Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 20
Found at i:2904485 original size:30 final size:29
Alignment explanation
Indices: 2904429--2904769 Score: 216
Period size: 30 Copynumber: 11.7 Consensus size: 29
2904419 ATACGATAAA
* *
2904429 ATAAGGATAAAA-ATATTTTTATAATTAAG
1 ATAAGAATAAAATATATTTATA-AATTAAG
* * *
2904458 ATAAAAATAAAATATATTTCCTAAATTAAA
1 ATAAGAATAAAATATATTT-ATAAATTAAG
* *
2904488 ATAAGAATAAAATATGTATTTTTAAATTAAA
1 ATAAGAATAAAATA--TATTTATAAATTAAG
* * *
2904519 ATAA-AAT-ATATA-ATTT-GAAGTTAAG
1 ATAAGAATAAAATATATTTATAAATTAAG
*
2904544 ATAAGAAT-AAATAATATTTAATAATTTAAGG
1 ATAAGAATAAAAT-ATATTT-ATAAATTAA-G
* *
2904575 A-AAGAATATAATATATTTAATAATTTAA-
1 ATAAGAATAAAATATATTT-ATAAATTAAG
** * * *
2904603 ATTAAGAATGTAATATATGTAAAAAGGTAAG
1 A-TAAGAATAAAATATATTTATAAA-TTAAG
* *
2904634 ATAA-AATAAAATATATTTTTAAAATTAAA
1 ATAAGAATAAAATATATTTAT-AAATTAAG
* * * * *
2904663 ATAATAGTAAAATATTTTTTTAAGTTAAG
1 ATAAGAATAAAATATATTTATAAATTAAG
* * **
2904692 GTAGGAATAAAATATATTTTATAAGCTAAG
1 ATAAGAATAAAATATA-TTTATAAATTAAG
* * *
2904722 ATAAGATTAAAATATATTT-TTAACTAAG
1 ATAAGAATAAAATATATTTATAAATTAAG
2904750 ATAAGAATAAAATATATTTA
1 ATAAGAATAAAATATATTTA
2904770 ATAAGTTCAT
Statistics
Matches: 250, Mismatches: 43, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
25 10 0.04
26 10 0.04
27 1 0.00
28 30 0.12
29 55 0.22
30 118 0.47
31 21 0.08
32 5 0.02
ACGTcount: A:0.54, C:0.01, G:0.09, T:0.37
Consensus pattern (29 bp):
ATAAGAATAAAATATATTTATAAATTAAG
Found at i:2904542 original size:25 final size:25
Alignment explanation
Indices: 2904493--2904558 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
2904483 TTAAAATAAG
* * *
2904493 AATAAAATATGTATTTTTAAATTAA
1 AATAAAATATATAATTTGAAATTAA
*
2904518 AATAAAATATATAATTTGAAGTTAA
1 AATAAAATATATAATTTGAAATTAA
* *
2904543 GATAAGAATAAATAAT
1 AATAA-AATATATAAT
2904559 ATTTAATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 25 0.74
26 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (25 bp):
AATAAAATATATAATTTGAAATTAA
Found at i:2904766 original size:58 final size:59
Alignment explanation
Indices: 2904630--2904774 Score: 170
Period size: 59 Copynumber: 2.5 Consensus size: 59
2904620 TGTAAAAAGG
** * * *
2904630 TAAGATAA-AATAAAATATATTTT-TAAAATTAAAATAATAGTAAAATATTTTTTTAAGT
1 TAAGATAAGAATAAAATATATTTTAT-AAGCTAAAATAAGAGTAAAATATATTTTTAAGC
* * * *
2904688 TAAGGTAGGAATAAAATATATTTTATAAGCTAAGATAAGATTAAAATATATTTTTAA-C
1 TAAGATAAGAATAAAATATATTTTATAAGCTAAAATAAGAGTAAAATATATTTTTAAGC
*
2904746 TAAGATAAGAATAAAATATATTTAATAAG
1 TAAGATAAGAATAAAATATATTTTATAAG
2904775 TTCATGAAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
58 32 0.44
59 40 0.55
60 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.37
Consensus pattern (59 bp):
TAAGATAAGAATAAAATATATTTTATAAGCTAAAATAAGAGTAAAATATATTTTTAAGC
Found at i:2905798 original size:21 final size:18
Alignment explanation
Indices: 2905747--2905791 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
2905737 AAGGTCGCGT
2905747 ACTATCACAACATCATGA
1 ACTATCACAACATCATGA
2905765 ACTATCACAACATCATGA
1 ACTATCACAACATCATGA
2905783 ACTATCACA
1 ACTATCACA
2905792 TCAACATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.44, C:0.29, G:0.04, T:0.22
Consensus pattern (18 bp):
ACTATCACAACATCATGA
Found at i:2906307 original size:28 final size:28
Alignment explanation
Indices: 2906276--2906329 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
2906266 ATGATTTCTA
2906276 ATTTT-TAAAAAACT-GAAAAATAAAAATT
1 ATTTTCTAAAAAA-TAG-AAAATAAAAATT
*
2906304 ATTTTCTGAAAAATAGAAAATAAAAA
1 ATTTTCTAAAAAATAGAAAATAAAAA
2906330 CAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (28 bp):
ATTTTCTAAAAAATAGAAAATAAAAATT
Found at i:2908642 original size:29 final size:30
Alignment explanation
Indices: 2908396--2908689 Score: 172
Period size: 30 Copynumber: 9.8 Consensus size: 30
2908386 GGGGGAAATG
* *
2908396 AAATATATAATTTGAAGTTAAAGATAAGAAT-
1 AAATATAT-TTTTTAAGTT-AAGATAAGAATA
* *
2908427 AAATA-ATTTTTAATAATTTAAGTTAAGAATA
1 AAATATATTTTT--TAAGTTAAGATAAGAATA
* ** * *
2908458 TAATATATTTAATAATTTAA-ATTAATAATA
1 AAATATATTTTTTAAGTTAAGA-TAAGAATA
* * *** * **
2908488 TAATATATGTAAAAAGTTAAGATAAAAACG
1 AAATATATTTTTTAAGTTAAGATAAGAATA
* ** * *
2908518 AATTATAGTTTTAAAAGTTAAGATGATAATA
1 AAATATA-TTTTTTAAGTTAAGATAAGAATA
* *
2908549 AAATATATATTTTTAAGTTATG-TAGGAATA
1 AAATATAT-TTTTTAAGTTAAGATAAGAATA
* * *
2908579 AAATATATTTTATAAGTTAAAATAAGATTA
1 AAATATATTTTTTAAGTTAAGATAAGAATA
*
2908609 AAATATATTTTTTAA-CTAAGATAAGAATA
1 AAATATATTTTTTAAGTTAAGATAAGAATA
** *
2908638 AAATATATTTAATATGTTAAGA-AA-AAT-
1 AAATATATTTTTTAAGTTAAGATAAGAATA
*
2908665 AAATATATTTTTTAATATTAAGATA
1 AAATATATTTTTTAA-GTTAAGATA
2908690 TGATTTTAAG
Statistics
Matches: 204, Mismatches: 47, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
27 12 0.06
28 9 0.04
29 39 0.19
30 93 0.46
31 47 0.23
32 4 0.02
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.39
Consensus pattern (30 bp):
AAATATATTTTTTAAGTTAAGATAAGAATA
Found at i:2908647 original size:59 final size:57
Alignment explanation
Indices: 2908527--2908679 Score: 161
Period size: 59 Copynumber: 2.6 Consensus size: 57
2908517 GAATTATAGT
* * * *
2908527 TTTAA-AAGTTAAGATGATAATAAAATATATATTTTTAAGTTATGTAGGAATAAAATATA
1 TTTAATAAGTTAAGA--AAAATAAAATATAT-TTTTTAAGCTAAGTAAGAATAAAATATA
*
2908586 TTTTATAAGTTAA-AATAAGATTAAAATATATTTTTTAA-CTAAGATAAGAATAAAATATA
1 TTTAATAAGTTAAGAA-AA-A-TAAAATATATTTTTTAAGCTAAG-TAAGAATAAAATATA
*
2908645 TTTAATATGTTAAGAAAAAT-AAATATATTTTTTAA
1 TTTAATAAGTTAAGAAAAATAAAATATATTTTTTAA
2908680 TATTAAGATA
Statistics
Matches: 81, Mismatches: 7, Indels: 15
0.79 0.07 0.15
Matches are distributed among these distances:
56 15 0.19
57 2 0.02
58 5 0.06
59 40 0.49
60 19 0.23
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (57 bp):
TTTAATAAGTTAAGAAAAATAAAATATATTTTTTAAGCTAAGTAAGAATAAAATATA
Found at i:2912236 original size:16 final size:16
Alignment explanation
Indices: 2912195--2912245 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
2912185 ATAAAAAAAA
* *
2912195 TAATTATATATATATA
1 TAATTATATATAGATT
2912211 TATATATATATATAGATT
1 TA-AT-TATATATAGATT
2912229 TAATTATATATAGATT
1 TAATTATATATAGATT
2912245 T
1 T
2912246 TTTAATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 15 0.48
17 4 0.13
18 12 0.39
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TAATTATATATAGATT
Found at i:2912240 original size:2 final size:2
Alignment explanation
Indices: 2912199--2912224 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2912189 AAAAAATAAT
2912199 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2912225 GATTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2913050 original size:2 final size:2
Alignment explanation
Indices: 2913043--2913067 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2913033 CGATCAAAAT
2913043 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2913068 TTAAGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2913785 original size:2 final size:2
Alignment explanation
Indices: 2913778--2913813 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2913768 TAATTTAAAA
2913778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2913814 TAAATCTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2914408 original size:29 final size:29
Alignment explanation
Indices: 2914376--2914437 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
2914366 ACTAATATAT
*
2914376 TTTTTGTTTACAATTATATTTTTTGTGTG
1 TTTTTGTTTACAATTATATTTTTTGTGTA
2914405 TTTTTGTTTACAATTATATTTTTTGTGTA
1 TTTTTGTTTACAATTATATTTTTTGTGTA
2914434 TTTT
1 TTTT
2914438 CTAAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.18, C:0.03, G:0.11, T:0.68
Consensus pattern (29 bp):
TTTTTGTTTACAATTATATTTTTTGTGTA
Found at i:2917537 original size:3 final size:3
Alignment explanation
Indices: 2917529--2917582 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
2917519 ATGATATTAG
* * *
2917529 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAC T-A TAG TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
2917574 TAA TAA TAA
1 TAA TAA TAA
2917583 ATATAATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 40 0.93
4 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2918477 original size:240 final size:240
Alignment explanation
Indices: 2918054--2918618 Score: 970
Period size: 240 Copynumber: 2.4 Consensus size: 240
2918044 ATGTGAAGTT
* * *
2918054 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
* * *
2918119 ACTATTGGAAATGTTGATCCATCTCTTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTA
66 TCCATTGGAAATGTTGATCCATCTCATTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTA
* *
2918184 TGAACTTTCTTCTTTAGGACGAGTTCTTCTCATTATGAACTCTTTTGAAAATGTCAATCCCTCAA
131 TGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTTTAAAAATGTCAATCCCTCAA
*
2918249 GCGAGGTGTCACTGATTCGAAATACCATGAATCAAGTGATAGGTC
196 ACGAGGTGTCACTGATTCGAAATACCATGAATCAAGTGATAGGTC
*
2918294 GAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
2918359 TCCATTGGAAATGTTGATCCATCTCATTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTA
66 TCCATTGGAAATGTTGATCCATCTCATTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTA
2918424 TGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTTTAAAAATGTCAATCCCTCAA
131 TGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTTTAAAAATGTCAATCCCTCAA
* * *
2918489 ATGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGATAGGTC
196 ACGAGGTGTCACTGATTCGAAATACCATGAATCAAGTGATAGGTC
* *
2918534 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-GTTGGATGAGTTCTTCTCATTATGAACT
2918599 CTCCATT-GAAATTGTTGATC
65 CTCCATTGGAAA-TGTTGATC
2918619 TCTCAAGCGA
Statistics
Matches: 307, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
240 266 0.87
241 41 0.13
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (240 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTGGATGAGTTCTTCTCATTATGAACTC
TCCATTGGAAATGTTGATCCATCTCATTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTCATTA
TGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTTTAAAAATGTCAATCCCTCAA
ACGAGGTGTCACTGATTCGAAATACCATGAATCAAGTGATAGGTC
Found at i:2918647 original size:136 final size:134
Alignment explanation
Indices: 2918405--2918751 Score: 454
Period size: 136 Copynumber: 2.6 Consensus size: 134
2918395 GACTTGAAAG
* * *
2918405 GAACAAGTTCTTCTCATTATGAAC-TTTCT-CCT-T-TAGGACGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
* * ** *
2918466 T--TTTAAAAATGTCAATCCCTCAAATGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGAT
66 TCCATT-GAAATGTTGATCCCTCAAACGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGAT
2918529 AGGTC
130 AGGTC
*
2918534 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTT-TTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * *
2918599 CTCCATTGAAATTGTTGATCTCTCAAGCGAGGTGTTACTGATTCGAAATGCCGTGAATTGAGTGA
65 CTCCATTGAAA-TGTTGATCCCTCAAACGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGA
2918664 TAGGTC
129 TAGGTC
* * *
2918670 AAACAAGCTCTTCTCATTTTAAACTTGTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTT-TTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
2918735 CTCCATTGGAAATGTTG
65 CTCCATT-GAAATGTTG
2918752 GTTCACCTCT
Statistics
Matches: 190, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
129 23 0.12
130 1 0.01
131 4 0.02
132 3 0.02
133 1 0.01
134 26 0.14
135 3 0.02
136 125 0.66
137 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (134 bp):
GAACAAGCTCTTCTCATTATGAACTTTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTC
TCCATTGAAATGTTGATCCCTCAAACGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGATA
GGTC
Found at i:2919643 original size:22 final size:22
Alignment explanation
Indices: 2919617--2919662 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2919607 TCTCAAACCC
2919617 TTCTTTT-TATCTTTTCATTTTT
1 TTCTTTTCT-TCTTTTCATTTTT
*
2919639 TTCTTTTCTTTTTTTCATTTTT
1 TTCTTTTCTTCTTTTCATTTTT
2919661 TT
1 TT
2919663 TCATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (22 bp):
TTCTTTTCTTCTTTTCATTTTT
Found at i:2919660 original size:10 final size:10
Alignment explanation
Indices: 2919628--2919682 Score: 65
Period size: 10 Copynumber: 5.2 Consensus size: 10
2919618 TCTTTTTATC
2919628 TTTTCATTTT
1 TTTTCATTTT
**
2919638 TTTCTTTTCTTT
1 TTT-TCAT-TTT
2919650 TTTTCATTTT
1 TTTTCATTTT
2919660 TTTTCATTTT
1 TTTTCATTTT
2919670 TTTTCATCTTT
1 TTTTCAT-TTT
2919681 TT
1 TT
2919683 ATTTGTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
10 23 0.61
11 9 0.24
12 6 0.16
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:2919672 original size:22 final size:22
Alignment explanation
Indices: 2919628--2919673 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2919618 TCTTTTTATC
*
2919628 TTTTCATTTTTTTCTTTTCTTT
1 TTTTCATTTTTTTCATTTCTTT
2919650 TTTTCATTTTTTTTCATTT-TTT
1 TTTTCA-TTTTTTTCATTTCTTT
2919672 TT
1 TT
2919674 CATCTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTCATTTTTTTCATTTCTTT
Found at i:2933245 original size:24 final size:24
Alignment explanation
Indices: 2933218--2933266 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
2933208 GAAGTATGGA
2933218 CATCGTACCCTCTCTTATGTCCCC
1 CATCGTACCCTCTCTTATGTCCCC
2933242 CATCGTACCCTCTCTTATGTCCCC
1 CATCGTACCCTCTCTTATGTCCCC
2933266 C
1 C
2933267 CATGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.47, G:0.08, T:0.33
Consensus pattern (24 bp):
CATCGTACCCTCTCTTATGTCCCC
Found at i:2933925 original size:18 final size:17
Alignment explanation
Indices: 2933867--2933928 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
2933857 GGTACTTTAA
2933867 ATTGAATT-TTTAATA-
1 ATTGAATTATTTAATAT
*
2933882 ATTGAATTATTTTAT-T
1 ATTGAATTATTTAATAT
2933898 ATAT-ATATATATTTAATAT
1 AT-TGA-AT-TATTTAATAT
2933917 ATTGAATATATT
1 ATTGAAT-TATT
2933929 AGTATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
15 8 0.21
16 8 0.21
17 3 0.08
18 15 0.39
19 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
ATTGAATTATTTAATAT
Found at i:2933975 original size:39 final size:40
Alignment explanation
Indices: 2933874--2933977 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 40
2933864 TAAATTGAAT
*
2933874 TTTTAATAATTGAATTATTTTATTATATATATATATTTAATA
1 TTTTAATAATTTAA-TATTTT-TTATATATATATATTTAATA
* * * *
2933916 TATTGAAT-ATATTAGTATTTTTTATGT-T-TATATTTTATA
1 T-TTTAATAAT-TTAATATTTTTTATATATATATATTTAATA
*
2933955 TTTTAATAATTTAATAATTTTTA
1 TTTTAATAATTTAATATTTTTTA
2933978 AAAAATTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
38 16 0.31
39 13 0.25
40 1 0.02
41 5 0.10
42 9 0.18
43 7 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (40 bp):
TTTTAATAATTTAATATTTTTTATATATATATATTTAATA
Found at i:2934278 original size:2 final size:2
Alignment explanation
Indices: 2934271--2934303 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2934261 CGATAAAAAC
2934271 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2934304 TTAAGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2935441 original size:22 final size:22
Alignment explanation
Indices: 2935416--2935459 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2935406 GTGGTCAAAA
2935416 CAGAAACTAAATAATTAATGGG
1 CAGAAACTAAATAATTAATGGG
2935438 CAGAAACTAAATAATTAATGGG
1 CAGAAACTAAATAATTAATGGG
2935460 TGACTGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (22 bp):
CAGAAACTAAATAATTAATGGG
Found at i:2938671 original size:24 final size:24
Alignment explanation
Indices: 2938639--2938704 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
2938629 ACTGATCTGC
* * *
2938639 TACTTGACCTGGATTTTTATATGA
1 TACTTGACCTGAATTATGATATGA
*
2938663 TACTTGACCTGAATTATGATATGC
1 TACTTGACCTGAATTATGATATGA
* *
2938687 TACTTGATCTAAATTATG
1 TACTTGACCTGAATTATG
2938705 TTTTGATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (24 bp):
TACTTGACCTGAATTATGATATGA
Found at i:2939445 original size:2 final size:2
Alignment explanation
Indices: 2939438--2939498 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
2939428 TAAATAATAC
2939438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2939480 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
2939499 GACATTTTGT
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:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2955089 original size:22 final size:21
Alignment explanation
Indices: 2955047--2955086 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2955037 GAGTTTATTT
*
2955047 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2955068 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2955087 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2957913 original size:21 final size:20
Alignment explanation
Indices: 2957883--2957924 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2957873 GTAAACTATC
* *
2957883 ATATGATATTCAAAATATAT
1 ATATGATATTAAAAACATAT
2957903 ATATGCATATTAAAAACATAT
1 ATATG-ATATTAAAAACATAT
2957924 A
1 A
2957925 CTCAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATGATATTAAAAACATAT
Found at i:2958436 original size:26 final size:25
Alignment explanation
Indices: 2958407--2958462 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
2958397 ACCGTAGTGC
*
2958407 TACACATAAGGTTGTGCCCACCATAA
1 TACACATAAGGTCGTGCCCACCAT-A
* *
2958433 TACACATGAGGTCGTGCCCATCATA
1 TACACATAAGGTCGTGCCCACCATA
2958458 TACAC
1 TACAC
2958463 TTAGTGTCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (25 bp):
TACACATAAGGTCGTGCCCACCATA
Found at i:2975894 original size:20 final size:21
Alignment explanation
Indices: 2975861--2975910 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2975851 TTATCTCAAG
2975861 TAAAAC-TATCATATG-ATAT
1 TAAAACATATCATATGTATAT
2975880 TCAAAACATAT-ATATGTATAT
1 T-AAAACATATCATATGTATAT
2975901 TAAATACATA
1 TAAA-ACATA
2975911 AACACAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 13 0.48
21 13 0.48
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (21 bp):
TAAAACATATCATATGTATAT
Found at i:2976430 original size:26 final size:26
Alignment explanation
Indices: 2976401--2976451 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2976391 ACTGTAGTGC
*
2976401 TACACATAAGGACGTGCCCAACATAA
1 TACACATAAGGACATGCCCAACATAA
* *
2976427 TACACATAAGGTCATGCCCACCATA
1 TACACATAAGGACATGCCCAACATA
2976452 TTCACTTGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.18
Consensus pattern (26 bp):
TACACATAAGGACATGCCCAACATAA
Found at i:2978578 original size:29 final size:32
Alignment explanation
Indices: 2978493--2978579 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 32
2978483 GCCAATTTGT
*
2978493 AACTTTT-TAAAA-TTATCATTTTGGTC-CCTA
1 AACTTTTCAAAAATTTAT-ATTTTGGTCACCTA
* * *
2978523 AACTTTTCCAAAGTTTATAATTTGGTCACC-A
1 AACTTTTCAAAAATTTATATTTTGGTCACCTA
2978554 AAC-TTT-AAAAATTTATATTTTGGTCA
1 AACTTTTCAAAAATTTATATTTTGGTCA
2978580 TTCACTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 17 0.35
30 10 0.21
31 15 0.31
32 6 0.12
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (32 bp):
AACTTTTCAAAAATTTATATTTTGGTCACCTA
Found at i:2978823 original size:30 final size:30
Alignment explanation
Indices: 2978789--2978864 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 30
2978779 AAGATAAAGA
2978789 TAAGAATA-AATAATATTTAATAATTTAAGC
1 TAAGAATATAAT-ATATTTAATAATTTAAGC
**
2978819 TAAGAATATAATATATTTAATAATTTAAAT
1 TAAGAATATAATATATTTAATAATTTAAGC
*
2978849 TAATAATATAATATAT
1 TAAGAATATAATATAT
2978865 GTAAAAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 39 0.93
31 3 0.07
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (30 bp):
TAAGAATATAATATATTTAATAATTTAAGC
Found at i:2978904 original size:31 final size:31
Alignment explanation
Indices: 2978849--2978931 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
2978839 TAATTTAAAT
* * *
2978849 TAATAATATAATATA-TGTAAAAAGTTAAGA
1 TAATAATAAAATATAGTTTTAAAAGTTAAGA
*
2978879 TACA-AATGAAATATAGTTTTAAAAGTTAAGA
1 TA-ATAATAAAATATAGTTTTAAAAGTTAAGA
*
2978910 TAATAATAAAATATATTTTTAA
1 TAATAATAAAATATAGTTTTAA
2978932 GTTATGTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
30 12 0.27
31 32 0.73
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.36
Consensus pattern (31 bp):
TAATAATAAAATATAGTTTTAAAAGTTAAGA
Found at i:2978982 original size:25 final size:27
Alignment explanation
Indices: 2978905--2979007 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 27
2978895 TTTTAAAAGT
* *
2978905 TAAGATAATAATAAAATATATTTTTAAGT
1 TAAGATAAGAATAAAATATA-TTTTAA-C
* ** *
2978934 TATG-TTGGAATAAAATATAGTTT-AC
1 TAAGATAAGAATAAAATATATTTTAAC
* *
2978959 -AAGCTAAGATTAAAATATATTTTAAC
1 TAAGATAAGAATAAAATATATTTTAAC
2978985 TAAGATAAGAATAAAATATATTT
1 TAAGATAAGAATAAAATATATTT
2979008 ACTATGTTAA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
24 2 0.03
25 15 0.26
26 3 0.05
27 23 0.40
28 12 0.21
29 3 0.05
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (27 bp):
TAAGATAAGAATAAAATATATTTTAAC
Found at i:2979011 original size:25 final size:26
Alignment explanation
Indices: 2978941--2979020 Score: 92
Period size: 25 Copynumber: 3.1 Consensus size: 26
2978931 AGTTATGTTG
*
2978941 GAATAAAATATAGTTTAC-AAGCTAA
1 GAATAAAATATAGTTTACTAAGATAA
* *
2978966 GATTAAAATATATTTTAACTAAGATAA
1 GAATAAAATATAGTTT-ACTAAGATAA
* *
2978993 GAATAAAATATA-TTTACTATGTTAA
1 GAATAAAATATAGTTTACTAAGATAA
2979018 GAA
1 GAA
2979021 AAATAAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 25 0.53
26 5 0.11
27 17 0.36
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (26 bp):
GAATAAAATATAGTTTACTAAGATAA
Found at i:2982399 original size:33 final size:31
Alignment explanation
Indices: 2982348--2982416 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 31
2982338 TTTGTAATCT
*
2982348 TAAAATGTCGAATATAATATATAAGTATAATAA
1 TAAAATGTCGAATATAATACAT--GTATAATAA
*
2982381 TAAAATGTTC-AATGTAATACATGTATAATAA
1 TAAAATG-TCGAATATAATACATGTATAATAA
2982412 TAAAA
1 TAAAA
2982417 ATGATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 14 0.42
33 17 0.52
34 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (31 bp):
TAAAATGTCGAATATAATACATGTATAATAA
Found at i:2982467 original size:16 final size:15
Alignment explanation
Indices: 2982440--2982471 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
2982430 TACCAAAAAA
2982440 ATTTAATATATATAG
1 ATTTAATATATATAG
2982455 ATTTAATTATATATAG
1 ATTTAA-TATATATAG
2982471 A
1 A
2982472 CTTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTTAATATATATAG
Found at i:2983336 original size:26 final size:26
Alignment explanation
Indices: 2983285--2983336 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2983275 ATTTCCCATG
*
2983285 TTAAATTAAGAATAAAATATTTATTT
1 TTAAATTAAGAATAAAATATTAATTT
*
2983311 TTAAATTAA-AATGAAATATATAATTT
1 TTAAATTAAGAATAAAATAT-TAATTT
2983337 GAAGTTACGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
TTAAATTAAGAATAAAATATTAATTT
Found at i:2983542 original size:30 final size:30
Alignment explanation
Indices: 2983240--2983544 Score: 200
Period size: 30 Copynumber: 10.3 Consensus size: 30
2983230 ATAAAGATAA
*
2983240 AAAATAT-TTTTATAA-TTAAGATAAAAAT
1 AAAATATATTTTATAAGTTAAGATAAGAAT
*** *
2983268 AAAATATATTTCCCATGTTAA-ATTAAGAAT
1 AAAATATATTTTATAAGTTAAGA-TAAGAAT
* *
2983298 AAAATATTTATTTT-TAAATTAA-A-ATG-A-
1 AAAATA--TATTTTATAAGTTAAGATAAGAAT
* * * *
2983325 AATATATAATTT-GAAGTTACGATAAGAAT
1 AAAATATATTTTATAAGTTAAGATAAGAAT
* * **
2983354 -AAATAATATTTCATAATTTAAGGCAAGAAT
1 AAAAT-ATATTTTATAAGTTAAGATAAGAAT
* * *
2983384 ATAATATATTTAATAATTTAA-ATTAAGAAT
1 AAAATATATTTTATAAGTTAAGA-TAAGAAT
* * * * *
2983414 ATAATATATGTAAAAAGTTAAGATAAAAAT
1 AAAATATATTTTATAAGTTAAGATAAGAAT
* *
2983444 AAAATATATTTTTAAAAGTTAAGATAATAAT
1 AAAATATA-TTTTATAAGTTAAGATAAGAAT
* * * *
2983475 AAAATATTTTTTTTAAGTTAAGGTAGGAAT
1 AAAATATATTTTATAAGTTAAGATAAGAAT
* *
2983505 AAAATATATTTTATAAGCTAAGATAAGATT
1 AAAATATATTTTATAAGTTAAGATAAGAAT
2983535 AAAATATATT
1 AAAATATATT
2983545 AAGATTAAAA
Statistics
Matches: 214, Mismatches: 48, Indels: 28
0.74 0.17 0.10
Matches are distributed among these distances:
25 10 0.05
26 1 0.00
27 7 0.03
28 12 0.06
29 12 0.06
30 131 0.61
31 36 0.17
32 5 0.02
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAATATATTTTATAAGTTAAGATAAGAAT
Found at i:2983549 original size:16 final size:16
Alignment explanation
Indices: 2983528--2983560 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2983518 TAAGCTAAGA
2983528 TAAGATTAAAATATAT
1 TAAGATTAAAATATAT
2983544 TAAGATTAAAATATAT
1 TAAGATTAAAATATAT
2983560 T
1 T
2983561 TTTAACTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAGATTAAAATATAT
Found at i:2983576 original size:28 final size:29
Alignment explanation
Indices: 2983544--2983627 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 29
2983534 TAAAATATAT
*
2983544 TAAGATTAAAATATA-TTTTTAACTAAGA
1 TAAGAATAAAATATATTTTTTAACTAAGA
*
2983572 TAAGAATAAAATATATTTTTTTAACTAAGT
1 TAAGAATAAAATATA-TTTTTTAACTAAGA
*
2983602 TAAGGAAAAATAAATATATTTTTTAA
1 TAA-G-AATA-AAATATATTTTTTAA
2983628 TATTAAGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 14 0.29
30 15 0.31
31 1 0.02
32 11 0.23
33 7 0.15
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (29 bp):
TAAGAATAAAATATATTTTTTAACTAAGA
Found at i:2984451 original size:19 final size:19
Alignment explanation
Indices: 2984427--2984464 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2984417 AATCACGTTA
2984427 AAGAAAATGTGTTTGGTTG
1 AAGAAAATGTGTTTGGTTG
2984446 AAGAAAATGTGTTTGGTTG
1 AAGAAAATGTGTTTGGTTG
2984465 TAAATTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.37
Consensus pattern (19 bp):
AAGAAAATGTGTTTGGTTG
Found at i:2984798 original size:31 final size:31
Alignment explanation
Indices: 2984751--2984824 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
2984741 AATTTAAAAT
*
2984751 TTTTTTAT-TTTATATATTGAATATATTAATAA
1 TTTTTTATATTTATAT-CTGAA-ATATTAATAA
* *
2984783 TTTTTTATATTTATATCTTAAATTTTAATAA
1 TTTTTTATATTTATATCTGAAATATTAATAA
*
2984814 TTTCTTA-ATTT
1 TTTTTTATATTT
2984825 TCAAAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.11
31 15 0.41
32 11 0.30
33 7 0.19
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (31 bp):
TTTTTTATATTTATATCTGAAATATTAATAA
Found at i:2986619 original size:16 final size:16
Alignment explanation
Indices: 2986598--2986628 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2986588 TCGGCATAAG
2986598 ACTTTCACTTTCTCTA
1 ACTTTCACTTTCTCTA
2986614 ACTTTCACTTTCTCT
1 ACTTTCACTTTCTCT
2986629 TCCATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (16 bp):
ACTTTCACTTTCTCTA
Found at i:2989676 original size:95 final size:94
Alignment explanation
Indices: 2989510--2989711 Score: 314
Period size: 95 Copynumber: 2.1 Consensus size: 94
2989500 TCGAATAGGC
* *
2989510 AGTATCGATACCATGGTAAGGTATCGATACCAAGCAACATCGAATCTAATATTGGTATCGATACC
1 AGTATCGATACCATGATAAGGTATCGATACCAAGCAACATCGAACCTAATATTGGTATCGATACC
*
2989575 GGAAGGGGGTATTGGTACCATAGTATGGT
66 GGAAGGGGGTATCGGTACCATAGTATGGT
* *
2989604 AGTATTGATACCATGATAAGGGTATCGATACCAGGCAACATCGAACCTAATATTGGTATCGATAC
1 AGTATCGATACCATGATAA-GGTATCGATACCAAGCAACATCGAACCTAATATTGGTATCGATAC
* * *
2989669 CGTAAGGGGGTATCGGTACCATAGTATAGA
65 CGGAAGGGGGTATCGGTACCATAGTATGGT
*
2989699 AGTATCGGTACCA
1 AGTATCGATACCA
2989712 GGGTAGTAGT
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 17 0.18
95 80 0.82
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (94 bp):
AGTATCGATACCATGATAAGGTATCGATACCAAGCAACATCGAACCTAATATTGGTATCGATACC
GGAAGGGGGTATCGGTACCATAGTATGGT
Found at i:2990245 original size:79 final size:79
Alignment explanation
Indices: 2990114--2990356 Score: 339
Period size: 79 Copynumber: 3.1 Consensus size: 79
2990104 AACAAATGAT
* * *
2990114 TAAAACAATAATGCATATGGGT-ACATTATTGGCATGAAATGATGCCTTAGCTGAAATACATATG
1 TAAAAGAATAATGCATATGGGTGA-ATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATG
2990178 GGCT-CATTATCGAG-A
65 GG-TGCATTATCG-GCA
2990193 TAAAAGAATAATGCATATGGGTGAATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGG
1 TAAAAGAATAATGCATATGGGTGAATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGG
*
2990258 GTGTATTATCGGCA
66 GTGCATTATCGGCA
* ** * *
2990272 TAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGATGAAATGCATATGA
1 TAAAAGAATAATGCATATGGGTGAATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGG
**
2990337 GTGCATTATCAACA
66 GTGCATTATCGGCA
2990351 TAAAAG
1 TAAAAG
2990357 TATACTATAG
Statistics
Matches: 149, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
78 2 0.01
79 146 0.98
80 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTGAATTATTGGCATGAAAGGATGCCTTAGCTGAAATGCATATGG
GTGCATTATCGGCA
Found at i:2990266 original size:45 final size:43
Alignment explanation
Indices: 2990202--2990345 Score: 144
Period size: 45 Copynumber: 3.5 Consensus size: 43
2990192 ATAAAAGAAT
* *
2990202 AATGCATATGGGTGAATTATTGGCATGAAAGGATGCCTTAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCC--AGATGA
* *
2990247 AATGCATATGGGTGTATTATCGGCAT-AAA--A-G--A-AT--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGATGA
2990281 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAGATGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCC--AGATGA
*
2990326 AATGCATATGAGTGCATTAT
1 AATGCATATGGGTGCATTAT
2990346 CAACATAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
34 24 0.29
35 3 0.04
36 1 0.01
37 2 0.02
38 1 0.01
41 1 0.01
42 2 0.02
43 2 0.02
44 3 0.04
45 43 0.52
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.28
Consensus pattern (43 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAGATGA
Found at i:2990290 original size:34 final size:34
Alignment explanation
Indices: 2990247--2990311 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
2990237 CCTTAGCTGA
*
2990247 AATGCATATGGGTGTATTATCGGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCGGCATAAAAGAAT
* *
2990281 AATGCATATGGGTGCATTATTGGCATGAAAG
1 AATGCATATGGGTGCATTATCGGCATAAAAG
2990312 GATGCCAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGGCATAAAAGAAT
Found at i:2992364 original size:2 final size:2
Alignment explanation
Indices: 2992359--2992395 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
2992349 AGAGAATAGC
*
2992359 GA GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2992396 TTTGCAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (2 bp):
GA
Found at i:2993494 original size:4 final size:4
Alignment explanation
Indices: 2993485--2993509 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2993475 TGGGCCTATA
2993485 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
2993510 TTAGTAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2994083 original size:23 final size:22
Alignment explanation
Indices: 2994057--2994121 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 22
2994047 ATTTATTTTG
2994057 ATTATCTTTTGTGATTTTTAGGA
1 ATTATCTTTTGT-ATTTTTAGGA
**
2994080 ATTATCTTTTCAATTTATTAGGA
1 ATTATCTTTTGTATTT-TTAGGA
*
2994103 GTTATCTTTTAGTATTTTT
1 ATTATCTTTT-GTATTTTT
2994122 TAGGGTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 27 0.77
24 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.58
Consensus pattern (22 bp):
ATTATCTTTTGTATTTTTAGGA
Found at i:2994125 original size:47 final size:46
Alignment explanation
Indices: 2994030--2994121 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
2994020 ATCAATTAAG
* **
2994030 GGAATTATCTTTTTTTAATTTATTTTGATTATCTTTTGTGATTTTTA
1 GGAATTATC-TTTTTCAATTTATTAGGATTATCTTTTGTGATTTTTA
2994077 GGAATTATC-TTTTCAATTTATTAGGAGTTATCTTTTAGT-ATTTTT
1 GGAATTATCTTTTTCAATTTATTAGGA-TTATCTTTT-GTGATTTTT
2994122 TAGGGTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
45 14 0.35
46 15 0.38
47 11 0.28
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (46 bp):
GGAATTATCTTTTTCAATTTATTAGGATTATCTTTTGTGATTTTTA
Found at i:2997583 original size:21 final size:21
Alignment explanation
Indices: 2997557--2997596 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2997547 GAGAAATTGT
2997557 TTTTAAAATAT-AAAAATGATG
1 TTTTAAAAT-TGAAAAATGATG
2997578 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
2997597 AAATAAGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATG
Found at i:2997935 original size:25 final size:25
Alignment explanation
Indices: 2997901--2997952 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2997891 GGTTCCTAAA
2997901 GATATCTAAGGGGACTAGAATTTTG
1 GATATCTAAGGGGACTAGAATTTTG
2997926 GATATCTAAGGGGACTAGAATTTTG
1 GATATCTAAGGGGACTAGAATTTTG
2997951 GA
1 GA
2997953 AACTAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (25 bp):
GATATCTAAGGGGACTAGAATTTTG
Found at i:3001436 original size:23 final size:20
Alignment explanation
Indices: 3001389--3001448 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
3001379 TTTTGGTGCA
3001389 GAGGGAATCGATT-CCCCAT
1 GAGGGAATCGATTCCCCCAT
*
3001408 GAGGGAATCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCC-AT
*
3001429 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAATCGATTCCCCC
3001449 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.37
20 4 0.11
21 2 0.06
22 1 0.03
23 15 0.43
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (20 bp):
GAGGGAATCGATTCCCCCAT
Found at i:3001457 original size:21 final size:21
Alignment explanation
Indices: 3001431--3001470 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3001421 CCCCCTTTGA
*
3001431 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
3001452 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
3001471 TGGGGTACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3007913 original size:3 final size:3
Alignment explanation
Indices: 3007905--3007941 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3007895 TTAATTCGAG
3007905 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3007942 ATATTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3010833 original size:3 final size:3
Alignment explanation
Indices: 3010825--3010932 Score: 209
Period size: 3 Copynumber: 36.3 Consensus size: 3
3010815 TTAATCTGAG
3010825 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3010872 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3010920 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
3010933 ATATTATTAT
Statistics
Matches: 104, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 102 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3011183 original size:23 final size:23
Alignment explanation
Indices: 3011157--3011209 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
3011147 CACAATAGTA
3011157 AGCACAACAGTAGTGATCAGTCG
1 AGCACAACAGTAGTGATCAGTCG
*
3011180 AGCACAACTGTAGTGATCAGTCG
1 AGCACAACAGTAGTGATCAGTCG
*
3011203 AACACAA
1 AGCACAA
3011210 TCTTGCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (23 bp):
AGCACAACAGTAGTGATCAGTCG
Found at i:3016344 original size:19 final size:19
Alignment explanation
Indices: 3016320--3016358 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
3016310 ATCAAAATCG
*
3016320 CTAACCCCTAATTTCCTCC
1 CTAACCCCCAATTTCCTCC
3016339 CTAACCCCCAATTTCCTCC
1 CTAACCCCCAATTTCCTCC
3016358 C
1 C
3016359 CACCGACCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.28
Consensus pattern (19 bp):
CTAACCCCCAATTTCCTCC
Found at i:3020924 original size:51 final size:52
Alignment explanation
Indices: 3020807--3021040 Score: 225
Period size: 51 Copynumber: 4.7 Consensus size: 52
3020797 TATTTTTATT
* * * * *
3020807 GGTGTAAGTATATGTTAAGTGCTT-TATTTTTTTTATTTTATTTACTTATACC
1 GGTGTAAGTATGTGTTAAGTG-TTACACTTTTTTTATTTTATTCACTTACACC
* * *
3020859 -GT-T--GTATGTATTAAGTGGTACACTTTTTTTATTTTATTTACTTACACC
1 GGTGTAAGTATGTGTTAAGTGTTACACTTTTTTTATTTTATTCACTTACACC
* * * *
3020907 GATGT-AGTATGTGTTAAGTGTTACAC-TTTTTTGTTTTATTCACTTATACT
1 GGTGTAAGTATGTGTTAAGTGTTACACTTTTTTTATTTTATTCACTTACACC
* * * * *
3020957 GGTGTAAATACGTGTTAAGTGCTACAC-TTGTTTATTTTATTCACTTACATC
1 GGTGTAAGTATGTGTTAAGTGTTACACTTTTTTTATTTTATTCACTTACACC
* *
3021008 GGTATAATTATGTGTTAAGTGTTACA-TTTTTTT
1 GGTGTAAGTATGTGTTAAGTGTTACACTTTTTTT
3021041 GTAGTATAAA
Statistics
Matches: 149, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 37 0.25
49 1 0.01
50 26 0.17
51 84 0.56
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (52 bp):
GGTGTAAGTATGTGTTAAGTGTTACACTTTTTTTATTTTATTCACTTACACC
Found at i:3022634 original size:2 final size:2
Alignment explanation
Indices: 3022627--3022724 Score: 196
Period size: 2 Copynumber: 49.0 Consensus size: 2
3022617 TTGAGTGATG
3022627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3022669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3022711 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
3022725 CATGTGTGCT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 96 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3022971 original size:10 final size:10
Alignment explanation
Indices: 3022956--3022992 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
3022946 ATTTAAATTG
3022956 ATTAAAAATA
1 ATTAAAAATA
3022966 ATTAAAAATA
1 ATTAAAAATA
3022976 ATT-AAAATA
1 ATTAAAAATA
3022985 ATTAAAAA
1 ATTAAAAA
3022993 ACGAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATTAAAAATA
Found at i:3022972 original size:9 final size:9
Alignment explanation
Indices: 3022960--3022991 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
3022950 AAATTGATTA
3022960 AAAATAATT
1 AAAATAATT
3022969 AAAAATAATT
1 -AAAATAATT
3022979 AAAATAATT
1 AAAATAATT
3022988 AAAA
1 AAAA
3022992 AACGAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATAATT
Found at i:3023381 original size:20 final size:20
Alignment explanation
Indices: 3023358--3023398 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3023348 TTTAAATTAG
*
3023358 GGTTTA-GGTGTTAAGGTTTA
1 GGTTTAGGGT-TTAAGATTTA
3023378 GGTTTAGGGTTTAAGATTTA
1 GGTTTAGGGTTTAAGATTTA
3023398 G
1 G
3023399 AATTTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (20 bp):
GGTTTAGGGTTTAAGATTTA
Found at i:3023398 original size:14 final size:13
Alignment explanation
Indices: 3023354--3023390 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
3023344 GGATTTTAAA
3023354 TTAGGGTTTAGGT
1 TTAGGGTTTAGGT
*
3023367 GTTAAGGTTTAGGT
1 -TTAGGGTTTAGGT
3023381 TTAGGGTTTA
1 TTAGGGTTTA
3023391 AGATTTAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (13 bp):
TTAGGGTTTAGGT
Found at i:3026651 original size:36 final size:36
Alignment explanation
Indices: 3026610--3026682 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
3026600 ATTAGAATTG
3026610 TACTTTTGATTTTTGGCATGCTTAATGTTAAAAATA
1 TACTTTTGATTTTTGGCATGCTTAATGTTAAAAATA
3026646 TACTTTTGATTTTTGGCATGCTTAATGTTAAAAATA
1 TACTTTTGATTTTTGGCATGCTTAATGTTAAAAATA
3026682 T
1 T
3026683 TATAGTCGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (36 bp):
TACTTTTGATTTTTGGCATGCTTAATGTTAAAAATA
Found at i:3032455 original size:43 final size:44
Alignment explanation
Indices: 3032350--3032469 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 44
3032340 ATTGTTGGAG
* * * * * * *
3032350 CAAGAAGTGATAAATGTTGGGGCACTTTTGAACGCTCGTATCAT
1 CAAGAAGTAATAAATGTTGGGACACTTTTAAAGGCCCGTAACAA
*
3032394 CTAGAAGTAATAAATGTTGGGACA-TTTTAAAGGCCCGTAACAA
1 CAAGAAGTAATAAATGTTGGGACACTTTTAAAGGCCCGTAACAA
* *
3032437 CAAGAAATAATAAATGTTGGGACATTTTTAAAG
1 CAAGAAGTAATAAATGTTGGGACACTTTTAAAG
3032470 ACCCATATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 36 0.55
44 29 0.45
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (44 bp):
CAAGAAGTAATAAATGTTGGGACACTTTTAAAGGCCCGTAACAA
Found at i:3033441 original size:35 final size:35
Alignment explanation
Indices: 3033402--3033482 Score: 153
Period size: 35 Copynumber: 2.3 Consensus size: 35
3033392 AAACATGCAT
3033402 TATACATGATACATGATTTGTGTCATTGCATCGTA
1 TATACATGATACATGATTTGTGTCATTGCATCGTA
3033437 TATACATGATACATGATTTGTGTCATTGCATCGTA
1 TATACATGATACATGATTTGTGTCATTGCATCGTA
*
3033472 CATACATGATA
1 TATACATGATA
3033483 AATTTTGATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (35 bp):
TATACATGATACATGATTTGTGTCATTGCATCGTA
Found at i:3033786 original size:56 final size:56
Alignment explanation
Indices: 3033708--3034287 Score: 419
Period size: 56 Copynumber: 9.7 Consensus size: 56
3033698 GAAGAGAAAC
* * *
3033708 CAATCATTGACTTCCTCATGAAGAGAACTCAATCTTTGTTATTCCTAAAGAGGAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGT
* * * *
3033764 CAATCCTTGGCTTCCTCTTGAAG-GCAAGTTAATTTTTGTTATTCCTGACTCCCTCGTAAAGAGG
1 CAATCCTTGACTTCCTCGTGAAGAG-AAGTCAATCTTTGTTA----T---T--C-C-TAAAGAGG
**
3033828 AAC
54 AGT
* *
3033831 CAATCCTTGACTTTCTCGTGAAGAGAAGTCGATCTTTGTTATTCCTAAAGAGGAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGT
* **
3033887 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT-TTTTTCCTGACTTGTAAAGAGGAAC
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT-C---C---TAAAGAGGAGT
* * * *
3033949 CAATCCTTGACTTCCTCGTGAAGAGAAGTTAATCTTTATAATTCCTAAAGATGAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGT
* * * * *
3034005 CAATCATTGACTTCCTTGTGAAGAAAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGTGGA
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTA----T---T--C-C-TAAAGAGGA
**
3034070 AC
55 GT
* * *
3034072 CAATCTTTGAATTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCATAAAGAGGAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGT
* * *
3034128 CAATCCATGACTTCCTCATGAAGAGAGGTCAATCTTTGTTATTCCTGACTCCCTCATGAAGAGGA
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTA----T---T-CCT-A--AAGAGGA
**
3034193 AC
55 GT
* *
3034195 CAATCCTTAACTTCCTCGTGAAGAGAATTCAATCTTT-TCTATTCCTAAAGAGGAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGT-TATTCCTAAAGAGGAGT
* * *
3034251 CAATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
3034288 CAGTGTTTCC
Statistics
Matches: 413, Mismatches: 67, Indels: 88
0.73 0.12 0.15
Matches are distributed among these distances:
55 5 0.01
56 203 0.49
57 1 0.00
58 3 0.01
59 5 0.01
60 6 0.01
62 46 0.11
63 9 0.02
64 2 0.00
65 3 0.01
66 3 0.01
67 126 0.31
68 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (56 bp):
CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGT
Found at i:3033870 original size:123 final size:123
Alignment explanation
Indices: 3033646--3034287 Score: 884
Period size: 123 Copynumber: 5.3 Consensus size: 123
3033636 GAAGCTTCAA
* * * *
3033646 CTTGACTTCCTCGTGAAAAGAAGTCAATATTTGTTATTCCTGACTCCCTTGTGAAGAGAAACCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAA
* * *
3033711 TCATTGACTTCCTCATGAAGAGAACTCAATCTTTGTTATTCCTAAAGAGGAGTCAATC
66 TCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGTCAATC
* * * * *
3033769 CTTGGCTTCCTCTTGAAG-GCAAGTTAATTTTTGTTATTCCTGACTCCCTCGTAAAGAGGAACCA
1 CTTGACTTCCTCGTGAAGAG-AAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCA
* *
3033833 ATCCTTGACTTTCTCGTGAAGAGAAGTCGATCTTTGTTATTCCTAAAGAGGAGTCAATC
65 ATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGTCAATC
* *
3033892 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTT-TTTTTCCTGACT---T-GTAAAGAGGAACCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAA
* * * *
3033952 TCCTTGACTTCCTCGTGAAGAGAAGTTAATCTTTATAATTCCTAAAGATGAGTCAATC
66 TCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGTCAATC
* * * * *
3034010 ATTGACTTCCTTGTGAAGAAAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGTGGAACCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAA
* * *
3034075 TCTTTGAATTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCATAAAGAGGAGTCAATC
66 TCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGTCAATC
* * * *
3034133 CATGACTTCCTCATGAAGAGAGGTCAATCTTTGTTATTCCTGACTCCCTCATGAAGAGGAACCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAA
* * *
3034198 TCCTTAACTTCCTCGTGAAGAGAATTCAATCTTT-TCTATTCCTAAAGAGGAGTCAATT
66 TCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGT-TATTCCTAAAGAGGAGTCAATC
* *
3034256 CTTGACTTTCTCGTGAAGAGGAGTCAATCTTT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
3034288 CAGTGTTTCC
Statistics
Matches: 453, Mismatches: 58, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
118 96 0.21
119 11 0.02
122 14 0.03
123 331 0.73
124 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (123 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGTGAAGAGGAACCAA
TCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTAAAGAGGAGTCAATC
Found at i:3033911 original size:29 final size:29
Alignment explanation
Indices: 3033809--3034284 Score: 128
Period size: 29 Copynumber: 15.9 Consensus size: 29
3033799 TTGTTATTCC
* * **
3033809 TGACTCCCTCGTAAAGAGGAACCAATCCT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
* * * *
3033838 TGACTTTCTCGTGAAGAGAAGTCGATCTT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
** * *
3033867 TG--TTATTCCTAAAGAGGAGTCAATCCT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
* *
3033894 TGACTTCCTCGTGAAGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
*** * **
3033923 TTTTTTCCTGACTTGTAAAGAGGAACCAATCCT
1 TGACTTCCT--C--GTGAAGAGGAGTCAATCCT
* * *
3033956 TGACTTCCTCGTGAAGAGAAGTTAATCTT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
* * * * *
3033985 TATAATT-C-C-TAAAGATGAGTCAATCAT
1 T-GACTTCCTCGTGAAGAGGAGTCAATCCT
* **
3034012 TGACTTCCTTGTGAAGAAAAGTCAATCTTTGTTATTCT
1 TGACTTCCTCGTGAAGAGGAGTCAATC---------CT
* * ** *
3034050 TGACTCCCTCGTGAAGTGGAACCAATCTT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
* * *
3034079 TGAATTCCTCGTGAAGAGAAGTCAATCTT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
** * * *
3034108 TG--TTATTCATAAAGAGGAGTCAATCCA
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
* *
3034135 TGACTTCCTCATGAAGA-GAGGTCAATCTT
1 TGACTTCCTCGTGAAGAGGA-GTCAATCCT
* **
3034164 TGTTATTCCTGACTCCCTCATGAAGAGGAACCAATCCT
1 TG--A---CT---T-CCTCGTGAAGAGGAGTCAATCCT
* * *
3034202 TAACTTCCTCGTGAAGAGAATTCAAT-CT
1 TGACTTCCTCGTGAAGAGGAGTCAATCCT
** * * *
3034230 TTTCTAT--TCCTAAAGAGGAGTCAATTCT
1 TGACT-TCCTCGTGAAGAGGAGTCAATCCT
*
3034258 TGACTTTCTCGTGAAGAGGAGTCAATC
1 TGACTTCCTCGTGAAGAGGAGTCAATC
3034285 TTTCAGTGTT
Statistics
Matches: 314, Mismatches: 97, Indels: 72
0.65 0.20 0.15
Matches are distributed among these distances:
26 3 0.01
27 70 0.22
28 13 0.04
29 154 0.49
30 4 0.01
31 3 0.01
33 22 0.07
34 2 0.01
36 1 0.00
37 1 0.00
38 39 0.12
39 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (29 bp):
TGACTTCCTCGTGAAGAGGAGTCAATCCT
Found at i:3034074 original size:241 final size:239
Alignment explanation
Indices: 3033646--3034287 Score: 820
Period size: 241 Copynumber: 2.6 Consensus size: 239
3033636 GAAGCTTCAA
* * *
3033646 CTTGACTTCCTCGTGAAAAGAAGTCAATATTTGTTATTCCTGACTCCCTTGTGAAGAGAAACCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGA----CTTGTGAAGAGGAACCAA
* * * *
3033711 TCATTGACTTCCTCATGAAGAGAACTCAATCTTTGTTATTCCTAAAGAGGAGTCAATCCTTGGCT
62 TCCTTGACTTCCTCGTGAAGAGAA-TTAATCTTT-TTATTCCTAAAGAGGAGTCAAT-CTTGACT
** * *
3033776 TCCTCT-TGAAGGCAAGTTAATTTTTGTTATTCCTGACTCCCTCGTAAAGAGGAACCAATCCTTG
124 TCCT-TGTGAAGAAAAGTCAATCTTTGTTATTCCTGACTCCCTCGTAAAGAGGAACCAATCCTTG
* * * *
3033840 ACTTTCTCGTGAAGAGAAGTCGATCTTTGTTATTCCTAAAGAGGAGTCAATC
188 AATTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCATAAAGAGGAGTCAATC
* *
3033892 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTT-TTTTTCCTGACTTGTAAAGAGGAACCAATCCT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTTGTGAAGAGGAACCAATCCT
* *
3033956 TGACTTCCTCGTGAAGAGAAGTTAATCTTTATAATTCCTAAAGATGAGTCAATCATTGACTTCCT
66 TGACTTCCTCGTGAAGAGAA-TTAATCTTT-TTATTCCTAAAGAGGAGTCAATC-TTGACTTCCT
* * * *
3034021 TGTGAAGAAAAGTCAATCTTTGTTATTCTTGACTCCCTCGTGAAGTGGAACCAATCTTTGAATTC
128 TGTGAAGAAAAGTCAATCTTTGTTATTCCTGACTCCCTCGTAAAGAGGAACCAATCCTTGAATTC
3034086 CTCGTGAAGAGAAGTCAATCTTTGTTATTCATAAAGAGGAGTCAATC
193 CTCGTGAAGAGAAGTCAATCTTTGTTATTCATAAAGAGGAGTCAATC
* * * *
3034133 CATGACTTCCTCATGAAGAGAGGTCAATCTTTGTTATTCCTGACTCCCTCATGAAGAGGAACCAA
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACT---T-GTGAAGAGGAACCAA
*
3034198 TCCTTAACTTCCTCGTGAAGAGAATTCAATCTTTTCTATTCCTAAAGAGGAGTCAATTCTTGACT
62 TCCTTGACTTCCTCGTGAAGAGAATT-AATCTTTT-TATTCCTAAAGAGGAGTCAA-TCTTGACT
* * **
3034263 TTCTCGTGAAGAGGAGTCAATCTTT
124 TCCTTGTGAAGAAAAGTCAATCTTT
3034288 CAGTGTTTCC
Statistics
Matches: 348, Mismatches: 38, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
240 2 0.01
241 202 0.58
242 11 0.03
245 13 0.04
246 118 0.34
247 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (239 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTTGTGAAGAGGAACCAATCCT
TGACTTCCTCGTGAAGAGAATTAATCTTTTTATTCCTAAAGAGGAGTCAATCTTGACTTCCTTGT
GAAGAAAAGTCAATCTTTGTTATTCCTGACTCCCTCGTAAAGAGGAACCAATCCTTGAATTCCTC
GTGAAGAGAAGTCAATCTTTGTTATTCATAAAGAGGAGTCAATC
Found at i:3034227 original size:67 final size:67
Alignment explanation
Indices: 3034114--3034240 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
3034104 TCTTTGTTAT
** * *
3034114 TCATAAAGAGGAGTCAATCCATGACTTCCTCATGAAGAGAGGTCAATCTTTGT-TATTCCTGACT
1 TCATAAAGAGGAACCAATCCATAACTTCCTCATGAAGAGAAGTCAATCTTT-TCTATTCCTGACT
3034178 CCC
65 CCC
* * * *
3034181 TCATGAAGAGGAACCAATCCTTAACTTCCTCGTGAAGAGAATTCAATCTTTTCTATTCCT
1 TCATAAAGAGGAACCAATCCATAACTTCCTCATGAAGAGAAGTCAATCTTTTCTATTCCT
3034241 AAAGAGGAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
66 1 0.02
67 50 0.98
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (67 bp):
TCATAAAGAGGAACCAATCCATAACTTCCTCATGAAGAGAAGTCAATCTTTTCTATTCCTGACTC
CC
Found at i:3034319 original size:45 final size:45
Alignment explanation
Indices: 3034253--3034447 Score: 225
Period size: 45 Copynumber: 4.3 Consensus size: 45
3034243 AGAGGAGTCA
3034253 ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTT-TC
1 ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTTGTC
* * * * * * *
3034297 CTTCTTTGACTTTCTCGCGAAGAGAATTTAATCTTTCAATATTGTC
1 ATTC-TTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTTGTC
* * *
3034343 ATTCTTGACTTTCTCATGAAGTGGAGTCAATCTTTTAGTGTTG-C
1 ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTTGTC
* * *
3034387 ATTTATTGACTTTCTCAG-AAAGAGGAGTCAATCTTTCAGTGTTGTG
1 A-TTCTTGACTTTCTC-GTGAAGAGGAGTCAATCTTTCAGTGTTGTC
3034433 ATTCTTGACTTTCTC
1 ATTCTTGACTTTCTC
3034448 AGAAAGAGAA
Statistics
Matches: 122, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
44 5 0.04
45 111 0.91
46 6 0.05
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTTGTC
Found at i:3034357 original size:90 final size:90
Alignment explanation
Indices: 3034253--3034467 Score: 256
Period size: 90 Copynumber: 2.4 Consensus size: 90
3034243 AGAGGAGTCA
* * * *
3034253 ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTTTCCTTCT-TTGACTTTCTC-GCG
1 ATTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTCAGTGTTGCATT-TATTGACTTTCTCAG-A
* *
3034316 AAGAGAATTTAATCTTTCAATATTGTC
64 AAGAGAAGTCAATCTTTCAATATTGTC
* *
3034343 ATTCTTGACTTTCTCATGAAGTGGAGTCAATCTTTTAGTGTTGCATTTATTGACTTTCTCAGAAA
1 ATTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTCAGTGTTGCATTTATTGACTTTCTCAGAAA
* * * *
3034408 GAGGAGTCAATCTTTCAGTGTTGTG
66 GAGAAGTCAATCTTTCAATATTGTC
* *
3034433 ATTCTTGACTTTCTCA-GAAAGAGAAGTCGATCTTT
1 ATTCTTGACTTTCTCATG-AAGAGGAGTCAATCTTT
3034468 TACTGATGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
89 2 0.02
90 104 0.97
91 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (90 bp):
ATTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTCAGTGTTGCATTTATTGACTTTCTCAGAAA
GAGAAGTCAATCTTTCAATATTGTC
Found at i:3034468 original size:90 final size:89
Alignment explanation
Indices: 3034253--3034514 Score: 249
Period size: 90 Copynumber: 2.8 Consensus size: 89
3034243 AGAGGAGTCA
* * * * *
3034253 ATTCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTCAGTGTTTCCTTCT-TTGACTTTCTC-GCG
1 ATTCTTGACTTTCTC-AGAAGAGGAGTCAATCTTTTAGTGTTGCATT-TATTGACTTTCTCAG-A
* * *
3034316 AAGAGAATTTAATCTTTCAATATTGTC
63 AAGAGGAGTCAATCTTTCAATATTGTC
*
3034343 ATTCTTGACTTTCTCATGAAGTGGAGTCAATCTTTTAGTGTTGCATTTATTGACTTTCTCAGAAA
1 ATTCTTGACTTTCTCA-GAAGAGGAGTCAATCTTTTAGTGTTGCATTTATTGACTTTCTCAGAAA
* * *
3034408 GAGGAGTCAATCTTTCAGTGTTGTG
65 GAGGAGTCAATCTTTCAATATTGTC
* * * *
3034433 ATTCTTGACTTTCTCAGAAAGAGAAGTCGATCTTTTACTGATGTCACTTTTAACTTGACTTTCTC
1 ATTCTTGACTTTCTCAG-AAGAGGAGTCAATCTTTTAGTGTTG-CA--TTT-A-TTGACTTTCTC
*
3034498 ACAAAGAGAGGAGTCAA
60 A-GAA-AGAGGAGTCAA
3034515 CCTAGAACCA
Statistics
Matches: 143, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
89 2 0.01
90 109 0.76
91 3 0.02
93 3 0.02
94 1 0.01
95 12 0.08
96 2 0.01
97 11 0.08
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (89 bp):
ATTCTTGACTTTCTCAGAAGAGGAGTCAATCTTTTAGTGTTGCATTTATTGACTTTCTCAGAAAG
AGGAGTCAATCTTTCAATATTGTC
Found at i:3035082 original size:55 final size:55
Alignment explanation
Indices: 3035022--3035220 Score: 258
Period size: 55 Copynumber: 3.6 Consensus size: 55
3035012 AGATATCTCG
** *
3035022 AGTCTTATCTCCCTAAAAGAATAGTA-GAGTGGACCCGTTTTCCAAAGATTTTTTT
1 AGTCTTATCTCCCTAAAAGAATAG-AGGAGCAGACCCGTTTTCCAAATATTTTTTT
* * *
3035077 AGTCTTATCTCCCTGAAAGAATAGAGGAGCAAACCCGTTTTCCAAATATTTTTCT
1 AGTCTTATCTCCCTAAAAGAATAGAGGAGCAGACCCGTTTTCCAAATATTTTTTT
* * *
3035132 AGTCTTATCTCCCTAAAATAATAGAGGAGCAGACCCGTTTTCCAAATATGTTTTG
1 AGTCTTATCTCCCTAAAAGAATAGAGGAGCAGACCCGTTTTCCAAATATTTTTTT
* * *
3035187 AGTCTTATATCCCTGAAACAATA-ATGGAGCAGAC
1 AGTCTTATCTCCCTAAAAGAATAGA-GGAGCAGAC
3035221 TCTTCTTCCA
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 2 0.02
55 125 0.98
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (55 bp):
AGTCTTATCTCCCTAAAAGAATAGAGGAGCAGACCCGTTTTCCAAATATTTTTTT
Found at i:3035461 original size:82 final size:81
Alignment explanation
Indices: 3035211--3035443 Score: 331
Period size: 82 Copynumber: 2.8 Consensus size: 81
3035201 GAAACAATAA
* * *
3035211 TGGAGCAGACTCTTCTTCCAAAATAGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTTTGAT
1 TGGAGCAGACCCGTCTTCCAAAATAGATCTGACTACCC-AAAAAGAGGAACAAATCAAGTCTGAT
*
3035276 CTCAACTGAAAGAAGAG
65 CTCCACTGAAAGAAGAG
* * *
3035293 TGGAGCAGACCTGTCTTCCAAAATGGATCTGACTACCCAAAAAAGAGGAACAAATCAAGTCAGAT
1 TGGAGCAGACCCGTCTTCCAAAATAGATCTGACTACCC-AAAAAGAGGAACAAATCAAGTCTGAT
*
3035358 CTCCACTGAAAAAAGAG
65 CTCCACTGAAAGAAGAG
* * **
3035375 TGGAGTAGACCCGTCTTCTAAAATAGATCTGACTACCCAAAACAGAGGAACTGATCAAGTCTGAT
1 TGGAGCAGACCCGTCTTCCAAAATAGATCTGACTACCCAAAA-AGAGGAACAAATCAAGTCTGAT
3035440 CTCC
65 CTCC
3035444 CATGAGGATG
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 4 0.03
82 130 0.97
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (81 bp):
TGGAGCAGACCCGTCTTCCAAAATAGATCTGACTACCCAAAAAGAGGAACAAATCAAGTCTGATC
TCCACTGAAAGAAGAG
Found at i:3035473 original size:82 final size:81
Alignment explanation
Indices: 3035211--3035473 Score: 325
Period size: 82 Copynumber: 3.2 Consensus size: 81
3035201 GAAACAATAA
* *
3035211 TGGAGCAGACTCTTCTTCCAAAATAGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTTTGAT
1 TGGAGCAGACTCGTCTTCCAAAATAGATCTGACTACCC-AAAAAGAGGAACAAATCAAGTCTGAT
*
3035276 CTCAACTGAAAGAAGAG
65 CTCCACTGAAAGAAGAG
* *
3035293 TGGAGCAGAC-CTGTCTTCCAAAATGGATCTGACTACCCAAAAAAGAGGAACAAATCAAGTCAGA
1 TGGAGCAGACTC-GTCTTCCAAAATAGATCTGACTACCC-AAAAAGAGGAACAAATCAAGTCTGA
*
3035357 TCTCCACTGAAAAAAGAG
64 TCTCCACTGAAAGAAGAG
* * * **
3035375 TGGAGTAGACCCGTCTTCTAAAATAGATCTGACTACCCAAAACAGAGGAACTGATCAAGTCTGAT
1 TGGAGCAGACTCGTCTTCCAAAATAGATCTGACTACCCAAAA-AGAGGAACAAATCAAGTCTGAT
* *
3035440 CTCC-CATG-AGGATGCAG
65 CTCCAC-TGAAAGAAG-AG
*
3035457 TGGAGCAGACTAGTCTT
1 TGGAGCAGACTCGTCTT
3035474 TTGAAAAGCC
Statistics
Matches: 157, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
81 9 0.06
82 147 0.94
83 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (81 bp):
TGGAGCAGACTCGTCTTCCAAAATAGATCTGACTACCCAAAAAGAGGAACAAATCAAGTCTGATC
TCCACTGAAAGAAGAG
Found at i:3042005 original size:14 final size:14
Alignment explanation
Indices: 3041986--3042022 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
3041976 CTTCTAGAAG
3041986 GTCCAGTCAACAGT
1 GTCCAGTCAACAGT
3042000 GTCCAGTCAACAGT
1 GTCCAGTCAACAGT
3042014 GTCCAGTCA
1 GTCCAGTCA
3042023 GCAATACTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (14 bp):
GTCCAGTCAACAGT
Found at i:3042252 original size:6 final size:6
Alignment explanation
Indices: 3042241--3042266 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3042231 ATAAAATTTA
3042241 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
3042267 GTTTCTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:3043840 original size:14 final size:14
Alignment explanation
Indices: 3043823--3043851 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3043813 TGACCGGTCT
3043823 GACCCGACCCGACC
1 GACCCGACCCGACC
3043837 GACCCGACCCGACC
1 GACCCGACCCGACC
3043851 G
1 G
3043852 TTGACCGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.55, G:0.24, T:0.00
Consensus pattern (14 bp):
GACCCGACCCGACC
Found at i:3057141 original size:20 final size:23
Alignment explanation
Indices: 3057116--3057156 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
3057106 TTAGCCTCCC
3057116 AACTTC-TCC-TATCA-CTTTCA
1 AACTTCTTCCTTATCATCTTTCA
3057136 AACTTCTTCCTTATCATCTTT
1 AACTTCTTCCTTATCATCTTT
3057157 TGATTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 5 0.28
23 4 0.22
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (23 bp):
AACTTCTTCCTTATCATCTTTCA
Found at i:3057349 original size:20 final size:20
Alignment explanation
Indices: 3057324--3057365 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3057314 GACTAAAGAA
3057324 CTACAACCGCCCTACCTCCT
1 CTACAACCGCCCTACCTCCT
*
3057344 CTACAACCGCTCTACCTCCT
1 CTACAACCGCCCTACCTCCT
3057364 CT
1 CT
3057366 CCACCGTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.52, G:0.05, T:0.24
Consensus pattern (20 bp):
CTACAACCGCCCTACCTCCT
Found at i:3081430 original size:23 final size:21
Alignment explanation
Indices: 3081384--3081435 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3081374 CGGTTCAACC
*
3081384 TAAATTTTTTTGATTTTTTAT
1 TAAATATTTTTGATTTTTTAT
3081405 TAAATATTTTTGATATTTTTAT
1 TAAATATTTTTGAT-TTTTTAT
*
3081427 TTAAT-TTTT
1 TAAATATTTT
3081436 AAATAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
TAAATATTTTTGATTTTTTAT
Found at i:3082108 original size:28 final size:28
Alignment explanation
Indices: 3082059--3082139 Score: 130
Period size: 28 Copynumber: 2.9 Consensus size: 28
3082049 TATTTCCTTT
*
3082059 TTATGATAA-GGAGACCC-ACATTTTGTA
1 TTATGATAATGG-CACCCAACATTTTGTA
3082086 TTATGATAATGGCACCCAACATTTTGTA
1 TTATGATAATGGCACCCAACATTTTGTA
3082114 TTATGATAATGGCACCCAACATTTTG
1 TTATGATAATGGCACCCAACATTTTG
3082140 AAACCTTAGT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
27 13 0.25
28 38 0.75
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (28 bp):
TTATGATAATGGCACCCAACATTTTGTA
Found at i:3083432 original size:24 final size:24
Alignment explanation
Indices: 3083402--3083484 Score: 121
Period size: 24 Copynumber: 3.5 Consensus size: 24
3083392 TCCATAAGTC
3083402 GGCGGAGTTCCACCGCCATACGAT
1 GGCGGAGTTCCACCGCCATACGAT
* *
3083426 GGAGGAGTTCCACCGCCGTACGAT
1 GGCGGAGTTCCACCGCCATACGAT
* *
3083450 GGCGGACTTCCACCACCATACGAT
1 GGCGGAGTTCCACCGCCATACGAT
*
3083474 GGCGGATTTCC
1 GGCGGAGTTCC
3083485 GTTTGAAGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.18
Consensus pattern (24 bp):
GGCGGAGTTCCACCGCCATACGAT
Found at i:3086414 original size:76 final size:76
Alignment explanation
Indices: 3086330--3086476 Score: 204
Period size: 76 Copynumber: 1.9 Consensus size: 76
3086320 AATACAACAT
* * * ***
3086330 GTTAACCTAAAATGTTAAGTATGGTAAGAAAATGAGTTATTAGTGGTAAATGTCATGAATATTAT
1 GTTAACCTAAAATGTTAAGAACGGTAAGAAAATGAGTTATAAACAGTAAATGTCATGAATATTAT
3086395 TAACATAAAAA
66 TAACATAAAAA
* * * *
3086406 GTTAACCTAAAATGTTATGAACGGTAATAAAATTAGTTATAAACAGTAAATGTCATGAATTTTAT
1 GTTAACCTAAAATGTTAAGAACGGTAAGAAAATGAGTTATAAACAGTAAATGTCATGAATATTAT
3086471 TAACAT
66 TAACAT
3086477 TTTAGGTTGC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (76 bp):
GTTAACCTAAAATGTTAAGAACGGTAAGAAAATGAGTTATAAACAGTAAATGTCATGAATATTAT
TAACATAAAAA
Found at i:3086960 original size:146 final size:145
Alignment explanation
Indices: 3086738--3087010 Score: 408
Period size: 146 Copynumber: 1.9 Consensus size: 145
3086728 CAAAATAAGT
*
3086738 TAAAAATGTTATGAATATCTATAATAAATTCGGTTGACCCAAGAATGTCATGGTTCACTAAGAAA
1 TAAAAATGTTATGAATATCTATAATAAATTCGGTTGACCCAAGAATATCATGGTTCACTAAGAAA
* * * *
3086803 TTAGGTTGTAATAT-GATATATTAATATTTTTAA-TAATAAAATAGGTTGCGCCTAAAATATTAA
66 CTAGATTGTAATATAGA-ACATTAATA-TTTTAATTAATAAAATAGGTTACGCCTAAAATATTAA
3086866 CAAAATAAGTTAAAAGC
129 CAAAATAAGTTAAAAGC
*
3086883 TAAAAATGTTATGAATATCTATAATAAA-TCTGGTTGCGCCCAAGAATATCATGGTTCACTAAGA
1 TAAAAATGTTATGAATATCTATAATAAATTC-GGTTG-ACCCAAGAATATCATGGTTCACTAAGA
* * *
3086947 AACTAGATTGTAATTTAGAACATTAATATTTTAATTAATAACATAGGTTATGCCTAAAATATTA
64 AACTAGATTGTAATATAGAACATTAATATTTTAATTAATAAAATAGGTTACGCCTAAAATATTA
3087011 CTTTACCTTT
Statistics
Matches: 115, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
144 2 0.02
145 39 0.34
146 72 0.63
147 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (145 bp):
TAAAAATGTTATGAATATCTATAATAAATTCGGTTGACCCAAGAATATCATGGTTCACTAAGAAA
CTAGATTGTAATATAGAACATTAATATTTTAATTAATAAAATAGGTTACGCCTAAAATATTAACA
AAATAAGTTAAAAGC
Found at i:3087125 original size:157 final size:158
Alignment explanation
Indices: 3086864--3087240 Score: 463
Period size: 157 Copynumber: 2.4 Consensus size: 158
3086854 CTAAAATATT
* *
3086864 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCTGGTTGCGCCCAAGAA
1 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCTAGTTGCGCCCAAAAA
** *
3086929 TATCATGGTTCACTAAGAAACTAGATTGTAATTTAGAACATTAATATTTTAATTAA-TAACATAG
66 TATCACAGTTCACTAAGAAACTAGATTGCAATTTAGAACATTAATATTTTAATTAATTAA-ATAG
** *
3086993 GTTATGCCTAAAATATTACTTTACCTTTG
130 GTTACACCTAAAATATTACTTTACCTTTA
* * * * * * *
3087022 AACAAAATAAGTT-AAAGGTAAAATTTTTATTAATATCTAAAATAAATCAAGTTGCGCCTAAAAA
1 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCTAGTTGCGCCCAAAAA
* * * * * * *
3087086 TGTCACAGTTCACTAAGAAATTA-AGTTGCGATTTGGAACATTAATATTTTTATTAATTAAGTGG
66 TATCACAGTTCACTAAGAAACTAGA-TTGCAATTTAGAACATTAATATTTTAATTAATTAAATAG
* *
3087150 GTTACACCTAAAGTATTACTTTAGCTTTA
130 GTTACACCTAAAATATTACTTTACCTTTA
* * * *
3087179 AACAAAATATGTTAAAAGCTAAAAAAGTTATGAATATCTATAACAAATCTAGTTGCGTCCAA
1 AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCTAGTTGCGCCCAA
3087241 GAATGTTATC
Statistics
Matches: 181, Mismatches: 35, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
156 1 0.01
157 126 0.70
158 54 0.30
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (158 bp):
AACAAAATAAGTTAAAAGCTAAAAATGTTATGAATATCTATAATAAATCTAGTTGCGCCCAAAAA
TATCACAGTTCACTAAGAAACTAGATTGCAATTTAGAACATTAATATTTTAATTAATTAAATAGG
TTACACCTAAAATATTACTTTACCTTTA
Found at i:3087397 original size:72 final size:71
Alignment explanation
Indices: 3087323--3087560 Score: 180
Period size: 72 Copynumber: 3.3 Consensus size: 71
3087313 TCAGAATTTT
3087323 AAATATCGATACTTAATATATGATGATCGATACTTTTAAATATTGAAAAAGTT-AAAGATAAGAT
1 AAATATCGATACTT-ATATATGATGATCGATACTTTTAAATATTGAAAAAGTTGAAA-A-AAGAT
3087387 CGAAAGTTA
63 CGAAAGTTA
* * * * * * * * * * *
3087396 AAACATTGATACTTATTTGGTAATGATCGTTACTTCTAAATATTGTAAACGTTGATAAAAGATTG
1 AAATATCGATACTTATAT-ATGATGATCGATACTTTTAAATATTGAAAAAGTTGAAAAAAGATCG
*
3087461 AAATTTA
65 AAAGTTA
* * * * * *
3087468 AAATATCGATACCTATGAGATGATGATTGATACTTTT--ATA--GATAAAGTTGATGAAGATGAT
1 AAATATCGATACTTAT-ATATGATGATCGATACTTTTAAATATTGAAAAAGTTGA--AAAAAGAT
* *
3087529 CGATAGATA
63 CGAAAGTTA
*
3087538 AAATATCGATACATATATTATGA
1 AAATATCGATACTTATA-TATGA
3087561 GGTATGATAC
Statistics
Matches: 125, Mismatches: 34, Indels: 15
0.72 0.20 0.09
Matches are distributed among these distances:
68 8 0.06
69 1 0.01
70 32 0.26
72 41 0.33
73 41 0.33
74 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (71 bp):
AAATATCGATACTTATATATGATGATCGATACTTTTAAATATTGAAAAAGTTGAAAAAAGATCGA
AAGTTA
Found at i:3093605 original size:24 final size:24
Alignment explanation
Indices: 3093578--3093627 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3093568 TACTTGTTTT
3093578 ACTAACTCCAACCTATAATGTTAG
1 ACTAACTCCAACCTATAATGTTAG
3093602 ACTAACTCCAACCTATAATGTTAG
1 ACTAACTCCAACCTATAATGTTAG
3093626 AC
1 AC
3093628 AACCAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (24 bp):
ACTAACTCCAACCTATAATGTTAG
Found at i:3095194 original size:26 final size:26
Alignment explanation
Indices: 3095165--3095218 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
3095155 ATATATATAT
3095165 AATATACTTAAATA-AATATGTTTACA
1 AATATA-TTAAATACAATATGTTTACA
* *
3095191 AATATATTATATACTATATGTTTACA
1 AATATATTAAATACAATATGTTTACA
3095217 AA
1 AA
3095219 GTAAAAGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (26 bp):
AATATATTAAATACAATATGTTTACA
Found at i:3096876 original size:48 final size:47
Alignment explanation
Indices: 3096691--3097297 Score: 654
Period size: 41 Copynumber: 13.6 Consensus size: 47
3096681 TTTCGTTTCT
* *
3096691 TCTGAAGGGAATATC-AATCATGGA-AAAGAGACCTGTTCCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* *
3096736 TCTGAAGGGAATATCAGATC-T-G-G---CAGACTTGTTCCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
*
3096777 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCGCTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
*
3096824 TCTGAAGGGAATATCAGATCTTGGAGAATAGAGACTTGTTCCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAA-AGAGACTTGTTCCACTTAC
* *
3096872 TCTG-AGGGAATATC-AATCTT-GAGAAAGAGACCTGTTCCGCTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* * *
3096916 TCTGAAGGGAATATCAGAT-AT-G-G---CAGACTTGTTCCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* *
3096957 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAA-AGAGACTTGTTCCACTTAC
*
3097005 TCTGAAGGGAATATC-AATC-T-G-G---CAGACTTGTTCCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* *
3097045 TCTGAAGGGAATATC-AATCTTGGAGAAGAGAGACCTGTTCCGCTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAA-AGAGACTTGTTCCACTTAC
* * * * *
3097092 TCTAAAAGGAATATCAGATCTTGGAG-AATAGACTTGTT-CTC-TAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* * * *
3097136 TCTGAGGGGAATATCAAATCTTTGAG-AAGAGACCTGTTCCGCTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* * *
3097182 TCTGAAGGGAATATCAGAT-AT-G-G---CAGACTTGTTCCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
* *
3097223 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTAC
1 TCTGAAGGGAATATCAAATCTTGGAGAA-AGAGACTTGTTCCACTTAC
*
3097271 TCTGAAGGGAATATCAAATCTGGGAGA
1 TCTGAAGGGAATATCAAATCTTGGAGA
3097298 GTTGATCCAT
Statistics
Matches: 474, Mismatches: 53, Indels: 67
0.80 0.09 0.11
Matches are distributed among these distances:
40 34 0.07
41 102 0.22
42 4 0.01
43 5 0.01
44 62 0.13
45 39 0.08
46 40 0.08
47 86 0.18
48 102 0.22
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (47 bp):
TCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCACTTAC
Found at i:3096901 original size:180 final size:176
Alignment explanation
Indices: 3096691--3097293 Score: 864
Period size: 180 Copynumber: 3.4 Consensus size: 176
3096681 TTTCGTTTCT
*
3096691 TCTGAAGGGAATATCAATCATGGA-AA-AGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGA
1 TCTGAAGGGAATATCAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGA
*
3096754 TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCCG
66 TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACCTGTTCCG
*
3096819 CTTACTCTGAAGGGAATATCAGATCTTGGAGAATAGAGACTTGTTCCACTTAC
131 CTTACTCTGAAGGGAATATCAGATC-T-G-G----CAGACTTGTTCCACTTAC
*
3096872 TCTG-AGGGAATATCAATCTT-GAGAA-AGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGA
1 TCTGAAGGGAATATCAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGA
* *
3096934 TATGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTC
66 TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAA-AGAGACCTGTTCC
*
3096999 ACTTACTCTGAAGGGAATATCA-ATCTGGCAGACTTGTTCCACTTAC
130 GCTTACTCTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTAC
* * *
3097045 TCTGAAGGGAATATCAATCTTGGAGAAGAGAGACCTGTTCCGCTTACTCTAAAAGGAATATCAGA
1 TCTGAAGGGAATATCAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGA
* * * *
3097110 TCTTGGAGAATAGACTTGTT-CTC-TACTCTGAGGGGAATATCAAATCTTTGAG-AAGAGACCTG
66 TC-T-G-G--CAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACCTG
*
3097172 TTCCGCTTACTCTGAAGGGAATATCAGATATGGCAGACTTGTTCCACTTAC
126 TTCCGCTTACTCTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTAC
* *
3097223 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATCAA
1 TCTGAAGGGAATATC-AATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
3097288 ATCTGG
65 ATCTGG
3097294 GAGAGTTGAT
Statistics
Matches: 388, Mismatches: 22, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
173 21 0.05
174 16 0.04
175 5 0.01
176 37 0.10
177 36 0.09
178 42 0.11
179 78 0.20
180 108 0.28
181 45 0.12
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (176 bp):
TCTGAAGGGAATATCAATCTTGGAGAAGAGAGACCTGTTCCACTTACTCTGAAGGGAATATCAGA
TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACCTGTTCCG
CTTACTCTGAAGGGAATATCAGATCTGGCAGACTTGTTCCACTTAC
Found at i:3097215 original size:266 final size:267
Alignment explanation
Indices: 3096691--3097293 Score: 1033
Period size: 266 Copynumber: 2.3 Consensus size: 267
3096681 TTTCGTTTCT
* *
3096691 TCTGAAGGGAATATC-AATCATGGA-AA-AGAGACCTGTTCCACTTACTCTGAAGGGAATATCAG
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATCA-
*
3096753 ATCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACTTGTTCC
65 ATCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACCTGTTCC
* *
3096818 GCTTACTCTGAAGGGAATATCAGATCTTGGAGAATAGAGACTTGTTCCACTTACTCTGAGGGAAT
130 GCTTACTCTAAAAGGAATATCAGATCTTGGAGAATA-AGACTTGTTCCACTTACTCTGAGGGAAT
3096883 ATCAATCTTGAGAAAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGCAGACTTGT
194 ATCAATCTTGAGAAAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGCAGACTTGT
3096948 TCCACTTAC
259 TCCACTTAC
3096957 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATCAA
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATCAA
3097022 TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATC-AATCTTGGAGAAGAGAGACCTGTTCC
66 TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAA-AGAGACCTGTTCC
*
3097086 GCTTACTCTAAAAGGAATATCAGATCTTGGAGAAT-AGACTTGTT-CTC-TACTCTGAGGGGAAT
130 GCTTACTCTAAAAGGAATATCAGATCTTGGAGAATAAGACTTGTTCCACTTACTCTGA-GGGAAT
3097148 ATCAAATCTTTGAG-AAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGCAGACTT
194 ATC-AATC-TTGAGAAAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGCAGACTT
3097212 GTTCCACTTAC
257 GTTCCACTTAC
3097223 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATCAA
1 TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATC-A
3097288 ATCTGG
65 ATCTGG
3097294 GAGAGTTGAT
Statistics
Matches: 323, Mismatches: 6, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
264 8 0.02
265 11 0.03
266 152 0.47
267 32 0.10
268 86 0.27
269 34 0.11
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (267 bp):
TCTGAAGGGAATATCAAATCTTGGAGAAGAGAGACCTGTTTCACTTACTCTGAAGGGAATATCAA
TCTGGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAAGAGACCTGTTCCG
CTTACTCTAAAAGGAATATCAGATCTTGGAGAATAAGACTTGTTCCACTTACTCTGAGGGAATAT
CAATCTTGAGAAAGAGACCTGTTCCGCTTACTCTGAAGGGAATATCAGATATGGCAGACTTGTTC
CACTTAC
Found at i:3098450 original size:27 final size:28
Alignment explanation
Indices: 3098394--3098450 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
3098384 TTGAACCCTC
* *
3098394 CTTTTATTTTTCTAATTTTTTTTCTCTTT
1 CTTTCATTTTTC-AATTTTTTGTCTCTTT
*
3098423 CTTTCATTTTTC-ATTTTTTGTCTTTTT
1 CTTTCATTTTTCAATTTTTTGTCTCTTT
3098450 C
1 C
3098451 ATTTTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 14 0.56
29 11 0.44
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.74
Consensus pattern (28 bp):
CTTTCATTTTTCAATTTTTTGTCTCTTT
Found at i:3099475 original size:312 final size:310
Alignment explanation
Indices: 3098900--3099522 Score: 1185
Period size: 312 Copynumber: 2.0 Consensus size: 310
3098890 CCCTTATTGA
3098900 AGTTCGATAAAAACAGAGCGAATGGTAGCTTCTCATGCCAGTCTCTATAAGTCTCAGTCATTTTC
1 AGTTCGATAAAAACAGAGCGAATGGTAGCTTCTCATGCCAGTCTCTATAAGTCTCAGTCATTTTC
3098965 TGTATGAGCCTCTTGATGTTCTTATTAGCTGCCTCTACCGCTCCATTCATCTTTGGGCGATAAGT
66 TGTATGAGCCTCTTGATGTTCTTATTAGCTGCCTCTACCGCTCCATTCATCTTTGGGCGATAAGT
* *
3099030 TGTGGAATTATTATGTTTAATCTGGAACTGTTACATACTGACTCCATCATCTTATTTTTTAAATT
131 TGTGGAATTATGATGTTTAATCTGGAACTGTTACATACTGACTCCATCATCTTATTGTTTAAATT
*
3099095 CAAGGCATTATCGGTGATGATCCTTTCTGGTAGCCCATACCGACAAATATTTCTCTCTTCAGGAA
196 CAAGGCATTATCGGTGATGATCCTTTCTGGTAGCCCATACCGACAAATAATTCTCTCTTCAGGAA
3099160 CTTGCAAACTGTTGACTGAGTGACATTTGCATAGGAGGCCGCTTCTACCC
261 CTTGCAAACTGTTGACTGAGTGACATTTGCATAGGAGGCCGCTTCTACCC
3099210 AGTTCGATAAGCAAACAGAGCGAATGGTAGCTTCTCATGCCAGTCTCTATAAGTCTCAGTC-TTT
1 AGTTCGATAA--AAACAGAGCGAATGGTAGCTTCTCATGCCAGTCTCTATAAGTCTCAGTCATTT
3099274 TCTGTATGAGCCTCTTGATGTTCTTATTAGCTGCCTCTACCGCTCCATTCATCTTTGGGCGATAA
64 TCTGTATGAGCCTCTTGATGTTCTTATTAGCTGCCTCTACCGCTCCATTCATCTTTGGGCGATAA
3099339 GTTGTGGAATTATGATGTTTAATCTGGAACTGTTTACATACTGACTCCATCATCTTATTGTTTAA
129 GTTGTGGAATTATGATGTTTAATCTGGAACTG-TTACATACTGACTCCATCATCTTATTGTTTAA
3099404 ATTCAAGGCATTATCGGTGATGATCCTTTCTGGTAGCCCATACCGACAAATAATTCTCTCTTCAG
193 ATTCAAGGCATTATCGGTGATGATCCTTTCTGGTAGCCCATACCGACAAATAATTCTCTCTTCAG
3099469 GAACTTGCAAACTGTTGACTGAGTGACATTTGCATAGGAGGCCGCTTCTACCC
258 GAACTTGCAAACTGTTGACTGAGTGACATTTGCATAGGAGGCCGCTTCTACCC
3099522 A
1 A
3099523 CTTAGTGAAG
Statistics
Matches: 307, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
310 10 0.03
311 99 0.32
312 198 0.64
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (310 bp):
AGTTCGATAAAAACAGAGCGAATGGTAGCTTCTCATGCCAGTCTCTATAAGTCTCAGTCATTTTC
TGTATGAGCCTCTTGATGTTCTTATTAGCTGCCTCTACCGCTCCATTCATCTTTGGGCGATAAGT
TGTGGAATTATGATGTTTAATCTGGAACTGTTACATACTGACTCCATCATCTTATTGTTTAAATT
CAAGGCATTATCGGTGATGATCCTTTCTGGTAGCCCATACCGACAAATAATTCTCTCTTCAGGAA
CTTGCAAACTGTTGACTGAGTGACATTTGCATAGGAGGCCGCTTCTACCC
Found at i:3109896 original size:24 final size:27
Alignment explanation
Indices: 3109859--3109911 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
3109849 ACCTATATAT
3109859 AATATACTTAAATA-ATATGTTTACAA
1 AATATACTTAAATACATATGTTTACAA
3109885 AATATA-TT-AATACTATATGTTTACAA
1 AATATACTTAAATAC-ATATGTTTACAA
3109911 A
1 A
3109912 GTAAAAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.16
25 2 0.08
26 19 0.76
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (27 bp):
AATATACTTAAATACATATGTTTACAA
Found at i:3111426 original size:3 final size:3
Alignment explanation
Indices: 3111413--3111442 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
3111403 AAATATAAAT
3111413 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
3111443 TATTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:3112139 original size:24 final size:24
Alignment explanation
Indices: 3112093--3112147 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
3112083 AGTTATTTTC
*
3112093 TTTC-TTTTATTTTCTTTTCAAGT
1 TTTCATTTTATTTTATTTTCAAGT
3112116 TTTCATTTTCATTTTATTTT-AAGT
1 TTTCATTTT-ATTTTATTTTCAAGT
3112140 TTT-ATTTT
1 TTTCATTTT
3112148 TAAACATGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.31
24 11 0.38
25 9 0.31
ACGTcount: A:0.16, C:0.09, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTCATTTTATTTTATTTTCAAGT
Found at i:3116481 original size:32 final size:32
Alignment explanation
Indices: 3116439--3116568 Score: 136
Period size: 32 Copynumber: 4.1 Consensus size: 32
3116429 CTATGAAAAT
*
3116439 TTTTCGGGTCGGGTCAAAATCGGATCGTTTGG
1 TTTTCGGGTCGGGTCAAAATCGGATCGGTTGG
* * **
3116471 TTTTCTGGTCGGGTCAAAATCGAATCTTTTGG
1 TTTTCGGGTCGGGTCAAAATCGGATCGGTTGG
* * * *
3116503 TTTTCGGGTCAGGTCAAAATCAGATTGGTCGG
1 TTTTCGGGTCGGGTCAAAATCGGATCGGTTGG
** * *
3116535 -TTTCAAGTCGGATCAATATCGGATCGGTTGG
1 TTTTCGGGTCGGGTCAAAATCGGATCGGTTGG
3116566 TTT
1 TTT
3116569 CGGTTTAGGT
Statistics
Matches: 78, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
31 23 0.29
32 55 0.71
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (32 bp):
TTTTCGGGTCGGGTCAAAATCGGATCGGTTGG
Found at i:3116633 original size:46 final size:46
Alignment explanation
Indices: 3116560--3116687 Score: 150
Period size: 46 Copynumber: 2.8 Consensus size: 46
3116550 ATATCGGATC
* * * * *
3116560 GGTTGGTTTCGGTTTAGGTCAAGCTTTAGATTTTCTGGTCAATTCG
1 GGTTGGTTTCGGTTCAGATCAACCTTTAAATTTTCGGGTCAATTCG
* *
3116606 GGTTGGTTTCGGGTCAGATCAACCTTTAAAGTTTT-GGGTCAGTTCG
1 GGTTGGTTTCGGTTCAGATCAACCTTTAAA-TTTTCGGGTCAATTCG
* * *
3116652 GGTTGGTTTAGGTTCGGATCAACCTTTATATTTTCG
1 GGTTGGTTTCGGTTCAGATCAACCTTTAAATTTTCG
3116688 AGTTAATTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
45 4 0.06
46 61 0.88
47 4 0.06
ACGTcount: A:0.16, C:0.14, G:0.28, T:0.41
Consensus pattern (46 bp):
GGTTGGTTTCGGTTCAGATCAACCTTTAAATTTTCGGGTCAATTCG
Found at i:3116786 original size:19 final size:19
Alignment explanation
Indices: 3116762--3116801 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3116752 TTTGCTCTTT
*
3116762 ATAACTTGTAATTCAGAAA
1 ATAACTTGTAATTCAAAAA
3116781 ATAACTTGTAATTCAAAAA
1 ATAACTTGTAATTCAAAAA
3116800 AT
1 AT
3116802 TTATGTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (19 bp):
ATAACTTGTAATTCAAAAA
Found at i:3116965 original size:12 final size:12
Alignment explanation
Indices: 3116948--3116974 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3116938 ATCATAATAC
3116948 ATTTTAGGATTG
1 ATTTTAGGATTG
3116960 ATTTTAGGATTG
1 ATTTTAGGATTG
3116972 ATT
1 ATT
3116975 GTAGTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (12 bp):
ATTTTAGGATTG
Found at i:3121460 original size:2 final size:2
Alignment explanation
Indices: 3121455--3121483 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3121445 CATTTAGTAT
3121455 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3121484 TGTTTAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3121767 original size:22 final size:21
Alignment explanation
Indices: 3121742--3121784 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3121732 TTTTAAAAGA
*
3121742 AATACTAACGGTAATGACTTTT
1 AATACAAACGGTAATGA-TTTT
*
3121764 AATACAAATGGTAATGATTTT
1 AATACAAACGGTAATGATTTT
3121785 CTCATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (21 bp):
AATACAAACGGTAATGATTTT
Found at i:3133621 original size:45 final size:47
Alignment explanation
Indices: 3133569--3133657 Score: 146
Period size: 45 Copynumber: 1.9 Consensus size: 47
3133559 TCGAATAAAT
*
3133569 GCATGCGAACTAGATATCATGCGGTTAGG-TTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATAATGCGGTTAGGATTTATTTTTGTGAACAA
*
3133614 GCATGCGAATTAGATATAATGCGGTTAGGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATAATGCGGTTAGGATTTATTTTTGTGAA
3133658 TAACAAAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 27 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (47 bp):
GCATGCGAACTAGATATAATGCGGTTAGGATTTATTTTTGTGAACAA
Found at i:3141516 original size:64 final size:63
Alignment explanation
Indices: 3141427--3141577 Score: 178
Period size: 64 Copynumber: 2.3 Consensus size: 63
3141417 ATGCACATTC
* * * *
3141427 ATAAGTGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCATTCCTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* * *
3141491 GATAATGCATCGATGCA-TCTTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATTC-CTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* *
3141555 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCATTCCTT
3141578 CATTGAAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 65 0.89
65 5 0.07
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (63 bp):
ATAATGCATCGATGCATTCCTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:3142320 original size:31 final size:31
Alignment explanation
Indices: 3142232--3142340 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
3142222 AGTCGAGGGT
* * *
3142232 TTTACCTATG-TCTTTCGAGACATATGGACAA
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
3142263 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
3142294 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
3142325 -TTGCCGAGGTTCTTTG
1 TTTACCTAGGTTCTTTG
3142341 TGACCTCTGG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 14 0.22
31 46 0.73
32 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:3142337 original size:30 final size:30
Alignment explanation
Indices: 3142285--3142360 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
3142275 CTAAGGAACA
*
3142285 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTGGGACC
* *
3142316 TATGGACAGTTGCCGAGGTTCTTTGTGACC
1 TATGGACAGTTACCGAGGTTCTTTGGGACC
* *
3142346 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
3142361 GGGTCTGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 30 0.77
31 9 0.23
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTGGGACC
Found at i:3142372 original size:29 final size:30
Alignment explanation
Indices: 3142312--3142383 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
3142302 GGTTCTTTGG
* * * * *
3142312 GACCTATGGACAGTTGCCGAGGTTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTGTGT
3142342 GACCTCTGGATAGTTACCG-GGGTCTGTGT
1 GACCTCTGGATAGTTACCGAGGGTCTGTGT
3142371 GACCTCTGGATAG
1 GACCTCTGGATAG
3142384 GTCATTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTGTGT
Found at i:3145688 original size:64 final size:63
Alignment explanation
Indices: 3145599--3145749 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 63
3145589 ATGCACATTC
* * * *
3145599 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* *
3145663 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
3145727 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
3145750 CATTGAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.05
64 64 0.84
65 8 0.11
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:3146492 original size:31 final size:31
Alignment explanation
Indices: 3146404--3146512 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
3146394 AGTCGAGGGT
* * *
3146404 TTTACCTATG-TCTTTCGAGACATATGGACAA
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
3146435 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
3146466 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
3146497 -TTGCCGAGGTTCTTTG
1 TTTACCTAGGTTCTTTG
3146513 TGACCTCTGG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 14 0.22
31 46 0.73
32 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:3146509 original size:30 final size:30
Alignment explanation
Indices: 3146457--3146532 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
3146447 CTAAGGAACA
*
3146457 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTGGGACC
* *
3146488 TATGGACAGTTGCCGAGGTTCTTTGTGACC
1 TATGGACAGTTACCGAGGTTCTTTGGGACC
* *
3146518 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
3146533 GGGTCTGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 30 0.77
31 9 0.23
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTGGGACC
Found at i:3146544 original size:29 final size:30
Alignment explanation
Indices: 3146484--3146555 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
3146474 GGTTCTTTGG
* * * * *
3146484 GACCTATGGACAGTTGCCGAGGTTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTGTGT
3146514 GACCTCTGGATAGTTACCG-GGGTCTGTGT
1 GACCTCTGGATAGTTACCGAGGGTCTGTGT
3146543 GACCTCTGGATAG
1 GACCTCTGGATAG
3146556 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.31
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTGTGT
Found at i:3149861 original size:64 final size:63
Alignment explanation
Indices: 3149772--3149922 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 63
3149762 ATGCACATTC
* * * *
3149772 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* *
3149836 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
3149900 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
3149923 CATTGAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.05
64 64 0.84
65 8 0.11
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:3150665 original size:31 final size:31
Alignment explanation
Indices: 3150577--3150685 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
3150567 AGTCGAGGGT
* * *
3150577 TTTACCTATG-TCTTTCGAGACATATGGACAA
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
3150608 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
3150639 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
3150670 -TTGCCGAGGTTCTTTG
1 TTTACCTAGGTTCTTTG
3150686 TGACCTCTGG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 14 0.22
31 46 0.73
32 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:3150682 original size:30 final size:30
Alignment explanation
Indices: 3150630--3150705 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
3150620 CTAAGGAACA
*
3150630 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTGGGACC
* *
3150661 TATGGACAGTTGCCGAGGTTCTTTGTGACC
1 TATGGACAGTTACCGAGGTTCTTTGGGACC
* *
3150691 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
3150706 GGGTCTGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 30 0.77
31 9 0.23
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTGGGACC
Done.