Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 51 of 135
Found at i:13863991 original size:16 final size:15
Alignment explanation
Indices: 13863970--13864003 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13863960 TGATTAAAAT
*
13863970 TAATAACATAAACTAA
1 TAATAAAATAAA-TAA
13863986 TAATAAAATAAATAA
1 TAATAAAATAAATAA
13864001 TAA
1 TAA
13864004 AGAACTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATAAAATAAATAA
Found at i:13871982 original size:17 final size:17
Alignment explanation
Indices: 13871937--13871984 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
13871927 ACTACAATGC
* *
13871937 AAATGTGATAACAAGTA
1 AAATGTAATGACAAGTA
* * *
13871954 AAATGCAGTGACAATTA
1 AAATGTAATGACAAGTA
13871971 AAATGTAATGACAA
1 AAATGTAATGACAA
13871985 CTAGATGAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.23
Consensus pattern (17 bp):
AAATGTAATGACAAGTA
Found at i:13872416 original size:24 final size:27
Alignment explanation
Indices: 13872388--13872448 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 27
13872378 CAAAACAACT
*
13872388 TCTTCTTCTT-TTTCTTTTTC-C-TTC
1 TCTTCTTCTTACTTCTTTTTCTCTTTC
13872412 TCTTC-TCTTACTTCTTTTTCTCTTTTC
1 TCTTCTTCTTACTTCTTTTTCTC-TTTC
13872439 TCTTCTTCTT
1 TCTTCTTCTT
13872449 CAACACCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 4 0.13
24 14 0.45
25 1 0.03
27 8 0.26
28 4 0.13
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (27 bp):
TCTTCTTCTTACTTCTTTTTCTCTTTC
Found at i:13872426 original size:30 final size:32
Alignment explanation
Indices: 13872388--13872449 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
13872378 CAAAACAACT
13872388 TCTTCTTCTTTTTCT-TTTTC-CTTC-TCTTC
1 TCTTCTTCTTTTTCTCTTTTCTCTTCTTCTTC
13872417 TCTTACTTCTTTTTCTCTTTTCTCTTCTTCTTC
1 TCTT-CTTCTTTTTCTCTTTTCTCTTCTTCTTC
13872450 AACACCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 4 0.14
30 11 0.38
31 5 0.17
32 4 0.14
33 5 0.17
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (32 bp):
TCTTCTTCTTTTTCTCTTTTCTCTTCTTCTTC
Found at i:13884003 original size:19 final size:19
Alignment explanation
Indices: 13883964--13884003 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13883954 CAATCAGATC
* * *
13883964 GACCCGACTCGAACGCGTT
1 GACCCGACCCGAACCCATT
13883983 GACCCGACCCGAACCCATT
1 GACCCGACCCGAACCCATT
13884002 GA
1 GA
13884004 TTGAACCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.40, G:0.23, T:0.12
Consensus pattern (19 bp):
GACCCGACCCGAACCCATT
Found at i:13884017 original size:18 final size:18
Alignment explanation
Indices: 13883989--13884032 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13883979 CGTTGACCCG
**
13883989 ACCCGAACCCATTGATTGA
1 ACCC-AACCCATTGACCGA
13884008 ACCCAACCCATTGACCGA
1 ACCCAACCCATTGACCGA
13884026 ACCCAAC
1 ACCCAAC
13884033 TCGTTGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.34, C:0.41, G:0.11, T:0.14
Consensus pattern (18 bp):
ACCCAACCCATTGACCGA
Found at i:13884074 original size:7 final size:7
Alignment explanation
Indices: 13884034--13884143 Score: 53
Period size: 7 Copynumber: 16.0 Consensus size: 7
13884024 GAACCCAACT
*
13884034 CGTTGAT
1 CGTTGAC
*
13884041 CGTTGAT
1 CGTTGAC
*
13884048 TGTTGA-
1 CGTTGAC
*
13884054 CTTTGAC
1 CGTTGAC
13884061 CGTTGAC
1 CGTTGAC
13884068 CGTTGAC
1 CGTTGAC
* *
13884075 AGTTAAC
1 CGTTGAC
*
13884082 CGTTTAC
1 CGTTGAC
*
13884089 CGTTTAC
1 CGTTGAC
*
13884096 CATTGAC
1 CGTTGAC
**
13884103 AATTGAC
1 CGTTGAC
* * *
13884110 TGTTTAT
1 CGTTGAC
13884117 CGTTGAC
1 CGTTGAC
*
13884124 CATTGA-
1 CGTTGAC
* *
13884130 CTTTGAA
1 CGTTGAC
13884137 CGTTGAC
1 CGTTGAC
13884144 TTTTTTTGAG
Statistics
Matches: 79, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
6 9 0.11
7 70 0.89
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (7 bp):
CGTTGAC
Found at i:13884101 original size:28 final size:28
Alignment explanation
Indices: 13884059--13884130 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
13884049 GTTGACTTTG
* *
13884059 ACCGTTGACCGTTGACAGTTAACCGTTT
1 ACCGTTGACCATTGACAATTAACCGTTT
* * *
13884087 ACCGTTTACCATTGACAATTGACTGTTT
1 ACCGTTGACCATTGACAATTAACCGTTT
*
13884115 ATCGTTGACCATTGAC
1 ACCGTTGACCATTGAC
13884131 TTTGAACGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (28 bp):
ACCGTTGACCATTGACAATTAACCGTTT
Found at i:13890624 original size:54 final size:54
Alignment explanation
Indices: 13890560--13890712 Score: 216
Period size: 54 Copynumber: 2.8 Consensus size: 54
13890550 CATGGTAATC
* *
13890560 GAAGACCATATAGTGTAAGACCTAGTTTGGTGGCTATGGCATCATATGGGGAAA
1 GAAGACCATATAGTGTAAGACCTAATCTGGTGGCTATGGCATCATATGGGGAAA
* * * * *
13890614 GAAGACCATATAATGTAAGACCTACTCTAGTGGCTATGTCATCATGTGGGGAAA
1 GAAGACCATATAGTGTAAGACCTAATCTGGTGGCTATGGCATCATATGGGGAAA
* * *
13890668 GAAGACCACATAGTGTAAGACCTAATCTGATGGCTATGGCGTCAT
1 GAAGACCATATAGTGTAAGACCTAATCTGGTGGCTATGGCATCAT
13890713 GTAGAAGAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (54 bp):
GAAGACCATATAGTGTAAGACCTAATCTGGTGGCTATGGCATCATATGGGGAAA
Found at i:13893666 original size:57 final size:56
Alignment explanation
Indices: 13893594--13893785 Score: 190
Period size: 57 Copynumber: 3.4 Consensus size: 56
13893584 CAAATTTTGT
* * * *
13893594 AAAGATAATCCTTTATGGCGAACTTGTTAAAAGACAACCTTTCTGGCAATACTCTAG
1 AAAGGTAAGCCTTTATGGCGAACTTGTTAAAGGACAACCTTTGTGGCAA-ACTCTAG
* * * *
13893651 AAAGGTAAGCCTTTATGGTGAACCTGTTAAAGGACCACCTTTGTAGAG-AAACCCTAG
1 AAAGGTAAGCCTTTATGGCGAACTTGTTAAAGGACAACCTTTGT-G-GCAAACTCTAG
* * * * * * *
13893708 AAAGGTAAGCCTTGA-GGCAAACTTATTAAAGGATAGCTTTTGTAGCAAAACTCTAG
1 AAAGGTAAGCCTTTATGGCGAACTTGTTAAAGGACAACCTTTGTGGC-AAACTCTAG
*
13893764 AAAGGTAAGCCTTTTTGGCGAA
1 AAAGGTAAGCCTTTATGGCGAA
13893786 ATGCCTTTGT
Statistics
Matches: 108, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
54 1 0.01
56 41 0.38
57 62 0.57
58 3 0.03
59 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (56 bp):
AAAGGTAAGCCTTTATGGCGAACTTGTTAAAGGACAACCTTTGTGGCAAACTCTAG
Found at i:13893720 original size:29 final size:29
Alignment explanation
Indices: 13893688--13893777 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 29
13893678 TAAAGGACCA
13893688 CCTTTGTAGAGAAACCCTAGAAAGGTAAG
1 CCTTTGTAGAGAAACCCTAGAAAGGTAAG
* *
13893717 CC-TTG-AG-GCAAA-CTTATTAAAGG-ATAG
1 CCTTTGTAGAG-AAACCCTA-GAAAGGTA-AG
* *
13893744 CTTTTGTAGCA-AAACTCTAGAAAGGTAAG
1 CCTTTGTAG-AGAAACCCTAGAAAGGTAAG
13893773 CCTTT
1 CCTTT
13893778 TTGGCGAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 18
0.64 0.10 0.26
Matches are distributed among these distances:
26 5 0.11
27 13 0.29
28 6 0.13
29 18 0.40
30 3 0.07
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (29 bp):
CCTTTGTAGAGAAACCCTAGAAAGGTAAG
Found at i:13893764 original size:56 final size:57
Alignment explanation
Indices: 13893620--13893776 Score: 158
Period size: 56 Copynumber: 2.8 Consensus size: 57
13893610 GGCGAACTTG
* * * * * * ** *
13893620 TTAAAAGACAACCTTTCTGGCAATACTCTAGAAAGGTAAGCCTTTATGGTGAACCTG
1 TTAAAGGACCACCTTTGTAGCAAAACTCTAGAAAGGTAAGCCTTGATGGCAAACCTA
* *
13893677 TTAAAGGACCACCTTTGTAG-AGAAACCCTAGAAAGGTAAGCCTTGA-GGCAAACTTA
1 TTAAAGGACCACCTTTGTAGCA-AAACTCTAGAAAGGTAAGCCTTGATGGCAAACCTA
* *
13893733 TTAAAGGA-TAGCTTTTGTAGCAAAACTCTAGAAAGGTAAGCCTT
1 TTAAAGGACCA-CCTTTGTAGCAAAACTCTAGAAAGGTAAGCCTT
13893777 TTTGGCGAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
55 1 0.01
56 44 0.53
57 38 0.46
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (57 bp):
TTAAAGGACCACCTTTGTAGCAAAACTCTAGAAAGGTAAGCCTTGATGGCAAACCTA
Found at i:13893851 original size:30 final size:29
Alignment explanation
Indices: 13893808--13893880 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
13893798 CAAATCTCTA
*
13893808 AAAGGAAACGCCTTAGTAGTGATTTCTGTT
1 AAAGGAAA-GCCTTAGTAGTGATCTCTGTT
* * *
13893838 AAGGGATAAGCCTTTGTGGTGATCTCTGTT
1 AAAGGA-AAGCCTTAGTAGTGATCTCTGTT
13893868 AAAGGAAAGCCTT
1 AAAGGAAAGCCTT
13893881 TCTGGCAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 7 0.19
30 28 0.76
31 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAGGAAAGCCTTAGTAGTGATCTCTGTT
Found at i:13901741 original size:23 final size:24
Alignment explanation
Indices: 13901692--13901749 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
13901682 TTTTAGGGAC
*
13901692 TTGAGTTTTTTTTAAAGGAAAGGGAT
1 TTGA-TTTTTTTT-AAGGAAAGAGAT
*
13901718 TTGATTTTTTTT-AGGGAAGAGAT
1 TTGATTTTTTTTAAGGAAAGAGAT
*
13901741 TTGAGTTTT
1 TTGATTTTT
13901750 AATCTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.59
25 8 0.28
26 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (24 bp):
TTGATTTTTTTTAAGGAAAGAGAT
Found at i:13904798 original size:26 final size:26
Alignment explanation
Indices: 13904720--13904800 Score: 128
Period size: 26 Copynumber: 3.1 Consensus size: 26
13904710 CATTTAACAC
* *
13904720 TATTTTTTTAAAAAAATTTGGGTTAA-
1 TATTTTCTCAAAAAAA-TTGGGTTAAT
13904746 TATTTTCTCAAAAAAATTGGGTTAAT
1 TATTTTCTCAAAAAAATTGGGTTAAT
13904772 TATTTTCTCAAAAAAATTGGGTTAAT
1 TATTTTCTCAAAAAAATTGGGTTAAT
13904798 TAT
1 TAT
13904801 AATGTCATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 9 0.17
26 43 0.83
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (26 bp):
TATTTTCTCAAAAAAATTGGGTTAAT
Found at i:13905113 original size:31 final size:30
Alignment explanation
Indices: 13905078--13905136 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
13905068 TTAAACATAA
* * *
13905078 AAAATATTATTATATTAATATTCAATCTTCT
1 AAAATATCATTATATCAAAATTC-ATCTTCT
13905109 AAAATATCATTATATCAAAATTCATCTT
1 AAAATATCATTATATCAAAATTCATCTT
13905137 TTATTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATCATTATATCAAAATTCATCTTCT
Found at i:13908691 original size:18 final size:18
Alignment explanation
Indices: 13908660--13908694 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13908650 ACTTAGTCGG
* *
13908660 TTTTTTCTTTCCCTTAGC
1 TTTTTGCTTCCCCTTAGC
13908678 TTTTTGCTTCCCCTTAG
1 TTTTTGCTTCCCCTTAG
13908695 ACGACGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTTTGCTTCCCCTTAGC
Found at i:13910503 original size:22 final size:23
Alignment explanation
Indices: 13910456--13910506 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
13910446 CTTTATTTGA
13910456 TAAAATATTTTGATATAACAAGT
1 TAAAATATTTTGATATAACAAGT
*
13910479 TAAAATATTTTTGA-AT-ATAAGT
1 TAAAATA-TTTTGATATAACAAGT
13910501 TAAAAT
1 TAAAAT
13910507 TGACAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.42
23 9 0.35
24 6 0.23
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (23 bp):
TAAAATATTTTGATATAACAAGT
Found at i:13919235 original size:29 final size:28
Alignment explanation
Indices: 13919202--13919751 Score: 163
Period size: 29 Copynumber: 18.9 Consensus size: 28
13919192 TAGAAGTGTG
13919202 ATTTTTGGAAATTCGAGGGCAAAATGGT
1 ATTTTTGGAAATTCGAGGGCAAAATGGT
** *
13919230 AGTTTTTGGATGTTCGGGGGCAAAATGGT
1 A-TTTTTGGAAATTCGAGGGCAAAATGGT
* * * * *
13919259 AATTTTGGACACTCGAGGACAAAATAGTT
1 ATTTTTGGAAATTCGAGGGCAAAAT-GGT
* * *
13919288 ATTTTT--TAATGCCCGAGGACAAAAATGGT
1 ATTTTTGGAAAT--TCGAGGGC-AAAATGGT
** *
13919317 AATTTTTGGATGTTTGAGGGCAAAATGGT
1 -ATTTTTGGAAATTCGAGGGCAAAATGGT
* * *
13919346 AATTTTGGACACTT-GAGGGCAAAATAGT
1 ATTTTTGGA-AATTCGAGGGCAAAATGGT
*
13919374 AATTTTT-G-AATGCTCGAAGGCAAAAATGGT
1 -ATTTTTGGAAAT--TCGAGGGC-AAAATGGT
** * *
13919404 AATTTTTGGATGTTCGGGGGTAAAATGGT
1 -ATTTTTGGAAATTCGAGGGCAAAATGGT
* ** *
13919433 AATTTTGGAAATTTTAGGGATAAAAAT-GT
1 ATTTTTGGAAATTCGAGGG--CAAAATGGT
* **
13919462 AATTTTTGGAAGTTCGAGAGTAAAAAT-GT
1 -ATTTTTGGAAATTCGAG-GGCAAAATGGT
* * *
13919491 GATTTTTGGAAGTTTGAGGGTAAAAATGGT
1 -ATTTTTGGAAATTCGAGGG-CAAAATGGT
* * ** *
13919521 AATTTTGGGAAGTTTAAGGGAAAAAAT-GT
1 -ATTTTTGGAAATTCGAGGG-CAAAATGGT
* * * **
13919550 GATTTTTGGAAGTT-AAGGGGTAAAAATATT
1 -ATTTTTGGAAATTCGA-GGG-CAAAATGGT
* * *
13919580 ATTTTTGAGAAGTTCAAGGGTAAAAAT-GT
1 ATTTTTG-GAAATTCGAGGG-CAAAATGGT
*
13919609 GATTTTTGGAAGTTCGAGGGCAAAAAT-GT
1 -ATTTTTGGAAATTCGAGGGC-AAAATGGT
* * * *
13919638 GATTTTTCAGAAGTTTGAGGGAAAACAT-GT
1 -ATTTTT-GGAAATTCGAGGGCAAA-ATGGT
* * * *
13919668 AATTTTTGAGAAGTTAGGGGGTAAAAT-GT
1 -ATTTTTG-GAAATTCGAGGGCAAAATGGT
* *
13919697 GATTTTTGGAAGTTCGGGGGCAAAAATGGT
1 -ATTTTTGGAAATTCGAGGGC-AAAATGGT
* * *
13919727 AATTTTAGGAAGTTCGAGGGTAAAA
1 -ATTTTTGGAAATTCGAGGGCAAAA
13919752 ATGTAACTTT
Statistics
Matches: 413, Mismatches: 76, Indels: 65
0.75 0.14 0.12
Matches are distributed among these distances:
26 2 0.00
27 1 0.00
28 69 0.17
29 180 0.44
30 155 0.38
31 4 0.01
32 2 0.00
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
ATTTTTGGAAATTCGAGGGCAAAATGGT
Found at i:13919313 original size:87 final size:87
Alignment explanation
Indices: 13919222--13919441 Score: 343
Period size: 87 Copynumber: 2.5 Consensus size: 87
13919212 ATTCGAGGGC
*
13919222 AAAATGGTAGTTTTTGGATGTTCGGGGGCAAAATGGTAATTTTGGACACTCGAGGACAAAATAGT
1 AAAATGGTAATTTTTGGATGTTCGGGGGCAAAATGGTAATTTTGGACACTCGAGGACAAAATAGT
* *
13919287 TATTTTTTAATGCCCG-AGGACA
66 AATTTTTGAATGCCCGAAGG-CA
* * * *
13919309 AAAATGGTAATTTTTGGATGTTTGAGGGCAAAATGGTAATTTTGGACACTTGAGGGCAAAATAGT
1 AAAATGGTAATTTTTGGATGTTCGGGGGCAAAATGGTAATTTTGGACACTCGAGGACAAAATAGT
*
13919374 AATTTTTGAATGCTCGAAGGCA
66 AATTTTTGAATGCCCGAAGGCA
*
13919396 AAAATGGTAATTTTTGGATGTTCGGGGGTAAAATGGTAATTTTGGA
1 AAAATGGTAATTTTTGGATGTTCGGGGGCAAAATGGTAATTTTGGA
13919442 AATTTTAGGG
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
87 118 0.98
88 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (87 bp):
AAAATGGTAATTTTTGGATGTTCGGGGGCAAAATGGTAATTTTGGACACTCGAGGACAAAATAGT
AATTTTTGAATGCCCGAAGGCA
Found at i:13919369 original size:58 final size:60
Alignment explanation
Indices: 13919202--13919828 Score: 419
Period size: 59 Copynumber: 10.7 Consensus size: 60
13919192 TAGAAGTGTG
* * * * * *
13919202 ATTTTTGGAAATTCGAGGG-CAAAATGGTAGTTTTTGGATGTTCGGGGGC-AAAATGGTA
1 ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
* * * * * ** *
13919260 A-TTTTGGACA-CTCGA-GG-ACAAAATAGTTATTTTT-TAATGCCCGAGGACAAAAATGGTA
1 ATTTTTGGA-AGTTTGAGGGTA-AAAATGGTAATTTTTGGAA-GTTCGAGGGCAAAAATGGTA
* * * *
13919318 ATTTTTGGATGTTTGAGGG-CAAAATGGTAA-TTTTGGACACTT-GAGGGC-AAAATAGTA
1 ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTTGGA-AGTTCGAGGGCAAAAATGGTA
* * * * * **
13919375 ATTTTT-GAATGCTCGAAGGCAAAAATGGTAATTTTTGGATGTTCG-GGGGTAAAATGGTA
1 ATTTTTGGAA-GTTTGAGGGTAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
* * * * *
13919434 A-TTTTGGAAATTTTAGGGATAAAAAT-GTAATTTTTGGAAGTTCGAGAGTAAAAAT-GTG
1 ATTTTTGGAAGTTTGAGGG-TAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
* ** * *
13919492 ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTGGGAAGTTTAAGGGAAAAAAT-GTG
1 ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
* * * * * *
13919551 ATTTTTGGAAG-TTAAGGGGTAAAAAT-ATTATTTTTGAGAAGTTCAAGGGTAAAAAT-GTG
1 ATTTTTGGAAGTTTGA-GGGTAAAAATGGTAATTTTTG-GAAGTTCGAGGGCAAAAATGGTA
* * * * *
13919610 ATTTTTGGAAGTTCGAGGGCAAAAAT-GTGATTTTTCAGAAGTTTGAGGG-AAAACAT-GTA
1 ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTT-GGAAGTTCGAGGGCAAAA-ATGGTA
* * * *
13919669 ATTTTTGAGAAGTTAGGGGGT-AAAAT-GTGATTTTTGGAAGTTCGGGGGCAAAAATGGTA
1 ATTTTTG-GAAGTTTGAGGGTAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
* * * * * *
13919728 ATTTTAGGAAGTTCGAGGGTAAAAAT-GTAACTTTTGGAAGTTCAAGGGTAAAAAT-GTG
1 ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
* * *
13919786 ATTTTTGAGAAGTTTGGGGGTAAAAAT-ATGATTTTTGGAAGTT
1 ATTTTTG-GAAGTTTGAGGGTAAAAATGGTAATTTTTGGAAGTT
13919829 TGGGGCCAAA
Statistics
Matches: 454, Mismatches: 86, Indels: 57
0.76 0.14 0.10
Matches are distributed among these distances:
56 5 0.01
57 49 0.11
58 116 0.26
59 269 0.59
60 15 0.03
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (60 bp):
ATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTTGGAAGTTCGAGGGCAAAAATGGTA
Found at i:13919528 original size:88 final size:85
Alignment explanation
Indices: 13919308--13919828 Score: 381
Period size: 88 Copynumber: 5.9 Consensus size: 85
13919298 GCCCGAGGAC
* * * * * *
13919308 AAAAATGGTAATTTTTGGATGTTTGAGGG-CAAAATGGTAATTTTGGACACTTGAGGGCAAAATA
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGTAAAAAT-GTAATTTTGGAAATTTGAGGGAAAAAT-
* *
13919372 GTAATTTTT-GAATGCTCGA-AGGC
63 GTAATTTTTGGAA-GTTCGAGA-GT
* * *
13919395 AAAAATGGTAATTTTTGGATGTTCGGGGGT-AAAATGGTAATTTTGGAAATTTTAGGGATAAAAA
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGTAAAAAT-GTAATTTTGGAAATTTGAGGG--AAAAA
13919459 TGTAATTTTTGGAAGTTCGAGAGT
62 TGTAATTTTTGGAAGTTCGAGAGT
* * * *
13919483 AAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGGTAATTTTGGGAAGTTTAAGGGAAAAAAT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGTAAAAAT-GTAATTTT-GGAAATTTGAGGG-AAAAAT
* * *
13919548 GTGATTTTTGGAAGTT-AAGGGGT
63 GTAATTTTTGGAAGTTCGA-GAGT
* * * * * *
13919571 AAAAATATTATTTTTGAGAAGTTCAAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGCAAAAAT
1 AAAAATGTAATTTTTG-GAAGTTCGAGGGTAAAAATGT-AATTTTGGAAATTTGAGGG-AAAAAT
* * * *
13919636 GTGATTTTTCAGAAGTTTGAG-GG
63 GTAATTTTT-GGAAGTTCGAGAGT
* * * * * *
13919659 AAAACATGTAATTTTTGAGAAGTTAGGGGGT-AAAATGTGATTTTTGGAAGTTCGGGGGCAAAAA
1 AAAA-ATGTAATTTTTG-GAAGTTCGAGGGTAAAAATGT-AATTTTGGAAATTTGAGGG-AAAAA
* *
13919723 TGGTAATTTTAGGAAGTTCGAGGGT
62 T-GTAATTTTTGGAAGTTCGAGAGT
* * * * *
13919748 AAAAATGTAACTTTTGGAAGTTCAAGGGTAAAAATGTGATTTTTGAGAAGTTTGGGGGTAAAAAT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGTAAAAATGT-AATTTTG-GAAATTTGAGGG-AAAAAT
* *
13919813 ATGATTTTTGGAAGTT
63 GTAATTTTTGGAAGTT
13919829 TGGGGCCAAA
Statistics
Matches: 368, Mismatches: 49, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
87 81 0.22
88 187 0.51
89 99 0.27
90 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (85 bp):
AAAAATGTAATTTTTGGAAGTTCGAGGGTAAAAATGTAATTTTGGAAATTTGAGGGAAAAATGTA
ATTTTTGGAAGTTCGAGAGT
Found at i:13919757 original size:29 final size:29
Alignment explanation
Indices: 13919308--13919828 Score: 441
Period size: 29 Copynumber: 17.8 Consensus size: 29
13919298 GCCCGAGGAC
* *
13919308 AAAAATGGTAATTTTTGGATGTTTGAGGG-
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGT
* *
13919337 CAAAATGGTAA-TTTTGGACACTT-GAGGG-
1 AAAAAT-GTAATTTTTGGA-AGTTCGAGGGT
* * * *
13919365 CAAAATAGTAATTTTT-GAATGCTCGAAGGC
1 AAAAAT-GTAATTTTTGGAA-GTTCGAGGGT
* *
13919395 AAAAATGGTAATTTTTGGATGTTCGGGGGT
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGT
* **
13919425 -AAAATGGTAA-TTTTGGAAATTTTAGGGAT
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGG-T
*
13919454 AAAAATGTAATTTTTGGAAGTTCGAGAGT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGT
* *
13919483 AAAAATGTGATTTTTGGAAGTTTGAGGGT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGT
* ** *
13919512 AAAAATGGTAATTTTGGGAAGTTTAAGGGA
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGT
* *
13919542 AAAAATGTGATTTTTGGAAGTT-AAGGGGT
1 AAAAATGTAATTTTTGGAAGTTCGA-GGGT
* * *
13919571 AAAAATATTATTTTTGAGAAGTTCAAGGGT
1 AAAAATGTAATTTTTG-GAAGTTCGAGGGT
* *
13919601 AAAAATGTGATTTTTGGAAGTTCGAGGGC
1 AAAAATGTAATTTTTGGAAGTTCGAGGGT
* * *
13919630 AAAAATGTGATTTTTCAGAAGTTTGAGGG-
1 AAAAATGTAATTTTT-GGAAGTTCGAGGGT
* *
13919659 AAAACATGTAATTTTTGAGAAGTTAGGGGGT
1 AAAA-ATGTAATTTTTG-GAAGTTCGAGGGT
* * *
13919690 -AAAATGTGATTTTTGGAAGTTCGGGGGC
1 AAAAATGTAATTTTTGGAAGTTCGAGGGT
*
13919718 AAAAATGGTAATTTTAGGAAGTTCGAGGGT
1 AAAAAT-GTAATTTTTGGAAGTTCGAGGGT
* *
13919748 AAAAATGTAACTTTTGGAAGTTCAAGGGT
1 AAAAATGTAATTTTTGGAAGTTCGAGGGT
* * *
13919777 AAAAATGTGATTTTTGAGAAGTTTGGGGGT
1 AAAAATGTAATTTTTG-GAAGTTCGAGGGT
* *
13919807 AAAAATATGATTTTTGGAAGTT
1 AAAAATGTAATTTTTGGAAGTT
13919829 TGGGGCCAAA
Statistics
Matches: 411, Mismatches: 61, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.00
28 50 0.12
29 185 0.45
30 171 0.42
31 4 0.01
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTCGAGGGT
Found at i:13919858 original size:29 final size:29
Alignment explanation
Indices: 13919483--13919850 Score: 177
Period size: 30 Copynumber: 12.6 Consensus size: 29
13919473 GTTCGAGAGT
* * * *
13919483 AAAAATGTGATTTTTGGAAGTTTGAGGGT
1 AAAAATATGATTTTTAGAAGTTTGGGGGC
* * ** ** *
13919512 AAAAATGGTAATTTTGGGAAGTTTAAGGGA
1 AAAAAT-ATGATTTTTAGAAGTTTGGGGGC
* * ** *
13919542 AAAAATGTGATTTTTGGAAGTTAAGGGGT
1 AAAAATATGATTTTTAGAAGTTTGGGGGC
* *** *
13919571 AAAAATATTATTTTTGAGAAGTTCAAGGGT
1 AAAAATATGATTTTT-AGAAGTTTGGGGGC
* * * *
13919601 AAAAATGTGATTTTTGGAAGTTCGAGGGC
1 AAAAATATGATTTTTAGAAGTTTGGGGGC
* *
13919630 AAAAATGTGATTTTTCAGAAGTTTGAGGG-
1 AAAAATATGATTTTT-AGAAGTTTGGGGGC
* * *
13919659 AAAACATGTAATTTTTGAGAAGTTAGGGGG-
1 AAAA-ATATGATTTTT-AGAAGTTTGGGGGC
* * * *
13919689 TAAAATGTGATTTTTGGAAGTTCGGGGGC
1 AAAAATATGATTTTTAGAAGTTTGGGGGC
* * * * *
13919718 AAAAAT-GGTAATTTTAGGAAGTTCGAGGGT
1 AAAAATATG-ATTTTTA-GAAGTTTGGGGGC
* * * * *** *
13919748 AAAAATGTAACTTTTGGAAGTTCAAGGGT
1 AAAAATATGATTTTTAGAAGTTTGGGGGC
* *
13919777 AAAAATGTGATTTTTGAGAAGTTTGGGGGT
1 AAAAATATGATTTTT-AGAAGTTTGGGGGC
*
13919807 AAAAATATGATTTTTGGAAGTTT-GGGGC
1 AAAAATATGATTTTTAGAAGTTTGGGGGC
*
13919835 CAAAATATGATTTTTA
1 AAAAATATGATTTTTA
13919851 AAAAGTTTAG
Statistics
Matches: 279, Mismatches: 51, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
28 30 0.11
29 119 0.43
30 130 0.47
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
AAAAATATGATTTTTAGAAGTTTGGGGGC
Found at i:13921576 original size:17 final size:18
Alignment explanation
Indices: 13921555--13921627 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 18
13921545 ATTTTTAATT
13921555 AAATTTAAATTTAAAATG
1 AAATTTAAATTTAAAATG
*
13921573 -AATTTAAA-TTCAAATG
1 AAATTTAAATTTAAAATG
* * *
13921589 AAATTTAAGTTTATACT-
1 AAATTTAAATTTAAAATG
* *
13921606 AAATTCAAACTTAAAAT-
1 AAATTTAAATTTAAAATG
13921623 AAATT
1 AAATT
13921628 AAAAATGGGC
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 7 0.16
17 32 0.74
18 4 0.09
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.38
Consensus pattern (18 bp):
AAATTTAAATTTAAAATG
Found at i:13922201 original size:79 final size:78
Alignment explanation
Indices: 13922069--13922278 Score: 267
Period size: 79 Copynumber: 2.7 Consensus size: 78
13922059 TACCTCATGA
* * * * *
13922069 TCGGGGTAAGAGATTGGCTGATGACGATCTACCCCAGGCTCAGAGTAAAAGATCAAATAGTTGTA
1 TCGGGGTAAGAGATTGGCTGATGATGATCTACCCCAGGCTCGGGGTAAAAGATCAAATAGCTGCA
13922134 ATCTGCTCCCAAGC
66 ATCTGC-CCCAAGC
* * * * * *
13922148 TCGGGGTAAGAGATTTGCTGATTATGATTTACCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCA
1 TCGGGGTAAGAGATTGGCTGATGATGATCTACCCCAGGCTCGGGGTAAAAGATCAAATAGCTGCA
*
13922213 ATCTGCCCCAGGC
66 ATCTGCCCCAAGC
* * * *
13922226 TCGAGGTAAGAGATTGGCTGGTGATGATCTGCCCCAGGCTCGAGGTAAAAGAT
1 TCGGGGTAAGAGATTGGCTGATGATGATCTACCCCAGGCTCGGGGTAAAAGAT
13922279 TGGCTGGTGA
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 51 0.46
79 60 0.54
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (78 bp):
TCGGGGTAAGAGATTGGCTGATGATGATCTACCCCAGGCTCGGGGTAAAAGATCAAATAGCTGCA
ATCTGCCCCAAGC
Found at i:13922222 original size:39 final size:38
Alignment explanation
Indices: 13922179--13922821 Score: 393
Period size: 39 Copynumber: 16.6 Consensus size: 38
13922169 TTATGATTTA
*
13922179 CCCCAGGCTCGGGGTAAGAGATCGAATGGCTGCAATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-AATCTG
* **
13922218 CCCCAGGCTCGAGGTAAGAGATTGGCTGG-TGATGATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA--ATCTG
* * **
13922257 CCCCAGGCTCGAGGTAAAAGATTGGCTGG-TGATGATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA--ATCTG
* ** * * * *
13922296 TCCTTGGCTCAGGGTAAAAGATTTAATGGCTTCAATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGC-TGAATCTG
* *
13922335 CCCCAAGCTC-GGGTAAGAGATTTG-TTGAG--GATTATCT-
1 CCCCAGGCTCGGGGTAAGAGA-TTGAATG-GCTGA--ATCTG
* *
13922372 ACCCAGGCTCGGGGTAAGAGATCGAATGGCTGTAATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-AATCTG
* *
13922411 CCCCATGCTCGGGGTAAGAGATT-AGTTGG-TGATGATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGA-ATGGCTGA--ATCTG
* * *
13922450 CCCTAAGCTCGGGGTAAGAGATTGGCA-GG-TGATGATCTG
1 CCCCAGGCTCGGGGTAAGAGATT-GAATGGCTGA--ATCTG
* * * *
13922489 CCCCAAGCTCGAGGTAAGAGATTG-GTTGCTGATGATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA--ATCTG
** * *
13922528 CCCTTGGCTCGGGGTAAG-GATCGAATGGCTGTAATTTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-AATCTG
* * * *
13922566 CCCCAAGCTCGGGGTAAAAGATTTAATTGCTGCAATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-AATCTG
* * *
13922605 CCCCAGGCTCGGGGTAAGAGATTTACT-GATGATGATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA--ATCTG
* * * *
13922644 CCCCTGGCTTGGGGTAAGAGATCGAACGGCTGTAATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-AATCTG
** *
13922683 CCCCAGGCTCGGGGTAAGAGATTGGCTGGCTACAATCTG
1 CCCCAGGCTCGGGGTAAGAGATTGAATGGCT-GAATCTG
* * *
13922722 CCCCATGG-TCAGGGTAAGAGATTTG-CTGGCTACAATCTG
1 CCCCA-GGCTCGGGGTAAGAGA-TTGAATGGCT-GAATCTG
* * * *
13922761 CCCCAAGCTCGGAGTAAGAGATTTG-CTGGCTACAATCTG
1 CCCCAGGCTCGGGGTAAGAGA-TTGAATGGCT-GAATCTG
* * *
13922800 CCCCAAGCTCGGAGTAAAAGAT
1 CCCCAGGCTCGGGGTAAGAGAT
13922822 CAACTTGCTG
Statistics
Matches: 494, Mismatches: 78, Indels: 65
0.78 0.12 0.10
Matches are distributed among these distances:
36 1 0.00
37 14 0.03
38 65 0.13
39 401 0.81
40 10 0.02
41 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (38 bp):
CCCCAGGCTCGGGGTAAGAGATTGAATGGCTGAATCTG
Found at i:13922261 original size:78 final size:78
Alignment explanation
Indices: 13922069--13922821 Score: 463
Period size: 78 Copynumber: 9.7 Consensus size: 78
13922059 TACCTCATGA
* ** * * * * ** * *
13922069 TCGGGGTAAGAGATTGGCT-GATGACGATCTACCCCAGGCTCAGAGTAAAAGATCAAATAGTTGT
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-
*
13922133 AATCTGCTCCCAAGC
65 AATCTGC-CCCAGGC
* * * * * * *
13922148 TCGGGGTAAGAGATTTGCT-GATTATGATTTACCCCAGGCTCGGGGTAAGAGATCGAATGGCTGC
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-
13922212 AATCTGCCCCAGGC
65 AATCTGCCCCAGGC
* * * * **
13922226 TCGAGGTAAGAGATTGGCTGG-TGATGATCTGCCCCAGGCTCGAGGTAAAAGATTGGCTGG-TGA
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA
* **
13922289 TGATCTGTCCTTGGC
66 --ATCTGCCCCAGGC
* * *** * *
13922304 TCAGGGTAAAAGATTTAATGGCT--TCAATCTGCCCCAAGCTC-GGGTAAGAGATTTG-TTGAG-
1 TCGGGGTAAGAGATTGGCTGGCTGAT-AATCTGCCCCAGGCTCGGGGTAAGAGA-TTGAATG-GC
*
13922364 -GATTATCT-ACCCAGGC
63 TGA--ATCTGCCCCAGGC
* ** * *
13922380 TCGGGGTAAGAGATCGAATGGCTG-TAATCTGCCCCATGCTCGGGGTAAGAGATT-AGTTGG-TG
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGA-ATGGCTG
* *
13922442 ATGATCTGCCCTAAGC
65 A--ATCTGCCCCAGGC
* * * * * *
13922458 TCGGGGTAAGAGATTGGCAGG-TGATGATCTGCCCCAAGCTCGAGGTAAGAGATTG-GTTGCTGA
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA
**
13922521 TGATCTGCCCTTGGC
66 --ATCTGCCCCAGGC
* ** * * * * *
13922536 TCGGGGTAAG-GATCGAATGGCTG-TAATTTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTGC
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-
13922599 AATCTGCCCCAGGC
65 AATCTGCCCCAGGC
** * * * * * *
13922613 TCGGGGTAAGAGATTTACT-GATGATGATCTGCCCCTGGCTTGGGGTAAGAGATCGAACGGCTGT
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTG-
13922677 AATCTGCCCCAGGC
65 AATCTGCCCCAGGC
* * *
13922691 TCGGGGTAAGAGATTGGCTGGCT-ACAATCTGCCCCATGG-TCAGGGTAAGAGATTTG-CTGGCT
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCA-GGCTCGGGGTAAGAGA-TTGAATGGCT
* *
13922753 ACAATCTGCCCCAAGC
64 -GAATCTGCCCCAGGC
* * * * * *
13922769 TCGGAGTAAGAGATTTGCTGGCT-ACAATCTGCCCCAAGCTCGGAGTAAAAGAT
1 TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGAT
13922822 CAACTTGCTG
Statistics
Matches: 542, Mismatches: 106, Indels: 54
0.77 0.15 0.08
Matches are distributed among these distances:
76 43 0.08
77 103 0.19
78 327 0.60
79 69 0.13
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (78 bp):
TCGGGGTAAGAGATTGGCTGGCTGATAATCTGCCCCAGGCTCGGGGTAAGAGATTGAATGGCTGA
ATCTGCCCCAGGC
Found at i:13922411 original size:193 final size:196
Alignment explanation
Indices: 13922133--13922488 Score: 556
Period size: 193 Copynumber: 1.8 Consensus size: 196
13922123 AAATAGTTGT
** *
13922133 AATCTGCTCCCAAGCTCGGGGTAAGAGATTTGCTGATTATGATTTACCCCAGGCTCGGGGTAAGA
1 AATCTGCTCCCAAGCTCGGGGTAAGAGATTTGCTGAGGATGATCTACCCCAGGCTCGGGGTAAGA
* *
13922198 GATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGGTGATGATCTGCCCCAG
66 GATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTAGCTGGTGATGATCTGCCCCAA
*
13922263 GCTCGAGGTAAAAGATTGGCTGGTGATGATCTGTCCTTGGCTCAGGGTAAAAGATTTAATGGCTT
131 GCTCGAGGTAAAAGATTGGCAGGTGATGATCTGTCCTTGGCTCAGGGTAAAAGATTTAATGGCTT
13922328 C
196 C
* *
13922329 AATCTGC-CCCAAGCTC-GGGTAAGAGATTTGTTGAGGATTATCTA-CCCAGGCTCGGGGTAAGA
1 AATCTGCTCCCAAGCTCGGGGTAAGAGATTTGCTGAGGATGATCTACCCCAGGCTCGGGGTAAGA
* * * * *
13922391 GATCGAATGGCTGTAATCTGCCCCATGCTCGGGGTAAGAGATTAGTTGGTGATGATCTGCCCTAA
66 GATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTAGCTGGTGATGATCTGCCCCAA
* *
13922456 GCTCGGGGTAAGAGATTGGCAGGTGATGATCTG
131 GCTCGAGGTAAAAGATTGGCAGGTGATGATCTG
13922489 CCCCAAGCTC
Statistics
Matches: 145, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
193 106 0.73
194 23 0.16
195 9 0.06
196 7 0.05
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (196 bp):
AATCTGCTCCCAAGCTCGGGGTAAGAGATTTGCTGAGGATGATCTACCCCAGGCTCGGGGTAAGA
GATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTAGCTGGTGATGATCTGCCCCAA
GCTCGAGGTAAAAGATTGGCAGGTGATGATCTGTCCTTGGCTCAGGGTAAAAGATTTAATGGCTT
C
Found at i:13922581 original size:155 final size:154
Alignment explanation
Indices: 13922330--13922783 Score: 443
Period size: 155 Copynumber: 2.9 Consensus size: 154
13922320 AATGGCTTCA
* *
13922330 ATCTGCCCCAAGCTCGGGTAAGAGATTTGTTGAGGATTATCTACCCAGGCTCGGGGTAAGAGATC
1 ATCTGCCCCAAGCTCGGGTAAGAGATTGGTTGAGGATGATCTACCCAGGCTCGGGGTAAGAGATC
* * * * *
13922395 GAATGGCTGTAATCTGCCCCATGCTCGGGGTAAGAGA-TTAGTTGGTG-ATGATCTGCCCTAAGC
66 GAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTGCA--ATCTGCCCCAAGC
* *
13922458 TCGGGGTAAGAGATTGGCAGGTGATG
129 TCGGGGTAAGAGATTGACAGATGATG
** * *
13922484 ATCTGCCCCAAGCTCGAGGTAAGAGATTGGTTGCTGATGATCTGCCCTTGGCTCGGGGTAAG-GA
1 ATCTGCCCCAAGCTCG-GGTAAGAGATTGGTTGAGGATGATCTACCC-AGGCTCGGGGTAAGAGA
* *
13922548 TCGAATGGCTGTAATTTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTGCAATCTGCCCCAGGC
64 TCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTGCAATCTGCCCCAAGC
* *
13922613 TCGGGGTAAGAGATTTACTGATGATG
129 TCGGGGTAAGAGATTGACAGATGATG
** * * * * *
13922639 ATCTGCCCCTGGCTTGGGGTAAGAGA-TCG--AACGGCTGTAATCTGCCCCAGGCTCGGGGTAAG
1 ATCTGCCCCAAGC-TCGGGTAAGAGATTGGTTGA-GGATG--ATCT-ACCCAGGCTCGGGGTAAG
* ** ** * * * * ** * *
13922701 AGATTGGCTGGCTACAATCTGCCCCATGGTCAGGGTAAGAGATTTGCTGGCTACAATCTGCCCCA
61 AGATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTGCAATCTGCCCCA
*
13922766 AGCTCGGAGTAAGAGATT
126 AGCTCGGGGTAAGAGATT
13922784 TGCTGGCTAC
Statistics
Matches: 247, Mismatches: 43, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
153 3 0.01
154 18 0.07
155 133 0.54
156 92 0.37
157 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (154 bp):
ATCTGCCCCAAGCTCGGGTAAGAGATTGGTTGAGGATGATCTACCCAGGCTCGGGGTAAGAGATC
GAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTGCAATCTGCCCCAAGCTC
GGGGTAAGAGATTGACAGATGATG
Found at i:13922725 original size:117 final size:116
Alignment explanation
Indices: 13922132--13922821 Score: 565
Period size: 117 Copynumber: 5.9 Consensus size: 116
13922122 CAAATAGTTG
* * * * * *
13922132 TAATCTGCTCCCAAGCTCGGGGTAAGAGATTTGCTGATTATGATTTACCCCAGGCTCGGGGTAAG
1 TAATCTGC-CCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCTGGCTCGGGGTAAG
* * *
13922197 AGATCGAATGGCTGCAATCTGCCCCAGGCTCGAGGTAAGAGATTGGCTGGTGA
65 AGATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGGT-A
* * * * * * * *
13922250 TGATCTGCCCCAGGCTCGAGGTAAAAGATTGGCTGGTGATGATCTGTCCTTGGCTCAGGGTAAAA
1 TAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCTGGCTCGGGGTAAGA
** * * *
13922315 GATTTAATGGCT-TCAATCTGCCCCAAGCTC-GGGTAAGAGATTTGTTGAGGA
66 GATCGAATGGCTGT-AATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTG-GTA
* * * ** * *
13922366 TTATCT-ACCCAGGCTCGGGGTAAGAGATCGAATGGCTG-TAATCTGCCCCAT-GCTCGGGGTAA
1 TAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCT-GATGATGATCTGCCCC-TGGCTCGGGGTAA
* * * * *
13922428 GAGAT-TAGTTGG-TGATGATCTGCCCTAAGCTCGGGGTAAGAGATTGGCAGGTGA
64 GAGATCGA-ATGGCTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGGT-A
* * * * * *
13922482 TGATCTGCCCCAAGCTCGAGGTAAGAGATTGGTTGCTGATGATCTGCCCTTGGCTCGGGGTAAG-
1 TAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCTGGCTCGGGGTAAGA
* * *** * *
13922546 GATCGAATGGCTGTAATTTGCCCCAAGCTCGGGGTAAAAGATTTAATTGCTG
66 GATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGA-TTGGCTGGTA
* ** *
13922598 CAATCTGCCCCAGGCTCGGGGTAAGAGATTTACTGATGATGATCTGCCCCTGGCTTGGGGTAAGA
1 TAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCTGGCTCGGGGTAAGA
* *
13922663 GATCGAACGGCTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGGCTA
66 GATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGG-TA
* * * * ** ** *
13922715 CAATCTGCCCCATGG-TCAGGGTAAGAGATTTGCTGGCT-ACAATCTGCCCCAAGCTCGGAGTAA
1 TAATCTGCCCCA-GGCTCGGGGTAAGAGATTGGCT-GATGATGATCTGCCCCTGGCTCGGGGTAA
* * ** * *
13922778 GAGATTTG-CTGGCTACAATCTGCCCCAAGCTCGGAGTAAAAGAT
64 GAGA-TCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGAT
13922822 CAACTTGCTG
Statistics
Matches: 453, Mismatches: 99, Indels: 41
0.76 0.17 0.07
Matches are distributed among these distances:
114 3 0.01
115 61 0.13
116 138 0.30
117 238 0.53
118 13 0.03
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (116 bp):
TAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGATGATCTGCCCCTGGCTCGGGGTAAGA
GATCGAATGGCTGTAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGGTA
Found at i:13927793 original size:2 final size:2
Alignment explanation
Indices: 13927786--13927844 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
13927776 CAATTAGTCT
13927786 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13927828 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
13927845 TCTACTTTGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:13928283 original size:30 final size:31
Alignment explanation
Indices: 13928249--13928306 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
13928239 TCTATTGACA
13928249 ATTGTGAC-AATCGTCCTTTGGTCACCATTG
1 ATTGTGACTAATCGTCCTTTGGTCACCATTG
13928279 ATTGTGACTAATCGTCCTTTGGTCACCA
1 ATTGTGACTAATCGTCCTTTGGTCACCA
13928307 ATTTCAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (31 bp):
ATTGTGACTAATCGTCCTTTGGTCACCATTG
Found at i:13935288 original size:29 final size:28
Alignment explanation
Indices: 13935256--13935738 Score: 382
Period size: 29 Copynumber: 16.6 Consensus size: 28
13935246 TGGAAGTGTG
* *
13935256 ATTTTTGGAAATTTGAGGGAAAAATGGTA
1 ATTTTTGGAAGTTCGAGGGAAAAAT-GTA
* * *
13935285 ATTTTTGGATATTTAG-GGGCAAAATGGTA
1 ATTTTTGGA-AGTTCGAGGGAAAAAT-GTA
* *
13935314 A-TTTTGGACA-CTCGAGGGCAAAATAGTA
1 ATTTTTGGA-AGTTCGAGGGAAAAAT-GTA
* * * *
13935342 ATTTTTGGATGCTCGGGGGCAAAATGGTA
1 ATTTTTGGAAGTTCGAGGGAAAAAT-GTA
** *
13935371 ATTTTTGGATA-TTTTAGGGTAAAATGGTA
1 ATTTTTGGA-AGTTCGAGGGAAAAAT-GTA
* *
13935400 ATTTTGGGAAGTTCGAGGATAAAAATGTA
1 ATTTTTGGAAGTTCGAGG-GAAAAATGTA
13935429 ATTTTTGGAAGTTCG-GGGTAAAAATGTA
1 ATTTTTGGAAGTTCGAGGG-AAAAATGTA
* * *
13935457 ATTTTTGGAAGCTCGAGAGTAAAAATGTG
1 ATTTTTGGAAGTTCGAG-GGAAAAATGTA
*
13935486 ATTTTTGGAAGTTCGAGGGTAAAAATGTG
1 ATTTTTGGAAGTTCGAGGG-AAAAATGTA
* *
13935515 ATTTTTGAGAAGTTCAAGGGTAAAAATGTG
1 ATTTTTG-GAAGTTCGAGGG-AAAAATGTA
* *
13935545 ATTTTTGGAAGTTCAAGGGCAAAAATGTG
1 ATTTTTGGAAGTTCGAGGG-AAAAATGTA
* * *
13935574 ATTCTTGAGAAGTTAGAGGGTAAAAATGTG
1 ATTTTTG-GAAGTTCGAGGG-AAAAATGTA
* * *
13935604 TTTTTTGGAAGTTTGGGGGTAAAAATGGTA
1 ATTTTTGGAAGTTCGAGGG-AAAAAT-GTA
* *
13935634 ATTTTAGGAAGTTCAGAGGTAAAAATGTA
1 ATTTTTGGAAGTTC-GAGGGAAAAATGTA
* * *
13935663 ATTTTTGAAAGTTCGGGGGCAAAAATGTG
1 ATTTTTGGAAGTTCGAGGG-AAAAATGTA
* * *
13935692 ATTTTTGAGAAGTTTGAGGTAAAAATGTG
1 ATTTTTG-GAAGTTCGAGGGAAAAATGTA
*
13935721 ATTTTGGGAAGTTCGAGG
1 ATTTTTGGAAGTTCGAGG
13935739 TCAAAATATG
Statistics
Matches: 382, Mismatches: 55, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.01
28 61 0.16
29 227 0.59
30 89 0.23
31 3 0.01
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (28 bp):
ATTTTTGGAAGTTCGAGGGAAAAATGTA
Found at i:13935366 original size:86 final size:87
Alignment explanation
Indices: 13935272--13935465 Score: 254
Period size: 86 Copynumber: 2.3 Consensus size: 87
13935262 GGAAATTTGA
*
13935272 GGGAAAAATGGTAATTTTTGGATA-TTTAGGGGCAAAATGGTAATTTT-GGACA-CTCGAGGGC-
1 GGGAAAAATGGTAATTTTTGGATATTTTA-GGGCAAAATGGTAATTTTGGGA-AGCTCGAGGACA
*
13935333 AAAATAGTAATTTTTGGATGCTCGG
64 AAAAT-GTAATTTTTGGAAGCTCGG
* * * *
13935358 GGGCAAAATGGTAATTTTTGGATATTTTAGGGTAAAATGGTAATTTTGGGAAGTTCGAGGATAAA
1 GGGAAAAATGGTAATTTTTGGATATTTTAGGGCAAAATGGTAATTTTGGGAAGCTCGAGGACAAA
*
13935423 AATGTAATTTTTGGAAGTTCGG
66 AATGTAATTTTTGGAAGCTCGG
*
13935445 GGTAAAAAT-GTAATTTTTGGA
1 GGGAAAAATGGTAATTTTTGGA
13935466 AGCTCGAGAG
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
86 53 0.56
87 37 0.39
88 5 0.05
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.34
Consensus pattern (87 bp):
GGGAAAAATGGTAATTTTTGGATATTTTAGGGCAAAATGGTAATTTTGGGAAGCTCGAGGACAAA
AATGTAATTTTTGGAAGCTCGG
Found at i:13935405 original size:57 final size:58
Alignment explanation
Indices: 13935256--13935521 Score: 188
Period size: 57 Copynumber: 4.6 Consensus size: 58
13935246 TGGAAGTGTG
* *
13935256 ATTTTTGGAAATTTGAGGGAAAAATGGTAATTTTTGGATATTTAGGGGCAAAATGGTA
1 ATTTTTGGAAATTTGAGGGAAAAATGGTAATTTTTGGATACTCAGGGGCAAAATGGTA
* * * * * * *
13935314 A-TTTTGGACACTCGAGGGCAAAATAGTAATTTTTGGATGCTCGGGGGCAAAATGGTA
1 ATTTTTGGAAATTTGAGGGAAAAATGGTAATTTTTGGATACTCAGGGGCAAAATGGTA
* * * * * ***
13935371 ATTTTTGGATATTTTAGGGTAAAATGGTAATTTTGGGA-AGTTCGAGGATAAAAAT-GTA
1 ATTTTTGGAAATTTGAGGGAAAAATGGTAATTTTTGGATA-CTC-AGGGGCAAAATGGTA
* * * ** *
13935429 ATTTTTGGAAGTTCG-GGGTAAAAAT-GTAATTTTTGGA-AGCTCGAGAGTAAAAAT-GTG
1 ATTTTTGGAAATTTGAGGG-AAAAATGGTAATTTTTGGATA-CTC-AGGGGCAAAATGGTA
* * *
13935486 ATTTTTGGAAGTTCGAGGGTAAAAAT-GTGATTTTTG
1 ATTTTTGGAAATTTGAGGG-AAAAATGGTAATTTTTG
13935522 AGAAGTTCAA
Statistics
Matches: 170, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
57 93 0.55
58 70 0.41
59 7 0.04
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (58 bp):
ATTTTTGGAAATTTGAGGGAAAAATGGTAATTTTTGGATACTCAGGGGCAAAATGGTA
Found at i:13935552 original size:59 final size:59
Alignment explanation
Indices: 13935401--13935752 Score: 428
Period size: 59 Copynumber: 6.0 Consensus size: 59
13935391 AAAATGGTAA
* * * *
13935401 TTTTGGGAAGTTCGAGGATAAAAATGTAATTTTTGGAAGTTCG-GGGTAAAAATGTAAT
1 TTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
* *
13935459 TTTTG-GAAGCTCGAGAGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
1 TTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
* * *
13935517 TTTTGAGAAGTTCAAGGGTAAAAATGTGATTTTTGGAAGTTCAAGGGCAAAAATGTGAT
1 TTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
* * * * * *
13935576 TCTTGAGAAGTTAGAGGGTAAAAATGTGTTTTTTGGAAGTTTGGGGGTAAAAATGGTAAT
1 TTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAAT-GTGAT
* * * * *
13935636 TTTAG-GAAGTTC-AGAGGTAAAAATGTAATTTTTGAAAGTTCGGGGGCAAAAATGTGAT
1 TTTTGAGAAGTTCGAG-GGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
* * * *
13935694 TTTTGAGAAGTTTGA-GGTAAAAATGTGATTTTGGGAAGTTCGA-GGTCAAAATATGAT
1 TTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
13935751 TT
1 TT
13935753 CTAGAAATTT
Statistics
Matches: 251, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
57 46 0.18
58 58 0.23
59 139 0.55
60 8 0.03
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (59 bp):
TTTTGAGAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAATGTGAT
Found at i:13935645 original size:118 final size:116
Alignment explanation
Indices: 13935252--13935738 Score: 467
Period size: 118 Copynumber: 4.2 Consensus size: 116
13935242 AAGTTGGAAG
* * * * **
13935252 TGTGATTTTTGGAAATTTGAGGG-AAAAATGGTAATTTTTGGATA-TTTAGGGGCAAAATGGTAA
1 TGTGATTTTTGGAAGTTCGAGGGTAAAAATGGTAATTTTAGGA-AGTTCAGGGTAAAAAT-GTAA
* * * * * **
13935315 -TTTTGGACA-CTCGAGGGC-AAAATAGTAATTTTTG-GATGCTCG-GGGGCAAAA
64 TTTTTGGA-AGTTCG-GGGCAAAAAT-GTGATTTTTGAGAAGTTAGAGGGTAAAAA
* ** * *
13935366 TGGTAATTTTTGGATA-TTTTAGGGT-AAAATGGTAATTTTGGGAAGTTCGAGGATAAAAATGTA
1 T-GTGATTTTTGGA-AGTTCGAGGGTAAAAATGGTAATTTTAGGAAGTTC-AGGGTAAAAATGTA
* * * * *
13935429 ATTTTTGGAAGTTCGGGGTAAAAATGTAATTTTTG-GAAGCTCGAGAGTAAAAA
63 ATTTTTGGAAGTTCGGGGCAAAAATGTGATTTTTGAGAAGTTAGAGGGTAAAAA
* * *
13935482 TGTGATTTTTGGAAGTTCGAGGGTAAAAAT-GTGATTTTTGAGAAGTTCAAGGGTAAAAATGTGA
1 TGTGATTTTTGGAAGTTCGAGGGTAAAAATGGTAATTTTAG-GAAGTTC-AGGGTAAAAATGTAA
* *
13935546 TTTTTGGAAGTTCAAGGGCAAAAATGTGATTCTTGAGAAGTTAGAGGGTAAAAA
64 TTTTTGGAAGTTC-GGGGCAAAAATGTGATTTTTGAGAAGTTAGAGGGTAAAAA
* * *
13935600 TGTGTTTTTTGGAAGTTTGGGGGTAAAAATGGTAATTTTAGGAAGTTCAGAGGTAAAAATGTAAT
1 TGTGATTTTTGGAAGTTCGAGGGTAAAAATGGTAATTTTAGGAAGTTCAG-GGTAAAAATGTAAT
* *
13935665 TTTTGAAAGTTCGGGGGCAAAAATGTGATTTTTGAGAAGTTTGA-GGTAAAAA
65 TTTTGGAAGTTC-GGGGCAAAAATGTGATTTTTGAGAAGTTAGAGGGTAAAAA
*
13935717 TGTGATTTTGGGAAGTTCGAGG
1 TGTGATTTTTGGAAGTTCGAGG
13935739 TCAAAATATG
Statistics
Matches: 314, Mismatches: 43, Indels: 29
0.81 0.11 0.08
Matches are distributed among these distances:
114 3 0.01
115 88 0.28
116 69 0.22
117 45 0.14
118 101 0.32
119 8 0.03
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (116 bp):
TGTGATTTTTGGAAGTTCGAGGGTAAAAATGGTAATTTTAGGAAGTTCAGGGTAAAAATGTAATT
TTTGGAAGTTCGGGGCAAAAATGTGATTTTTGAGAAGTTAGAGGGTAAAAA
Found at i:13938452 original size:23 final size:22
Alignment explanation
Indices: 13938419--13938468 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
13938409 ATTTATTTGA
13938419 TAAAATA-TTTTGATATAACAAGT
1 TAAAATATTTTTGA-AT-ACAAGT
* *
13938442 TAAAATGTTTTTGAATATAAGT
1 TAAAATATTTTTGAATACAAGT
13938464 TAAAA
1 TAAAA
13938469 CTGACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 8 0.33
24 6 0.25
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
TAAAATATTTTTGAATACAAGT
Found at i:13941496 original size:42 final size:42
Alignment explanation
Indices: 13941411--13941679 Score: 338
Period size: 42 Copynumber: 6.6 Consensus size: 42
13941401 ATTTGCTCTT
* * *
13941411 TGGTTAGGGTAAAAGACTGGAT-G-GTCTTCAATCTACCCAA
1 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
* * *
13941451 TGGTTGGGGTAAGAGATTGGATGGTGTCTTCAATATGCCCCA
1 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
**
13941493 TGGTCGGGGTAAGAGATTGGAT-G-G-CTTCAATCTACCCCA
1 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
* *
13941532 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCTCG
1 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
* * *
13941574 TGGTTGGGGTAAGAGATTAGAT-G-G-CTTTAATCTACCCCA
1 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
* *
13941613 TGGTCAGGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCCA
1 TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
*
13941655 TGGTCAGGGTAAGAGATTGGATGGT
1 TGGTTAGGGTAAGAGATTGGATGGT
13941680 AGCTTTGCCT
Statistics
Matches: 198, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 64 0.32
40 23 0.12
41 5 0.03
42 106 0.54
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (42 bp):
TGGTTAGGGTAAGAGATTGGATGGTGTCTTCAATCTACCCCA
Found at i:13941542 original size:81 final size:81
Alignment explanation
Indices: 13941417--13941678 Score: 398
Period size: 81 Copynumber: 3.2 Consensus size: 81
13941407 TCTTTGGTTA
* * * *
13941417 GGGTAAAAGACTGGATGGTCTTCAATCTACCCAATGGTTGGGGTAAGAGATTGGATGGTGTCTTC
1 GGGTAAGAGATTGGATGG-CTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGATGGTGTCTTC
*
13941482 AATATGCCCCATGGTCG
65 AATCTGCCCCATGGTCG
13941499 GGGTAAGAGATTGGATGGCTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGATGGTGTCTTCA
1 GGGTAAGAGATTGGATGGCTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGATGGTGTCTTCA
* * * *
13941564 ATCTACCTCGTGGTTG
66 ATCTGCCCCATGGTCG
* * *
13941580 GGGTAAGAGATTAGATGGCTTTAATCTACCCCATGGTCAGGGTAAGAGATTGGATGGTGTCTTCA
1 GGGTAAGAGATTGGATGGCTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGATGGTGTCTTCA
*
13941645 ATCTGCCCCATGGTCA
66 ATCTGCCCCATGGTCG
13941661 GGGTAAGAGATTGGATGG
1 GGGTAAGAGATTGGATGG
13941679 TAGCTTTGCC
Statistics
Matches: 162, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
81 146 0.90
82 16 0.10
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (81 bp):
GGGTAAGAGATTGGATGGCTTCAATCTACCCCATGGTTAGGGTAAGAGATTGGATGGTGTCTTCA
ATCTGCCCCATGGTCG
Found at i:13943798 original size:59 final size:61
Alignment explanation
Indices: 13943700--13943917 Score: 197
Period size: 59 Copynumber: 3.7 Consensus size: 61
13943690 CCTCGTTTTA
* * *
13943700 TTTTAAAATTAT-ATTTCAG-CCCCTAAACTTTCCAAAAATTCAAATTTAACCCTCTAAACT
1 TTTTAAAATT-TCATTTTAGACCCCTAAACTTTCTAAAAATTCAATTTTAACCCTCTAAACT
* * * *
13943760 TTTTAAAATTGCATTTTAGA-CCC-AAACTTTCTAAAAATTTC-ATTTTGATCCT-TGAACT
1 TTTTAAAATTTCATTTTAGACCCCTAAACTTTCTAAAAA-TTCAATTTTAACCCTCTAAACT
* * *
13943818 TTCTAAAAATTTTATTTT-GACCCCTAAACTTTCTAAAAATT-ATATTTTAGCCC-CTAAACT
1 TT-TTAAAATTTCATTTTAGACCCCTAAACTTTCTAAAAATTCA-ATTTTAACCCTCTAAACT
* * *
13943878 TTTGAAAATTTCATTTTA-A-CCCTCAAACTTTTTGAAAATT
1 TTTTAAAATTTCATTTTAGACCCCT-AAACTTTCTAAAAATT
13943918 TCAGTTTCCC
Statistics
Matches: 129, Mismatches: 18, Indels: 23
0.76 0.11 0.14
Matches are distributed among these distances:
58 13 0.10
59 66 0.51
60 50 0.39
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.41
Consensus pattern (61 bp):
TTTTAAAATTTCATTTTAGACCCCTAAACTTTCTAAAAATTCAATTTTAACCCTCTAAACT
Found at i:13943913 original size:30 final size:30
Alignment explanation
Indices: 13943720--13943938 Score: 161
Period size: 30 Copynumber: 7.4 Consensus size: 30
13943710 ATATTTCAGC
* *
13943720 CCCT-AAACTTTCCAAAAA-TTCAAATTTAA
1 CCCTCAAACTTTCTAAAAATTTC-ATTTTAA
* *
13943749 CCCTCTAAACTTT-TTAAAATTGCATTTTAGA
1 CCCTC-AAACTTTCTAAAAATTTCATTTTA-A
*
13943780 -CC-CAAACTTTCTAAAAATTTCATTTTGA
1 CCCTCAAACTTTCTAAAAATTTCATTTTAA
* ** * *
13943808 TCCTTGAACTTTCTAAAAATTTTATTTTGA
1 CCCTCAAACTTTCTAAAAATTTCATTTTAA
*
13943838 CCC-CTAAACTTTCTAAAAATTAT-ATTTTAG
1 CCCTC-AAACTTTCTAAAAATT-TCATTTTAA
*
13943868 CCC-CTAAACTTT-TGAAAATTTCATTTTAA
1 CCCTC-AAACTTTCTAAAAATTTCATTTTAA
* * * **
13943897 CCCTCAAACTTTTTGAAAATTTCAGTTTCC
1 CCCTCAAACTTTCTAAAAATTTCATTTTAA
13943927 CCCT-AAACTTTC
1 CCCTCAAACTTTC
13943939 CTTATTTTTT
Statistics
Matches: 157, Mismatches: 21, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
28 9 0.06
29 50 0.32
30 87 0.55
31 11 0.07
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (30 bp):
CCCTCAAACTTTCTAAAAATTTCATTTTAA
Found at i:13943954 original size:89 final size:89
Alignment explanation
Indices: 13943720--13943938 Score: 223
Period size: 89 Copynumber: 2.5 Consensus size: 89
13943710 ATATTTCAGC
* * * * **
13943720 CCCT-AAACTTTCCAAAAA-TTCAAATTTAACCCTCTAAACTTT-TTAAAATTGCATTTTAGACC
1 CCCTCAAACTTTCTAAAAATTTC-AGTTTGACCC-CTAAACTTTCTAAAAATTATATTTTAGACC
*
13943782 CAAACTTTCTAAAAATTTCATTTTGA
64 CAAACTTTCTAAAAATTTCATTTTAA
* ** * * *
13943808 TCCTTGAACTTTCTAAAAATTTTATTTTGACCCCTAAACTTTCTAAAAATTATATTTTAGCCCCT
1 CCCTCAAACTTTCTAAAAATTTCAGTTTGACCCCTAAACTTTCTAAAAATTATATTTTAGACCC-
*
13943873 AAACTTT-TGAAAATTTCATTTTAA
65 AAACTTTCTAAAAATTTCATTTTAA
* * *
13943897 CCCTCAAACTTTTTGAAAATTTCAGTTT-CCCCCTAAACTTTC
1 CCCTCAAACTTTCTAAAAATTTCAGTTTGACCCCTAAACTTTC
13943939 CTTATTTTTT
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
88 25 0.23
89 73 0.68
90 9 0.08
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (89 bp):
CCCTCAAACTTTCTAAAAATTTCAGTTTGACCCCTAAACTTTCTAAAAATTATATTTTAGACCCA
AACTTTCTAAAAATTTCATTTTAA
Found at i:13955639 original size:576 final size:576
Alignment explanation
Indices: 13954547--13956279 Score: 3367
Period size: 576 Copynumber: 3.0 Consensus size: 576
13954537 TCCTGAAGAA
* * *
13954547 GAAATGATGTCAATACAATGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
1 GAAATGATGCCAATACTACGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
13954612 GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
66 GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
*
13954677 TATGCAACAGTGTGATCATTGTCAACGTACTATTTCCATTTTTCGTCGCAATGAGATGCTCCAAC
131 TATGCAACAGTGTGATCATTGTCAACGTACTGTTTCCATTTTTCGTCGCAATGAGATGCTCCAAC
13954742 AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCATTTCCAAAC
196 AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCATTTCCAAAC
*
13954807 TCTTTTGGAAATATGTATATACTAGTAGCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
261 TCTTTTGGAAATATGTATATACTAGTACCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
* *
13954872 GGTACCAAAAGATGATGCTTGGATAGTGTTGAAATTTTTTCACATGTATATTCTCACACGGTTTG
326 GGTACCAAAAGATGATGCTCGGATAGTGTTGAAATTTTTTCACACGTATATTCTCACACGGTTTG
13954937 GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
391 GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
13955002 TTAAAACATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGATC
456 TTAAAACATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGATC
13955067 GAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCTATCTAG
521 GAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCTATCTAG
13955123 GAAATGATGCCAATACTACGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
1 GAAATGATGCCAATACTACGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
13955188 GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
66 GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
13955253 TATGCAACAGTGTGATCATTGTCAACGTACTGTTTCCATTTTTCGTCGCAATGAGATGCTCCAAC
131 TATGCAACAGTGTGATCATTGTCAACGTACTGTTTCCATTTTTCGTCGCAATGAGATGCTCCAAC
*
13955318 AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCTTTTCCAAAC
196 AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCATTTCCAAAC
13955383 TCTTTTGGAAATATGTATATACTAGTACCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
261 TCTTTTGGAAATATGTATATACTAGTACCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
13955448 GGTACCAAAAGATGATGCTCGGATAGTGTTGAAATTTTTTCACACGTATATTCTCACACGGTTTG
326 GGTACCAAAAGATGATGCTCGGATAGTGTTGAAATTTTTTCACACGTATATTCTCACACGGTTTG
13955513 GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
391 GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
13955578 TTAAAACATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGATC
456 TTAAAACATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGATC
13955643 GAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCTATCTAG
521 GAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCTATCTAG
13955699 GAAATGATGCCAATACTACGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
1 GAAATGATGCCAATACTACGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
13955764 GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
66 GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
*
13955829 TATGCAACAGTGTGATCATTGTCAACGTACTGTTTCCATTTTTCATCGCAATGAGATGCTCCAAC
131 TATGCAACAGTGTGATCATTGTCAACGTACTGTTTCCATTTTTCGTCGCAATGAGATGCTCCAAC
13955894 AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCATTTCCAAAC
196 AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCATTTCCAAAC
13955959 TCTTTTGGAAATATGTATATACTAGTACCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
261 TCTTTTGGAAATATGTATATACTAGTACCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
13956024 GGTACCAAAAGATGATGCTCGGATAGTGTTGAAATTTTTTCACACGTATATTCTCACACGGTTTG
326 GGTACCAAAAGATGATGCTCGGATAGTGTTGAAATTTTTTCACACGTATATTCTCACACGGTTTG
13956089 GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
391 GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
13956154 TTAAAACGATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGAT
456 TTAAAAC-ATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGAT
*
13956219 CGAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCCATCTAG
520 CGAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCTATCTAG
13956276 GAAA
1 GAAA
13956280 GATTGGTCTG
Statistics
Matches: 1145, Mismatches: 11, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
576 1028 0.90
577 117 0.10
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (576 bp):
GAAATGATGCCAATACTACGACATTGCCACGATGCCCCCTCTGGAGGTCATTTTGGTGGAACAAG
GACTGCTGCAAGGTCCTGCAATCTGGATTCTATTGGCCCAATTTGTTTCAAGATGCTCACAATTT
TATGCAACAGTGTGATCATTGTCAACGTACTGTTTCCATTTTTCGTCGCAATGAGATGCTCCAAC
AACCTATCATGGAGGTAGAACTTTTCGATGTTTGGGGTATTGATTTCATGGGACCATTTCCAAAC
TCTTTTGGAAATATGTATATACTAGTACCTGTTGACTACGTTTCCAAGTGGATTGAAGCTGTTGT
GGTACCAAAAGATGATGCTCGGATAGTGTTGAAATTTTTTCACACGTATATTCTCACACGGTTTG
GTACACCACGAGTATTGATTAGCGACCAAGGCACTCATTTCTATAATAACCAAGTAGCAAGTGCA
TTAAAACATATGGTGTGAAGCATCGAATGGCCACTGCATATCACCCACAAACTAATGGTCAGATC
GAAGTCTCCAATCGACAAATTAAAAGAATACTTGAAAAGGTGGTTAACCTATCTAG
Found at i:13966986 original size:49 final size:48
Alignment explanation
Indices: 13966905--13967405 Score: 351
Period size: 49 Copynumber: 10.3 Consensus size: 48
13966895 CAGGTTTGGA
* * *
13966905 GGGAAAGGTTGAAGCCGCAATGGCAAACCTTGTACCTCAGAGACGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACCTCA-AGAAGTGAT
* * * *
13966954 GGGAAAGATTGAAGTCGCAACGGCGAATCTTGTACCATGAAGATA-TAGA-
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACC-TCAAGA-AGT-GAT
* * * * *
13967003 AGGAAAGGTTAAAGCCGCAACGGTAAACCTTGTACCTTAGAGAAGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACCTCA-AGAAGTGAT
* * * * *
13967052 GGGAAGGATTGAAGCCGCAACGGCGAATCTTGTACCATGAAGAAATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACC-TCAAGAAGT-GAT
* * *
13967101 GGGAAAGGTTAAAG-CGACAACGACAAACCTTGTACCTCAAAGAAGTGAT
1 GGGAAAGATTGAAGCCG-CAACGGCAAACCTTGTACCTC-AAGAAGTGAT
* * * * * *
13967150 GGGAAGGATTGAAGTCGTAACAGCAAATCTTGTACCATGAAGATA-TGGA-
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACC-TCAAGA-AGT-GAT
* * * **
13967199 GGGAAAGGTTAAAGCCACAACGATAAACCTTGTACCTCAGAGAAGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACCTCA-AGAAGTGAT
**
13967248 -GG---GATTGAAGCCATAACGGCAAACCTTGTACCTCAAAGAAGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACCTC-AAGAAGTGAT
* * * * * * *
13967293 GGGAAAGATTGAAGCTGCAATGGTGAATCC-TGTAACATGAAGATA-TGAA
1 GGGAAAGATTGAAGCCGCAACGG-CAAACCTTGT-ACCTCAAGA-AGTGAT
* * * * *
13967342 GGGAAAGGTTGAAGCCGCAATGGCAAACCTTGTACCTTAGAGATGTAAT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACCTCA-AGAAGTGAT
13967391 GGGAAAGATTGAAGC
1 GGGAAAGATTGAAGC
13967406 TACAATGACG
Statistics
Matches: 348, Mismatches: 75, Indels: 58
0.72 0.16 0.12
Matches are distributed among these distances:
45 36 0.10
46 3 0.01
48 25 0.07
49 262 0.75
50 22 0.06
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (48 bp):
GGGAAAGATTGAAGCCGCAACGGCAAACCTTGTACCTCAAGAAGTGAT
Found at i:13967075 original size:98 final size:98
Alignment explanation
Indices: 13966901--13967251 Score: 524
Period size: 98 Copynumber: 3.6 Consensus size: 98
13966891 TTTACAGGTT
* * * * *
13966901 TGGAGGGAAAGGTTGAAGCCGCAATGGCAAACCTTGTACCTCAGAGACGTGATGGGAAAGATTGA
1 TGGAGGGAAAGGTTAAAGCCGCAACGACAAACCTTGTACCTCAGAGAAGTGATGGGAAGGATTGA
13966966 AGTCGCAACGGCGAATCTTGTACCATGAAGATA
66 AGTCGCAACGGCGAATCTTGTACCATGAAGATA
* * ** *
13966999 TAGAAGGAAAGGTTAAAGCCGCAACGGTAAACCTTGTACCTTAGAGAAGTGATGGGAAGGATTGA
1 TGGAGGGAAAGGTTAAAGCCGCAACGACAAACCTTGTACCTCAGAGAAGTGATGGGAAGGATTGA
* *
13967064 AGCCGCAACGGCGAATCTTGTACCATGAAGAAA
66 AGTCGCAACGGCGAATCTTGTACCATGAAGATA
*
13967097 TGGAGGGAAAGGTTAAAG-CGACAACGACAAACCTTGTACCTCAAAGAAGTGATGGGAAGGATTG
1 TGGAGGGAAAGGTTAAAGCCG-CAACGACAAACCTTGTACCTCAGAGAAGTGATGGGAAGGATTG
* * *
13967161 AAGTCGTAACAGCAAATCTTGTACCATGAAGATA
65 AAGTCGCAACGGCGAATCTTGTACCATGAAGATA
* *
13967195 TGGAGGGAAAGGTTAAAGCCACAACGATAAACCTTGTACCTCAGAGAAGTGATGGGA
1 TGGAGGGAAAGGTTAAAGCCGCAACGACAAACCTTGTACCTCAGAGAAGTGATGGGA
13967252 TTGAAGCCAT
Statistics
Matches: 227, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
97 2 0.01
98 224 0.99
99 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (98 bp):
TGGAGGGAAAGGTTAAAGCCGCAACGACAAACCTTGTACCTCAGAGAAGTGATGGGAAGGATTGA
AGTCGCAACGGCGAATCTTGTACCATGAAGATA
Found at i:13967297 original size:143 final size:143
Alignment explanation
Indices: 13967119--13967394 Score: 374
Period size: 143 Copynumber: 1.9 Consensus size: 143
13967109 TTAAAGCGAC
* * *
13967119 AACGACAAACCTTGTACCTCAAAGAAGTGATGGGAAGGATTGAAG-TCGTAACAGCAAATCTTGT
1 AACGACAAACCTTGTACCTCAAAGAAGTGATGGGAAAGATTGAAGCT-GCAACAGCAAATCCTGT
* * * *
13967183 ACCATGAAGATATGGAGGGAAAGGTTAAAGCCACAACGATAAACCTTGTACCTCAGAGAAGTGAT
65 AACATGAAGATATGAAGGGAAAGGTTAAAGCCACAACGACAAACCTTGTACCTCAGAGAAGTAAT
13967248 GGGATTGAAGCCAT
130 GGGATTGAAGCCAT
* ** **
13967262 AACGGCAAACCTTGTACCTCAAAGAAGTGATGGGAAAGATTGAAGCTGCAATGGTGAATCCTGTA
1 AACGACAAACCTTGTACCTCAAAGAAGTGATGGGAAAGATTGAAGCTGCAACAGCAAATCCTGTA
* * * * * *
13967327 ACATGAAGATATGAAGGGAAAGGTTGAAGCCGCAATGGCAAACCTTGTACCTTAGAGATGTAATG
66 ACATGAAGATATGAAGGGAAAGGTTAAAGCCACAACGACAAACCTTGTACCTCAGAGAAGTAATG
13967392 GGA
131 GGA
13967395 AAGATTGAAG
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
143 113 0.99
144 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (143 bp):
AACGACAAACCTTGTACCTCAAAGAAGTGATGGGAAAGATTGAAGCTGCAACAGCAAATCCTGTA
ACATGAAGATATGAAGGGAAAGGTTAAAGCCACAACGACAAACCTTGTACCTCAGAGAAGTAATG
GGATTGAAGCCAT
Found at i:13972750 original size:30 final size:30
Alignment explanation
Indices: 13972716--13972891 Score: 123
Period size: 30 Copynumber: 5.9 Consensus size: 30
13972706 ATTTTATTTT
13972716 AAAATTAT-ATTTTGACCCCTAAACTTTCTA
1 AAAATT-TCATTTTGACCCCTAAACTTTCTA
* * *
13972746 AAAA-TTCAAATTTGACCCCTTAAAGTTT-TT
1 AAAATTTC-ATTTTGACCCC-TAAACTTTCTA
* *
13972776 AAAATTGCATTTT-ATCCCCTAAAATTTCTA
1 AAAATTTCATTTTGA-CCCCTAAACTTTCTA
* * *
13972806 AAAATTTCGTTTTGATCCCC-AAACTTTATG
1 AAAATTTCATTTTGA-CCCCTAAACTTTCTA
* * * * **
13972836 AAATTTTGA-GTTAACCCAAAAACTTTCTA
1 AAAATTTCATTTTGACCCCTAAACTTTCTA
13972865 AAAATTTCATTTT-ACCCCTTAAACTTT
1 AAAATTTCATTTTGACCCC-TAAACTTT
13972892 TCGATATTTT
Statistics
Matches: 111, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
28 4 0.04
29 31 0.28
30 61 0.55
31 15 0.14
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATTTCATTTTGACCCCTAAACTTTCTA
Found at i:13978061 original size:50 final size:50
Alignment explanation
Indices: 13977984--13978090 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 50
13977974 ATGCAACTAC
* * * *
13977984 CGATACAACTCAAGCCAGTGAATAACCTCTTTCCTACCTTGTACTTTTAT
1 CGATACAACTCAAGCCAGTGAACAACCTCTTTCCTACCCTATACTTCTAT
*
13978034 CGATACAACTCAAGCCGGTGAACAACCTCTTTCCTACCCTATACTTCTAT
1 CGATACAACTCAAGCCAGTGAACAACCTCTTTCCTACCCTATACTTCTAT
13978084 CGATACA
1 CGATACA
13978091 TGCATGAGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.30
Consensus pattern (50 bp):
CGATACAACTCAAGCCAGTGAACAACCTCTTTCCTACCCTATACTTCTAT
Found at i:13978577 original size:15 final size:15
Alignment explanation
Indices: 13978557--13978592 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
13978547 CTAGGATGAA
13978557 CTGTTAATAACTTGT
1 CTGTTAATAACTTGT
13978572 CTGTTAATAACTTGT
1 CTGTTAATAACTTGT
13978587 CTGTTA
1 CTGTTA
13978593 CCAGTACTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (15 bp):
CTGTTAATAACTTGT
Found at i:13978879 original size:53 final size:53
Alignment explanation
Indices: 13978796--13978983 Score: 272
Period size: 52 Copynumber: 3.6 Consensus size: 53
13978786 TTCCCATTTA
* *
13978796 ATACTCACGATGACACAAAGTCATCGGACCTCATAATCCGTAAAAGGATCCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGGATTCAT
*
13978849 ATGCTCACGATGACACATAGTCATCGGACCTCATAATCCGT-AAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGGATTCAT
* * * *
13978901 ATACTTACAATGACACATAGTTATCAGACCTCATAATCCGTAAAA-GATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGGATTCAT
* * *
13978953 ATACTCATGATGACATATAGTCATCGAACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
13978984 TTTTACATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
52 77 0.65
53 42 0.35
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (53 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGGATTCAT
Found at i:13986376 original size:18 final size:18
Alignment explanation
Indices: 13986355--13986389 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13986345 CGTCTTCAAT
*
13986355 TTCCACAGGATCTTCTTC
1 TTCCACAGGATCCTCTTC
*
13986373 TTCCTCAGGATCCTCTT
1 TTCCACAGGATCCTCTT
13986390 ATAGATCTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.40
Consensus pattern (18 bp):
TTCCACAGGATCCTCTTC
Found at i:13986407 original size:18 final size:18
Alignment explanation
Indices: 13986392--13986426 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13986382 ATCCTCTTAT
13986392 AGATCTTCTTCTTCTTCA
1 AGATCTTCTTCTTCTTCA
*
13986410 AGGTCTTCTTCTTCTTC
1 AGATCTTCTTCTTCTTC
13986427 TTAAGCTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.29, G:0.09, T:0.51
Consensus pattern (18 bp):
AGATCTTCTTCTTCTTCA
Found at i:13987205 original size:26 final size:24
Alignment explanation
Indices: 13987176--13987235 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
13987166 TTAATTAGTA
*
13987176 TAAAATATTAACAATTTAAATTAAAT
1 TAAAA-ATTAACAAATTAAA-TAAAT
* *
13987202 TAAAGAGTTAATAAATTAAATAAAT
1 TAAA-AATTAACAAATTAAATAAAT
13987227 TAAAAATTA
1 TAAAAATTA
13987236 GAAGATGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 4 0.14
25 9 0.31
26 15 0.52
27 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (24 bp):
TAAAAATTAACAAATTAAATAAAT
Found at i:13991932 original size:7 final size:7
Alignment explanation
Indices: 13991918--13992007 Score: 58
Period size: 7 Copynumber: 12.9 Consensus size: 7
13991908 CTATGGACTG
13991918 TAGGGTT
1 TAGGGTT
*
13991925 TGGGGTT
1 TAGGGTT
13991932 TAGGGTT
1 TAGGGTT
13991939 TA-GGTT
1 TAGGGTT
13991945 TAGAGGTT
1 TAG-GGTT
*
13991953 AAGAGG-T
1 TAG-GGTT
**
13991960 TAAAGTT
1 TAGGGTT
*
13991967 TGGGGTT
1 TAGGGTT
*
13991974 TAAGGTT
1 TAGGGTT
*
13991981 TAAGGTT
1 TAGGGTT
*
13991988 TAGAGTT
1 TAGGGTT
*
13991995 TAAGGTT
1 TAGGGTT
*
13992002 TGGGGT
1 TAGGGT
13992008 CCGACGATTA
Statistics
Matches: 63, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
6 7 0.11
7 47 0.75
8 9 0.14
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:13991952 original size:21 final size:21
Alignment explanation
Indices: 13991928--13992002 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
13991918 TAGGGTTTGG
*
13991928 GGTTTAGGGTTTAGGTTTAGA
1 GGTTTAAGGTTTAGGTTTAGA
* * * *
13991949 GGTTAAGAGGTTAAAGTTT-GG
1 GGTTTA-AGGTTTAGGTTTAGA
13991970 GGTTTAAGGTTTAAGGTTTAGA
1 GGTTTAAGGTTT-AGGTTTAGA
13991992 -GTTTAAGGTTT
1 GGTTTAAGGTTT
13992003 GGGGTCCGAC
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
20 5 0.12
21 27 0.64
22 10 0.24
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGTTTAGA
Found at i:13991987 original size:35 final size:35
Alignment explanation
Indices: 13991929--13992007 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
13991919 AGGGTTTGGG
*
13991929 GTTTAGGGTTTAGGTTTAGAGGTTAAGAGGTTAAA
1 GTTTGGGGTTTAGGTTTAGAGGTTAAGAGGTTAAA
* * *
13991964 GTTTGGGGTTTAAGGTTTA-AGGTTTAGAGTTTAAG
1 GTTTGGGGTTT-AGGTTTAGAGGTTAAGAGGTTAAA
13991999 GTTTGGGGT
1 GTTTGGGGT
13992008 CCGACGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 32 0.82
36 7 0.18
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.41
Consensus pattern (35 bp):
GTTTGGGGTTTAGGTTTAGAGGTTAAGAGGTTAAA
Found at i:13998125 original size:16 final size:17
Alignment explanation
Indices: 13998105--13998152 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
13998095 AATTTTAAGA
13998105 CAAATTAATTATTTTAT
1 CAAATTAATTATTTTAT
* *
13998122 -AAATAAATTATATTTTT
1 CAAATTAATTAT-TTTAT
13998139 CAATATTAATTATT
1 CAA-ATTAATTATT
13998153 CAAAATTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 3 0.12
19 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (17 bp):
CAAATTAATTATTTTAT
Found at i:14018336 original size:24 final size:24
Alignment explanation
Indices: 14018290--14018336 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
14018280 CAGTTGAACT
* *
14018290 CTATTTATTTGTTTCAATTAAACC
1 CTATTTATTTATTTCAATCAAACC
* *
14018314 CTATTTATTTATTTGAGTCAAAC
1 CTATTTATTTATTTCAATCAAAC
14018337 TCTTATTACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (24 bp):
CTATTTATTTATTTCAATCAAACC
Found at i:14020327 original size:24 final size:24
Alignment explanation
Indices: 14020276--14020330 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
14020266 TCTTTTAGTT
*
14020276 AAACTCTATTTATTTATTTCAATT
1 AAACTCTATTTATTTATTTCAATC
* * * *
14020300 AAACTCTGTTTATTTGTTTGAGTC
1 AAACTCTATTTATTTATTTCAATC
14020324 AAACTCT
1 AAACTCT
14020331 TATTACTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (24 bp):
AAACTCTATTTATTTATTTCAATC
Found at i:14024225 original size:15 final size:15
Alignment explanation
Indices: 14024188--14024229 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
14024178 TAAAAGAGAT
14024188 AACAATA-AAATAAC
1 AACAATATAAATAAC
**
14024202 ATGAA-ATAAATAAC
1 AACAATATAAATAAC
14024216 AACAATATAAATAA
1 AACAATATAAATAA
14024230 ACAAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.05
14 13 0.59
15 8 0.36
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (15 bp):
AACAATATAAATAAC
Found at i:14024241 original size:12 final size:12
Alignment explanation
Indices: 14024224--14024292 Score: 68
Period size: 12 Copynumber: 5.5 Consensus size: 12
14024214 ACAACAATAT
14024224 AAATAAACAAAA
1 AAATAAACAAAA
14024236 AAATAAA-AATAA
1 AAATAAACAA-AA
* **
14024248 AAATAAATACTA
1 AAATAAACAAAA
14024260 AAATAAACAAACA
1 AAATAAACAAA-A
14024273 AATATAAACAATAA
1 AA-ATAAACAA-AA
14024287 AAATAA
1 AAATAA
14024293 TTGAGATTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
11 2 0.04
12 25 0.53
13 8 0.17
14 11 0.23
15 1 0.02
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAACAAAA
Found at i:14024334 original size:19 final size:17
Alignment explanation
Indices: 14024310--14024350 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 17
14024300 TAGACATGAA
14024310 AATAAATGACAAATAAATC
1 AATAAAT-ACAAA-AAATC
14024329 AAT-AA-ACAAAAAATC
1 AATAAATACAAAAAATC
14024344 AATAAAT
1 AATAAAT
14024351 TAAACGTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
18 2 0.10
19 3 0.15
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (17 bp):
AATAAATACAAAAAATC
Found at i:14024342 original size:15 final size:16
Alignment explanation
Indices: 14024318--14024349 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14024308 AAAATAAATG
14024318 ACAAATAAATCAATAA
1 ACAAATAAATCAATAA
14024334 ACAAA-AAATCAATAA
1 ACAAATAAATCAATAA
14024349 A
1 A
14024350 TTAAACGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (16 bp):
ACAAATAAATCAATAA
Found at i:14024558 original size:6 final size:7
Alignment explanation
Indices: 14024531--14024556 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14024521 TCGAAAGAAG
14024531 AAAAAAT
1 AAAAAAT
14024538 AAAAAAT
1 AAAAAAT
14024545 AAAAAAT
1 AAAAAAT
14024552 AAAAA
1 AAAAA
14024557 TACAAATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:14025398 original size:49 final size:49
Alignment explanation
Indices: 14025273--14026003 Score: 537
Period size: 49 Copynumber: 14.9 Consensus size: 49
14025263 AGATTCGACA
* * * * * *
14025273 TTGCGACTTCAATCTGTTCCCTCTTTGGTTTTAAGGTGTTAGGTCCTTCA
1 TTGCGACTTCAACCT-ATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * * *
14025323 TCT-C-ACCTTCAACCTATCTCTTTTCGATTTTAAGGTGTAAGATTCGTCG
1 T-TGCGA-CTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * *
14025372 TTGTGACTTTAATCT-TCCCCTCTTCGATTTTAGGGTGTTAGGTCCGTCG
1 TTGCGACTTCAACCTAT-CCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * * * *
14025421 TTAC-AGCTTTAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTTCGTCA
1 TTGCGA-CTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * **
14025470 TTGTGACTTCAACCTATCCCTCTTC-AGTTTTAAGGTGTAAGGTCCACCG
1 TTGCGACTTCAACCTATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCGTCG
* * * * * * **
14025519 TTGCGGCTTCAACCTTTCCCTTTTTGGTTTTAAGGTGTTAGATCCACCG
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * *
14025568 TTGCGGCTTCAA-TTATCCCTATTCGATTTTAAGGTGTTAGGTTCGTCG
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * *
14025616 TTGCGACTTCAACCTATCCCTCTTTGATTTTAAGGTGTAAGATCCATCG
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * * *
14025665 TTGTGACTTCAATCTTTCCCTCTTCGATTTTTTAGGTGTTAGGTCCGCCG
1 TTGCGACTTCAACCTATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCGTCG
* * * **
14025715 TTACGGCTTCAACCTATCCCTCTTC-ATTTTAAGGTGTAAGGTTTGTCG
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * * *
14025763 TTGCGACTTCAACCTATCCCTTTTCAATTTTAAGGTGTAAGATCCATCG
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * * * * ** * *** *
14025812 TTGCAACTTTAATCTTTCCCTATTCTATTTTTTGGGTGTTAGATCTACCA
1 TTGCGACTTCAACCTATCCCTCTTCGA-TTTTAAGGTGTTAGGTCCGTCG
* * * *
14025862 TTGCGGCTTCAATCTTTCCCTCTTCGATTTTAAGGTGTTAGGTCCGCCG
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
* * * * * *
14025911 TTGTGGCTTCAACCTATCCCTATTCAATTTTAACGTGTAAGGTTCAC-T-G
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGG-TC-CGTCG
* ** * *
14025960 TTGTGGGTTCAACCTTTCCCTCTTTGATTTT-AGGATGTTAGGTC
1 TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGG-TGTTAGGTC
14026004 TGCCGTTATG
Statistics
Matches: 540, Mismatches: 124, Indels: 36
0.77 0.18 0.05
Matches are distributed among these distances:
48 85 0.16
49 363 0.67
50 90 0.17
51 2 0.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (49 bp):
TTGCGACTTCAACCTATCCCTCTTCGATTTTAAGGTGTTAGGTCCGTCG
Found at i:14025435 original size:98 final size:99
Alignment explanation
Indices: 14025255--14026003 Score: 596
Period size: 98 Copynumber: 7.6 Consensus size: 99
14025245 TTTTTTTCAA
* * * * * *
14025255 AAGGTGTAAGATTCGACATTGCGACTTCAATCTGTTCCCTCTTTGGTTTTAAGGTGTTAGGTCCT
1 AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGGTGTTAGGTCCG
* * *
14025320 TCATCT-CACCTTCAACCTATCTCTTTTCGATTTT
66 TCGT-TGCAGCTTCAACCTATCCCTTTTCGATTTT
* * * *
14025354 AAGGTGTAAGATTCGTCGTTGTGACTTTAATCT-TCCCCTCTTCGATTTTAGGGTGTTAGGTCCG
1 AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGGTGTTAGGTCCG
* * * *
14025418 TCGTTACAGCTTTAACCTATCCCTCTTCAATTTT
66 TCGTTGCAGCTTCAACCTATCCCTTTTCGATTTT
* * * * * * *
14025452 AGGGTGTTAGGTTCGTCATTGTGACTTCAACCTA-TCCCTCTTC-AGTTTTAAGGTGTAAGGTCC
1 AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGA-TTTTAAGGTGTTAGGTCC
** * * * *
14025515 ACCGTTGCGGCTTCAACCTTTCCCTTTTTGGTTTT
65 GTCGTTGCAGCTTCAACCTATCCCTTTTCGATTTT
* * ** * * *
14025550 AAGGTGTTAGATCCACCGTTGCGGCTTCAAT-TA-TCCCTATTCGATTTTAAGGTGTTAGGTTCG
1 AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGGTGTTAGGTCCG
14025613 TCGTTGC-GACTTCAACCTATCCCTCTTT-GATTTT
66 TCGTTGCAG-CTTCAACCTATCCCT-TTTCGATTTT
* * * *
14025647 AAGGTGTAAGATCCATCGTTGTGACTTCAATCT-TTCCCTCTTCGATTTTTTAGGTGTTAGGTCC
1 AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGA-TTTTAAGGTGTTAGGTCC
* * * *
14025711 GCCGTTACGGCTTCAACCTATCCCTCTTC-ATTTT
65 GTCGTTGCAGCTTCAACCTATCCCTTTTCGATTTT
* * * * * * * *
14025745 AAGGTGTAAGGTTTGTCGTTGCGACTTCAACCTA-TCCCTTTTCAATTTTAAGGTGTAAGATCCA
1 AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGGTGTTAGGTCCG
* * * * * *
14025809 TCGTTGCAACTTTAATCTTTCCCTATTCTATTTTT
66 TCGTTGCAGCTTCAACCTATCCCTTTTCGA-TTTT
** * * *
14025844 TGGGTGTTAGA-TC-TACCATTGCGGCTTCAATCT-TTCCCTCTTCGATTTTAAGGTGTTAGGTC
1 AAGGTGTAAGATTCGT--CGTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGGTGTTAGGTC
* ** * *
14025906 CGCCGTTGTGGCTTCAACCTATCCCTATTCAATTTT
64 CGTCGTTGCAGCTTCAACCTATCCCTTTTCGATTTT
* * * * ** * *
14025942 AACGTGTAAGGTTC-ACTGTTGTGGGTTCAACCT-TTCCCTCTTTGATTTT-AGGATGTTAGGTC
1 AAGGTGTAAGATTCGTC-GTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGG-TGTTAGGTC
14026004 TGCCGTTATG
Statistics
Matches: 518, Mismatches: 112, Indels: 41
0.77 0.17 0.06
Matches are distributed among these distances:
96 1 0.00
97 120 0.23
98 256 0.49
99 140 0.27
100 1 0.00
ACGTcount: A:0.18, C:0.23, G:0.19, T:0.40
Consensus pattern (99 bp):
AAGGTGTAAGATTCGTCGTTGCGACTTCAATCTATTCCCTCTTCGATTTTAAGGTGTTAGGTCCG
TCGTTGCAGCTTCAACCTATCCCTTTTCGATTTT
Found at i:14025557 original size:147 final size:147
Alignment explanation
Indices: 14025290--14026027 Score: 703
Period size: 147 Copynumber: 5.0 Consensus size: 147
14025280 TTCAATCTGT
* * * * * * * *
14025290 TCCCTCTTTGGTTTTAAGGTGTTAGGTCCTTCATCT-C-ACCTTCAACCTATCTCTTTTCGATTT
1 TCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGT-TGCGA-CTTCAACCTATCCCTCTTCAATTT
* ** * * * * * * * *
14025353 TAAGGTGTAAGATTCGTCGTTGTGACTTTAATCTTCCCCTCTTCGATTTTAGGGTGTTAGGTCCG
64 TAAGGTGTAAGATCCACCGTTGCGACTTCAACCTTTCCCTCTTTGTTTTTAAGGTGTTAGGTCCA
* * *
14025418 TCGTTACAGCTTTAACCTA
129 CCGTTACGGCTTCAACCTA
* * * * *
14025437 TCCCTCTTCAATTTTAGGGTGTTAGGTTCGTCATTGTGACTTCAACCTATCCCTCTTCAGTTTTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTA
* * * * *
14025502 AGGTGTAAGGTCCACCGTTGCGGCTTCAACCTTTCCCTTTTTGGTTTTAAGGTGTTAGATCCACC
66 AGGTGTAAGATCCACCGTTGCGACTTCAACCTTTCCCTCTTTGTTTTTAAGGTGTTAGGTCCACC
* *
14025567 GTTGCGGCTTCAA-TTA
131 GTTACGGCTTCAACCTA
* **
14025583 TCCCTATTCGATTTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTTTGATTTTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTA
* * * * * *
14025648 AGGTGTAAGATCCATCGTTGTGACTTCAATCTTTCCCTCTTCGATTTTTTAGGTGTTAGGTCCGC
66 AGGTGTAAGATCCACCGTTGCGACTTCAACCTTTCCCTCTTTG-TTTTTAAGGTGTTAGGTCCAC
14025713 CGTTACGGCTTCAACCTA
130 CGTTACGGCTTCAACCTA
* * *
14025731 TCCCTCTTC-ATTTTAAGGTGTAAGGTTTGTCGTTGCGACTTCAACCTATCCCTTTTCAATTTTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTA
* * * * * * ** * *
14025795 AGGTGTAAGATCCATCGTTGCAACTTTAATCTTTCCCTATTCTATTTTTTGGGTGTTAGATCTAC
66 AGGTGTAAGATCCACCGTTGCGACTTCAACCTTTCCCTCTT-TGTTTTTAAGGTGTTAGGTCCAC
* * * *
14025860 CATTGCGGCTTCAATCTT
130 CGTTACGGCTTCAACCTA
* * * * *
14025878 TCCCTCTTCGATTTTAAGGTGTTAGGTCCGCCGTTGTGGCTTCAACCTATCCCTATTCAATTTTA
1 TCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTA
* * * * * ** * **
14025943 ACGTGTAAGGTTCACTGTTGTGGGTTCAACCTTTCCCTCTTTGATTTT-AGGATGTTAGGTCTGC
66 AGGTGTAAGATCCACCGTTGCGACTTCAACCTTTCCCTCTTTGTTTTTAAGG-TGTTAGGTCCAC
* *
14026007 CGTTATGGCTTCAACATA
130 CGTTACGGCTTCAACCTA
14026025 TCC
1 TCC
14026028 TTATTCAAAC
Statistics
Matches: 482, Mismatches: 102, Indels: 14
0.81 0.17 0.02
Matches are distributed among these distances:
146 98 0.20
147 296 0.61
148 88 0.18
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (147 bp):
TCCCTCTTCGATTTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTA
AGGTGTAAGATCCACCGTTGCGACTTCAACCTTTCCCTCTTTGTTTTTAAGGTGTTAGGTCCACC
GTTACGGCTTCAACCTA
Found at i:14025900 original size:196 final size:196
Alignment explanation
Indices: 14025271--14025951 Score: 680
Period size: 196 Copynumber: 3.5 Consensus size: 196
14025261 TAAGATTCGA
* ** *
14025271 CATTGCGACTTCAATCTGTTCCCTCTTTG-GTTTTAAGGTGTTAGGTCCTTCATCTCAC--CTTC
1 CATTGCGACTTCAATCT-TTCCCTCTTCGAGTTTTAAGGTGTTAGGTCCGCCGT-T-ACGGCTTC
* * * * *
14025333 AACCTATCTCTTTTCGATTTTAAGGTGTAAGATTCGTCGTTGTGACTTTAATCT-TCCCCTCTTC
63 AACCTATCCCTTTTCAATTTTAAGGTGTAAGATTCGTCGTTGCGACTTCAA-CTAT-CCCTATTC
* * * *
14025397 GATTTTAGGGTGTTAGGTCCGTCGTTACAGCTTTAACCTATCCCTCTTCAATTTTAGGGTGTTAG
126 GATTTTAAGGTGTTAGGTCCGTCGTTGCAACTTTAACCTATCCCTCTTCTATTTTAGGGTGTTAG
*
14025462 GT-T-C
191 ATCTAC
* * * * * *
14025466 GTCATTGTGACTTCAACCTATCCCTCTTC-AGTTTTAAGGTGTAAGGTCCACCGTTGCGGCTTCA
1 --CATTGCGACTTCAATCTTTCCCTCTTCGAGTTTTAAGGTGTTAGGTCCGCCGTTACGGCTTCA
* *** * * ** * *
14025530 ACCTTTCCCTTTTTGGTTTTAAGGTGTTAGATCCACCGTTGCGGCTTCAATTATCCCTATTCGAT
64 ACCTATCCCTTTTCAATTTTAAGGTGTAAGATTCGTCGTTGCGACTTCAACTATCCCTATTCGAT
* * * * *
14025595 TTTAAGGTGTTAGGTTCGTCGTTGCGACTTCAACCTATCCCTCTT-TGATTTTAAGGTGTAAGAT
129 TTTAAGGTGTTAGGTCCGTCGTTGCAACTTTAACCTATCCCTCTTCT-ATTTTAGGGTGTTAGAT
* *
14025659 CCAT
193 CTAC
* * * *
14025663 CGTTGTGACTTCAATCTTTCCCTCTTCGATTTTTTAGGTGTTAGGTCCGCCGTTACGGCTTCAAC
1 CATTGCGACTTCAATCTTTCCCTCTTCGAGTTTTAAGGTGTTAGGTCCGCCGTTACGGCTTCAAC
* * * * *
14025728 CTATCCCTCTTC-ATTTTAAGGTGTAAGGTTTGTCGTTGCGACTTCAACCTATCCCTTTTCAATT
66 CTATCCCTTTTCAATTTTAAGGTGTAAGATTCGTCGTTGCGACTTCAA-CTATCCCTATTCGATT
* * * * * * *
14025792 TTAAGGTGTAAGATCCATCGTTGCAACTTTAATCTTTCCCTATTCTATTTTTTGGGTGTTAGATC
130 TTAAGGTGTTAGGTCCGTCGTTGCAACTTTAACCTATCCCTCTTCTA-TTTTAGGGTGTTAGATC
14025857 TAC
194 TAC
* **
14025860 CATTGCGGCTTCAATCTTTCCCTCTTCGA-TTTTAAGGTGTTAGGTCCGCCGTTGTGGCTTCAAC
1 CATTGCGACTTCAATCTTTCCCTCTTCGAGTTTTAAGGTGTTAGGTCCGCCGTTACGGCTTCAAC
* *
14025924 CTATCCCTATTCAATTTTAACGTGTAAG
66 CTATCCCTTTTCAATTTTAAGGTGTAAG
14025952 GTTCACTGTT
Statistics
Matches: 394, Mismatches: 78, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
194 1 0.00
195 116 0.29
196 206 0.52
197 71 0.18
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (196 bp):
CATTGCGACTTCAATCTTTCCCTCTTCGAGTTTTAAGGTGTTAGGTCCGCCGTTACGGCTTCAAC
CTATCCCTTTTCAATTTTAAGGTGTAAGATTCGTCGTTGCGACTTCAACTATCCCTATTCGATTT
TAAGGTGTTAGGTCCGTCGTTGCAACTTTAACCTATCCCTCTTCTATTTTAGGGTGTTAGATCTA
C
Found at i:14027162 original size:45 final size:47
Alignment explanation
Indices: 14027112--14027207 Score: 142
Period size: 45 Copynumber: 2.1 Consensus size: 47
14027102 TTTCTTTTTC
*
14027112 TTTTGCTAGTTTGAGCTGCCCTTTTAGGTTTTCAACTCAAA-CTT-T
1 TTTTGCTAGTTTGAGCCGCCCTTTTAGGTTTTCAACTCAAACCTTCT
* * *
14027157 TTTTGCTAGTTTGAGCCGTCCTTTTTGGTTTTCAACTTAAACCTTCT
1 TTTTGCTAGTTTGAGCCGCCCTTTTAGGTTTTCAACTCAAACCTTCT
14027204 TTTT
1 TTTT
14027208 TTAGACGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 37 0.82
46 3 0.07
47 5 0.11
ACGTcount: A:0.16, C:0.20, G:0.15, T:0.50
Consensus pattern (47 bp):
TTTTGCTAGTTTGAGCCGCCCTTTTAGGTTTTCAACTCAAACCTTCT
Found at i:14035174 original size:16 final size:16
Alignment explanation
Indices: 14035135--14035170 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
14035125 TGGCATGAAA
14035135 ATAAAT-AACAAAAAT
1 ATAAATAAACAAAAAT
14035150 ATAAATAAACAAAAAT
1 ATAAATAAACAAAAAT
14035166 A-AAAT
1 ATAAAT
14035171 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAATAAACAAAAAT
Found at i:14035248 original size:102 final size:97
Alignment explanation
Indices: 14035126--14035315 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 97
14035116 ACAATAAAAT
14035126 GGCATGAAAATAAATAACAAAAATATAAATAAACAAAA-ATAAAATTAAAATTAAATG-CTAAAA
1 GGCATGAAAATAAATAAC---AA-ATAAATAAACAAAATAT-AAA-T-AAATTAAATGTC-AAAA
14035189 TAAACAAATAAATATAAACAATAA-AAAAAATTGAGATTA
58 TAAACAAATAAATATAAACAATAATAAAAAATTGAGATTA
* * * *
14035228 GGCATGAAAATAGATGACAAATAAATAAACAAAATATCAATAAATTAAATGTCAAAATAAACAAT
1 GGCATGAAAATAAATAACAAATAAATAAACAAAATATAAATAAATTAAATGTCAAAATAAACAAA
*
14035293 TAAATATAAATAATAATAAAAAA
66 TAAATATAAACAATAATAAAAAA
14035316 GAAAACGAAC
Statistics
Matches: 80, Mismatches: 5, Indels: 11
0.83 0.05 0.11
Matches are distributed among these distances:
96 36 0.45
97 8 0.10
98 16 0.20
99 4 0.05
102 16 0.20
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.22
Consensus pattern (97 bp):
GGCATGAAAATAAATAACAAATAAATAAACAAAATATAAATAAATTAAATGTCAAAATAAACAAA
TAAATATAAACAATAATAAAAAATTGAGATTA
Found at i:14036226 original size:23 final size:23
Alignment explanation
Indices: 14036196--14036239 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14036186 AAAAGAAAAG
14036196 AAAAAATAACT-TATATATTAATT
1 AAAAAAT-ACTATATATATTAATT
*
14036219 AAAAAATACTATATTTATTAA
1 AAAAAATACTATATATATTAA
14036240 ATATTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAAAATACTATATATATTAATT
Found at i:14036557 original size:16 final size:16
Alignment explanation
Indices: 14036536--14036582 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14036526 TGAATTATTG
**
14036536 ATTACAACTCTATTTT
1 ATTACAACTCTATTCA
*
14036552 ATTACAACTTTATTCA
1 ATTACAACTCTATTCA
*
14036568 ATTACAGCTCTATTC
1 ATTACAACTCTATTC
14036583 CGTTATAGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTACAACTCTATTCA
Found at i:14039562 original size:21 final size:21
Alignment explanation
Indices: 14039522--14039563 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14039512 GAAGAACAAG
***
14039522 GAAAATAAAACTATTTTAAAA
1 GAAAATAAAACTAAACTAAAA
14039543 GAAAATAAAACTAAACTAAAA
1 GAAAATAAAACTAAACTAAAA
14039564 TCCAATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (21 bp):
GAAAATAAAACTAAACTAAAA
Found at i:14040468 original size:32 final size:32
Alignment explanation
Indices: 14040393--14040469 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
14040383 AAAAAAATTT
*
14040393 CAACTTTTAAGCGGCCCAAAAATATTTTTTAC
1 CAACTTTTAAGGGGCCCAAAAATATTTTTTAC
** *
14040425 CAACTTTTAAGGGGCGTAAAAA-ATTTTTTCTC
1 CAACTTTTAAGGGGCCCAAAAATATTTTTT-AC
14040457 CAACTTTTAAGGG
1 CAACTTTTAAGGG
14040470 ATCCAAAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 7 0.17
32 33 0.82
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (32 bp):
CAACTTTTAAGGGGCCCAAAAATATTTTTTAC
Found at i:14044735 original size:41 final size:41
Alignment explanation
Indices: 14044690--14044827 Score: 183
Period size: 40 Copynumber: 3.4 Consensus size: 41
14044680 TTTTTGAATC
*
14044690 AATGAAAAGGTTGAAAAGGATGTTATCCGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGAATGTTATCCGAAAAGGATATCA
14044731 AATGAAAAAGGTTGAAAA-AATGTTATCCG-AAAGGATATCA
1 AATG-AAAAGGTTGAAAAGAATGTTATCCGAAAAGGATATCA
* * * * *
14044771 AATAAAAAGGTTAAAAAGTATGTTATCCAAAAAGGATAAC-
1 AATGAAAAGGTTGAAAAGAATGTTATCCGAAAAGGATATCA
*
14044811 AATGAAAAGGATGAAAA
1 AATGAAAAGGTTGAAAA
14044828 TGCTAGTAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
39 12 0.14
40 37 0.44
41 23 0.27
42 13 0.15
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.21
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGAATGTTATCCGAAAAGGATATCA
Found at i:14044869 original size:24 final size:24
Alignment explanation
Indices: 14044800--14044871 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
14044790 ATGTTATCCA
* *
14044800 AAAAGGATAACAATGAAAAGGATG
1 AAAATGATAACAATGAAAAGGTTG
* **
14044824 AAAATGCTAGTAATGAAAAGGTTG
1 AAAATGATAACAATGAAAAGGTTG
*
14044848 AAAATGATACCAATGAAAAGGTTG
1 AAAATGATAACAATGAAAAGGTTG
14044872 GAAACTGGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.51, C:0.06, G:0.24, T:0.19
Consensus pattern (24 bp):
AAAATGATAACAATGAAAAGGTTG
Found at i:14046663 original size:16 final size:16
Alignment explanation
Indices: 14046642--14046674 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14046632 ACGAGTAAGA
14046642 GGTATTATATTTAATG
1 GGTATTATATTTAATG
14046658 GGTATTATATTTAATG
1 GGTATTATATTTAATG
14046674 G
1 G
14046675 TATCAAAGCT
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:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (16 bp):
GGTATTATATTTAATG
Found at i:14052873 original size:40 final size:40
Alignment explanation
Indices: 14052832--14052935 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 40
14052822 TTTTCGGATC
*
14052832 AATGAAAAGGTTGAAAATGATGTTATTTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAATGATGTTATCT-AAAAGGATATCA
* * *
14052873 AATAAAAATGTTGAAAAAGATGTTATCTAAAAGGATATCA
1 AATGAAAAGGTTGAAAATGATGTTATCTAAAAGGATATCA
*
14052913 AATGAAAAGTTTGAAAAATGATG
1 AATGAAAAGGTTG-AAAATGATG
14052936 AAAAGGGCGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
40 22 0.41
41 32 0.59
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (40 bp):
AATGAAAAGGTTGAAAATGATGTTATCTAAAAGGATATCA
Found at i:14052886 original size:41 final size:39
Alignment explanation
Indices: 14052836--14052935 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 39
14052826 CGGATCAATG
* *
14052836 AAAAGGTTGAAAATGATGTTATTTGAAAAGGATATCAAAT
1 AAAAAGTTGAAAATGATGTTATCT-AAAAGGATATCAAAT
*
14052876 AAAAATGTTGAAAAAGATGTTATCTAAAAGGATATCAAAT
1 AAAAA-GTTGAAAATGATGTTATCTAAAAGGATATCAAAT
*
14052916 GAAAAGTTTGAAAAATGATG
1 AAAAAG-TTG-AAAATGATG
14052936 AAAAGGGCGA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.02
40 26 0.50
41 25 0.48
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (39 bp):
AAAAAGTTGAAAATGATGTTATCTAAAAGGATATCAAAT
Found at i:14053412 original size:13 final size:13
Alignment explanation
Indices: 14053383--14053427 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
14053373 AAGAAGCAAC
* *
14053383 TATATGAAATATT
1 TATATGAATTATA
14053396 TATATGAATTATA
1 TATATGAATTATA
14053409 TATA-GAATTATA
1 TATATGAATTATA
*
14053421 GATATGA
1 TATATGA
14053428 GAAAAGGGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (13 bp):
TATATGAATTATA
Found at i:14055097 original size:16 final size:16
Alignment explanation
Indices: 14055076--14055106 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14055066 TTGTGGATAC
14055076 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
14055092 CATTTTATCTTTATT
1 CATTTTACCTTTATT
14055107 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:14057320 original size:21 final size:22
Alignment explanation
Indices: 14057296--14057350 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
14057286 TACATAGGTT
*
14057296 AAAAGTAA-AAATTGTCAGTGC
1 AAAAGTAATAAAATGTCAGTGC
14057317 AAAAGTAATATAAAATGTCAGTGC
1 AAAAGT-A-ATAAAATGTCAGTGC
*
14057341 AAATGTAATA
1 AAAAGTAATA
14057351 TAAAATGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 4 0.14
23 2 0.07
24 17 0.59
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.25
Consensus pattern (22 bp):
AAAAGTAATAAAATGTCAGTGC
Found at i:14057339 original size:24 final size:24
Alignment explanation
Indices: 14057303--14057357 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 24
14057293 GTTAAAAGTA
14057303 AAAATTGTCAGTGCAAAAGTAATAT
1 AAAA-TGTCAGTGCAAAAGTAATAT
*
14057328 AAAATGTCAGTGCAAATGTAATAT
1 AAAATGTCAGTGCAAAAGTAATAT
14057352 AAAATG
1 AAAATG
14057358 AATTGATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (24 bp):
AAAATGTCAGTGCAAAAGTAATAT
Found at i:14059953 original size:3 final size:3
Alignment explanation
Indices: 14059945--14060026 Score: 123
Period size: 3 Copynumber: 27.3 Consensus size: 3
14059935 GGGGCAATTC
*
14059945 CTT CTT CTT TTT CTT CCTT CTT -TT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
14059990 CTT CTT CTT CTT CTT CTT CTT CTT -TT CTTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT C
14060027 CTTTGCCTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
2 4 0.05
3 63 0.86
4 6 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:14065736 original size:12 final size:14
Alignment explanation
Indices: 14065719--14065765 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
14065709 CTACTGGTAG
14065719 TTCTTC-CT-CATC
1 TTCTTCACTGCATC
14065731 TTCTTCAGCTGCATC
1 TTCTTCA-CTGCATC
*
14065746 TTCTTCAACTGCAAC
1 TTCTTC-ACTGCATC
14065761 TTCTT
1 TTCTT
14065766 TTTGTTGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.20
14 2 0.07
15 21 0.70
16 1 0.03
ACGTcount: A:0.15, C:0.34, G:0.06, T:0.45
Consensus pattern (14 bp):
TTCTTCACTGCATC
Found at i:14065747 original size:15 final size:15
Alignment explanation
Indices: 14065727--14065765 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
14065717 AGTTCTTCCT
*
14065727 CATCTTCTTCAGCTG
1 CATCTTCTTCAACTG
14065742 CATCTTCTTCAACTG
1 CATCTTCTTCAACTG
*
14065757 CAACTTCTT
1 CATCTTCTT
14065766 TTTGTTGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.33, G:0.08, T:0.41
Consensus pattern (15 bp):
CATCTTCTTCAACTG
Found at i:14067126 original size:21 final size:24
Alignment explanation
Indices: 14067102--14067158 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
14067092 ACAGAGGTTA
14067102 AAAGTAA-A-AAT-TGTCAGTGTG
1 AAAGTAATATAATATGTCAGTGTG
*
14067123 AAAGTAATATAATATGTCAGTG-C
1 AAAGTAATATAATATGTCAGTGTG
14067146 AAATGTAATATAA
1 AAA-GTAATATAA
14067159 AATAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 7 0.23
22 1 0.03
23 6 0.19
24 17 0.55
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.30
Consensus pattern (24 bp):
AAAGTAATATAATATGTCAGTGTG
Found at i:14068766 original size:2 final size:2
Alignment explanation
Indices: 14068761--14068788 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14068751 ACAATGGAGG
14068761 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14068789 ATTTTCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14069539 original size:28 final size:28
Alignment explanation
Indices: 14069486--14069541 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14069476 AAAAAAATTG
* *
14069486 ATTAATTACGTAAATGACTCATATTTTT
1 ATTAAATACGTAAATGACTCAAATTTTT
*
14069514 ATTAAATACGTAAATGAC-CAAAATTTT
1 ATTAAATACGTAAATGACTCAAATTTTT
14069541 A
1 A
14069542 CAGTGAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (28 bp):
ATTAAATACGTAAATGACTCAAATTTTT
Found at i:14071924 original size:21 final size:21
Alignment explanation
Indices: 14071895--14071935 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14071885 ATATATATAT
14071895 ATATATATGAAGTTGA-TTAAA
1 ATATATATGAA-TTGAGTTAAA
*
14071916 ATATTTATGAATTGAGTTAA
1 ATATATATGAATTGAGTTAA
14071936 CATTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (21 bp):
ATATATATGAATTGAGTTAAA
Found at i:14072380 original size:80 final size:80
Alignment explanation
Indices: 14072247--14072512 Score: 365
Period size: 80 Copynumber: 3.3 Consensus size: 80
14072237 TATGTTGTCA
* *
14072247 GTTTAACTGAATAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCTAAGATTT
1 GTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCTAAGATTT
14072312 GACGGATATTTATCG
66 GACGGATATTTATCG
*
14072327 GTTTAACCGACTAGAGCTGGTCTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCTAAGATTT
1 GTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCTAAGATTT
*
14072392 GATGGATATTTGA-CG
66 GACGGATATTT-ATCG
* * * * * * * *
14072407 GTTTAACTGATTAGAGTTGGGCTCATATTTGCGGGTCATCCGCTAAGCACTGGGTGTTAGGATTT
1 GTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCTAAGATTT
* *
14072472 GACGGATATTTGTTG
66 GACGGATATTTATCG
*
14072487 G-TTAATCCAACTAGAGCTGGGCTCAC
1 GTTTAA-CCGACTAGAGCTGGGCTCAC
14072513 TTTCGCAGTT
Statistics
Matches: 162, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
79 4 0.02
80 157 0.97
81 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (80 bp):
GTTTAACCGACTAGAGCTGGGCTCACATTTGCGGTTTATCCGCTAAGCACTGGGTGCTAAGATTT
GACGGATATTTATCG
Found at i:14080683 original size:29 final size:30
Alignment explanation
Indices: 14080579--14080698 Score: 127
Period size: 30 Copynumber: 4.0 Consensus size: 30
14080569 GGGAAAAACG
* * *
14080579 GGGTCAAAAACAAAATTTTGGAAAGTTTGA
1 GGGTCAAATACAAATTTTTGGAAAGTTCGA
* * *
14080609 TGGCCAAATTCAAATTTTTGGAAAGTTCGA
1 GGGTCAAATACAAATTTTTGGAAAGTTCGA
* *
14080639 GGGTCAAATTCAAATTTTTGGAAAGTT-TA
1 GGGTCAAATACAAATTTTTGGAAAGTTCGA
* *
14080668 GGGTCAAA-ACGTAATTTTTAGAAAGTTCGA
1 GGGTCAAATAC-AAATTTTTGGAAAGTTCGA
14080698 G
1 G
14080699 AGTTAAAAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 23 0.31
30 51 0.68
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGTCAAATACAAATTTTTGGAAAGTTCGA
Found at i:14081643 original size:37 final size:37
Alignment explanation
Indices: 14081591--14081661 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
14081581 ACAACAATGG
14081591 TGGCAGCTTTCGGTGGTGCTGGTGGTGGTGGGTGACA
1 TGGCAGCTTTCGGTGGTGCTGGTGGTGGTGGGTGACA
* *
14081628 TGGCAGCTTTTGGTGGTGTTGGTGGTGGTGGGTG
1 TGGCAGCTTTCGGTGGTGCTGGTGGTGGTGGGTG
14081662 CAGCTAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.06, C:0.10, G:0.51, T:0.34
Consensus pattern (37 bp):
TGGCAGCTTTCGGTGGTGCTGGTGGTGGTGGGTGACA
Found at i:14082204 original size:34 final size:34
Alignment explanation
Indices: 14082114--14082201 Score: 81
Period size: 34 Copynumber: 2.6 Consensus size: 34
14082104 CCCAAACCTC
* * *
14082114 AAGGTTTAAGGTTT-GAGTTCAAGATTTAAGATTT
1 AAGGTTTAA-GTTTAGGGTTTATGATTTAAGATTT
* * *
14082148 AAGGTTTGAGTTTGGGGTTTATGATTTAGGA-TT
1 AAGGTTTAAGTTTAGGGTTTATGATTTAAGATTT
14082181 AAGGTTTAATGTTTTAGGGTT
1 AAGGTTTAA-G-TTTAGGGTT
14082202 ATGGGTTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
33 14 0.32
34 22 0.50
35 8 0.18
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.44
Consensus pattern (34 bp):
AAGGTTTAAGTTTAGGGTTTATGATTTAAGATTT
Found at i:14082281 original size:77 final size:75
Alignment explanation
Indices: 14082145--14082285 Score: 176
Period size: 77 Copynumber: 1.9 Consensus size: 75
14082135 AGATTTAAGA
* * * *
14082145 TTTAAGGTTTGAGTTTGGGGTTTATGATTTAGGATTAAGGTTTAATGTTTTAGGGTTATGGGTTT
1 TTTAAGGTTTGAGTTTGGAGTTTAGGATTTAGGATTAAGGTTTAATGGTTTAAGGTTATGGGTTT
14082210 AGAACTTAGG
66 AGAACTTAGG
* * * *
14082220 TTTATAGGTTATGAGTTTGGAGTTTAGGGTTTA-TATTTAGGGTTTCATGGTTTAAGGTTATGGG
1 TTTA-AGGTT-TGAGTTTGGAGTTTAGGATTTAGGA-TTAAGGTTTAATGGTTTAAGGTTATGGG
14082284 TT
63 TT
14082286 CGATGTTTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
75 4 0.07
76 6 0.11
77 45 0.82
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.47
Consensus pattern (75 bp):
TTTAAGGTTTGAGTTTGGAGTTTAGGATTTAGGATTAAGGTTTAATGGTTTAAGGTTATGGGTTT
AGAACTTAGG
Found at i:14100346 original size:18 final size:18
Alignment explanation
Indices: 14100323--14100366 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14100313 GCAATCTGAC
14100323 CAGATGCGA-TCACAGAAT
1 CAGATGC-ATTCACAGAAT
* *
14100341 CAGATGCATTCACATACT
1 CAGATGCATTCACAGAAT
14100359 CAGATGCA
1 CAGATGCA
14100367 GCCACAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (18 bp):
CAGATGCATTCACAGAAT
Found at i:14109001 original size:24 final size:24
Alignment explanation
Indices: 14108974--14109020 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14108964 ACAATCAATT
14108974 CATTTTATATTACATTTGCACTGA
1 CATTTTATATTACATTTGCACTGA
*
14108998 CATTTTATATTACTTTTGCACTG
1 CATTTTATATTACATTTGCACTG
14109021 CCAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (24 bp):
CATTTTATATTACATTTGCACTGA
Found at i:14119647 original size:21 final size:21
Alignment explanation
Indices: 14119601--14119660 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
14119591 ATCAGCACTC
14119601 TCAGATGCATCCACAACAAAG
1 TCAGATGCATCCACAACAAAG
* *
14119622 GCAGATGCATCCACACCAGAA-
1 TCAGATGCATCCACAACA-AAG
* *
14119643 TCAGACGCAGCCACAACA
1 TCAGATGCATCCACAACA
14119661 CTCTTCAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.40, C:0.33, G:0.17, T:0.10
Consensus pattern (21 bp):
TCAGATGCATCCACAACAAAG
Found at i:14123185 original size:25 final size:25
Alignment explanation
Indices: 14123146--14123195 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14123136 GTAGGTTGAA
* *
14123146 ACTGTTGCAGCCCCAAAGGATGATG
1 ACTGTTGCAACCCCAAAAGATGATG
*
14123171 ACTGTTGCAATCCCAAAAGATGATG
1 ACTGTTGCAACCCCAAAAGATGATG
14123196 CAAAGACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (25 bp):
ACTGTTGCAACCCCAAAAGATGATG
Found at i:14127168 original size:21 final size:21
Alignment explanation
Indices: 14127144--14127199 Score: 103
Period size: 21 Copynumber: 2.6 Consensus size: 21
14127134 ATTTTCTAAT
14127144 AAAGTAATTAAAATGAAAGGA
1 AAAGTAATTAAAATGAAAGGA
14127165 AAAGTAATTAAAATGAAAGGA
1 AAAGTAATTAAAATGAAAGGA
14127186 AAAGTAAATTAAAA
1 AAAGT-AATTAAAA
14127200 GAATTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (21 bp):
AAAGTAATTAAAATGAAAGGA
Found at i:14127849 original size:46 final size:45
Alignment explanation
Indices: 14127782--14127877 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 45
14127772 CGAGAAAGAG
14127782 CCACTGATCGTGGAAAAGGGAAAATTTCAAAATAGTCCCTAGATTT
1 CCACTGATCGTGGAAAAGGGAAAATTTCAAAATAG-CCCTAGATTT
14127828 CCACTGATCGTGGAAAAGGGAAAATTTCAAAATAGCCCTAGATTT
1 CCACTGATCGTGGAAAAGGGAAAATTTCAAAATAGCCCTAGATTT
14127873 CCACT
1 CCACT
14127878 TAAGCAGCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 15 0.30
46 35 0.70
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (45 bp):
CCACTGATCGTGGAAAAGGGAAAATTTCAAAATAGCCCTAGATTT
Found at i:14128364 original size:24 final size:24
Alignment explanation
Indices: 14128312--14128472 Score: 209
Period size: 24 Copynumber: 6.8 Consensus size: 24
14128302 AAACTCTGTT
*
14128312 TGGGCTCGTAAGAGCTAA-CTATC
1 TGGGCTCGTATGAGCTAACCTATC
*
14128335 TAGGCTCGTATGAGCTAACCTATC
1 TGGGCTCGTATGAGCTAACCTATC
14128359 TGGGCTCGTATGAGCTAACCTAT-
1 TGGGCTCGTATGAGCTAACCTATC
* * ** * *
14128382 TTGGCTCGTAAGAGCTAATTTTGTT
1 TGGGCTCGTATGAGCTAA-CCTATC
*
14128407 TGGGCTCGTATGAGCTAACATATC
1 TGGGCTCGTATGAGCTAACCTATC
14128431 TGGGCTCGTATGAGCTAACCTATC
1 TGGGCTCGTATGAGCTAACCTATC
*
14128455 TGGACTCGTATGAGCTAA
1 TGGGCTCGTATGAGCTAA
14128473 TTCTGTTTGG
Statistics
Matches: 119, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
23 32 0.27
24 71 0.60
25 16 0.13
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (24 bp):
TGGGCTCGTATGAGCTAACCTATC
Found at i:14128424 original size:72 final size:73
Alignment explanation
Indices: 14128316--14128491 Score: 259
Period size: 72 Copynumber: 2.5 Consensus size: 73
14128306 TCTGTTTGGG
* * * *
14128316 CTCGTAAGAGCTAA--CTATCTAGGCTCGTATGAGCTAACCTATCTGGGCTCGTATGAGCTAACC
1 CTCGTAAGAGCTAATTCTGTTTGGGCTCGTATGAGCTAACATATCTGGGCTCGTATGAGCTAACC
*
14128379 TATTTGG-
66 TATCTGGA
*
14128386 CTCGTAAGAGCTAATTTTGTTTGGGCTCGTATGAGCTAACATATCTGGGCTCGTATGAGCTAACC
1 CTCGTAAGAGCTAATTCTGTTTGGGCTCGTATGAGCTAACATATCTGGGCTCGTATGAGCTAACC
14128451 TATCTGGA
66 TATCTGGA
* *
14128459 CTCGTATGAGCTAATTCTGTTTGGGGTCGTATG
1 CTCGTAAGAGCTAATTCTGTTTGGGCTCGTATG
14128492 GCAAAATTCT
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
70 14 0.15
72 50 0.53
73 30 0.32
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (73 bp):
CTCGTAAGAGCTAATTCTGTTTGGGCTCGTATGAGCTAACATATCTGGGCTCGTATGAGCTAACC
TATCTGGA
Found at i:14136708 original size:21 final size:22
Alignment explanation
Indices: 14136673--14136713 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14136663 ATTCCATGTT
*
14136673 CAGGAGTCGATGTCGCGACACA
1 CAGGAGTCCATGTCGCGACACA
14136695 CAGG-GTCCATGTCGCGACA
1 CAGGAGTCCATGTCGCGACA
14136714 TGGCTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (22 bp):
CAGGAGTCCATGTCGCGACACA
Found at i:14144421 original size:16 final size:17
Alignment explanation
Indices: 14144396--14144428 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14144386 ACGTCTCAAA
14144396 CTTTTACTTTT-TGTTT
1 CTTTTACTTTTATGTTT
*
14144412 CTTTTCCTTTTATGTTT
1 CTTTTACTTTTATGTTT
14144429 TTCACAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (17 bp):
CTTTTACTTTTATGTTT
Found at i:14149198 original size:17 final size:17
Alignment explanation
Indices: 14149178--14149211 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14149168 ACATCTCAAA
*
14149178 CTTTTACTTTTTTGTTT
1 CTTTTACTTTTATGTTT
*
14149195 CTTTTCCTTTTATGTTT
1 CTTTTACTTTTATGTTT
14149212 TTCACAACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.74
Consensus pattern (17 bp):
CTTTTACTTTTATGTTT
Found at i:14149964 original size:9 final size:9
Alignment explanation
Indices: 14149950--14149975 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14149940 GTGTTAAATA
14149950 ATAATAATC
1 ATAATAATC
14149959 ATAATAATC
1 ATAATAATC
14149968 ATAATAAT
1 ATAATAAT
14149976 TAAGAAGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAATAATC
Found at i:14152511 original size:14 final size:16
Alignment explanation
Indices: 14152479--14152521 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14152469 GAATTTTTTG
14152479 TTTTGTTTTTCATTAT
1 TTTTGTTTTTCATTAT
14152495 TTTTGTTTTT-A-TA-
1 TTTTGTTTTTCATTAT
14152508 TTTTGCTTTTTCAT
1 TTTTG-TTTTTCAT
14152522 GTTCTTGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.21
14 7 0.29
15 2 0.08
16 10 0.42
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (16 bp):
TTTTGTTTTTCATTAT
Found at i:14161948 original size:21 final size:21
Alignment explanation
Indices: 14161922--14161974 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14161912 ATGACTTGTT
*
14161922 TCGGTAGAAGTAACACATGTA
1 TCGGTAGAACTAACACATGTA
* * *
14161943 TCGGTAAAACTATCTCATGTA
1 TCGGTAGAACTAACACATGTA
*
14161964 TTGGTAGAACT
1 TCGGTAGAACT
14161975 CTACATTGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (21 bp):
TCGGTAGAACTAACACATGTA
Found at i:14165755 original size:6 final size:6
Alignment explanation
Indices: 14165744--14165775 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
14165734 CCAAAAGCTC
*
14165744 CTGCAA CTGCAA CTGCAA CTGCAA CTTCAA CT
1 CTGCAA CTGCAA CTGCAA CTGCAA CTGCAA CT
14165776 CTTTCAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.22
Consensus pattern (6 bp):
CTGCAA
Found at i:14174288 original size:18 final size:18
Alignment explanation
Indices: 14174261--14174299 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
14174251 GTAATTTAGG
14174261 TTTTTAGTTATTTTCATT
1 TTTTTAGTTATTTTCATT
* *
14174279 TTTTTCGTTATTTTCCTT
1 TTTTTAGTTATTTTCATT
14174297 TTT
1 TTT
14174300 GTTTTGTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTAGTTATTTTCATT
Found at i:14177086 original size:19 final size:18
Alignment explanation
Indices: 14177029--14177106 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
14177019 ATTTTTTAAA
*
14177029 ATTTTAAAAAATCAAAAT
1 ATTTTAAAAAATTAAAAT
14177047 A----AAAATAATTAAAAT
1 ATTTTAAAA-AATTAAAAT
14177062 ATTTTAAAAAATTAAAAT
1 ATTTTAAAAAATTAAAAT
*
14177080 TTATTTAAAAAAGTATAAAAAT
1 AT-TTTAAAAAA-T-T-AAAAT
14177102 ATTTT
1 ATTTT
14177107 TTTAATATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
14 4 0.08
15 9 0.19
18 11 0.23
19 13 0.27
20 1 0.02
21 4 0.08
22 6 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (18 bp):
ATTTTAAAAAATTAAAAT
Found at i:14177091 original size:20 final size:18
Alignment explanation
Indices: 14177024--14177105 Score: 57
Period size: 20 Copynumber: 4.6 Consensus size: 18
14177014 ATTAAATTTT
14177024 TTAAAAT-TTT-AAAAAA
1 TTAAAATATTTAAAAAAA
* *
14177040 TCAAAATA---AAAATAA
1 TTAAAATATTTAAAAAAA
*
14177055 TTAAAATATTTTAAAAAA
1 TTAAAATATTTAAAAAAA
14177073 TTAAAATTTATTTAAAAAAGTA
1 TTAAAA--TATTTAAAAAA--A
*
14177095 TAAAAATATTT
1 TTAAAATATTT
14177106 TTTTAATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
15 12 0.24
16 6 0.12
18 11 0.22
20 15 0.30
22 6 0.12
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (18 bp):
TTAAAATATTTAAAAAAA
Found at i:14186816 original size:30 final size:31
Alignment explanation
Indices: 14186772--14186834 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
14186762 TAGTAAAGAT
*
14186772 AAAATTATACTTTAATACCCTT-AAAATTATA
1 AAAATTATAATTTAAT-CCCTTAAAAATTATA
**
14186803 AAAATT-TAATTTAATCTTTTAAAAATTATA
1 AAAATTATAATTTAATCCCTTAAAAATTATA
14186833 AA
1 AA
14186835 TAAATAGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.11
30 19 0.68
31 6 0.21
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (31 bp):
AAAATTATAATTTAATCCCTTAAAAATTATA
Found at i:14187577 original size:9 final size:9
Alignment explanation
Indices: 14187563--14187596 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
14187553 GAAATTGGGC
14187563 AATTAACCA
1 AATTAACCA
14187572 AATTAACCA
1 AATTAACCA
14187581 AATTAACCA
1 AATTAACCA
14187590 AACTTAA
1 AA-TTAA
14187597 TAAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.24
Consensus pattern (9 bp):
AATTAACCA
Found at i:14195062 original size:7 final size:7
Alignment explanation
Indices: 14195052--14195105 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
14195042 TTCGTTTATT
14195052 GTTTAGG
1 GTTTAGG
14195059 GTTTAGG
1 GTTTAGG
14195066 GTTTAGG
1 GTTTAGG
*
14195073 GTTTAAG
1 GTTTAGG
14195080 GTTTAGG
1 GTTTAGG
*
14195087 GTTTAAG
1 GTTTAGG
14195094 GTTTAGG
1 GTTTAGG
14195101 GTTTA
1 GTTTA
14195106 TGTTTATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:14196634 original size:17 final size:17
Alignment explanation
Indices: 14196612--14196647 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14196602 GCTCTTCGTT
14196612 TTTCTTGTATTCTTTGC
1 TTTCTTGTATTCTTTGC
* *
14196629 TTTCTTGTTTTGTTTGC
1 TTTCTTGTATTCTTTGC
14196646 TT
1 TT
14196648 GAGGACAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.14, T:0.69
Consensus pattern (17 bp):
TTTCTTGTATTCTTTGC
Done.