size:87 final size:88
Alignment explanation
Indices: 17182416--17182586 Score: 308
Period size: 87 Copynumber: 2.0 Consensus size: 88
17182406 CAACTAATCG
*
17182416 AGATTGTTGTTAAATCTCTTATGAGAGAATGACATGACAGTT-AAAAATTAATATAATAACAAAT
1 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
*
17182480 TTTTAAAATTTACCTTTATATCA
66 TCTTAAAATTTACCTTTATATCA
*
17182503 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAATAAAT
1 AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
17182568 TCTTAAAATTTACCTTTAT
66 TCTTAAAATTTACCTTTAT
17182587 CTTCCGCTTC
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
87 41 0.51
88 39 0.49
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (88 bp):
AGATTGTTGTTAAATCTCTTATGAGAGAAAGACATGACAGTTAAAAAATTAATATAATAACAAAT
TCTTAAAATTTACCTTTATATCA
Found at i:17197301 original size:42 final size:42
Alignment explanation
Indices: 17197238--17197398 Score: 180
Period size: 42 Copynumber: 3.7 Consensus size: 42
17197228 CTTCGTTTTC
** * *
17197238 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
17197281 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
17197322 TCGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
17197371 TCGATGCCATATCCCAGATATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
17197399 TACGGAAATC
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.62
43 1 0.01
45 2 0.02
48 2 0.02
49 32 0.31
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:17197381 original size:49 final size:51
Alignment explanation
Indices: 17197308--17197410 Score: 156
Period size: 49 Copynumber: 2.1 Consensus size: 51
17197298 TATGGTCTTA
* *
17197308 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAAT
1 CACATATTCACATATCGATGCCATAGCCCAGATATGGTCTTACACGGAAAT
* *
17197358 CACATA-TCACATATCGATGCCATATCCCAGATATGGTCTTATACGGAAAT
1 CACATATTCACATATCGATGCCATAGCCCAGATATGGTCTTACACGGAAAT
17197408 CAC
1 CAC
17197411 TTGTCACTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 34 0.71
50 14 0.29
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (51 bp):
CACATATTCACATATCGATGCCATAGCCCAGATATGGTCTTACACGGAAAT
Found at i:17197455 original size:31 final size:31
Alignment explanation
Indices: 17197420--17197506 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
17197410 CTTGTCACTT
*
17197420 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
17197451 GTAGCCGGAGCTGCCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17197482 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
17197507 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:17197582 original size:50 final size:51
Alignment explanation
Indices: 17197482--17197610 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
17197472 CACTGATCAG
* * * *
17197482 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
17197533 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
17197583 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
17197611 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 49 0.67
51 24 0.33
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCCTTAATCAGATAAGT
Found at i:17205985 original size:20 final size:22
Alignment explanation
Indices: 17205948--17205987 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
17205938 CTAGGGTTTG
*
17205948 TTTTGTATTTTGATTGATTTTT
1 TTTTGTATTCTGATTGATTTTT
17205970 TTTTGT-TTCTGA-TGATTT
1 TTTTGTATTCTGATTGATTT
17205988 GTCCAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.12, C:0.03, G:0.15, T:0.70
Consensus pattern (22 bp):
TTTTGTATTCTGATTGATTTTT
Found at i:17209346 original size:22 final size:23
Alignment explanation
Indices: 17209316--17209360 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
17209306 TAGTGTATTA
17209316 TTTTAAAATATATTAA-ATAATT
1 TTTTAAAATATATTAATATAATT
* *
17209338 TTTTTAAATATTTTAATATAATT
1 TTTTAAAATATATTAATATAATT
17209361 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTAAAATATATTAATATAATT
Found at i:17209399 original size:30 final size:27
Alignment explanation
Indices: 17209348--17209404 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 27
17209338 TTTTTAAATA
17209348 TTTTAATATAATTAAATAAAAATAATT
1 TTTTAATATAATTAAATAAAAATAATT
17209375 TTTTATATATAATTTAATATAAAAATAATT
1 TTTTA-ATATAA-TTAA-ATAAAAATAATT
17209405 ATATTAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 5 0.19
28 6 0.22
29 4 0.15
30 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTTTAATATAATTAAATAAAAATAATT
Found at i:17209667 original size:46 final size:44
Alignment explanation
Indices: 17209583--17209674 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
17209573 ATATCTATTC
* *
17209583 CATTCAACCAAACACAATAATGCTATTACAGTTCTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
*
17209627 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGCTCTATTCCATTA
17209673 CA
1 CA
17209675 GTTTTATTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.38
45 3 0.07
46 21 0.50
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGCTCTATTCCATTA
Found at i:17209674 original size:16 final size:16
Alignment explanation
Indices: 17209653--17209703 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
17209643 TGAATTACTG
17209653 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
17209669 ATTACAGTTTTATTCA
1 ATTACAGCTCTATTCC
17209685 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
17209701 ATT
1 ATT
17209704 TCAGTGAACC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:17210275 original size:14 final size:14
Alignment explanation
Indices: 17210256--17210350 Score: 52
Period size: 13 Copynumber: 6.4 Consensus size: 14
17210246 TAATTGTAAT
17210256 AAATATTATTATTA
1 AAATATTATTATTA
*
17210270 AAATATTAATATTGA
1 AAATATTATTATT-A
* *
17210285 ACATTTTCAATAATATGTGA
1 AAATATT--AT--TAT-T-A
17210305 ATAATATTA-T-TTA
1 A-AATATTATTATTA
*
17210318 AAATTATTATTTTTA
1 AAA-TATTATTATTA
17210333 AAAT-TTATTATTA
1 AAATATTATTATTA
17210346 AAATA
1 AAATA
17210351 AATTTGAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
12 2 0.03
13 19 0.30
14 15 0.24
15 13 0.21
16 1 0.02
17 1 0.02
19 4 0.06
20 4 0.06
21 4 0.06
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (14 bp):
AAATATTATTATTA
Found at i:17210340 original size:16 final size:16
Alignment explanation
Indices: 17210309--17210345 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
17210299 ATGTGAATAA
17210309 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
17210325 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
17210341 TATTA
1 TATTA
17210346 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:17210412 original size:16 final size:17
Alignment explanation
Indices: 17210386--17210417 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17210376 AAAATAATAA
17210386 ATTATATTTATTATATT
1 ATTATATTTATTATATT
17210403 ATTA-ATTTATTATAT
1 ATTATATTTATTATAT
17210418 GACTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATATTTATTATATT
Found at i:17210766 original size:16 final size:16
Alignment explanation
Indices: 17210681--17210768 Score: 115
Period size: 16 Copynumber: 5.5 Consensus size: 16
17210671 CGTTTGGTTG
*
17210681 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
*
17210697 GCTGTAATGAAATAG-
1 GCTGTAATGGAATAGA
*
17210712 GACTGTAATTGAATAGA
1 G-CTGTAATGGAATAGA
17210729 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
17210745 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
17210761 GTTGTAAT
1 GCTGTAAT
17210769 AAGTAATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
15 1 0.02
16 62 0.97
17 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:17210802 original size:46 final size:44
Alignment explanation
Indices: 17210750--17210843 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
17210740 ATAGAGCTGT
*
17210750 AATGGAATA-AAGTTGTAATAAGTAATTCAACTGTTTGGTTGAATGA
1 AATGGAATAGAA-CTGTAATAA-T-ATTCAACTGTTTGGTTGAATGA
*** *
17210796 AATGGAATAGAACTGTAATAATATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAATATTCAACTGTTTGGTTGAATGA
17210840 AATG
1 AATG
17210844 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 22 0.52
45 1 0.02
46 17 0.40
47 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAATATTCAACTGTTTGGTTGAATGA
Found at i:17211010 original size:58 final size:56
Alignment explanation
Indices: 17210948--17211071 Score: 160
Period size: 58 Copynumber: 2.2 Consensus size: 56
17210938 TTTTAATAAG
* * *
17210948 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAGTTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAAAA-AAT--ATAATTTAACAACATTCTTAACATA
* * *
17211006 ATTATTATTAAATATAATTTAATAAAAAAATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAAAAATATAATTTAACAACATTCTTAACATA
17211062 ATTATTATTA
1 ATTATTATTA
17211072 TATGAATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
55 12 0.20
56 17 0.29
57 3 0.05
58 27 0.46
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (56 bp):
ATTATTATTAAAAATAATTTAATAAAAAAATATAATTTAACAACATTCTTAACATA
Found at i:17212703 original size:26 final size:26
Alignment explanation
Indices: 17212674--17212750 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
17212664 AAAAAAATTC
17212674 AAAATGTATTAAAACCATTAAAAATA
1 AAAATGTATTAAAACCATTAAAAATA
* *
17212700 AAAATTGT-TT--AA-GA--AAAACT-
1 AAAA-TGTATTAAAACCATTAAAAATA
17212720 AAAATGTATTAAAACCATTAAAAATA
1 AAAATGTATTAAAACCATTAAAAATA
17212746 AAAAT
1 AAAAT
17212751 TACAAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 6 0.15
21 5 0.13
22 2 0.05
23 2 0.05
24 2 0.05
25 5 0.13
26 11 0.28
27 3 0.08
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATGTATTAAAACCATTAAAAATA
Found at i:17213124 original size:52 final size:52
Alignment explanation
Indices: 17213046--17213149 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
17213036 GCAGAACCAA
17213046 GTAAACCTCGAGGAACAAGAAAAGGAACTCCCATCTTTTTCTATAATAATAT
1 GTAAACCTCGAGGAACAAGAAAAGGAACTCCCATCTTTTTCTATAATAATAT
*
17213098 GTAAACCTCGAGGAACAAGAAAAGGAACTCCCCTCTTTTTCTATAATAATAT
1 GTAAACCTCGAGGAACAAGAAAAGGAACTCCCATCTTTTTCTATAATAATAT
17213150 ATATAATCAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (52 bp):
GTAAACCTCGAGGAACAAGAAAAGGAACTCCCATCTTTTTCTATAATAATAT
Found at i:17216903 original size:23 final size:22
Alignment explanation
Indices: 17216873--17216917 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
17216863 GAAGGATGAG
*
17216873 GGAAAAAAAGGGGTAAATGAGGA
1 GGAAAAAAAAGGGTAAAT-AGGA
17216896 GGAAAAAAAAGGGTAAATAGGA
1 GGAAAAAAAAGGGTAAATAGGA
17216918 AAAACAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.09
Consensus pattern (22 bp):
GGAAAAAAAAGGGTAAATAGGA
Found at i:17217217 original size:15 final size:15
Alignment explanation
Indices: 17217197--17217227 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17217187 GTCCTGTAAG
17217197 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17217212 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
17217227 T
1 T
17217228 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Done.