Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 80 of 211
Found at i:21665363 original size:17 final size:17
Alignment explanation
Indices: 21665341--21665373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21665331 TACACTAATG
*
21665341 AATACAAATAATCAATT
1 AATACAAATAAGCAATT
21665358 AATACAAATAAGCAAT
1 AATACAAATAAGCAAT
21665374 ACAATACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (17 bp):
AATACAAATAAGCAATT
Found at i:21665626 original size:23 final size:23
Alignment explanation
Indices: 21665583--21665628 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21665573 GAAAAAGAAT
*
21665583 TAAAATAACAGTATATAATAAAA
1 TAAAATAACAGTACATAATAAAA
*
21665606 TAAAATAA-TGTACATACATAAAA
1 TAAAATAACAGTACATA-ATAAAA
21665629 ATAAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAACAGTACATAATAAAA
Found at i:21667178 original size:44 final size:44
Alignment explanation
Indices: 21667124--21667247 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
21667114 GATTCATTAT
* ** *
21667124 CTTCAGTCTGCTCCGTTGCAACTTCAGGGAGATAAGGCTAATGG
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAGATAAGGCTAATGG
*
21667168 CTTCAATCTGCTCCACTGCAACTTAAGGGAGATAAGGCTAGTGG
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAGATAAGGCTAATGG
* * * *
21667212 CTTCAATCTGCTTCACTGTAACTTTAGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTAAGGGAGATAAG
21667248 ATCCGTCATA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTAAGGGAGATAAGGCTAATGG
Found at i:21667523 original size:44 final size:44
Alignment explanation
Indices: 21667473--21667819 Score: 142
Period size: 44 Copynumber: 7.4 Consensus size: 44
21667463 GCTCCGATGA
21667473 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGTTTCACTGC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGTTTCACTGC
* * * * * * * * *
21667517 AACTTCAAGAAGATAAAATCCGCCATAATTTGTAGCTTTAATCTATTCCACTAC
1 AACTTCAGGGAGAT--AA---GGC-----TGGTGGCTTCAATCTGTTTCACTGC
* * * * * * ** * *
21667571 AACTTCAGGGAAATAAGATCCGCTGTCTTCAGTCTACTCCGCTGC
1 AACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGTTTCACTGC
*
21667616 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCT-TCTTCACTAC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGT-TTCACTGC
* ** * *
21667660 AACTTCAGGAAGATAAGATCCGCCATAATTTGAAGCTTTAATATG-TTCTACTGC
1 AACTTCAGGGAGATAAG----G-C-T--GGTG--GCTTCAATCTGTTTC-ACTGC
* * * * * * *
21667714 AACTTCAGAGAAATAAGATCTGCTGTCTTCAGTCTGTTCCGA-TGC
1 AACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGTTTC-ACTGC
*
21667759 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGC
1 AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGTTTCACTGC
*
21667803 AACTTCAGGAAGATAAG
1 AACTTCAGGGAGATAAG
21667820 ATCCGCCATA
Statistics
Matches: 216, Mismatches: 61, Indels: 52
0.66 0.19 0.16
Matches are distributed among these distances:
43 1 0.00
44 80 0.37
45 56 0.26
46 5 0.02
47 2 0.01
48 1 0.00
49 5 0.02
50 3 0.01
52 4 0.02
53 3 0.01
54 56 0.26
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGTTTCACTGC
Found at i:21667775 original size:45 final size:45
Alignment explanation
Indices: 21667709--21668394 Score: 212
Period size: 44 Copynumber: 14.6 Consensus size: 45
21667699 AATATGTTCT
* * * *
21667709 ACTGCAACTTCAGAGAAATAAGATCTGCTGTCTTCAGTCTG-TTC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* *
21667753 -CGATGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTTC
1 AC--TGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* * * *
21667798 ACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTAGAGCTTTAATTTG-TTCC
1 ACTGCAACTTCAGGGAGATAAGATCTG-C------T-G-GCTTCAATCTGCTT-C
* * * ** * * *
21667852 ACTACAACTTCAGGGAAATAATATCCCCTGTCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
** * * * * *
21667897 GTTGTAACTTTAGGGAGATAAG-GCTGGTGGCTTCAATCTTCTTC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* * * ** *
21667941 ACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTATATTTAATCTG-TTCC
1 ACTGCAACTTCAGGGAGATAAGATCTG-C------TG--GCTTCAATCTGCTT-C
* * * * * * *
21667995 ACTGCAACTTCAAGGAAATAAGATCCGCTGTCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* * * *
21668040 GA-TGTAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTACTTC
1 -ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* * * *
21668084 ACTGCAACTTCAAGAAGATAAGATCCAT-CATAATTTGTAGCTTTAATCT-ATTCC
1 ACTGCAACTTCAGGGAGATAAGAT-C-TGC------TG--GCTTCAATCTGCTT-C
* * * * * *
21668138 ACTGCAACTTCAGGGAAATAAGATCCGCTGTCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* * * * *
21668183 GCTGCAACTTCAGGGAGATAAG-GCTGGTAGCTTCAATCTTCTTC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* * * * *
21668227 ACTACAACTTCAGGAAGAGAAGATCTGCCATAATTTGTAGCTTTAATATG-TTCC
1 ACTGCAACTTCAGGGAGATAAGATCTG-C------TG--GCTTCAATCTGCTT-C
* * * * *
21668281 ACTGCAACTTCAGAGAAATAAGATCTGATGTCTTCAGTCTG-TTCC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTT-C
* * * *
21668326 GCTGCAACTTTAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
* *
21668370 ACTGCCACTTCAGGAAGATAAGATC
1 ACTGCAACTTCAGGGAGATAAGATC
21668395 GGCCATAATT
Statistics
Matches: 460, Mismatches: 125, Indels: 113
0.66 0.18 0.16
Matches are distributed among these distances:
43 2 0.00
44 163 0.35
45 136 0.30
46 7 0.02
47 8 0.02
52 6 0.01
53 13 0.03
54 125 0.27
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAGATAAGATCTGCTGGCTTCAATCTGCTTC
Found at i:21668534 original size:143 final size:143
Alignment explanation
Indices: 21667168--21668490 Score: 1905
Period size: 143 Copynumber: 9.3 Consensus size: 143
21667158 AGGCTAATGG
* * * * *
21667168 CTTCAATCTGCTCCACTGCAACTTAAGGGAGATAAGGCTAGTGGCTTCAATCTGCTTCACTGTAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * *
21667233 CTTTAGGAAGATAAGATCCGTCATAATTTAG-AGCTTTAATCTGTTCCACT-CTAACTTCAGAGA
66 CTTCAGGAAGATAAGATCCGCCATAATTT-GTAGCTTTAATCTGTTCCACTGC-AACTTCAGGGA
21667296 AATAAGATCCGCTGT
129 AATAAGATCCGCTGT
* * * * * *
21667311 CTTTAGTCTGCTCCGTTGTAACTTTAGGGAGATAAGGCTGGTAGCTTCAATCTTCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
** * *
21667376 CTTCAGGAAGATAAGATCCGCCATAATTTGTATATTTAATCTATTCCACTGTAACTTCAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
21667441 TAAGATCCGCTGT
131 TAAGATCCGCTGT
* * *
21667454 CTTCAGTCTGCTCCGATGAAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGTTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * *
21667519 CTTCAAGAAGATAAAATCCGCCATAATTTGTAGCTTTAATCTATTCCACTACAACTTCAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
21667584 TAAGATCCGCTGT
131 TAAGATCCGCTGT
* * *
21667597 CTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTACAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * *
21667662 CTTCAGGAAGATAAGATCCGCCATAATTTGAAGCTTTAATATGTTCTACTGCAACTTCAGAGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
*
21667727 TAAGATCTGCTGT
131 TAAGATCCGCTGT
* *
21667740 CTTCAGTCTGTTCCGATGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* *
21667805 CTTCAGGAAGATAAGATCCGCCATAATTTAG-AGCTTTAATTTGTTCCACTACAACTTCAGGGAA
66 CTTCAGGAAGATAAGATCCGCCATAATTT-GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAA
* *
21667869 ATAATATCCCCTGT
130 ATAAGATCCGCTGT
* * * *
21667883 CTTCAGTCTGCTCCGTTGTAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* ** *
21667948 CTTTAGGAAGATAAGATCCGCCATAATTTGTATATTTAATCTGTTCCACTGCAACTTCAAGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
21668013 TAAGATCCGCTGT
131 TAAGATCCGCTGT
* * * *
21668026 CTTCAGTCTACTCCGATGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTTCACTGCAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* ** *
21668091 CTTCAAGAAGATAAGATCCATCATAATTTGTAGCTTTAATCTATTCCACTGCAACTTCAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
21668156 TAAGATCCGCTGT
131 TAAGATCCGCTGT
* * * *
21668169 CTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTAGCTTCAATCTTCTTCACTACAA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * *
21668234 CTTCAGGAAGAGAAGATCTGCCATAATTTGTAGCTTTAATATGTTCCACTGCAACTTCAGAGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
* *
21668299 TAAGATCTGATGT
131 TAAGATCCGCTGT
* * *
21668312 CTTCAGTCTGTTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCCA
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
* * * * *
21668377 CTTCAGGAAGATAAGATCGGCCATAATTTGTAGCTTTAATCTGCTCCACTACAATTTTAGGGAAA
66 CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
* *
21668442 TATGATCCGTTGT
131 TAAGATCCGCTGT
* *
21668455 CTTCAGTCTGCTCCGCTACAACTTCAGGGAGGTAAG
1 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
21668491 ACTTGTATCT
Statistics
Matches: 1057, Mismatches: 119, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
142 2 0.00
143 1054 1.00
144 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAA
CTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAA
TAAGATCCGCTGT
Found at i:21670378 original size:21 final size:22
Alignment explanation
Indices: 21670354--21670394 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21670344 CGCCTTGGCC
21670354 TCTCATTTT-TTTCCTTTTTCT
1 TCTCATTTTCTTTCCTTTTTCT
* *
21670375 TCTCTTTTTCTTTTCTTTTT
1 TCTCATTTTCTTTCCTTTTT
21670395 TAATCATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (22 bp):
TCTCATTTTCTTTCCTTTTTCT
Found at i:21670383 original size:11 final size:11
Alignment explanation
Indices: 21670354--21670394 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21670344 CGCCTTGGCC
21670354 TCTCATTTTT-T
1 TCTC-TTTTTCT
21670365 TC-CTTTTTCT
1 TCTCTTTTTCT
21670375 TCTCTTTTTCT
1 TCTCTTTTTCT
*
21670386 TTTCTTTTT
1 TCTCTTTTT
21670395 TAATCATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 18 0.67
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTCTTTTTCT
Found at i:21675450 original size:16 final size:17
Alignment explanation
Indices: 21675422--21675455 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21675412 ATACAAATTA
21675422 TATATATAAAATAGTAT
1 TATATATAAAATAGTAT
*
21675439 TATATA-AAAATATTAT
1 TATATATAAAATAGTAT
21675455 T
1 T
21675456 GATTTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TATATATAAAATAGTAT
Found at i:21675636 original size:23 final size:23
Alignment explanation
Indices: 21675593--21675638 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21675583 GAAAAAGAAT
*
21675593 TAAAATAACAGTATATAATAAAA
1 TAAAATAACAGTACATAATAAAA
*
21675616 TAAAATAA-TGTACATACATAAAA
1 TAAAATAACAGTACATA-ATAAAA
21675639 ATAAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAACAGTACATAATAAAA
Found at i:21675641 original size:19 final size:18
Alignment explanation
Indices: 21675617--21675655 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21675607 ATAATAAAAT
*
21675617 AAAATAATGTACATACATA
1 AAAATAA-GTAAATACATA
*
21675636 AAAATAAGTAAATATATA
1 AAAATAAGTAAATACATA
21675654 AA
1 AA
21675656 CTAATAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATAAGTAAATACATA
Found at i:21679987 original size:6 final size:7
Alignment explanation
Indices: 21679968--21679995 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
21679958 GTCTTAATTC
21679968 TTAAAAA
1 TTAAAAA
21679975 TTAAAAA
1 TTAAAAA
21679982 TTAAAAA
1 TTAAAAA
21679989 TTAAAAA
1 TTAAAAA
21679996 CTTCATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:21682848 original size:2 final size:2
Alignment explanation
Indices: 21682841--21682901 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
21682831 TATGTATATG
21682841 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
21682883 GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
21682902 CGCAAGCGTC
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:21699771 original size:30 final size:30
Alignment explanation
Indices: 21699737--21699803 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
21699727 TTAACCCCTC
21699737 AAATTTTGAGTATTTACTCTTGGGCAACAA
1 AAATTTTGAGTATTTACTCTTGGGCAACAA
21699767 AAATTTTGAGTATTTACTCTTGGGCAACAA
1 AAATTTTGAGTATTTACTCTTGGGCAACAA
21699797 AAATTTT
1 AAATTTT
21699804 CTTACTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (30 bp):
AAATTTTGAGTATTTACTCTTGGGCAACAA
Found at i:21705168 original size:18 final size:18
Alignment explanation
Indices: 21705145--21705187 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21705135 ATTAAAATGT
* *
21705145 AAAAATTAAATTAAAACA
1 AAAAATAAAAATAAAACA
*
21705163 AAAAATAAAAATAAAAGA
1 AAAAATAAAAATAAAACA
21705181 AAAAATA
1 AAAAATA
21705188 GCTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAAATAAAAATAAAACA
Found at i:21713706 original size:13 final size:13
Alignment explanation
Indices: 21713688--21713712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21713678 CCCGATGGAG
21713688 ATACACTCGGTTT
1 ATACACTCGGTTT
21713701 ATACACTCGGTT
1 ATACACTCGGTT
21713713 GAATAAACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (13 bp):
ATACACTCGGTTT
Found at i:21715746 original size:28 final size:27
Alignment explanation
Indices: 21715658--21716141 Score: 469
Period size: 27 Copynumber: 17.9 Consensus size: 27
21715648 TTTACCTTTA
* *
21715658 AGGGTAATTCGGTAATTTTACCCTTCG
1 AGGGTATTTCGATAATTTTACCCTTCG
* * **
21715685 AGGGTATCTCTATAATTTTACCCTTTA
1 AGGGTATTTCGATAATTTTACCCTTCG
* * * *
21715712 AGGGTATTTCGGTAATGTATACGCTTCT
1 AGGGTATTTCGATAAT-TTTACCCTTCG
*
21715740 ACGGTATTTCGATAATTTTACCCTTCG
1 AGGGTATTTCGATAATTTTACCCTTCG
21715767 AGGGTATTTC-AGTAATTTTACCCTTCG
1 AGGGTATTTCGA-TAATTTTACCCTTCG
* *
21715794 AGGGTATTTCGATAATTTTACCTTTCA
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
21715821 AGGCTATTTCAATAATTTTACCCTTCA
1 AGGGTATTTCGATAATTTTACCCTTCG
* *
21715848 AGGGTATTTCGATAATTTTACCTTTTG
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
21715875 AAGGTATTTCGATAATTTTGCCCTTCA
1 AGGGTATTTCGATAATTTTACCCTTCG
*
21715902 AGGGTATTTC-AGTAATTTTACCCTTTG
1 AGGGTATTTCGA-TAATTTTACCCTTCG
*
21715929 AGGGTATTTCGATAATTTTACCCTTTG
1 AGGGTATTTCGATAATTTTACCCTTCG
*
21715956 AGGGTATTTCTATAATTTTACCCTTCG
1 AGGGTATTTCGATAATTTTACCCTTCG
*
21715983 AGGGTATTTCGATAATTTTATCCTTCG
1 AGGGTATTTCGATAATTTTACCCTTCG
* *
21716010 AGGATATTTC-ATTAATTTTACCCTT-T
1 AGGGTATTTCGA-TAATTTTACCCTTCG
* * *
21716036 AGGGGTAATTC-AGTCATTTTACCCTTTG
1 A-GGGTATTTCGA-TAATTTTACCCTTCG
* * *
21716064 -GAGGTAATTT-GGTCATTTTACCCTTTG
1 AG-GGT-ATTTCGATAATTTTACCCTTCG
* * ** * *
21716091 AGGGTAATTCGGTCCTTTCACCCATCG
1 AGGGTATTTCGATAATTTTACCCTTCG
* * *
21716118 GGGGTAGTTCGATCATTTTACCCT
1 AGGGTATTTCGATAATTTTACCCT
21716142 CGATCCGCAT
Statistics
Matches: 381, Mismatches: 63, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.02
27 346 0.91
28 27 0.07
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACCCTTCG
Found at i:21723469 original size:27 final size:27
Alignment explanation
Indices: 21723394--21723655 Score: 194
Period size: 27 Copynumber: 9.8 Consensus size: 27
21723384 GATATAGAGA
* **
21723394 TAATTTTACCCCTATAGGGTA-TTACGG
1 TAATTTTACCCTTCGAGGGTATTTA-GG
* * *
21723421 TGATTTTACCCTTAG-GGGTATTTTGG
1 TAATTTTACCCTTCGAGGGTATTTAGG
* *
21723447 TAATTATACCCTTCGAGGGTATTTAAG
1 TAATTTTACCCTTCGAGGGTATTTAGG
* * * * *
21723474 TAATTTTACCCTTTGGGGGAATTTCGC
1 TAATTTTACCCTTCGAGGGTATTTAGG
*
21723501 TAAGTTTTACCCTTCGAGGGTATTTAAG
1 TAA-TTTTACCCTTCGAGGGTATTTAGG
**
21723529 TAATTTTACCCTTCGAGGGTATTTTTG
1 TAATTTTACCCTTCGAGGGTATTTAGG
* * * *
21723556 TAATTTTATCGTTCAAGGGTATTTGGG
1 TAATTTTACCCTTCGAGGGTATTTAGG
* * * * *
21723583 TAATTCTACCCTTCGA-AGTAATTCGA
1 TAATTTTACCCTTCGAGGGTATTTAGG
*
21723609 TCATTTTACCCTTCG-GAGGTAATTT-GG
1 TAATTTTACCCTTCGAG-GGT-ATTTAGG
* *
21723636 -CATTTTACCCTTCGGGGGTA
1 TAATTTTACCCTTCGAGGGTA
21723656 ATTCAGTCCT
Statistics
Matches: 186, Mismatches: 42, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.01
26 55 0.30
27 106 0.57
28 24 0.13
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.40
Consensus pattern (27 bp):
TAATTTTACCCTTCGAGGGTATTTAGG
Found at i:21723522 original size:55 final size:54
Alignment explanation
Indices: 21723423--21723541 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 54
21723413 TATTACGGTG
* * *
21723423 ATTTTACCC-TTAGGGGTATTTTGGTAATTATACCCTTCGAGGGTATTTAAGTA
1 ATTTTACCCTTTAGGGGAATTTCGCTAATTATACCCTTCGAGGGTATTTAAGTA
* *
21723476 ATTTTACCCTTTGGGGGAATTTCGCTAAGTTTTACCCTTCGAGGGTATTTAAGTA
1 ATTTTACCCTTTAGGGGAATTTCGCTAA-TTATACCCTTCGAGGGTATTTAAGTA
21723531 ATTTTACCCTT
1 ATTTTACCCTT
21723542 CGAGGGTATT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 9 0.15
54 14 0.24
55 36 0.61
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (54 bp):
ATTTTACCCTTTAGGGGAATTTCGCTAATTATACCCTTCGAGGGTATTTAAGTA
Found at i:21731888 original size:5 final size:6
Alignment explanation
Indices: 21731871--21731897 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21731861 ACAATTCAAA
21731871 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
21731898 ATTTGGGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:21734212 original size:23 final size:23
Alignment explanation
Indices: 21734185--21734231 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
21734175 AATTAAGAAC
21734185 CAAAGACTAGAAAATTATCGGTA
1 CAAAGACTAGAAAATTATCGGTA
*
21734208 CAAAGACTAGGAAATTATCGGTA
1 CAAAGACTAGAAAATTATCGGTA
21734231 C
1 C
21734232 CATTAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (23 bp):
CAAAGACTAGAAAATTATCGGTA
Found at i:21739685 original size:21 final size:23
Alignment explanation
Indices: 21739649--21739696 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 23
21739639 ATTGTTCCCT
21739649 TTTAGTTATCTTTAGTACA-TAA
1 TTTAGTTATCTTTAGTACAGTAA
*
21739671 TTTAG-TATTTTTAGTACAGTAA
1 TTTAGTTATCTTTAGTACAGTAA
21739693 TTTA
1 TTTA
21739697 CATTTTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (23 bp):
TTTAGTTATCTTTAGTACAGTAA
Found at i:21739701 original size:21 final size:21
Alignment explanation
Indices: 21739659--21739702 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21739649 TTTAGTTATC
*
21739659 TTTAGTACATAATTTAGTATT
1 TTTAGTACATAATTTAGCATT
21739680 TTTAGTACAGTAATTTA-CATT
1 TTTAGTACA-TAATTTAGCATT
21739701 TT
1 TT
21739703 ATGACTCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTAGTACATAATTTAGCATT
Found at i:21742990 original size:30 final size:30
Alignment explanation
Indices: 21742952--21743138 Score: 179
Period size: 29 Copynumber: 6.3 Consensus size: 30
21742942 GCTATCGATC
21742952 ATGAAAAGGGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATGGTGACGACCATCGAATT
*
21742981 ATGGAAAA-GGATGGTGACGATCATCG-ATT
1 AT-GAAAAGGGATGGTGACGACCATCGAATT
* *
21743010 ATGGAAAA-GGATGGTGACGACCGTCGAATA
1 AT-GAAAAGGGATGGTGACGACCATCGAATT
* * *
21743040 ATGAAAAGGGATGGCT-TCGGCTATCG-ATCT
1 ATGAAAAGGGATGG-TGACGACCATCGAAT-T
*
21743070 ATGAAAAGGTATGGTGACGACCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATCGAATT
* * * * *
21743100 ATAAAAAAAGGATGGTGGCAACCATCAAATT
1 AT-GAAAAGGGATGGTGACGACCATCGAATT
21743131 ATGAAAAG
1 ATGAAAAG
21743139 AGATAGCTTC
Statistics
Matches: 128, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
29 53 0.41
30 48 0.38
31 27 0.21
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCGAATT
Found at i:21743024 original size:58 final size:57
Alignment explanation
Indices: 21742942--21743116 Score: 185
Period size: 59 Copynumber: 2.9 Consensus size: 57
21742932 GATAGCTCTA
*
21742942 GCTATCGATCATGAAAAGGGATGGTGACGACCATC-AATTATGGAAAAGGATGGTGAC-
1 GCTATCGATTATGAAAA-GGATGGTGACGACCATCGAATTAT-GAAAAGGATGGTGACG
* * * *
21742999 GATCATCGATTATGGAAAAGGATGGTGACGACCGTCGAATAATGAAAAGGGATGGCT-TCG
1 GCT-ATCGATTAT-GAAAAGGATGGTGACGACCATCGAATTATGAAAA-GGATGG-TGACG
*
21743059 GCTATCGATCTATGAAAAGGTATGGTGACGACCATCGAATTATAAAAAAAGGATGGTG
1 GCTATCGAT-TATGAAAAGG-ATGGTGACGACCATCGAATTAT--GAAAAGGATGGTG
21743117 GCAACCATCA
Statistics
Matches: 98, Mismatches: 9, Indels: 18
0.78 0.07 0.14
Matches are distributed among these distances:
57 2 0.02
58 29 0.30
59 30 0.31
60 27 0.28
61 6 0.06
62 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.22
Consensus pattern (57 bp):
GCTATCGATTATGAAAAGGATGGTGACGACCATCGAATTATGAAAAGGATGGTGACG
Found at i:21743148 original size:91 final size:88
Alignment explanation
Indices: 21742984--21743155 Score: 218
Period size: 91 Copynumber: 1.9 Consensus size: 88
21742974 ATCAATTATG
* ** * * * *
21742984 GAAAAGGATGGTGACGATCATCGATTATGGAAAAGGATGGTGACGACCGTCGAATAATGAAAAGG
1 GAAAAGGATGGTGACGACCATCGATTATAAAAAAGGATGGTGACAACCATCAAATAATGAAAAGA
* *
21743049 GATGGCTTCGGCTATCGATCTAT
66 GATAGCTTCAGCTATCGATCTAT
* *
21743072 GAAAAGGTATGGTGACGACCATCGAATTATAAAAAAAGGATGGTGGCAACCATCAAATTATGAAA
1 GAAAAGG-ATGGTGACGACCATCG-ATTAT-AAAAAAGGATGGTGACAACCATCAAATAATGAAA
21743137 AGAGATAGCTTCAGCTATC
63 AGAGATAGCTTCAGCTATC
21743156 AAACTTCAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
88 7 0.10
89 15 0.21
90 5 0.07
91 43 0.61
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (88 bp):
GAAAAGGATGGTGACGACCATCGATTATAAAAAAGGATGGTGACAACCATCAAATAATGAAAAGA
GATAGCTTCAGCTATCGATCTAT
Found at i:21743168 original size:91 final size:88
Alignment explanation
Indices: 21742985--21743191 Score: 202
Period size: 91 Copynumber: 2.3 Consensus size: 88
21742975 TCAATTATGG
* ** * * * *
21742985 AAAAGGATGGTGACGATCATCGATTATGGAAAAGGATGGTGACGACCGTCGAATAATGAAAAGGG
1 AAAAGGATGGTGACGACCATCGATTATAAAAAAGGATGGTGACAACCATCAAATAATGAAAAGAG
* * * * *
21743050 ATGGCTTCGGCTATCGATCTATG
66 ATAGCTTCAGCTATCAAACTATA
* *
21743073 AAAAGGTATGGTGACGACCATCGAATTATAAAAAAAGGATGGTGGCAACCATCAAATTATGAAAA
1 AAAAGG-ATGGTGACGACCATCG-ATTAT-AAAAAAGGATGGTGACAACCATCAAATAATGAAAA
21743138 GAGATAGCTTCAGCTATCAAACT-TCA
63 GAGATAGCTTCAGCTATCAAACTAT-A
* *
21743164 AAAAGGGATGG-GTCAACCATCGTATTAT
1 AAAA-GGATGGTGACGACCATCG-ATTAT
21743192 TACCTCATGT
Statistics
Matches: 97, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
88 6 0.06
89 15 0.15
90 20 0.21
91 54 0.56
92 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (88 bp):
AAAAGGATGGTGACGACCATCGATTATAAAAAAGGATGGTGACAACCATCAAATAATGAAAAGAG
ATAGCTTCAGCTATCAAACTATA
Found at i:21754046 original size:23 final size:23
Alignment explanation
Indices: 21754016--21754074 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
21754006 CACACCGCGA
*
21754016 GTCATGTTAGATTAGTATAACCC
1 GTCATGTTAGAGTAGTATAACCC
21754039 GTCATGTTAGAGTAGTATAACCC
1 GTCATGTTAGAGTAGTATAACCC
21754062 GTCATGTTAGAGT
1 GTCATGTTAGAGT
21754075 TTCCTGGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (23 bp):
GTCATGTTAGAGTAGTATAACCC
Found at i:21759569 original size:27 final size:27
Alignment explanation
Indices: 21759531--21759641 Score: 186
Period size: 27 Copynumber: 4.1 Consensus size: 27
21759521 GATTGAAATA
21759531 CCCCTATAGGGTAAAATGACCGTAATG
1 CCCCTATAGGGTAAAATGACCGTAATG
* * *
21759558 CCCCTGTAGGGTAAAATGACCATAATA
1 CCCCTATAGGGTAAAATGACCGTAATG
*
21759585 CCCCTATAGAGTAAAATGACCGTAATG
1 CCCCTATAGGGTAAAATGACCGTAATG
21759612 CCCCTATAGGGTAAAATGACCGTAATG
1 CCCCTATAGGGTAAAATGACCGTAATG
21759639 CCC
1 CCC
21759642 TAGTGGGTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (27 bp):
CCCCTATAGGGTAAAATGACCGTAATG
Found at i:21759853 original size:26 final size:26
Alignment explanation
Indices: 21759824--21759881 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
21759814 TTAGCCACAT
21759824 ATACTATT-AGTAGCAGCTTTGCTGCG
1 ATACTATTGA-TAGCAGCTTTGCTGCG
* *
21759850 ATACTGTTGATGGCAGCTTTGCTGCG
1 ATACTATTGATAGCAGCTTTGCTGCG
21759876 ATACTA
1 ATACTA
21759882 GTGCTGGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.96
27 1 0.04
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (26 bp):
ATACTATTGATAGCAGCTTTGCTGCG
Found at i:21759928 original size:32 final size:32
Alignment explanation
Indices: 21759886--21760062 Score: 153
Period size: 32 Copynumber: 5.5 Consensus size: 32
21759876 ATACTAGTGC
* *
21759886 TGGCTTTGTGCCGATCATAGTACTGTTACTGG
1 TGGCTGTGTGCCGATCATAGTACTGTTACTGA
* *
21759918 TGGCTGTGTGCCGGTCAT-TTCACTGTTACTGA
1 TGGCTGTGTGCCGATCATAGT-ACTGTTACTGA
** ** *
21759950 TGGCTGTGTGCCGATCATAACACTACTATTGA
1 TGGCTGTGTGCCGATCATAGTACTGTTACTGA
* * * *
21759982 TGGTTTTGTGCCTATCAT-GTTACCGTTACTGA
1 TGGCTGTGTGCCGATCATAG-TACTGTTACTGA
* *
21760014 TGGCTGTGTGCCGATCGTA-TCACTGTTACTAA
1 TGGCTGTGTGCCGATCATAGT-ACTGTTACTGA
* *
21760046 TGGCTTTGTGCCAATCA
1 TGGCTGTGTGCCGATCA
21760063 CATTATTGTA
Statistics
Matches: 112, Mismatches: 28, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
31 2 0.02
32 110 0.98
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (32 bp):
TGGCTGTGTGCCGATCATAGTACTGTTACTGA
Found at i:21759966 original size:64 final size:63
Alignment explanation
Indices: 21759886--21760062 Score: 185
Period size: 64 Copynumber: 2.8 Consensus size: 63
21759876 ATACTAGTGC
* * * * *
21759886 TGGCTTTGTGCCGATCATAGTACTGTTACTGGTGGCTGTGTGCCGGTCAT-TTCACTGTTACTGA
1 TGGCTGTGTGCCGATCATA-TACTGTTACTGATGGCTTTGTGCCGATCATGTT-ACCGTTACTGA
* ** * * *
21759950 TGGCTGTGTGCCGATCATAACACTACTATTGATGGTTTTGTGCCTATCATGTTACCGTTACTGA
1 TGGCTGTGTGCCGATCAT-ATACTGTTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGA
* * *
21760014 TGGCTGTGTGCCGATCGTATCACTGTTACTAATGGCTTTGTGCCAATCA
1 TGGCTGTGTGCCGATCATAT-ACTGTTACTGATGGCTTTGTGCCGATCA
21760063 CATTATTGTA
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
63 1 0.01
64 87 0.96
65 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (63 bp):
TGGCTGTGTGCCGATCATATACTGTTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGA
Found at i:21762281 original size:21 final size:23
Alignment explanation
Indices: 21762251--21762292 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21762241 TTTTATTATT
*
21762251 AAAATAAAGAAA-AAATGTTAAA
1 AAAATAAAGAAACAAAAGTTAAA
21762273 AAAAT-AAGAAACAAAAGTTA
1 AAAATAAAGAAACAAAAGTTA
21762293 TCTTCCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (23 bp):
AAAATAAAGAAACAAAAGTTAAA
Found at i:21763082 original size:20 final size:20
Alignment explanation
Indices: 21763026--21763166 Score: 81
Period size: 20 Copynumber: 7.1 Consensus size: 20
21763016 AATTACTGAA
* * *
21763026 TGATTGCATTTACGTGTCCC
1 TGATTGCACTTAGGTGCCCC
* *
21763046 TGCTTGTACCTT-GGTGCCCC
1 TGATTGCA-CTTAGGTGCCCC
*
21763066 TGATTGCACTTATGTGCCCC
1 TGATTGCACTTAGGTGCCCC
** * * * *
21763086 TCTTTGTACTTCGGTACCCT
1 TGATTGCACTTAGGTGCCCC
*
21763106 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTAGGTGCCCC
** * * *
21763126 TCTTTGTACTTCA-GTACCTC
1 TGATTGCACTT-AGGTGCCCC
21763146 TGATTGCACTT-GGTGCCCC
1 TGATTGCACTTAGGTGCCCC
21763165 TG
1 TG
21763167 TTATGCATCT
Statistics
Matches: 85, Mismatches: 32, Indels: 9
0.67 0.25 0.07
Matches are distributed among these distances:
19 10 0.12
20 72 0.85
21 3 0.04
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (20 bp):
TGATTGCACTTAGGTGCCCC
Found at i:21763093 original size:40 final size:40
Alignment explanation
Indices: 21763026--21763165 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
21763016 AATTACTGAA
* * *
21763026 TGATTGCATTTACGTGTCCCTGC-TTGTACCTT-GGTGCCCC
1 TGATTGCACTTACGTGCCCCT-CTTTGTA-CTTCGGTACCCC
* *
21763066 TGATTGCACTTATGTGCCCCTCTTTGTACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTCTTTGTACTTCGGTACCCC
* *
21763106 TGATTGCACTTACGTGCCCCTCTTTGTACTTCAGTACCTC
1 TGATTGCACTTACGTGCCCCTCTTTGTACTTCGGTACCCC
*
21763146 TGATTGCACTT-GGTGCCCCT
1 TGATTGCACTTACGTGCCCCT
21763166 GTTATGCATC
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 12 0.14
40 76 0.86
ACGTcount: A:0.12, C:0.31, G:0.19, T:0.38
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTCTTTGTACTTCGGTACCCC
Found at i:21765130 original size:18 final size:20
Alignment explanation
Indices: 21765093--21765134 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
21765083 GTAGGACCTA
21765093 TATACTGTATAATCTGTTAC
1 TATACTGTATAATCTGTTAC
*
21765113 TATACTG-ATTAT-TGTTAC
1 TATACTGTATAATCTGTTAC
21765131 TATA
1 TATA
21765135 ATAGGCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 4 0.19
20 7 0.33
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (20 bp):
TATACTGTATAATCTGTTAC
Found at i:21766249 original size:91 final size:91
Alignment explanation
Indices: 21766094--21766272 Score: 358
Period size: 91 Copynumber: 2.0 Consensus size: 91
21766084 ACTAACATGT
21766094 GTTAACTCAATACCCACTCATGACATTACTTCATTCCAAATCATATACCAAATATACCATACACA
1 GTTAACTCAATACCCACTCATGACATTACTTCATTCCAAATCATATACCAAATATACCATACACA
21766159 CATACTATGAAACTTTATTTTCCTGA
66 CATACTATGAAACTTTATTTTCCTGA
21766185 GTTAACTCAATACCCACTCATGACATTACTTCATTCCAAATCATATACCAAATATACCATACACA
1 GTTAACTCAATACCCACTCATGACATTACTTCATTCCAAATCATATACCAAATATACCATACACA
21766250 CATACTATGAAACTTTATTTTCC
66 CATACTATGAAACTTTATTTTCC
21766273 GACACGAGCT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (91 bp):
GTTAACTCAATACCCACTCATGACATTACTTCATTCCAAATCATATACCAAATATACCATACACA
CATACTATGAAACTTTATTTTCCTGA
Found at i:21767388 original size:90 final size:88
Alignment explanation
Indices: 21767219--21767388 Score: 232
Period size: 90 Copynumber: 1.9 Consensus size: 88
21767209 CGTTACACTA
* ** * *
21767219 TGGATCAGCACATAACACCACCATTATAATCAATTATATTCGGTGGAATCAGCATATAGCAACCA
1 TGGATCAGCACATAACACCACCATTATAATCAATGATACCCGGTGGAATCAGCACATAACAACCA
**
21767284 CCTTTATTTTCAATGATTTCCGG
66 CCTTTATAATCAATGATTTCCGG
* * *
21767307 TGGAGTCAGCACATAGCTACCACCTTTATAATCAATGGTACCCGGTGGAATCAGCACATAACAAC
1 TGGA-TCAGCACATAAC-ACCACCATTATAATCAATGATACCCGGTGGAATCAGCACATAACAAC
21767372 CACCTTTATAATCAATG
64 CACCTTTATAATCAATG
21767389 GTACCCGGTA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
88 4 0.06
89 11 0.16
90 55 0.79
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.28
Consensus pattern (88 bp):
TGGATCAGCACATAACACCACCATTATAATCAATGATACCCGGTGGAATCAGCACATAACAACCA
CCTTTATAATCAATGATTTCCGG
Found at i:21767389 original size:45 final size:45
Alignment explanation
Indices: 21767222--21767397 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 45
21767212 TACACTATGG
* * **
21767222 ATCAGCACATAAC-ACCACCATTATAATCAATTATATTCGGTGGA
1 ATCAGCACATAACAACCACCTTTATAATCAATGATACCCGGTGGA
* * ** **
21767266 ATCAGCATATAGCAACCACCTTTATTTTCAATGATTTCCGGTGGA
1 ATCAGCACATAACAACCACCTTTATAATCAATGATACCCGGTGGA
* * * *
21767311 GTCAGCACATAGCTACCACCTTTATAATCAATGGTACCCGGTGGA
1 ATCAGCACATAACAACCACCTTTATAATCAATGATACCCGGTGGA
*
21767356 ATCAGCACATAACAACCACCTTTATAATCAATGGTACCCGGT
1 ATCAGCACATAACAACCACCTTTATAATCAATGATACCCGGT
21767398 ACACGTAGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 11 0.10
45 101 0.90
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (45 bp):
ATCAGCACATAACAACCACCTTTATAATCAATGATACCCGGTGGA
Found at i:21774624 original size:20 final size:21
Alignment explanation
Indices: 21774583--21774636 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
21774573 AAGTTTATGT
* *
21774583 TAAGTAAAT-GAAATGTACAG
1 TAAGTAAATGGAATTGTAAAG
21774603 TAAGTAAATGGAATTG-AAAG
1 TAAGTAAATGGAATTGTAAAG
*
21774623 TAAGCAAATGGAAT
1 TAAGTAAATGGAAT
21774637 GGTTCATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.50, C:0.04, G:0.22, T:0.24
Consensus pattern (21 bp):
TAAGTAAATGGAATTGTAAAG
Found at i:21784318 original size:24 final size:24
Alignment explanation
Indices: 21784273--21784324 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
21784263 TCGTGGGTAA
* *
21784273 GAAGAAGAGGAGCAAGAAAGTGAT
1 GAAGAAGAAGAGCAAGAAAGTGAG
*
21784297 GAAGAAGAAGAG-AATGAGAGTGAG
1 GAAGAAGAAGAGCAA-GAAAGTGAG
21784321 GAAG
1 GAAG
21784325 GGGAGGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.50, C:0.02, G:0.40, T:0.08
Consensus pattern (24 bp):
GAAGAAGAAGAGCAAGAAAGTGAG
Found at i:21789510 original size:33 final size:33
Alignment explanation
Indices: 21789473--21789538 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
21789463 GAATAGATTT
*
21789473 CTCCCCCT-TAATAAAAGTCATTTTCAATTTAAG
1 CTCCCCCTAT-ATAAAAATCATTTTCAATTTAAG
21789506 CTCCCCCTATATAAAAATCATTTTCAATTTAAG
1 CTCCCCCTATATAAAAATCATTTTCAATTTAAG
21789539 GCATAAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (33 bp):
CTCCCCCTATATAAAAATCATTTTCAATTTAAG
Found at i:21795743 original size:18 final size:18
Alignment explanation
Indices: 21795720--21795757 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21795710 GGGCTCCGCC
21795720 CCGCACCCCTGGTCCATA
1 CCGCACCCCTGGTCCATA
* *
21795738 CCGCACCTCTGGTCTATA
1 CCGCACCCCTGGTCCATA
21795756 CC
1 CC
21795758 CCTGTCCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.47, G:0.16, T:0.21
Consensus pattern (18 bp):
CCGCACCCCTGGTCCATA
Found at i:21805842 original size:16 final size:16
Alignment explanation
Indices: 21805821--21805852 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21805811 ATTTTGTTGC
*
21805821 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
21805837 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
21805853 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:21806138 original size:51 final size:50
Alignment explanation
Indices: 21806080--21806267 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 50
21806070 CCGGTTCACA
**
21806080 TAGTAGCCTGCACATAGTACTACACATATGACCATCACTATCTAATACACG
1 TAGTAGCCTGCACATAGTACTACACATATGACCATCACT-TCTGGTACACG
* * * * ** *
21806131 TAGTAGCCTGCACATAGTACTACACACATGATCA-AAGCTGTCCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACATATGACCATCA-CT-TCTGGTACACG
* **
21806182 TAGTAGCCTCCACATAGTACTACACATGCGACCTATCA-TTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATATGACC-ATCACTTCTGGTACACG
* *
21806232 TAGTAGCCTGCATATAGTACTACACATATGGCCATC
1 TAGTAGCCTGCACATAGTACTACACATATGACCATC
21806268 GCTTTCACTT
Statistics
Matches: 109, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
49 3 0.03
50 36 0.33
51 68 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATATGACCATCACTTCTGGTACACG
Found at i:21806285 original size:101 final size:102
Alignment explanation
Indices: 21806074--21806297 Score: 249
Period size: 101 Copynumber: 2.2 Consensus size: 102
21806064 ATGATACCGG
* *
21806074 TTCACATAGTAGCCTGCACATAGTACTACACATATGACCATCACTATCTAATACACGTAGTAGCC
1 TTCACATAGTAGCCTACACATAGTACTACACATACGACCATCACTATCTAATACACGTAGTAGCC
*
21806139 TGCACATAGTACTACACACATGATCAAAGCTGTCCGGT
66 TGCACATAGTACTACACACATGACCAAAGCTGTCC-GT
* * * * **
21806177 AT-GCATAGTAGCCTCCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGC
1 TTCACATAGTAGCCTACACATAGTACTACACATACGACC-ATCACTATCTAATACACGTAGTAGC
* * * ** *
21806239 CTGCATATAGTACTACACATATGGCCATCGCTTTCAC-T
65 CTGCACATAGTACTACACACATGACCAAAGCTGTC-CGT
*
21806277 TTCACATAGTGGCCTACACAT
1 TTCACATAGTAGCCTACACAT
21806298 TCACTTTCAC
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
100 2 0.02
101 59 0.59
102 34 0.34
103 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (102 bp):
TTCACATAGTAGCCTACACATAGTACTACACATACGACCATCACTATCTAATACACGTAGTAGCC
TGCACATAGTACTACACACATGACCAAAGCTGTCCGT
Found at i:21806300 original size:26 final size:26
Alignment explanation
Indices: 21806271--21806322 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21806261 GGCCATCGCT
*
21806271 TTCACTTTCACATAGTGGCCTACACA
1 TTCACTTTCACATAGTAGCCTACACA
21806297 TTCACTTTCACATAGTAGCCTACACA
1 TTCACTTTCACATAGTAGCCTACACA
21806323 CAGTCCACGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (26 bp):
TTCACTTTCACATAGTAGCCTACACA
Found at i:21814643 original size:14 final size:15
Alignment explanation
Indices: 21814614--21814646 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21814604 TACAACAATT
*
21814614 AATATTTTTAGTGAC
1 AATATTGTTAGTGAC
21814629 AATATTGTT-GTGAC
1 AATATTGTTAGTGAC
21814643 AATA
1 AATA
21814647 AAAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (15 bp):
AATATTGTTAGTGAC
Found at i:21815900 original size:16 final size:16
Alignment explanation
Indices: 21815881--21815912 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21815871 ATTATTATAA
21815881 AAATAAATTTAACATT
1 AAATAAATTTAACATT
21815897 AAATAAATTTAACATT
1 AAATAAATTTAACATT
21815913 TGTGAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAAATTTAACATT
Found at i:21816565 original size:115 final size:116
Alignment explanation
Indices: 21816382--21816643 Score: 341
Period size: 115 Copynumber: 2.3 Consensus size: 116
21816372 ATATATTTTT
* * *
21816382 ATTTTTATTTTTGGGATTTTAATAGAATTTTATACCTCAATAATTTATTATCACATGGAAATGTT
1 ATTTTTATTTTTGGGAGTTTAATAGAATTTTATACCTCAATAATCTATTATCACATGAAAATGTT
*
21816447 GCCTTATCTTTCTAAATAA-ATCA-ATTTAAAAAATTCTAGTAAATATTCCA
66 GCCTTATCTTTC-AAAAAAGATCATATTTAAAAAATTCTAGTAAATATTCCA
* * * * * *
21816497 ATTTTTATTTTTGGAAGTTTATTAGAATTTTA-AGCCTTAATGATCTATTATTACTTGAAAATGT
1 ATTTTTATTTTTGGGAGTTTAATAGAATTTTATA-CCTCAATAATCTATTATCACATGAAAATGT
* * *
21816561 TGCCTTATTTTTCAAAAAAGATTATATTTAAAAAATTCTAGTAAATTTTCCA
65 TGCCTTATCTTTCAAAAAAGATCATATTTAAAAAATTCTAGTAAATATTCCA
* * *
21816613 ATTTTTGTTGTTGGGAGTTTAATAGATTTTT
1 ATTTTTATTTTTGGGAGTTTAATAGAATTTT
21816644 TTATTTTGCT
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
114 6 0.05
115 68 0.54
116 52 0.41
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (116 bp):
ATTTTTATTTTTGGGAGTTTAATAGAATTTTATACCTCAATAATCTATTATCACATGAAAATGTT
GCCTTATCTTTCAAAAAAGATCATATTTAAAAAATTCTAGTAAATATTCCA
Found at i:21817000 original size:24 final size:25
Alignment explanation
Indices: 21816966--21817028 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
21816956 TTTTTATAAG
* *
21816966 ATTTAGTATTTATTAATATAATAT-
1 ATTTAGCATTTATTAACATAATATA
*
21816990 ATTTAGCATTTATTAGCATAATATA
1 ATTTAGCATTTATTAACATAATATA
*
21817015 ATTTA-CATTGATTA
1 ATTTAGCATTTATTA
21817029 GAATTAGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (25 bp):
ATTTAGCATTTATTAACATAATATA
Found at i:21834318 original size:25 final size:24
Alignment explanation
Indices: 21834278--21834364 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
21834268 CATGTTCATA
* *
21834278 TATGCTCATACGAGCTGTGAATCGG
1 TATGCTCACACAAGCTGT-AATCGG
* *
21834303 TATGCTCACTCAAGCTGTAGATCAG
1 TATGCTCACACAAGCTGTA-ATCGG
* * *
21834328 TATGCTCTCACAAGTTATAAATCGG
1 TATGCTCACACAAGCTGT-AATCGG
*
21834353 TATGCTCTCACA
1 TATGCTCACACA
21834365 TGCTATGGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
TATGCTCACACAAGCTGTAATCGG
Found at i:21836471 original size:45 final size:47
Alignment explanation
Indices: 21836418--21836519 Score: 136
Period size: 49 Copynumber: 2.2 Consensus size: 47
21836408 TCCATATAGA
* * *
21836418 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTCAACCTT
1 ACTACACTTCATATATTTATATTATTAGAATAAGGTATTTCAACCTT
*
21836463 ATTACACTTCATATATTTGATATTGATTAGAATAAGGTATTTCAACCTT
1 ACTACACTTCATATATTT-ATATT-ATTAGAATAAGGTATTTCAACCTT
21836512 ACTACACT
1 ACTACACT
21836520 CATTCTACTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 15 0.31
47 4 0.08
49 29 0.60
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (47 bp):
ACTACACTTCATATATTTATATTATTAGAATAAGGTATTTCAACCTT
Found at i:21846681 original size:27 final size:27
Alignment explanation
Indices: 21846643--21846826 Score: 203
Period size: 27 Copynumber: 6.8 Consensus size: 27
21846633 AACATGATCG
21846643 AAATACCCTCGATGGGTAAAATTACCA
1 AAATACCCTCGATGGGTAAAATTACCA
* *
21846670 AAATACCTTCGATGGGGAAAATTACCA
1 AAATACCCTCGATGGGTAAAATTACCA
* * *
21846697 AAATACTCTCGATGGGAAAAATTACCG
1 AAATACCCTCGATGGGTAAAATTACCA
21846724 AAATACCCTCGATAGGG-AAAATT-CCTA
1 AAATACCCTCGAT-GGGTAAAATTACC-A
* *
21846751 AAATACCCTCGATGGATAAAATTACCG
1 AAATACCCTCGATGGGTAAAATTACCA
** * * *
21846778 AAATACCCTTAATAGGTGAAATTACCG
1 AAATACCCTCGATGGGTAAAATTACCA
*
21846805 AAATACCC-CTATAGGGTAAAAT
1 AAATACCCTCGAT-GGGTAAAAT
21846827 GGCTGTTATA
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.05
27 122 0.92
28 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATTACCA
Found at i:21846776 original size:81 final size:82
Alignment explanation
Indices: 21846641--21846826 Score: 236
Period size: 81 Copynumber: 2.3 Consensus size: 82
21846631 TGAACATGAT
* * *
21846641 CGAAATACCCTCGAT-GGGTAAAATTACCAAAATACCTTCGATGGGGAAAATTACCAAAATACTC
1 CGAAATACCCTCGATAGGGTAAAATTACCAAAATACCCTCGATGGAGAAAATTACCAAAATACCC
* *
21846705 TCGATGGGAAAAATTAC
66 TCAATAGGAAAAATTAC
* *
21846722 CGAAATACCCTCGATAGGG-AAAATT-CCTAAAATACCCTCGATGGATAAAATTACCGAAATACC
1 CGAAATACCCTCGATAGGGTAAAATTACC-AAAATACCCTCGATGGAGAAAATTACCAAAATACC
* **
21846785 CTTAATAGGTGAAATTAC
65 CTCAATAGGAAAAATTAC
*
21846803 CGAAATACCC-CTATAGGGTAAAAT
1 CGAAATACCCTCGATAGGGTAAAAT
21846827 GGCTGTTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 9 0.10
81 79 0.87
82 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (82 bp):
CGAAATACCCTCGATAGGGTAAAATTACCAAAATACCCTCGATGGAGAAAATTACCAAAATACCC
TCAATAGGAAAAATTAC
Found at i:21848595 original size:13 final size:13
Alignment explanation
Indices: 21848577--21848601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21848567 TTTTATTTGT
21848577 TTATTCCCACCGA
1 TTATTCCCACCGA
21848590 TTATTCCCACCG
1 TTATTCCCACCG
21848602 GCCGAATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:21850634 original size:32 final size:32
Alignment explanation
Indices: 21850591--21850672 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
21850581 ACGAGACTTG
*
21850591 TACAACGCATTAATTAAATGTGTATATTCATA
1 TACAACTCATTAATTAAATGTGTATATTCATA
21850623 TACAACTCATTAATTAAATGTGTATATTCATA
1 TACAACTCATTAATTAAATGTGTATATTCATA
*
21850655 TACTACTCATTAATTAAA
1 TACAACTCATTAATTAAA
21850673 AATTATTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.39
Consensus pattern (32 bp):
TACAACTCATTAATTAAATGTGTATATTCATA
Found at i:21850854 original size:64 final size:64
Alignment explanation
Indices: 21850779--21851056 Score: 447
Period size: 64 Copynumber: 4.4 Consensus size: 64
21850769 TGAGTAAATA
* * * * *
21850779 AAAATTAGATCATAACATATAATCAAGTAAACAAGTTGATTAAAAAACATATGGATAGTATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
* *
21850843 AAAATTGGATCATTACATATAATCAAGTAAACAAATTGATTAAAAAACATATGGATAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
* *
21850907 AAAATTGAATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATACGGATAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
21850971 --AATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
21851033 --AATTGGATCATTAGATATAATCAA
1 AAAATTGGATCATTAGATATAATCAA
21851057 CTTGATTCTA
Statistics
Matches: 204, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
62 84 0.41
64 120 0.59
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (64 bp):
AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATT
Found at i:21850893 original size:32 final size:32
Alignment explanation
Indices: 21850792--21850894 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
21850782 ATTAGATCAT
*
21850792 AACATATAATCAAGTAAACAAGTTGATTAAAA
1 AACATATAATCAAGTAAACAAATTGATTAAAA
* * *
21850824 AACATATGGAT--AGTATATTA-AAATTGGA-T-CAT
1 AACATAT-AATCAAGTA-A--ACAAATT-GATTAAAA
*
21850856 TACATATAATCAAGTAAACAAATTGATTAAAA
1 AACATATAATCAAGTAAACAAATTGATTAAAA
21850888 AACATAT
1 AACATAT
21850895 GGATAATATA
Statistics
Matches: 52, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
30 3 0.06
31 12 0.23
32 23 0.44
33 11 0.21
34 3 0.06
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (32 bp):
AACATATAATCAAGTAAACAAATTGATTAAAA
Found at i:21851030 original size:126 final size:125
Alignment explanation
Indices: 21850795--21851056 Score: 436
Period size: 126 Copynumber: 2.1 Consensus size: 125
21850785 AGATCATAAC
* * *
21850795 ATATAATCAAGTAAACAAGTTGATTAAAAAACATATGGATAGTATATTAAAATTGGATCATTACA
1 ATATAATCAAGTAAACAACTTGATTAAAAAACATACGGATAATATATT-AAATTGGATCATTACA
21850860 TATAATCAAGTAAACAAATTGATTAAAAAACATATGGATAATATATTAAAATTGAATCATTAG
65 TATAATCAAGTAAACAAATTGATTAAAAAACATATGGATAATATATT--AATTGAATCATTAG
*
21850923 ATATAATCAAGTAAACAACTTGATTAAAAAACATACGGATAATATATT-AATTGGATCATTAGAT
1 ATATAATCAAGTAAACAACTTGATTAAAAAACATACGGATAATATATTAAATTGGATCATTACAT
* *
21850987 ATAATCAAGTAAACAACTTGATTAAAAAACATATGGATAATATATTAATTGGATCATTAG
66 ATAATCAAGTAAACAAATTGATTAAAAAACATATGGATAATATATTAATTGAATCATTAG
21851047 ATATAATCAA
1 ATATAATCAA
21851057 CTTGATTCTA
Statistics
Matches: 128, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
124 23 0.18
126 60 0.47
128 45 0.35
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (125 bp):
ATATAATCAAGTAAACAACTTGATTAAAAAACATACGGATAATATATTAAATTGGATCATTACAT
ATAATCAAGTAAACAAATTGATTAAAAAACATATGGATAATATATTAATTGAATCATTAG
Found at i:21852802 original size:44 final size:42
Alignment explanation
Indices: 21852754--21852862 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 42
21852744 AGTATTATAT
21852754 ATTATTATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTATTATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
21852798 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 ATTAT-TATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
21852842 ATTA-TATTTTAGT--ATTATATA
1 ATTATTATTTTAGTAAATTATATA
21852863 TTATGATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
39 7 0.12
41 4 0.07
42 4 0.07
44 22 0.39
45 10 0.18
46 9 0.16
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (42 bp):
ATTATTATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:21852841 original size:26 final size:28
Alignment explanation
Indices: 21852700--21852850 Score: 92
Period size: 25 Copynumber: 5.6 Consensus size: 28
21852690 AATAAAGTAG
21852700 ATTA-TAAATTATATTTAATAATA-ATT
1 ATTATTAAATTATATTTAATAATATATT
21852726 A-T-TTAAATTATATTT--T-ATAGTATT
1 ATTATTAAATTATATTTAATAATA-TATT
* *
21852750 ATATATT--ATTAT-TTTAGTAAATTCATATA
1 AT-TATTAAATTATATTTAAT-AA-T-ATATT
** * * * *
21852779 AGAATAAGAATTTTATTAAATTATATATT
1 ATTATTA-AATTATATTTAATAATATATT
21852808 ATTATTAAATTATATTTAATAATA-ATT
1 ATTATTAAATTATATTTAATAATATATT
21852835 ATT-TTAAATTATATTT
1 ATTATTAAATTATATTT
21852851 TAGTATTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
22 3 0.03
23 1 0.01
24 7 0.07
25 18 0.19
26 16 0.17
27 8 0.09
28 17 0.18
29 13 0.14
30 2 0.02
31 5 0.05
32 4 0.04
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (28 bp):
ATTATTAAATTATATTTAATAATATATT
Found at i:21852920 original size:108 final size:106
Alignment explanation
Indices: 21852700--21852959 Score: 303
Period size: 117 Copynumber: 2.3 Consensus size: 106
21852690 AATAAAGTAG
21852700 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATTATTT
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATTATTT
21852764 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
66 TAGTAAATTCATATAAGAAT---AATTTTATTAAATTATATATT
*
21852808 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTAT--TA
21852871 TTATTAGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT
63 TT-TTAGTAAATTCATATAAG---A---A-T---AATTTTATTAAATTATATATT
* *
21852926 -TTATTAAATTATATTTTATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTAT-TTAAA
21852960 ATATGATTAA
Statistics
Matches: 135, Mismatches: 4, Indels: 17
0.87 0.03 0.11
Matches are distributed among these distances:
108 20 0.15
109 26 0.19
110 14 0.10
111 18 0.13
114 1 0.01
116 1 0.01
117 31 0.23
118 24 0.18
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (106 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATTATTT
TAGTAAATTCATATAAGAATAATTTTATTAAATTATATATT
Found at i:21852920 original size:111 final size:106
Alignment explanation
Indices: 21852700--21852903 Score: 292
Period size: 109 Copynumber: 1.9 Consensus size: 106
21852690 AATAAAGTAG
21852700 ATTA-TAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATTATTT
1 ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATTATTT
*
21852764 TAGTAAATTCATATAAGAATAAGAATTTTATTAAATTATATATT
66 TAGTAAATTCATATAAGAAT---AATTTTATTAAATTATAAATT
*
21852808 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTAT--TA
21852871 TTATTAGTAAATTCATATAAGAAT-A-TTTATTAA
63 TT-TTAGTAAATTCATATAAGAATAATTTTATTAA
21852904 CAATTTTATT
Statistics
Matches: 90, Mismatches: 1, Indels: 12
0.87 0.01 0.12
Matches are distributed among these distances:
106 8 0.09
107 1 0.01
108 20 0.22
109 26 0.29
110 14 0.16
111 21 0.23
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (106 bp):
ATTATTAAATTATATTTAATAATAATTATTTAAATTATATTTTATAGTATTATATATTATTATTT
TAGTAAATTCATATAAGAATAATTTTATTAAATTATAAATT
Found at i:21852944 original size:15 final size:17
Alignment explanation
Indices: 21852906--21852939 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21852896 TTTATTAACA
21852906 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
21852923 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
21852940 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:21852953 original size:16 final size:15
Alignment explanation
Indices: 21852906--21852953 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
21852896 TTTATTAACA
*
21852906 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
21852923 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
21852938 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
21852954 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:21853136 original size:39 final size:39
Alignment explanation
Indices: 21853077--21853185 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 39
21853067 TTTTTTTCTT
* * *
21853077 ATACTATTACACCTCTATTCCATTCAACCAAACACAAGA
1 ATACCATTACGCCTCTATTCCATTCAACCAAACAAAAGA
21853116 ATACCATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGA
1 ATACCATTACGCCTCTATT-C----CATTCAACCAAACAAAAGA
21853160 ATTACCTATTACGCCTCTATTCCATT
1 A-TACC-ATTACGCCTCTATTCCATT
21853186 ACGCCTCTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
39 17 0.28
40 1 0.02
41 4 0.07
44 19 0.32
45 5 0.08
46 14 0.23
ACGTcount: A:0.37, C:0.30, G:0.04, T:0.29
Consensus pattern (39 bp):
ATACCATTACGCCTCTATTCCATTCAACCAAACAAAAGA
Found at i:21853160 original size:44 final size:46
Alignment explanation
Indices: 21853097--21853187 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
21853087 ACCTCTATTC
*
21853097 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
21853141 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
21853187 C
1 C
21853188 GCCTCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:21853188 original size:16 final size:16
Alignment explanation
Indices: 21853167--21853203 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
21853157 AGAATTACCT
21853167 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
21853183 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
21853199 ATTAC
1 ATTAC
21853204 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:21855092 original size:32 final size:32
Alignment explanation
Indices: 21855048--21855222 Score: 119
Period size: 32 Copynumber: 5.5 Consensus size: 32
21855038 AATGTGATTG
21855048 GCACAAAGCCATCAGTACTAGTGATATGATCA
1 GCACAAAGCCATCAGTACTAGTGATATGATCA
* * * *
21855080 GCACACAA-CCATCAGTAAC-GGTAACATGATCG
1 GCACA-AAGCCATCAGT-ACTAGTGATATGATCA
* * *
21855112 GTACAAAGCCATTAGTAGC-AGTGATATGAT-T
1 GCACAAAGCCATCAGTA-CTAGTGATATGATCA
* * *
21855143 GCTACACAA-CCATCAGTAATAGTGAAATGATCG
1 GC-ACA-AAGCCATCAGTACTAGTGATATGATCA
* * * * *
21855176 GTACACAA-CCATCGGTAATGGTAATATGATCA
1 GCACA-AAGCCATCAGTACTAGTGATATGATCA
21855208 GCACAAAGCCATCAG
1 GCACAAAGCCATCAG
21855223 CAGCATCGCA
Statistics
Matches: 111, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
31 6 0.05
32 98 0.88
33 7 0.06
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (32 bp):
GCACAAAGCCATCAGTACTAGTGATATGATCA
Found at i:21855135 original size:64 final size:64
Alignment explanation
Indices: 21855050--21855222 Score: 178
Period size: 64 Copynumber: 2.7 Consensus size: 64
21855040 TGTGATTGGC
*
21855050 ACAAAGCCATCAGTACTAGTGATATGATCAGC-ACACAACCATCAGTAACGGT-AACATGATCGG
1 ACAAAGCCATCAGTACTAGTGATATGAT-AGCTACACAACCATCAGTAACAGTGAA-ATGATCGG
21855113 T
64 T
* * *
21855114 ACAAAGCCATTAGTAGC-AGTGATATGATTGCTACACAACCATCAGTAATAGTGAAATGATCGGT
1 ACAAAGCCATCAGTA-CTAGTGATATGATAGCTACACAACCATCAGTAACAGTGAAATGATCGGT
* * * *
21855178 ACACAA-CCATCGGTAATGGTAATATGATCAGC-ACA-AAGCCATCAG
1 ACA-AAGCCATCAGTACTAGTGATATGAT-AGCTACACAA-CCATCAG
21855223 CAGCATCGCA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
63 4 0.04
64 81 0.88
65 7 0.08
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (64 bp):
ACAAAGCCATCAGTACTAGTGATATGATAGCTACACAACCATCAGTAACAGTGAAATGATCGGT
Found at i:21855305 original size:26 final size:26
Alignment explanation
Indices: 21855227--21855306 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
21855217 CATCAGCAGC
*
21855227 ATCGCAGCAAAGTTGCCAGAAACAAT
1 ATCGCAGCAAAGTTGCCAGAAACAGT
* * * *
21855253 ATCGTAGTAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGAAACAGT
* * *
21855279 ATCGCAGCAAAGTTTCCAGTAATAGT
1 ATCGCAGCAAAGTTGCCAGAAACAGT
21855305 AT
1 AT
21855307 ATGTGGCCAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (26 bp):
ATCGCAGCAAAGTTGCCAGAAACAGT
Found at i:21855465 original size:24 final size:25
Alignment explanation
Indices: 21855433--21855479 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21855423 ATCAGTCGTT
21855433 CAAATCACAGAAAAATCAGTCATAC
1 CAAATCACAGAAAAATCAGTCATAC
**
21855458 CAAA-CACAGACGAATCAGTCAT
1 CAAATCACAGAAAAATCAGTCAT
21855480 TTAACCATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.15
Consensus pattern (25 bp):
CAAATCACAGAAAAATCAGTCATAC
Found at i:21855587 original size:27 final size:27
Alignment explanation
Indices: 21855544--21855767 Score: 281
Period size: 27 Copynumber: 8.4 Consensus size: 27
21855534 CCACCAGGGC
*
21855544 ATTATGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21855571 GTTACGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21855598 ATTACGGTCTTTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21855625 ATTACAGTCATTCTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
21855652 ATTACAGTCATTTTACCTTAAAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
21855679 ATTACGGT-ATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
21855705 ATTACGGTTATTTTACCCTATA-GGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * * *
21855731 ATTATGGTCAGTTTATCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
21855758 ATTACGGTCA
1 ATTACGGTCA
21855768 AGATATCGAC
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 45 0.26
27 126 0.74
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:21859989 original size:10 final size:10
Alignment explanation
Indices: 21859967--21860013 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
21859957 CTGCCTATCG
*
21859967 AAAA-TAATC
1 AAAATTAATT
21859976 AAAATTAATT
1 AAAATTAATT
21859986 AAAATTAATTAT
1 AAAATTAA-T-T
21859998 AAAATTAATT
1 AAAATTAATT
21860008 AAAATT
1 AAAATT
21860014 CAACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 19 0.56
11 2 0.06
12 9 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:21860002 original size:12 final size:12
Alignment explanation
Indices: 21859976--21860008 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21859966 GAAAATAATC
21859976 AAAATTAA-T-T
1 AAAATTAATTAT
21859986 AAAATTAATTAT
1 AAAATTAATTAT
21859998 AAAATTAATTA
1 AAAATTAATTA
21860009 AAATTCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.38
11 1 0.05
12 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTAATTAT
Found at i:21862624 original size:15 final size:16
Alignment explanation
Indices: 21862595--21862626 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21862585 ATTTCCTATT
21862595 AATTTATTAAAATAAA
1 AATTTATTAAAATAAA
21862611 AATTTATT-AAATAAA
1 AATTTATTAAAATAAA
21862626 A
1 A
21862627 TATGATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTTATTAAAATAAA
Found at i:21869602 original size:25 final size:25
Alignment explanation
Indices: 21869556--21869605 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21869546 AAGGGAATGA
* * *
21869556 AGAATAATGGAAGGGAAATGAAGAG
1 AGAAAAATGAAAGAGAAATGAAGAG
*
21869581 AGAAAAATGAAAGAGAAGTGAAGAG
1 AGAAAAATGAAAGAGAAATGAAGAG
21869606 TTGAGATGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.34, T:0.10
Consensus pattern (25 bp):
AGAAAAATGAAAGAGAAATGAAGAG
Found at i:21879924 original size:24 final size:24
Alignment explanation
Indices: 21879897--21879949 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
21879887 TAATCAATGT
* *
21879897 TAAATATATTATGTTAATAAATTC
1 TAAATATATTATATTAATAAATAC
21879921 TAAATATATTATATTAATAAATAC
1 TAAATATATTATATTAATAAATAC
21879945 TAAAT
1 TAAAT
21879950 TTTCTAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
TAAATATATTATATTAATAAATAC
Found at i:21881285 original size:19 final size:17
Alignment explanation
Indices: 21881238--21881285 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
21881228 AGAGAAAAAC
*
21881238 AAAATAAAAAAGGGAAG
1 AAAATAAAAAAAGGAAG
*
21881255 AAAATAATAAAAGGAATGG
1 AAAATAAAAAAAGGAA--G
21881274 AAAATAAAAAAA
1 AAAATAAAAAAA
21881286 CTTTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 14 0.54
19 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (17 bp):
AAAATAAAAAAAGGAAG
Found at i:21881535 original size:6 final size:6
Alignment explanation
Indices: 21881524--21881560 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
21881514 TTACACTCCC
21881524 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
21881561 TTTATTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:21882742 original size:16 final size:17
Alignment explanation
Indices: 21882723--21882763 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
21882713 CATTATAAAA
*
21882723 ACAAAAATT-TATAGTG
1 ACAAAAATTGTATAGTC
*
21882739 ACAAAAATTGTATCGTC
1 ACAAAAATTGTATAGTC
21882756 ACAAAAAT
1 ACAAAAAT
21882764 GGTTAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (17 bp):
ACAAAAATTGTATAGTC
Found at i:21886214 original size:134 final size:134
Alignment explanation
Indices: 21885969--21886271 Score: 376
Period size: 134 Copynumber: 2.2 Consensus size: 134
21885959 GTTATGATCG
* *
21885969 AAATAACCCCATAGGGTAAAATGAACAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCA
1 AAAT-ACCCCATAGGGTAAAATGAACAAAATACCCCCATAAGGTAAAATAACCGAAATACCCCCA
* * *
21886034 TAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAAGGTAAAAT
65 TAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAAT
21886099 AACCA
130 AACCA
* *** *
21886104 AAATACCCCATAGGGTAAAAT-AACCGAAATACCGTTATAAGGTAAAATAACCGAAATGCCCCCA
1 AAATACCCCATAGGGTAAAATGAA-CAAAATACCCCCATAAGGTAAAATAACCGAAATACCCCCA
* ** **
21886168 TAGGGTAAATTGACCAAAATACCCTGATAGGGTAAAATGACCGAAATACCCCTATGGGGTAAAAT
65 TAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAAT
* * *
21886233 GATCG
130 AACCA
* *
21886238 AAATACCCCCGA-AAGGTAAAATGACCAAAATACC
1 AAATA-CCCC-ATAGGGTAAAATGAACAAAATACC
21886272 TCTATAGGGT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
133 2 0.01
134 114 0.80
135 25 0.17
136 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (134 bp):
AAATACCCCATAGGGTAAAATGAACAAAATACCCCCATAAGGTAAAATAACCGAAATACCCCCAT
AGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATA
ACCA
Found at i:21886289 original size:27 final size:27
Alignment explanation
Indices: 21885962--21886289 Score: 372
Period size: 27 Copynumber: 12.2 Consensus size: 27
21885952 TTACACTGTT
* *
21885962 ATGATCGAAATAACCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
21885989 ATGAACAAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
21886016 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
21886043 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
21886070 ATGATCGAAATACCCCTATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
21886097 ATAACCAAAATA-CCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *** *
21886123 ATAACCGAAATACCGTTATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
21886150 ATAACCGAAATGCCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * **
21886177 TTGACCAAAATACCCTGATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
21886204 ATGACCGAAATACCCCTATGGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
21886231 ATGATCGAAATACCCCCGA-AAGGTAAA
1 ATGACCGAAATACCCCC-ATAGGGTAAA
* * *
21886258 ATGACCAAAATACCTCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
21886285 TTGAC
1 ATGAC
21886290 TGTTATACCC
Statistics
Matches: 254, Mismatches: 44, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 24 0.09
27 229 0.90
28 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:21886532 original size:26 final size:26
Alignment explanation
Indices: 21886452--21886524 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
21886442 TGGAGGAAGT
*
21886452 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTAGCAACTTTGCTGCG
*
21886478 ATACTGTTACTAGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAACTTTGCTGCG
*
21886504 ATACTATTACTAGCAACTTTG
1 ATACTGTTACTAGCAACTTTG
21886525 ATGTGATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTAGCAACTTTGCTGCG
Found at i:21886814 original size:34 final size:28
Alignment explanation
Indices: 21886639--21886863 Score: 326
Period size: 28 Copynumber: 8.1 Consensus size: 28
21886629 CATTGTACTA
*
21886639 GTTACTATATTGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
21886667 GTTATTGTATTGGGCTGAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* * *
21886695 ATTATTGTATTGGGCTAAGGCCCTCACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
21886723 GTTATTGTATTGGGCTAAGACCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
21886751 GTTACTGTATTGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
*
21886779 GTTACTGTATTGGGCTAAGGCCCATACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
21886807 ATTACTGTATTGGGCTAATGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
* *
21886835 ATTACTGTATCGGGCTAAGG-CCACACT
1 GTTACTGTATTGGGCTAAGGCCCACACT
21886862 GT
1 GT
21886864 ACCGTTACTA
Statistics
Matches: 179, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 8 0.04
28 171 0.96
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (28 bp):
GTTACTGTATTGGGCTAAGGCCCACACT
Found at i:21889245 original size:15 final size:14
Alignment explanation
Indices: 21889234--21889267 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
21889224 CCAATTTATT
21889234 AATAAAATATTTAA
1 AATAAAATATTTAA
21889248 AATAAAATA-TTAA
1 AATAAAATATTTAA
21889261 ATATAAA
1 A-ATAAA
21889268 TTTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAAAATATTTAA
Found at i:21906621 original size:168 final size:168
Alignment explanation
Indices: 21906343--21906680 Score: 676
Period size: 168 Copynumber: 2.0 Consensus size: 168
21906333 CACCTGAAAT
21906343 AATCACAGAAAGATCAAGTAAGTAAATATTTAAATAGGAAAATAAATAAACCAAAATATAAAAAT
1 AATCACAGAAAGATCAAGTAAGTAAATATTTAAATAGGAAAATAAATAAACCAAAATATAAAAAT
21906408 AGATTCACAAATAATGGCTTTTTTTTAAAACAGTCCCTGGCAACGGCGCCAAAAACTTGGAACGA
66 AGATTCACAAATAATGGCTTTTTTTTAAAACAGTCCCTGGCAACGGCGCCAAAAACTTGGAACGA
21906473 CGAAAATGTGCAAGTGTACACAATCACAACAAGTAATA
131 CGAAAATGTGCAAGTGTACACAATCACAACAAGTAATA
21906511 AATCACAGAAAGATCAAGTAAGTAAATATTTAAATAGGAAAATAAATAAACCAAAATATAAAAAT
1 AATCACAGAAAGATCAAGTAAGTAAATATTTAAATAGGAAAATAAATAAACCAAAATATAAAAAT
21906576 AGATTCACAAATAATGGCTTTTTTTTAAAACAGTCCCTGGCAACGGCGCCAAAAACTTGGAACGA
66 AGATTCACAAATAATGGCTTTTTTTTAAAACAGTCCCTGGCAACGGCGCCAAAAACTTGGAACGA
21906641 CGAAAATGTGCAAGTGTACACAATCACAACAAGTAATA
131 CGAAAATGTGCAAGTGTACACAATCACAACAAGTAATA
21906679 AA
1 AA
21906681 GTGACAAGTA
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 170 1.00
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (168 bp):
AATCACAGAAAGATCAAGTAAGTAAATATTTAAATAGGAAAATAAATAAACCAAAATATAAAAAT
AGATTCACAAATAATGGCTTTTTTTTAAAACAGTCCCTGGCAACGGCGCCAAAAACTTGGAACGA
CGAAAATGTGCAAGTGTACACAATCACAACAAGTAATA
Found at i:21913968 original size:27 final size:26
Alignment explanation
Indices: 21913928--21914012 Score: 107
Period size: 26 Copynumber: 3.2 Consensus size: 26
21913918 TAACAGTCAG
*
21913928 TTTACCCTATGGGGGTATTTCGGTAAT
1 TTTACCC-ATCGGGGTATTTCGGTAAT
***
21913955 TTTACCCATCGGGGTATTTTAATAAT
1 TTTACCCATCGGGGTATTTCGGTAAT
*
21913981 TTTACCCATCAGGGGTATTTCGGTAAC
1 TTTACCCATC-GGGGTATTTCGGTAAT
21914008 TTTAC
1 TTTAC
21914013 AACCTTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 25 0.51
27 24 0.49
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
TTTACCCATCGGGGTATTTCGGTAAT
Found at i:21920445 original size:27 final size:27
Alignment explanation
Indices: 21920401--21920601 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
21920391 TTGGGATTTG
* * * *
21920401 GGGTAAAATAACCCAAATAACCCTATA
1 GGGTAAAATGACCGAAATACCCCCATA
*
21920428 GGGTAAAATGACCGAAATACCCTCATA
1 GGGTAAAATGACCGAAATACCCCCATA
*** * * *
21920455 TCATAAAATAACTGAAATACTCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
* *
21920482 GGGTAAAATAATCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
***
21920509 GGGTAAAATGATTTAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
* **
21920536 AGGTAAAATGACTAAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
*
21920563 GGGTAAAATGATCGAAATACCCCCATA
1 GGGTAAAATGACCGAAATACCCCCATA
* *
21920590 AGGTAAAGTGAC
1 GGGTAAAATGAC
21920602 TGTTATACCC
Statistics
Matches: 143, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCCCATA
Found at i:21920543 original size:81 final size:81
Alignment explanation
Indices: 21920401--21920601 Score: 249
Period size: 81 Copynumber: 2.5 Consensus size: 81
21920391 TTGGGATTTG
* * * * * *
21920401 GGGTAAAATAACCCAAATAACCCTATAGGGTAAAATGACCGAAATACCCTCATATCATAAAATAA
1 GGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAACATAAAATAA
* *
21920466 CTGAAATACTCCCATA
66 CTAAAATACCCCCATA
*** ** *
21920482 GGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGATTTAAATACCCCCATAAGGTAAAATGA
1 GGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAACATAAAATAA
21920547 CTAAAATACCCCCATA
66 CTAAAATACCCCCATA
* * *
21920563 GGGTAAAATGATCGAAATACCCCCATAAGGTAAAGTGAC
1 GGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGAC
21920602 TGTTATACCC
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (81 bp):
GGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAACATAAAATAA
CTAAAATACCCCCATA
Found at i:21920626 original size:81 final size:80
Alignment explanation
Indices: 21920457--21920629 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 80
21920447 CCCTCATATC
* * * *
21920457 ATAAAATAACTGAAATACTCCCATAGGGTAAAATAATCGAAATACCCCCATAGGGTAAAATGATT
1 ATAAAATGACTAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCATAAGGTAAAATGATT
*
21920522 TAAATACCCCCATAAG
66 T-AATACCCCCAGAAG
* * *
21920538 GTAAAATGACTAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAAGGTAAAGTGACT
1 ATAAAATGACTAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCATAAGGTAAAATGA-T
* *
21920603 GTT-ATACCCCTAGGAG
65 -TTAATACCCCCAGAAG
*
21920619 ATGAAATGACT
1 ATAAAATGACT
21920630 GTTATGGCCT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
81 75 0.96
82 1 0.01
83 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (80 bp):
ATAAAATGACTAAAATACCCCCATAGGGTAAAATAATCGAAATACCCCCATAAGGTAAAATGATT
TAATACCCCCAGAAG
Found at i:21923258 original size:40 final size:39
Alignment explanation
Indices: 21923180--21923329 Score: 140
Period size: 40 Copynumber: 3.7 Consensus size: 39
21923170 AGTGGCACTT
* * * *
21923180 TTAGCGGCGTTTGGACAAAAAACGCCACTAACAGTCGAGCA
1 TTAGCGGCGTTT-TACAAAAAACGCCGC-AAAAATCGAGCA
* *
21923221 TTAGCGGCATTTTACAAAAAACGCTGCAAAATATCGAGCA
1 TTAGCGGCGTTTTACAAAAAACGCCGCAAAA-ATCGAGCA
* * * * *
21923261 TTAGCGACGTTACATA-AAAAAACGCCGCTAAAACCAAGCA
1 TTAGCGGCGTT--TTACAAAAAACGCCGCAAAAATCGAGCA
*
21923301 TTAGCGGCGTTTTACAAAAAGCGCCGCAA
1 TTAGCGGCGTTTTACAAAAAACGCCGCAA
21923330 TAGAGTAACA
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 15 0.17
40 44 0.50
41 25 0.28
42 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (39 bp):
TTAGCGGCGTTTTACAAAAAACGCCGCAAAAATCGAGCA
Found at i:21923604 original size:41 final size:42
Alignment explanation
Indices: 21923559--21923651 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 42
21923549 TATGGAGAAT
* * * *
21923559 CGCCGCG-AATGT-TCCGGTCTATAGCGGCGTTTGTGTAACAG
1 CGCCGCGTAAT-TCTCCAGTCTATAGCAGCGTTTGTGTAAAAA
*
21923600 CGCCG-GTAATTCTTCAGTCTATAGCAGCGTTTGTGTAAAAA
1 CGCCGCGTAATTCTCCAGTCTATAGCAGCGTTTGTGTAAAAA
21923641 CGCCGC-TAATT
1 CGCCGCGTAATT
21923652 AGAAAGTCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 2 0.05
41 42 0.95
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.29
Consensus pattern (42 bp):
CGCCGCGTAATTCTCCAGTCTATAGCAGCGTTTGTGTAAAAA
Found at i:21923660 original size:41 final size:41
Alignment explanation
Indices: 21923575--21923661 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
21923565 GAATGTTCCG
* * * * ****
21923575 GTCTATAGCGGCGTTTGTGTAACAGCGCCGGTAATTCTTCA
1 GTCTATAGCAGCGTTTGTGTAAAAACGCCGCTAATTAGAAA
21923616 GTCTATAGCAGCGTTTGTGTAAAAACGCCGCTAATTAGAAA
1 GTCTATAGCAGCGTTTGTGTAAAAACGCCGCTAATTAGAAA
21923657 GTCTA
1 GTCTA
21923662 AAATATTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
GTCTATAGCAGCGTTTGTGTAAAAACGCCGCTAATTAGAAA
Found at i:21926114 original size:16 final size:16
Alignment explanation
Indices: 21926090--21926120 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21926080 ATTTTTTCTC
21926090 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
21926106 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
21926121 CTCCATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:21929833 original size:21 final size:21
Alignment explanation
Indices: 21929809--21929848 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21929799 AGCATATGCG
21929809 GCAGCAAGAGAAGCAGAGGCA
1 GCAGCAAGAGAAGCAGAGGCA
** *
21929830 GCAGTGAGAGAAGCTGAGG
1 GCAGCAAGAGAAGCAGAGG
21929849 TTCAACGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.42, T:0.05
Consensus pattern (21 bp):
GCAGCAAGAGAAGCAGAGGCA
Found at i:21929844 original size:87 final size:87
Alignment explanation
Indices: 21929732--21929929 Score: 247
Period size: 87 Copynumber: 2.3 Consensus size: 87
21929722 ACATAACTTA
* * * *
21929732 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAAC
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAACAACTCCAGC-AGCAAC
*
21929795 TTAAAGCATATGCGGCAGCAAGAG
64 TTAAAGCAGATGCGGCAGCAAGAG
* * * *
21929819 AAGCAGAGGCAGCAGTGAGAGAAGCTGAGGTTCAACGAAAGTATGAACAACTCCAGCAGTAGCTT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTT
**
21929884 AAAGCAGATGCGGCAGTGAGAG
66 AAAGCAGATGCGGCAGCAAGAG
* *
21929906 AAGCAGAGGCTGCAGCGAGGGAAG
1 AAGCAGAGGCAGCAGCGAGAGAAG
21929930 TAGAGGCTAC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 90 0.95
88 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (87 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAACAACTCCAGCAGCAACTT
AAAGCAGATGCGGCAGCAAGAG
Found at i:21929910 original size:21 final size:21
Alignment explanation
Indices: 21929885--21929954 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
21929875 CAGTAGCTTA
* * *
21929885 AAGCAGATGCGGCAGTGAGAG
1 AAGCAGAGGCTGCAGTGAGGG
*
21929906 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGTGAGGG
* *
21929927 AAGTAGAGGCTACAGTGAGGG
1 AAGCAGAGGCTGCAGTGAGGG
21929948 AAGCAGA
1 AAGCAGA
21929955 ACAGCTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.43, T:0.09
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGTGAGGG
Found at i:21930308 original size:43 final size:43
Alignment explanation
Indices: 21930259--21930552 Score: 373
Period size: 43 Copynumber: 6.8 Consensus size: 43
21930249 GTTTTTCTAA
*
21930259 AAGCGCCGCTAAAAACCATGAG-CTATAGCGGCGTTTGT-TGGTT
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTT-TATGGTT
* *
21930302 AAGCGCCTCTAAAGACCATGGTCTATAGTGGCGTTTGTATGG-T
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTT-TATGGTT
* * *
21930345 AAGCGCCGCTAAAGACCAAGATCTATAGCGGCGTTTTATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGTT
* *
21930388 AAGCGCCACTAAA-AGCCATGGGCTATAGCGGCGTTTTATGGGTT
1 AAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTTAT-GGTT
* *
21930432 -AGTGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGTT
* * *
21930474 AAGCGCTGCTAAAGACCATGGTCTATAGCGGCGTTTGATGGCT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGTT
* *
21930517 AAGCGCCACTAAAGACCCTGGTCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTT
21930553 ATTATAAAAA
Statistics
Matches: 221, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
42 10 0.05
43 204 0.92
44 7 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTTATGGTT
Found at i:21940239 original size:19 final size:19
Alignment explanation
Indices: 21940215--21940252 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
21940205 TCTGGAAATG
21940215 TGAAAA-ATGAAATATTTTT
1 TGAAAATATGAAAT-TTTTT
21940234 TGAAAATATGAAATTTTTT
1 TGAAAATATGAAATTTTTT
21940253 ATCTGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
TGAAAATATGAAATTTTTT
Found at i:21948649 original size:43 final size:42
Alignment explanation
Indices: 21948601--21948770 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 42
21948591 CCGCTAATGG
* * * * *
21948601 TCATGACTTTTAGTGGTGCTTATCCTATAAATGCCACTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCC-ACAAATGCCGCTATAGA
* * * * *
21948644 TCATGATTTTTAACGGCGTTTTTTCCACAAACGCCGCTATAGG
1 TCATGACTTTTAGCGGCG-CTTTTCCACAAATGCCGCTATAGA
21948687 TCATGACTTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTT-CCACAAATGCCGCTATAGA
* * * * **
21948730 TCATCAGTTTTAGCGACACTTTTCCCACAAACACCGCTATA
1 TCATGACTTTTAGCGGCGCTTTT-CCACAAATGCCGCTATA
21948771 TAACAAATCT
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 4 0.04
43 95 0.91
44 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (42 bp):
TCATGACTTTTAGCGGCGCTTTTCCACAAATGCCGCTATAGA
Found at i:21948741 original size:86 final size:87
Alignment explanation
Indices: 21948586--21948771 Score: 232
Period size: 86 Copynumber: 2.2 Consensus size: 87
21948576 TTTTAAAAAT
* * * * *
21948586 AAACGCCGCTA-ATGGTCATGACTTTTAGTGGTGCTTATCCTATAAATGCCACTATAGATCATGA
1 AAACGCCGCTATATGGTCATGACTTTTAGCGGCGCTTATCCCACAAATGCCACTATAGATCATCA
* * ** *
21948650 TTTTTAACGGCGTTTTTTCCAC
66 GTTTTAACGACACTTTTCCCAC
* *
21948672 AAACGCCGCTATA-GGTCATGACTTTTAGCGGCGCTTTTCCCACAAATGCCGCTATAGATCATCA
1 AAACGCCGCTATATGGTCATGACTTTTAGCGGCGCTTATCCCACAAATGCCACTATAGATCATCA
*
21948736 GTTTTAGCGACACTTTTCCCAC
66 GTTTTAACGACACTTTTCCCAC
*
21948758 AAACACCGCTATAT
1 AAACGCCGCTATAT
21948772 AACAAATCTT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
86 83 0.99
87 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (87 bp):
AAACGCCGCTATATGGTCATGACTTTTAGCGGCGCTTATCCCACAAATGCCACTATAGATCATCA
GTTTTAACGACACTTTTCCCAC
Found at i:21948796 original size:43 final size:42
Alignment explanation
Indices: 21948738--21948867 Score: 163
Period size: 43 Copynumber: 3.1 Consensus size: 42
21948728 GATCATCAGT
* * *
21948738 TTTAGCGACACTTTTCCCACAAACACCGCTATATAACAAATC
1 TTTAGCGACACTTTTCACACAAACACCGCTATAAAACATATC
** ** *
21948780 TTTAGCGACACTTTTTCTTACAAATGCCGCTATAAAACATACC
1 TTTAGCGACAC-TTTTCACACAAACACCGCTATAAAACATATC
*
21948823 TTTAACGACACTTTTCACACAAACACCGCTA-AAAACATATC
1 TTTAGCGACACTTTTCACACAAACACCGCTATAAAACATATC
21948864 TTTA
1 TTTA
21948868 AAAAAATTTA
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
41 13 0.18
42 27 0.36
43 34 0.46
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.29
Consensus pattern (42 bp):
TTTAGCGACACTTTTCACACAAACACCGCTATAAAACATATC
Found at i:21949189 original size:43 final size:43
Alignment explanation
Indices: 21949114--21949204 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
21949104 ACATATGCAA
* * * * *
21949114 GGTAATAAAACATACAATGCGTTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTAAATCAAGGAAATCTT
* *
21949157 GGTAATAAAAGATATAATACATTTACTAAATCAAGGAAATCTT
1 GGTAATAAAACATACAATACATTTACTAAATCAAGGAAATCTT
21949200 -GTAAT
1 GGTAAT
21949205 GAACTCAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTAAATCAAGGAAATCTT
Found at i:21953319 original size:7 final size:7
Alignment explanation
Indices: 21953308--21953346 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
21953298 CCTTAAATCT
21953308 CTAACTC
1 CTAACTC
*
21953315 TTAACTC
1 CTAACTC
*
21953322 CTAACCC
1 CTAACTC
21953329 CTAACTC
1 CTAACTC
*
21953336 CTAACCC
1 CTAACTC
21953343 CTAA
1 CTAA
21953347 ACATTAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.26
Consensus pattern (7 bp):
CTAACTC
Found at i:21953333 original size:14 final size:14
Alignment explanation
Indices: 21953316--21953346 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
21953306 CTCTAACTCT
21953316 TAACTCCTAACCCC
1 TAACTCCTAACCCC
21953330 TAACTCCTAACCCC
1 TAACTCCTAACCCC
21953344 TAA
1 TAA
21953347 ACATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
TAACTCCTAACCCC
Found at i:21955186 original size:41 final size:41
Alignment explanation
Indices: 21955132--21955372 Score: 204
Period size: 41 Copynumber: 5.9 Consensus size: 41
21955122 GGCGCATTCA
* *
21955132 AAAAATGTCGCTAAAAACCCAAGCATTAGCGGTGCTTTTTC
1 AAAAATGCCGCTAAAAACCCAAGCATTAGCGGCGCTTTTTC
* * *
21955173 AAAAATGCCGCTAAAACCCCGAGCATTAGCGACGC-TTTTC
1 AAAAATGCCGCTAAAAACCCAAGCATTAGCGGCGCTTTTTC
* * * *
21955213 TAAAAATGCTGCTAAAACCCCGAGCATTAGTGGCGC-TTTTC
1 -AAAAATGCCGCTAAAAACCCAAGCATTAGCGGCGCTTTTTC
* * ** *
21955254 TAAAAATGCCGCTAAAACCCCGAA-CATTAGTGGCGCTTCATA
1 -AAAAATGCCGCTAAAAACCC-AAGCATTAGCGGCGCTTTTTC
* * *
21955296 AAAAACGCCGCT-AAAACCTCGAGCATTAGCGGCGCTTTTTA
1 AAAAATGCCGCTAAAAACC-CAAGCATTAGCGGCGCTTTTTC
** * * *
21955337 AAAAACACAGCT-AAAACCCACAGCATTGGCAGCGCT
1 AAAAATGCCGCTAAAAACCCA-AGCATTAGCGGCGCT
21955373 ACTCCAAAAA
Statistics
Matches: 170, Mismatches: 24, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
40 12 0.07
41 155 0.91
42 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
AAAAATGCCGCTAAAAACCCAAGCATTAGCGGCGCTTTTTC
Found at i:21955269 original size:82 final size:81
Alignment explanation
Indices: 21955131--21955340 Score: 264
Period size: 82 Copynumber: 2.6 Consensus size: 81
21955121 CGGCGCATTC
* * *
21955131 AAAAAATG-TCGCTAAAAACCCAAGCATTAGCGGTGCTTTTTCAAAAATGCCGCTAAAACCCCGA
1 AAAAAATGCT-GCTAAAACCCCGAGCATTAGCGGCGCTTTTT-AAAAATGCCGCTAAAACCCCGA
*
21955195 GCATTAGCGACGCTTTTC-T
64 ACATTAGCGACGC--TTCAT
*
21955214 -AAAAATGCTGCTAAAACCCCGAGCATTAGTGGCGCTTTTCTAAAAATGCCGCTAAAACCCCGAA
1 AAAAAATGCTGCTAAAACCCCGAGCATTAGCGGCGCTTTT-TAAAAATGCCGCTAAAACCCCGAA
* *
21955278 CATTAGTGGCGCTTCAT
65 CATTAGCGACGCTTCAT
* * *
21955295 AAAAAACGCCGCTAAAACCTCGAGCATTAGCGGCGCTTTTTAAAAA
1 AAAAAATGCTGCTAAAACCCCGAGCATTAGCGGCGCTTTTTAAAAA
21955341 ACACAGCTAA
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
80 3 0.03
81 7 0.06
82 100 0.89
83 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (81 bp):
AAAAAATGCTGCTAAAACCCCGAGCATTAGCGGCGCTTTTTAAAAATGCCGCTAAAACCCCGAAC
ATTAGCGACGCTTCAT
Found at i:21955341 original size:123 final size:123
Alignment explanation
Indices: 21955132--21955363 Score: 299
Period size: 123 Copynumber: 1.9 Consensus size: 123
21955122 GGCGCATTCA
* * ** * *
21955132 AAAAATGTCGCTAAAAACCCAAGCATTAGCGGTGCTTTTTCAAAAATGCCGCTAAAACCCCGAGC
1 AAAAATGCCGCTAAAAACCCAAGCATTAGCGGCGCTTCATAAAAAACGCCGCTAAAACCCCGAGC
** *
21955197 ATTAGCGACGCTTTTCTAAAAATGCTGCTAAAACCC-CGAGCATTAGTGGCGCTTTTCT
66 ATTAGCGACGCTTTTCTAAAAACACAGCTAAAACCCAC-AGCATTAGTGGCGCTTTTCT
* * *
21955255 AAAAATGCCGCTAAAACCCCGAA-CATTAGTGGCGCTTCATAAAAAACGCCGCTAAAACCTCGAG
1 AAAAATGCCGCTAAAAACCC-AAGCATTAGCGGCGCTTCATAAAAAACGCCGCTAAAACCCCGAG
*
21955319 CATTAGCGGCGCTTTT-TAAAAAACACAGCTAAAACCCACAGCATT
65 CATTAGCGACGCTTTTCT-AAAAACACAGCTAAAACCCACAGCATT
21955364 GGCAGCGCTA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
122 1 0.01
123 89 0.96
124 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (123 bp):
AAAAATGCCGCTAAAAACCCAAGCATTAGCGGCGCTTCATAAAAAACGCCGCTAAAACCCCGAGC
ATTAGCGACGCTTTTCTAAAAACACAGCTAAAACCCACAGCATTAGTGGCGCTTTTCT
Found at i:21955382 original size:123 final size:123
Alignment explanation
Indices: 21955132--21955397 Score: 286
Period size: 123 Copynumber: 2.2 Consensus size: 123
21955122 GGCGCATTCA
* * * ** * *
21955132 AAAAATGTCGCTAAAAACCCAAGCATTAGCGGTGCTTTTTCAAAAATGCCGCTAAAACCCCGAGC
1 AAAAATGCCGCTAAAACCCCAAGCATTAGCGGCGCTTCATAAAAAACGCCGCTAAAACCCCGAGC
** * ** ** *
21955197 ATTAGCGACGCTTTTCTAAAAATGCTGCTAAAACCCCGAGCATTAGTGGCGCTTTTCT
66 ATTAGCGACGCTTTTCTAAAAACACAGCTAAAACCCCGAGCATTAGCAGCGCTACTCC
* *
21955255 AAAAATGCCGCTAAAACCCCGAA-CATTAGTGGCGCTTCATAAAAAACGCCGCTAAAACCTCGAG
1 AAAAATGCCGCTAAAACCCC-AAGCATTAGCGGCGCTTCATAAAAAACGCCGCTAAAACCCCGAG
* *
21955319 CATTAGCGGCGCTTTT-TAAAAAACACAGCTAAAACCCAC-AGCATTGGCAGCGCTACTCC
65 CATTAGCGACGCTTTTCT-AAAAACACAGCTAAAACCC-CGAGCATTAGCAGCGCTACTCC
* * *
21955378 AAAAATACCACTAAAGCCCC
1 AAAAATGCCGCTAAAACCCC
21955398 CGATAGGTCA
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
122 1 0.01
123 114 0.97
124 3 0.03
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (123 bp):
AAAAATGCCGCTAAAACCCCAAGCATTAGCGGCGCTTCATAAAAAACGCCGCTAAAACCCCGAGC
ATTAGCGACGCTTTTCTAAAAACACAGCTAAAACCCCGAGCATTAGCAGCGCTACTCC
Found at i:21958900 original size:45 final size:45
Alignment explanation
Indices: 21958675--21958897 Score: 236
Period size: 45 Copynumber: 5.0 Consensus size: 45
21958665 ACCGTTACAT
* * * *
21958675 GGTGG-ATCAGCATATAGC-ACCACCCTTATAATCAATTATATTC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
* * ** *
21958718 GGTGGAATCAACACATAGAAACCACCTTTATTTTCAATGAT-TTC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
* * * * *
21958762 TGGTGGAGTCAGTACATAGAAACCACCTTTATAATCAATGGTACAC
1 -GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
* * * *
21958808 GGTGGAATCAACATATAGCAACCACCGTTATAATCAATGGTACTC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
* *
21958853 AGTGGAATCAGCACATAGCAACCATCTTTATAATCAATGATACTC
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
21958898 AGTACACGTA
Statistics
Matches: 148, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
43 5 0.03
44 13 0.09
45 129 0.87
46 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
Found at i:21967264 original size:33 final size:33
Alignment explanation
Indices: 21967222--21967322 Score: 175
Period size: 33 Copynumber: 3.1 Consensus size: 33
21967212 GTTAACTTGG
* *
21967222 TATGCCATTATTTCATAATAGAGTTACTGTGTA
1 TATGCCATTATTTCATAACAGAGTTACTGTGCA
21967255 TATGCCATTATTTCATAACAGAGTTACTGTGCA
1 TATGCCATTATTTCATAACAGAGTTACTGTGCA
*
21967288 TGTGCCATTATTTCATAACAGAGTTACTGTGCA
1 TATGCCATTATTTCATAACAGAGTTACTGTGCA
21967321 TA
1 TA
21967323 CTTTTGACTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TATGCCATTATTTCATAACAGAGTTACTGTGCA
Found at i:21970405 original size:24 final size:23
Alignment explanation
Indices: 21970377--21970424 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
21970367 GTAATTTTTA
21970377 ATTTTTAAATAATTTTTAAAATTT
1 ATTTTTAAA-AATTTTTAAAATTT
* *
21970401 ATTTTTAAAATTTTTTTAAATTT
1 ATTTTTAAAAATTTTTAAAATTT
21970424 A
1 A
21970425 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTAAAAATTTTTAAAATTT
Found at i:21970406 original size:13 final size:13
Alignment explanation
Indices: 21970388--21970417 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21970378 TTTTTAAATA
21970388 ATTTTTAAAATTT
1 ATTTTTAAAATTT
21970401 ATTTTTAAAATTT
1 ATTTTTAAAATTT
21970414 -TTTT
1 ATTTT
21970418 AAATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTAAAATTT
Found at i:21971546 original size:30 final size:29
Alignment explanation
Indices: 21971512--21971577 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
21971502 TTTTTTTATC
21971512 AAAATAATA-TAAAAATAATAATTAGTTACG
1 AAAATAATATTAAAAAT-AT-ATTAGTTACG
* * * *
21971542 AAAATGATATTAGAACTATATTATTTACG
1 AAAATAATATTAAAAATATATTAGTTACG
21971571 AAAATAA
1 AAAATAA
21971578 AGTATAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 15 0.50
30 10 0.33
31 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAATAATATTAAAAATATATTAGTTACG
Found at i:21972828 original size:10 final size:11
Alignment explanation
Indices: 21972798--21972847 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
21972788 TGTCTGAAAA
21972798 AAAATTAAATC
1 AAAATTAAATC
*
21972809 GAAA--AAATC
1 AAAATTAAATC
21972818 -AAATTAAATC
1 AAAATTAAATC
21972828 -AAATTAAATAC
1 AAAATTAAAT-C
21972839 AAAATTAAA
1 AAAATTAAA
21972848 AATTTTCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 14 0.41
11 4 0.12
12 8 0.24
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.24
Consensus pattern (11 bp):
AAAATTAAATC
Found at i:21978852 original size:3 final size:3
Alignment explanation
Indices: 21978844--21978877 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
21978834 TTTAATTTCA
*
21978844 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21978878 TGCTCATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:21983671 original size:27 final size:27
Alignment explanation
Indices: 21983640--21983705 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
21983630 CTCAATAAAA
21983640 TTTCATCTTATCCATTGTGATAATCTT
1 TTTCATCTTATCCATTGTGATAATCTT
21983667 TTTCATCTTATCCATTGTGATAATCTT
1 TTTCATCTTATCCATTGTGATAATCTT
21983694 TTTCATCTTATC
1 TTTCATCTTATC
21983706 TTAGCAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (27 bp):
TTTCATCTTATCCATTGTGATAATCTT
Found at i:21984297 original size:24 final size:24
Alignment explanation
Indices: 21984265--21984322 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
21984255 ATATCCTAAA
*
21984265 ATTATAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
* *
21984289 ATTACAGTGGATTGAGCTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
21984313 ATTACAGTGG
1 ATTACAGTGG
21984323 GGGCAATCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.33
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Done.