Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 76 of 126
Found at i:22797439 original size:21 final size:20
Alignment explanation
Indices: 22797414--22797465 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
22797404 AATTATGAAC
*
22797414 TTATTTAAGTTTTTAAAATTA
1 TTATTTAAGTTTTTAAAA-AA
22797435 TTATTTTAA-TTTTTAAAAAA
1 TTA-TTTAAGTTTTTAAAAAA
22797455 TT-TTTAAGTTT
1 TTATTTAAGTTT
22797466 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.18
19 3 0.11
20 3 0.11
21 12 0.43
22 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTATTTAAGTTTTTAAAAAA
Found at i:22798401 original size:4 final size:4
Alignment explanation
Indices: 22798392--22798421 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
22798382 TCCGGATTAC
22798392 ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
1 ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
22798422 AGGGGTTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (4 bp):
ACCT
Found at i:22799020 original size:16 final size:16
Alignment explanation
Indices: 22798999--22799032 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22798989 TGTTTGGTTC
22798999 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
22799015 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
22799031 AC
1 AC
22799033 AACAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:22799572 original size:4 final size:4
Alignment explanation
Indices: 22799563--22799592 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
22799553 TCCGGATTAC
22799563 ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
1 ACCT ACCT ACCT ACCT ACCT ACCT ACCT AC
22799593 AGGGGTTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.50, G:0.00, T:0.23
Consensus pattern (4 bp):
ACCT
Found at i:22800191 original size:16 final size:16
Alignment explanation
Indices: 22800170--22800203 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22800160 TGTTTGGTTC
22800170 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
22800186 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
22800202 AC
1 AC
22800204 AACAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:22800469 original size:56 final size:55
Alignment explanation
Indices: 22800375--22800530 Score: 176
Period size: 56 Copynumber: 2.8 Consensus size: 55
22800365 TTGTTATTAA
* * * *
22800375 ATTTTAATAGGATTATAATTAAATATAA-TTTAATAAAAATAAATAATTTAATCAT
1 ATTTTAATACGATTATTATTAAATATAATTTTAATAAAAAT-AATAATTTAATAAC
* *
22800430 ATATTTAATACAATTATTATTAAATATAATTTTTA-AAAAATAATAATTTAATAAC
1 AT-TTTAATACGATTATTATTAAATATAATTTTAATAAAAATAATAATTTAATAAC
*
22800485 ATTCTTAATATGATTATTATTAAAATATGAA--TTAATAAAAATAATA
1 ATT-TTAATACGATTATTATT-AAATAT-AATTTTAATAAAAATAATA
22800531 TATAATATTA
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
54 1 0.01
55 34 0.40
56 45 0.52
57 6 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (55 bp):
ATTTTAATACGATTATTATTAAATATAATTTTAATAAAAATAATAATTTAATAAC
Found at i:22810278 original size:12 final size:12
Alignment explanation
Indices: 22810261--22810289 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
22810251 GAAATGAAAA
22810261 GAAACAATTACC
1 GAAACAATTACC
22810273 GAAACAATTACC
1 GAAACAATTACC
22810285 GAAAC
1 GAAAC
22810290 TAAGCGAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (12 bp):
GAAACAATTACC
Found at i:22824819 original size:21 final size:23
Alignment explanation
Indices: 22824777--22824829 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
22824767 AGAAATGGAT
*
22824777 GTTTTTTTTCTTTTTATGTTTTAA
1 GTTTTATTTCTTTTTA-GTTTTAA
22824801 GTTTTATTTC-TTTTA-TTTTAA
1 GTTTTATTTCTTTTTAGTTTTAA
*
22824822 -CTTTATTT
1 GTTTTATTT
22824830 TAATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
21 6 0.22
23 5 0.19
24 9 0.33
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (23 bp):
GTTTTATTTCTTTTTAGTTTTAA
Found at i:22827595 original size:51 final size:51
Alignment explanation
Indices: 22827516--22827612 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
22827506 CTCTTAGCCA
22827516 ACCATTCCATTATCACTAGTCATCAATACTTCTACCCACCATCATATATCC
1 ACCATTCCATTATCACTAGTCATCAATACTTCTACCCACCATCATATATCC
*
22827567 ACCATTCCATTATCACTAGTCATTAATACTTCTACCCACCATCATA
1 ACCATTCCATTATCACTAGTCATCAATACTTCTACCCACCATCATA
22827613 CTATTTTCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (51 bp):
ACCATTCCATTATCACTAGTCATCAATACTTCTACCCACCATCATATATCC
Found at i:22829435 original size:29 final size:28
Alignment explanation
Indices: 22829403--22829580 Score: 135
Period size: 29 Copynumber: 6.1 Consensus size: 28
22829393 AGCTTTGGCT
22829403 ATCAATTATGAAAAGGGATGGTGACGACC
1 ATCAA-TATGAAAAGGGATGGTGACGACC
*
22829432 ATCAACTATGAAAAGGGATGGTGACAACC
1 ATCAA-TATGAAAAGGGATGGTGACGACC
* * ** * *
22829461 ATCGAATATGAAAAGGAATAGCT-TTGGCT
1 ATC-AATATGAAAAGGGAT-GGTGACGACC
* * * *
22829490 ATCGAATATGAAAAGGGATAGCT-TCGGCT
1 ATC-AATATGAAAAGGGAT-GGTGACGACC
* *
22829519 ATTTATTATGAAAAGGGATGGTGACGACC
1 A-TCAATATGAAAAGGGATGGTGACGACC
* *
22829548 ATCGAATATGAAAAGGGACGGTTACGACC
1 ATC-AATATGAAAAGGGATGGTGACGACC
22829577 ATCA
1 ATCA
22829581 TTTAACCCAT
Statistics
Matches: 123, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
28 4 0.03
29 114 0.93
30 5 0.04
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (28 bp):
ATCAATATGAAAAGGGATGGTGACGACC
Found at i:22829450 original size:58 final size:58
Alignment explanation
Indices: 22829374--22829565 Score: 185
Period size: 58 Copynumber: 3.3 Consensus size: 58
22829364 AGCTTCGATT
* *
22829374 ATCGAATATGAAATGGGATAGCTTTGGCTATCAATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACC
* * ** * * * ** * *
22829432 ATC-AACTATGAAAAGGGAT-GGTGACAACCATCGAA-TATGAAAAGGAATAGCT-TTGGCT
1 ATCGAA-TATGAAAAGGGATAGCT-TCGGCTATC-AATTATGAAAAGGGAT-GGTGACGACC
**
22829490 ATCGAATATGAAAAGGGATAGCTTCGGCTATTTATTATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACC
22829548 ATCGAATATGAAAAGGGA
1 ATCGAATATGAAAAGGGA
22829566 CGGTTACGAC
Statistics
Matches: 100, Mismatches: 26, Indels: 16
0.70 0.18 0.11
Matches are distributed among these distances:
57 7 0.07
58 85 0.85
59 8 0.08
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.24
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACC
Found at i:22829500 original size:87 final size:87
Alignment explanation
Indices: 22829374--22829563 Score: 258
Period size: 87 Copynumber: 2.2 Consensus size: 87
22829364 AGCTTCGATT
* * *
22829374 ATCGAATATGAAATGGGATAGCTTTGGCTATCAATTATGAAAAGGGAT-GGTGACGACCATCAAC
1 ATCGAATATGAAAAGGAATAGCTTTGGCTATCAATTATGAAAAGGGATAGCT-ACGACCATCAAC
22829438 TATGAAAAGGGATGGTGACAACC
65 TATGAAAAGGGATGGTGACAACC
* * * ** *
22829461 ATCGAATATGAAAAGGAATAGCTTTGGCTATCGAA-TATGAAAAGGGATAGCTTCGGCTATTTAT
1 ATCGAATATGAAAAGGAATAGCTTTGGCTATC-AATTATGAAAAGGGATAGCTACGACCATCAAC
*
22829525 TATGAAAAGGGATGGTGACGACC
65 TATGAAAAGGGATGGTGACAACC
22829548 ATCGAATATGAAAAGG
1 ATCGAATATGAAAAGG
22829564 GACGGTTACG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
87 87 0.96
88 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.24
Consensus pattern (87 bp):
ATCGAATATGAAAAGGAATAGCTTTGGCTATCAATTATGAAAAGGGATAGCTACGACCATCAACT
ATGAAAAGGGATGGTGACAACC
Found at i:22829558 original size:116 final size:117
Alignment explanation
Indices: 22829337--22829579 Score: 337
Period size: 116 Copynumber: 2.1 Consensus size: 117
22829327 ACGGTGTATC
* * ** * * *
22829337 GACAATCATCGACTAATGAAAAGGGGTAGCTTCGATTATCGAATATGAAATGGGATAGCTTTGGC
1 GACAACCATCGAATAATGAAAAGGAATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGC
*
22829402 TATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT
66 TATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGACGGT
* *
22829454 GACAACCATCGAAT-ATGAAAAGGAATAGCTTTGGCTATCGAATATGAAAAGGGATAGCTTCGGC
1 GACAACCATCGAATAATGAAAAGGAATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGC
**
22829518 TATTTATTATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGACGGT
66 TATCAATTATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAGGGACGGT
* *
22829570 TACGACCATC
1 GACAACCATC
22829580 ATTTAACCCA
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
116 97 0.87
117 14 0.13
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (117 bp):
GACAACCATCGAATAATGAAAAGGAATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGGC
TATCAATTATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGACGGT
Found at i:22833736 original size:8 final size:8
Alignment explanation
Indices: 22833723--22833753 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
22833713 GCAACCCGTG
22833723 CAATCTAA
1 CAATCTAA
22833731 CAATCTAA
1 CAATCTAA
22833739 CAATCTAA
1 CAATCTAA
22833747 CTAATCT
1 C-AATCT
22833754 CTCAAGGGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (8 bp):
CAATCTAA
Found at i:22838241 original size:16 final size:16
Alignment explanation
Indices: 22838197--22838243 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
22838187 GAGGAATGTG
*
22838197 TAAAAAAACAT-AAATA
1 TAAATAAACATGAAA-A
*
22838213 TAAATAGACATGAAAA
1 TAAATAAACATGAAAA
*
22838229 TAAATAAAGATGAAA
1 TAAATAAACATGAAA
22838244 TAAGAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:22838817 original size:21 final size:22
Alignment explanation
Indices: 22838788--22838837 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
22838778 CGGAATCCCT
* * *
22838788 TTTTTTTTTAGAAAATCA-AAG
1 TTTTCTTTTAAAAAATCACAAC
22838809 TTTTCTTTTAAAAAATCACAAC
1 TTTTCTTTTAAAAAATCACAAC
22838831 TTTTCTT
1 TTTTCTT
22838838 AAAGATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.34, C:0.12, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTTCTTTTAAAAAATCACAAC
Found at i:22844689 original size:50 final size:50
Alignment explanation
Indices: 22844578--22844756 Score: 250
Period size: 50 Copynumber: 3.5 Consensus size: 50
22844568 ATTTGGGTAA
*
22844578 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
** * *
22844634 AGAGGTCCCATGTAAGATTATGTCTGGGACATGGAATTAGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
22844684 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGGACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
22844734 AGAGGTCCCATGTAAGACCATGT
1 AGAGGTCCCATGTAAGACCATGT
22844757 TGGCACCGAG
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
50 71 0.63
53 3 0.03
55 2 0.02
56 37 0.33
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:22844766 original size:36 final size:36
Alignment explanation
Indices: 22844720--22844792 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
22844710 GGACATGGCA
*
22844720 TTGGGACCGAGATGAGAGGTCCCAT-GTAAGACCATG
1 TTGGCACCGAGATGAGAGGTCCC-TCGTAAGACCATG
22844756 TTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATG
1 TTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATG
22844792 T
1 T
22844793 CTGGGATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (36 bp):
TTGGCACCGAGATGAGAGGTCCCTCGTAAGACCATG
Found at i:22844821 original size:50 final size:51
Alignment explanation
Indices: 22844758--22844855 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
22844748 AGACCATGTT
** * *
22844758 GGCACCGAGATGAG-AGGTCCC-TCGTAAGACCATGTCTGGGATATGGCATG
1 GGCACCGAGATGAGAACATCCCAT-GTAAGACCATGTCTAGGACATGGCATG
*
22844808 GGCACCGATATGAGAACATCCCATGTAAGACCATGTCTAGGACATGGC
1 GGCACCGAGATGAGAACATCCCATGTAAGACCATGTCTAGGACATGGC
22844856 TTTGGCATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 13 0.32
51 27 0.66
52 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (51 bp):
GGCACCGAGATGAGAACATCCCATGTAAGACCATGTCTAGGACATGGCATG
Found at i:22844821 original size:86 final size:87
Alignment explanation
Indices: 22844673--22844843 Score: 267
Period size: 86 Copynumber: 2.0 Consensus size: 87
22844663 CATGGAATTA
22844673 GCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGGACCGAGATGAG-A
1 GCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGGACCGAGATGAGAA
**
22844737 GGTCCCATGTAAGACCATGTTG
66 CATCCCATGTAAGACCATGTTG
* *
22844759 GCACCGAGATGAGAGGTCCC-TCGTAAGACCATGTCTGGGATATGGCA-TGGGCACCGATATGAG
1 GCACCGAGATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGG-ACCGAGATGAG
22844822 AACATCCCATGTAAGACCATGT
64 AACATCCCATGTAAGACCATGT
22844844 CTAGGACATG
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
85 5 0.06
86 54 0.69
87 19 0.24
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (87 bp):
GCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGGACCGAGATGAGAA
CATCCCATGTAAGACCATGTTG
Found at i:22848215 original size:15 final size:15
Alignment explanation
Indices: 22848192--22848221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22848182 CAATGTTTCG
22848192 AGCAGATTCTTTCTT
1 AGCAGATTCTTTCTT
*
22848207 AGCATATTCTTTCTT
1 AGCAGATTCTTTCTT
22848222 GTCCTTCTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (15 bp):
AGCAGATTCTTTCTT
Found at i:22850004 original size:42 final size:42
Alignment explanation
Indices: 22849936--22850114 Score: 268
Period size: 42 Copynumber: 4.3 Consensus size: 42
22849926 CTTCATATAC
* *
22849936 AATGCAATGAAAAGTAAATGGGCCTCTACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
*
22849978 AATGTAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
* *
22850020 AATGTAATGAAAAGTAAATGGACCTCTACCCCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
* * * * *
22850062 AATGCAATGAAAGGTAAACGGACCTCCACAGCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
22850104 AATGCAATGAA
1 AATGCAATGAA
22850115 TGCTTCCCTT
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 126 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCTACACCTGGGCCTCTA
Found at i:22864888 original size:27 final size:27
Alignment explanation
Indices: 22864855--22865146 Score: 277
Period size: 27 Copynumber: 10.8 Consensus size: 27
22864845 CCCCAAAATA
* *
22864855 GGTAAAATGACTAAAATACCCTCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
22864882 GATAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
22864909 GGTAAAATGA-TCGAAATACCCTCATTG
1 GGTAAAATGACT-GAAATACCCCCATAG
*
22864936 GGTAAAATGA-TCGAAATACCCCTATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
* **
22864963 GGTAAAATAACCAAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
***
22864990 GGTAAAATGA-TCGAAATACCTTTATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
** *
22865017 GGTAAAATGACCAAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* * * *
22865044 GGTAAAATTACCGAAATTCCCCCGTAG
1 GGTAAAATGACTGAAATACCCCCATAG
* **
22865071 TGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
22865098 GGTAAAATGA-TCGAAATACTCCTATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
**
22865125 GGTAAAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCC
22865147 TAGGAGATTA
Statistics
Matches: 216, Mismatches: 43, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
27 215 1.00
28 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCCATAG
Found at i:22864990 original size:81 final size:81
Alignment explanation
Indices: 22864855--22865132 Score: 371
Period size: 81 Copynumber: 3.4 Consensus size: 81
22864845 CCCCAAAATA
* *
22864855 GGTAAAATGA-CTAAAATA-CCCTCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATG
1 GGTAAAATGATC-AAAATACCCCT-ATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATG
*
22864918 ATCGAAATACCCTCATTG
64 ATCGAAATACCCTCATAG
* *
22864936 GGTAAAATGATCGAAATACCCCTATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGAT
1 GGTAAAATGATCAAAATACCCCTATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGAT
* *
22865001 CGAAATACCTTTATAG
66 CGAAATACCCTCATAG
* * * * * *
22865017 GGTAAAATGACCAAAATACCCCTATAGGGTAAAATTACCGAAATTCCCCCGTAGTGTAAAATGAC
1 GGTAAAATGATCAAAATACCCCTATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGAT
* *
22865082 CAAAATACCCCCATAG
66 CGAAATACCCTCATAG
* *
22865098 GGTAAAATGATCGAAATACTCCTATAGGGTAAAAT
1 GGTAAAATGATCAAAATACCCCTATAGGGTAAAAT
22865133 GACTGTTATA
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
81 168 0.97
82 5 0.03
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (81 bp):
GGTAAAATGATCAAAATACCCCTATAGGGTAAAATAACCGAAATACCCCCATAGGGTAAAATGAT
CGAAATACCCTCATAG
Found at i:22865146 original size:54 final size:54
Alignment explanation
Indices: 22864855--22865135 Score: 382
Period size: 54 Copynumber: 5.2 Consensus size: 54
22864845 CCCCAAAATA
* * * * *
22864855 GGTAAAATGACTAAAATACCCTCATAGGATAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
* * * *
22864909 GGTAAAATGATCGAAATACCCTCATTGGGTAAAATGATCGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
* **
22864963 GGTAAAATAACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCTTTATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
* * * * **
22865017 GGTAAAATGACCAAAATACCCCTATAGGGTAAAATTACCGAAATTCCCCCGTAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
* *
22865071 TGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACTCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
22865125 GGTAAAATGAC
1 GGTAAAATGAC
22865136 TGTTATACCC
Statistics
Matches: 195, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 195 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (54 bp):
GGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAG
Found at i:22867593 original size:26 final size:25
Alignment explanation
Indices: 22867552--22867617 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
22867542 ACATCATTGC
* * *
22867552 TCACACGAGTTATGAAATAGGTCCGT-
1 TCACACGAGCTGTGAAATAAG-CC-TA
22867578 TCACACGAGCTGTGAAATAAGCCTA
1 TCACACGAGCTGTGAAATAAGCCTA
22867603 CTCACACGAGCTGTG
1 -TCACACGAGCTGTG
22867618 GGTCGAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
26 32 0.91
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
TCACACGAGCTGTGAAATAAGCCTA
Found at i:22876504 original size:14 final size:14
Alignment explanation
Indices: 22876485--22876512 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22876475 TAAAGTTATA
22876485 TTTAATAATTCATT
1 TTTAATAATTCATT
22876499 TTTAATAATTCATT
1 TTTAATAATTCATT
22876513 AATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:22879947 original size:42 final size:42
Alignment explanation
Indices: 22879888--22879971 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
22879878 CACTGGGGAC
* *
22879888 GCTAGTGAGTCGACTTACTTAGGTTTGAGAGCTAGGTTTTTT
1 GCTAGTAAGCCGACTTACTTAGGTTTGAGAGCTAGGTTTTTT
22879930 GCTAGTAAGCCGACTTACTTAGGTTTGAGAGCTAGGTTTTTT
1 GCTAGTAAGCCGACTTACTTAGGTTTGAGAGCTAGGTTTTTT
22879972 AGTATTTGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.13, G:0.27, T:0.39
Consensus pattern (42 bp):
GCTAGTAAGCCGACTTACTTAGGTTTGAGAGCTAGGTTTTTT
Found at i:22886836 original size:20 final size:18
Alignment explanation
Indices: 22886811--22886849 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22886801 ATCCATGGTA
22886811 AGTAATTCTTACATGTTTTT
1 AGTAATT-TT-CATGTTTTT
*
22886831 AGTAATTTTGATGTTTTT
1 AGTAATTTTCATGTTTTT
22886849 A
1 A
22886850 AGATTGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (18 bp):
AGTAATTTTCATGTTTTT
Found at i:22898477 original size:26 final size:26
Alignment explanation
Indices: 22898441--22898508 Score: 109
Period size: 26 Copynumber: 2.6 Consensus size: 26
22898431 ATAAGTAAGC
*
22898441 CTTTGTGGCTATCTCTAAAAGGATGT
1 CTTTGTGGCTATCTCTAAAAAGATGT
*
22898467 CTTTGTAGCTATCTCTAAAAAGATGT
1 CTTTGTGGCTATCTCTAAAAAGATGT
*
22898493 TTTTGTGGCTATCTCT
1 CTTTGTGGCTATCTCT
22898509 GTTAAAGAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
CTTTGTGGCTATCTCTAAAAAGATGT
Found at i:22898581 original size:55 final size:54
Alignment explanation
Indices: 22898493--22898601 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 54
22898483 AAAAAGATGT
* * * *
22898493 TTTTGTGGCTATCTCTGTTAAAGAAGTGTCTTTGTGGTAGT-TTTGATAACAAAGC
1 TTTTGTGGCGATCTCTGTTAAAGAAG-GCCTTTGTGGCAATCTTTGATAA-AAAGC
22898548 TTTTGTGGCGATCTCTGTTAAACGGAA-GCCTTTGTGGCAATCTTTGATAAAAAG
1 TTTTGTGGCGATCTCTGTTAAA--GAAGGCCTTTGTGGCAATCTTTGATAAAAAG
22898602 AATGTCTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
55 36 0.77
56 8 0.17
57 3 0.06
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.39
Consensus pattern (54 bp):
TTTTGTGGCGATCTCTGTTAAAGAAGGCCTTTGTGGCAATCTTTGATAAAAAGC
Found at i:22900239 original size:28 final size:28
Alignment explanation
Indices: 22900194--22900288 Score: 138
Period size: 28 Copynumber: 3.4 Consensus size: 28
22900184 AAGCCCTATA
22900194 CAATATCAGT-ACAGTGTGGGCCTTAGCC
1 CAATA-CAGTAACAGTGTGGGCCTTAGCC
* *
22900222 CATTACAGTAATAGTGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCC
* *
22900250 TAATACAGTAACAGCGTGGGCCTTAGCC
1 CAATACAGTAACAGTGTGGGCCTTAGCC
22900278 CAATACAGTAA
1 CAATACAGTAA
22900289 ACAATACAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 4 0.07
28 55 0.93
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (28 bp):
CAATACAGTAACAGTGTGGGCCTTAGCC
Found at i:22900423 original size:26 final size:25
Alignment explanation
Indices: 22900393--22900498 Score: 104
Period size: 26 Copynumber: 4.1 Consensus size: 25
22900383 GCGAACACAC
*
22900393 CAATATCGCAGCAAAGTTGCCAGTAA
1 CAATAT-GCAGCAAAGCTGCCAGTAA
* * *
22900419 TAATAGTGCAACAGAGCTGCCAGTAA
1 CAATA-TGCAGCAAAGCTGCCAGTAA
* * * *
22900445 CAGTAACGCAGCAAAGTTGCCAATAA
1 CAAT-ATGCAGCAAAGCTGCCAGTAA
22900471 CAATAATGCAGCAAAGCTGCCAGTAA
1 CAAT-ATGCAGCAAAGCTGCCAGTAA
22900497 CA
1 CA
22900499 GTATTTGTGG
Statistics
Matches: 63, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 61 0.97
27 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.17
Consensus pattern (25 bp):
CAATATGCAGCAAAGCTGCCAGTAA
Found at i:22900489 original size:52 final size:52
Alignment explanation
Indices: 22900399--22900501 Score: 161
Period size: 52 Copynumber: 2.0 Consensus size: 52
22900389 ACACCAATAT
* * * *
22900399 CGCAGCAAAGTTGCCAGTAATAATAGTGCAACAGAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGTTGCCAATAACAATAATGCAACAAAGCTGCCAGTAACAGTAA
*
22900451 CGCAGCAAAGTTGCCAATAACAATAATGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGTTGCCAATAACAATAATGCAACAAAGCTGCCAGTAACAGTA
22900502 TTTGTGGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (52 bp):
CGCAGCAAAGTTGCCAATAACAATAATGCAACAAAGCTGCCAGTAACAGTAA
Found at i:22900706 original size:26 final size:27
Alignment explanation
Indices: 22900677--22900844 Score: 137
Period size: 27 Copynumber: 6.3 Consensus size: 27
22900667 GGGTATATCA
*
22900677 GTCAGTTTACCCTAT-GGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
* *
22900703 GTCATTTTA-CCTTTCGGGGATATTTTG
1 GTCATTTTACCCTATAGGGG-TATTTTG
*
22900730 GTCATTTTACCCT-TCAGGGGTATTTCG
1 GTCATTTTACCCTAT-AGGGGTATTTTG
* *
22900757 GTAATTTTACCCTATAGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTG
* * * *
22900784 ATAATTTTACCCT-TCGAGGGTATTTCG
1 GTCATTTTACCCTATAG-GGGTATTTTG
* * * * *
22900811 ATAATATTACCCTATAGGTGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTTG
*
22900838 GTAATTT
1 GTCATTT
22900845 GTGTCCCATT
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.03
26 14 0.12
27 91 0.76
28 10 0.08
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:22900750 original size:54 final size:53
Alignment explanation
Indices: 22900682--22900835 Score: 168
Period size: 54 Copynumber: 2.9 Consensus size: 53
22900672 TATCAGTCAG
* * * * ** *
22900682 TTTACCCTAT-GGGGTATTTTGGTCATTTTA-CCTTTCGGGGATATTTTGGTCAT
1 TTTACCCT-TCGGGGTATTTCGGTAATTTTACCCTATAGGGG-TATTTTAATAAT
22900735 TTTACCCTTCAGGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTTAATAAT
1 TTTACCCTTC-GGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTTAATAAT
* * *
22900789 TTTACCCTTCGAGGGTATTTCGATAATATTACCCTATAGGTGTATTT
1 TTTACCCTTCG-GGGTATTTCGGTAATTTTACCCTATAGGGGTATTT
22900836 CGGTAATTTG
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 9 0.10
54 69 0.79
55 8 0.09
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (53 bp):
TTTACCCTTCGGGGTATTTCGGTAATTTTACCCTATAGGGGTATTTTAATAAT
Found at i:22900791 original size:81 final size:80
Alignment explanation
Indices: 22900682--22900844 Score: 204
Period size: 81 Copynumber: 2.0 Consensus size: 80
22900672 TATCAGTCAG
** * * * * * *
22900682 TTTACCCTATGGGGTATTTTGGTCATTTTACCTTTCG-GGGATATTTTGGTCATTTTACCCT-TC
1 TTTACCCTATGGGGTATTTTAATAATTTTACCCTTCGAGGG-TATTTCGATAATATTACCCTAT-
22900745 AGGGGTATTTCGGTAAT
64 AGGGGTATTTCGGTAAT
22900762 TTTACCCTATAGGGGTATTTTAATAATTTTACCCTTCGAGGGTATTTCGATAATATTACCCTATA
1 TTTACCCTAT-GGGGTATTTTAATAATTTTACCCTTCGAGGGTATTTCGATAATATTACCCTATA
*
22900827 GGTGTATTTCGGTAAT
65 GGGGTATTTCGGTAAT
22900843 TT
1 TT
22900845 GTGTCCCATT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
80 10 0.14
81 57 0.80
82 4 0.06
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (80 bp):
TTTACCCTATGGGGTATTTTAATAATTTTACCCTTCGAGGGTATTTCGATAATATTACCCTATAG
GGGTATTTCGGTAAT
Found at i:22904779 original size:30 final size:30
Alignment explanation
Indices: 22904724--22904809 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
22904714 TATTTCTTAA
22904724 CATATTCATACCCTGT-ATC-ATTCACATTTG
1 CATA-TCATACCCTGTAATCGA-TCACATTTG
** *
22904754 CATATCATACTTTGTAATCGGTCACATTTG
1 CATATCATACCCTGTAATCGATCACATTTG
* *
22904784 TATTTCATACCCTGTAATCGATCACA
1 CATATCATACCCTGTAATCGATCACA
22904810 ATTCAATCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 9 0.20
30 37 0.80
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
CATATCATACCCTGTAATCGATCACATTTG
Found at i:22905298 original size:20 final size:20
Alignment explanation
Indices: 22905275--22905319 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
22905265 TACCGATATT
*
22905275 TTTTATCAAGTATCGATAGA
1 TTTTATCAAGTATCGATAAA
* **
22905295 TTTTCTTGAGTATCGATAAA
1 TTTTATCAAGTATCGATAAA
22905315 TTTTA
1 TTTTA
22905320 AATTTTATCG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTTATCAAGTATCGATAAA
Found at i:22907852 original size:213 final size:213
Alignment explanation
Indices: 22907485--22907911 Score: 854
Period size: 213 Copynumber: 2.0 Consensus size: 213
22907475 AAAGAATTCC
22907485 AAATTCCGATCCGCTTGATGTTTTCAAAACTAGACTCAAATACCTTTCTACCATAAAATTTTCAG
1 AAATTCCGATCCGCTTGATGTTTTCAAAACTAGACTCAAATACCTTTCTACCATAAAATTTTCAG
22907550 ATTTTATAGTTTATGACTTAAGTACAGTAAAATCTTCAAATCTATCCCGATTCTGTTGTTTGACA
66 ATTTTATAGTTTATGACTTAAGTACAGTAAAATCTTCAAATCTATCCCGATTCTGTTGTTTGACA
22907615 GCTTCAAACTTGCCTTACTAAAAATTATTTATCTCTTAGTACGGAATTCGGATGATGTTTCCATT
131 GCTTCAAACTTGCCTTACTAAAAATTATTTATCTCTTAGTACGGAATTCGGATGATGTTTCCATT
22907680 TGTTTCTCTTGAAAATAT
196 TGTTTCTCTTGAAAATAT
22907698 AAATTCCGATCCGCTTGATGTTTTCAAAACTAGACTCAAATACCTTTCTACCATAAAATTTTCAG
1 AAATTCCGATCCGCTTGATGTTTTCAAAACTAGACTCAAATACCTTTCTACCATAAAATTTTCAG
22907763 ATTTTATAGTTTATGACTTAAGTACAGTAAAATCTTCAAATCTATCCCGATTCTGTTGTTTGACA
66 ATTTTATAGTTTATGACTTAAGTACAGTAAAATCTTCAAATCTATCCCGATTCTGTTGTTTGACA
22907828 GCTTCAAACTTGCCTTACTAAAAATTATTTATCTCTTAGTACGGAATTCGGATGATGTTTCCATT
131 GCTTCAAACTTGCCTTACTAAAAATTATTTATCTCTTAGTACGGAATTCGGATGATGTTTCCATT
22907893 TGTTTCTCTTGAAAATAT
196 TGTTTCTCTTGAAAATAT
22907911 A
1 A
22907912 CTCATTAAGG
Statistics
Matches: 214, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 214 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (213 bp):
AAATTCCGATCCGCTTGATGTTTTCAAAACTAGACTCAAATACCTTTCTACCATAAAATTTTCAG
ATTTTATAGTTTATGACTTAAGTACAGTAAAATCTTCAAATCTATCCCGATTCTGTTGTTTGACA
GCTTCAAACTTGCCTTACTAAAAATTATTTATCTCTTAGTACGGAATTCGGATGATGTTTCCATT
TGTTTCTCTTGAAAATAT
Found at i:22914079 original size:26 final size:26
Alignment explanation
Indices: 22914025--22914086 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
22914015 TATCTACAGT
* *
22914025 AGTTTCAAAATATCATAACGTATACC
1 AGTTTCAGAATATCATAACATATACC
* * *
22914051 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATACC
22914077 AGTTTCAGAA
1 AGTTTCAGAA
22914087 CACTTACAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATACC
Found at i:22920844 original size:24 final size:24
Alignment explanation
Indices: 22920817--22920868 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
22920807 TTTCTAGAAG
* *
22920817 ATTTAGTATTTTTTAATATAATAT
1 ATTTAGCATTTATTAATATAATAT
* *
22920841 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAATATAATAT
22920865 ATTT
1 ATTT
22920869 GACCTGCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTAGCATTTATTAATATAATAT
Found at i:22922760 original size:24 final size:24
Alignment explanation
Indices: 22922732--22922784 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
22922722 ATTCTACAAG
* *
22922732 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
22922756 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
22922780 ATTTA
1 ATTTA
22922785 ACCTACAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:22923477 original size:23 final size:23
Alignment explanation
Indices: 22923450--22923500 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
22923440 ACTTAATAGC
22923450 GATCATATAACC-AGAACAAAACA
1 GATCATAT-ACCTAGAACAAAACA
*
22923473 GATCATATACCTAGAACACAACA
1 GATCATATACCTAGAACAAAACA
22923496 GATCA
1 GATCA
22923501 AAATATCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.51, C:0.24, G:0.10, T:0.16
Consensus pattern (23 bp):
GATCATATACCTAGAACAAAACA
Found at i:22924568 original size:11 final size:11
Alignment explanation
Indices: 22924554--22924663 Score: 58
Period size: 11 Copynumber: 10.4 Consensus size: 11
22924544 ATTTTTTTAA
22924554 TTTTAAAATAT
1 TTTTAAAATAT
22924565 TTTTAAAATACTTT
1 TTTTAAAATA---T
** *
22924579 TTTTTTATTAT
1 TTTTAAAATAT
*
22924590 TTTT-TAA--T
1 TTTTAAAATAT
22924598 TT-TAAAATACT
1 TTTTAAAATA-T
22924609 TTTTAAAATACT
1 TTTTAAAATA-T
22924621 TTTT-AAAT-T
1 TTTTAAAATAT
* *
22924630 TTTT---TTAA
1 TTTTAAAATAT
22924638 TTTTAAAATAT
1 TTTTAAAATAT
22924649 TTTTAAAATAT
1 TTTTAAAATAT
22924660 TTTT
1 TTTT
22924664 TTAATTTTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.03
8 9 0.12
9 5 0.06
10 2 0.03
11 39 0.50
12 13 0.17
14 8 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22924612 original size:12 final size:12
Alignment explanation
Indices: 22924597--22924627 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22924587 TATTTTTTAA
22924597 TTTTAAAATACT
1 TTTTAAAATACT
22924609 TTTTAAAATACT
1 TTTTAAAATACT
22924621 TTTTAAA
1 TTTTAAA
22924628 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:22924667 original size:13 final size:11
Alignment explanation
Indices: 22924597--22924663 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
22924587 TATTTTTTAA
22924597 TTTTAAAATACT
1 TTTTAAAATA-T
22924609 TTTTAAAATACT
1 TTTTAAAATA-T
22924621 TTTT-AAAT-T
1 TTTTAAAATAT
* *
22924630 TTTT---TTAA
1 TTTTAAAATAT
22924638 TTTTAAAATAT
1 TTTTAAAATAT
22924649 TTTTAAAATAT
1 TTTTAAAATAT
22924660 TTTT
1 TTTT
22924664 TTAATTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
7 1 0.02
8 4 0.09
9 5 0.11
11 21 0.45
12 16 0.34
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:22924684 original size:20 final size:20
Alignment explanation
Indices: 22924647--22924685 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22924637 ATTTTAAAAT
**
22924647 ATTTTTAAAATATTTTTTTA
1 ATTTTTAAAATAAATTTTTA
22924667 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
22924686 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAAAATAAATTTTTA
Found at i:22924692 original size:22 final size:19
Alignment explanation
Indices: 22924646--22924699 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 19
22924636 AATTTTAAAA
*
22924646 TATTTTTAAAATATTTTTT
1 TATTTTTAAAATATTTTTG
22924665 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT--ATTTTT-G
22924688 TATTTATTAAAA
1 TATTT-TTAAAA
22924700 AAAAGGGCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 1 0.03
20 11 0.38
22 10 0.34
23 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTTTTAAAATATTTTTG
Found at i:22930260 original size:23 final size:23
Alignment explanation
Indices: 22930210--22930260 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
22930200 ACTTAATAGT
*
22930210 GATCATATAACCAGAATGAAACA
1 GATCATATAACCAGAACGAAACA
* *
22930233 AATCATAT-ACCTAGAACGATACA
1 GATCATATAACC-AGAACGAAACA
22930256 GATCA
1 GATCA
22930261 GAATATCAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (23 bp):
GATCATATAACCAGAACGAAACA
Found at i:22930347 original size:20 final size:20
Alignment explanation
Indices: 22930293--22930347 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
22930283 ATGATAGTCC
22930293 AACAGAACAAAAA-GAACAT
1 AACAGAACAAAAACGAACAT
* * *
22930312 AACAGAATAGATACGAACAT
1 AACAGAACAAAAACGAACAT
22930332 AACAGAACAAAAACGA
1 AACAGAACAAAAACGA
22930348 GGATGTGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.64, C:0.16, G:0.13, T:0.07
Consensus pattern (20 bp):
AACAGAACAAAAACGAACAT
Found at i:22932787 original size:75 final size:73
Alignment explanation
Indices: 22932724--22932929 Score: 277
Period size: 75 Copynumber: 2.8 Consensus size: 73
22932714 AATATTAATA
* *
22932724 TAAAGCTCAACTTAAAATTTAATATTTTAGGTTTAATAGTTAATTTATAATTTAAATATTAAAAA
1 TAAAGCTCAACTTATAATTTAATATTTTAGATTTAATAGTTAATTTATAATTTAAATATTAAAAA
22932789 GATGTTGACG
66 -ATGTT-ACG
* * * *
22932799 TAAAGCTCAACTTATAATTTAATATTTAATATTTAATAGTTAAATTTATAATTTAAGTATTTAAA
1 TAAAGCTCAACTTATAATTTAATATTTTAGATTTAATAGTT-AATTTATAATTTAAATATTAAAA
22932864 AATGTCTACG
65 AATGT-TACG
* * * *
22932874 TAAAGCTCAACTTATAATTTAATAATCTAGATTTAATAAATAAATTTATAATTTAA
1 TAAAGCTCAACTTATAATTTAATATTTTAGATTTAAT-AGTTAATTTATAATTTAA
22932930 GTATGGTAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
75 91 0.78
76 25 0.22
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.42
Consensus pattern (73 bp):
TAAAGCTCAACTTATAATTTAATATTTTAGATTTAATAGTTAATTTATAATTTAAATATTAAAAA
ATGTTACG
Found at i:22932827 original size:7 final size:7
Alignment explanation
Indices: 22932815--22932862 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
22932805 TCAACTTATA
22932815 ATTTAAT
1 ATTTAAT
22932822 ATTTAAT
1 ATTTAAT
22932829 ATTTAAT
1 ATTTAAT
*
22932836 AGTTAA-
1 ATTTAAT
22932842 ATTT-AT
1 ATTTAAT
22932848 AATTTAAGT
1 -ATTTAA-T
22932857 ATTTAA
1 ATTTAA
22932863 AAATGTCTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 1 0.03
6 3 0.09
7 23 0.66
8 7 0.20
9 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (7 bp):
ATTTAAT
Found at i:22933760 original size:58 final size:59
Alignment explanation
Indices: 22933644--22933760 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 59
22933634 ATAGGTTGAG
* * * *
22933644 TACATATCATTAGCTCCAATTCTTAAAAGGGTGGTGAGCATATATTGATATATGAATTC
1 TACATATCATTAGCTCCAATTCTTAAAAGGATCGTGAACATATATTGATAGATGAATTC
** * * * *
22933703 TACATATCATTAGCTTTAATT-TTTAGAGGATCGTGAACATATATTGATGGATTAATTC
1 TACATATCATTAGCTCCAATTCTTAAAAGGATCGTGAACATATATTGATAGATGAATTC
22933761 AGATATTTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
58 29 0.60
59 19 0.40
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (59 bp):
TACATATCATTAGCTCCAATTCTTAAAAGGATCGTGAACATATATTGATAGATGAATTC
Found at i:22941877 original size:43 final size:44
Alignment explanation
Indices: 22941812--22941922 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 44
22941802 ATAGGACTCT
22941812 GATATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTCGACATC
1 GATATGTGTTTTCGTGTAAGACCACTGTCTGGGACAGT-GACATC
*
22941855 GACT-TGTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATC
1 GA-TATGTGTTTTCGTGTAAGACCACTGTCTGGGACAGTGACATC
* * *
22941898 GATATGTGATTACATGTAAGACCAC
1 GATATGTGTTTTCGTGTAAGACCAC
22941923 ATCTATGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 2 0.03
43 53 0.90
44 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (44 bp):
GATATGTGTTTTCGTGTAAGACCACTGTCTGGGACAGTGACATC
Found at i:22942380 original size:22 final size:22
Alignment explanation
Indices: 22942348--22942393 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
22942338 CAAATTTTGA
22942348 TGTATAAATGCAGTCCAAATTT
1 TGTATAAATGCAGTCCAAATTT
* *
22942370 TGTATATATGCTGTCCAAATTT
1 TGTATAAATGCAGTCCAAATTT
22942392 TG
1 TG
22942394 GTGTGCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (22 bp):
TGTATAAATGCAGTCCAAATTT
Found at i:22948981 original size:43 final size:42
Alignment explanation
Indices: 22948915--22949043 Score: 154
Period size: 43 Copynumber: 3.0 Consensus size: 42
22948905 CATAGGACTC
22948915 CGATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCAT
1 CGATATGTGTTTTCGTGTAAGACCACGTCTGGGACGT-GGCAT
22948958 CGACT-TGTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGA-TATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTGGCAT
* * * * *
22949001 CGATATGTGATTACATGTAAGACCACATCTAGGACGTTGGCAT
1 CGATATGTGTTTTCGTGTAAGACCACGTCTGGGACG-TGGCAT
22949044 TGTACTAGCT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
42 3 0.04
43 68 0.91
44 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
CGATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTGGCAT
Found at i:22950761 original size:6 final size:6
Alignment explanation
Indices: 22950747--22950779 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
22950737 TCTTTTAATA
*
22950747 TTTAGC TTTACC TTTAGC TTTAGC TTTAGC TTT
1 TTTAGC TTTAGC TTTAGC TTTAGC TTTAGC TTT
22950780 GGCTCTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.55
Consensus pattern (6 bp):
TTTAGC
Found at i:22955701 original size:18 final size:18
Alignment explanation
Indices: 22955678--22955715 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
22955668 TATATTAAAA
22955678 TATAAAT-TTTAGAATTTT
1 TATAAATATTT-GAATTTT
22955696 TATAAATACTTTGAATTTT
1 TATAAATA-TTTGAATTTT
22955715 T
1 T
22955716 TTGTAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTGAATTTT
Found at i:22963771 original size:18 final size:17
Alignment explanation
Indices: 22963759--22963791 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22963749 ATAATTATTA
22963759 AGGA-TTATTTAATTTT
1 AGGATTTATTTAATTTT
22963775 AGGATTTTATTTAATTT
1 AGGA-TTTATTTAATTT
22963792 ATCTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
AGGATTTATTTAATTTT
Found at i:22969995 original size:5 final size:5
Alignment explanation
Indices: 22969981--22970034 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
22969971 GTAACCCAAT
* *
22969981 TTTTA TTTTTA TTTTA TTTTA TTTTA -TTTA CTTTA TTTATTA CTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA TTTTA
22970028 TTTTA TT
1 TTTTA TT
22970035 ATTTATTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
4 4 0.10
5 28 0.67
6 7 0.17
7 3 0.07
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:22970002 original size:16 final size:16
Alignment explanation
Indices: 22969981--22970041 Score: 72
Period size: 17 Copynumber: 3.8 Consensus size: 16
22969971 GTAACCCAAT
22969981 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
22969997 TTTTA-TTTTA-TTTA
1 TTTTATTTTTATTTTA
* *
22970011 CTTTATTTATTACTTTA
1 TTTTATTT-TTATTTTA
22970028 TTTTATTATTTATT
1 TTTTATT-TTTATT
22970042 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 8 0.21
15 7 0.18
16 8 0.21
17 14 0.37
18 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:22970015 original size:9 final size:9
Alignment explanation
Indices: 22969988--22970038 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
22969978 AATTTTTATT
22969988 TTTATTTTA
1 TTTATTTTA
22969997 TTTTATTTTA
1 -TTTATTTTA
*
22970007 TTTACTTTA
1 TTTATTTTA
22970016 TTTA--TTA
1 TTTATTTTA
22970023 CTTTATTTTA
1 -TTTATTTTA
22970033 -TTATTT
1 TTTATTT
22970039 ATTACTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
7 3 0.08
8 10 0.27
9 12 0.32
10 12 0.32
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:22970025 original size:12 final size:13
Alignment explanation
Indices: 22969998--22970041 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
22969988 TTTATTTTAT
22969998 TTTATTTTATTTAC
1 TTTATTTTA-TTAC
22970012 TTTA-TTTATTAC
1 TTTATTTTATTAC
22970024 TTTATTTTATTA-
1 TTTATTTTATTAC
22970036 TTTATT
1 TTTATT
22970042 ACTTATTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 14 0.48
13 11 0.38
14 4 0.14
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTAC
Found at i:22970245 original size:22 final size:21
Alignment explanation
Indices: 22970196--22970255 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
22970186 GTGCAGAATG
* *
22970196 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
22970218 CTTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCC-TATC
* *
22970240 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
22970256 ACTCCTCATC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:22971353 original size:101 final size:100
Alignment explanation
Indices: 22971163--22971351 Score: 227
Period size: 101 Copynumber: 1.8 Consensus size: 100
22971153 AAGAACATGT
* * * * *
22971163 TGGGCTGAGTAACTGGGGTGTGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTCGATGTG
1 TGGGCTGAGTAACCGAGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTAGATATG
* *
22971228 TTCTTAAGAAAAAATTATAATAAATTAGAAGTCTGC
66 TCCTAAAGAAAAAA-TATAATAAATTAGAAGTCTGC
* * *
22971264 TGGGCTTAGTAACCGAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTAGTATA
1 TGGGCTGAGTAACCGAGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGG-TTAG-ATA
22971329 T-TCCTAAAGCATAAAAAATATAA
64 TGTCCTAAAG---AAAAAATATAA
22971352 ATAATAAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
101 50 0.68
102 9 0.12
103 3 0.04
104 5 0.07
105 6 0.08
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (100 bp):
TGGGCTGAGTAACCGAGGTGGGGTGCTTGGCTATCATCTCTCTTCACGTCAAAAGGTTAGATATG
TCCTAAAGAAAAAATATAATAAATTAGAAGTCTGC
Found at i:22971362 original size:20 final size:19
Alignment explanation
Indices: 22971339--22971412 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
22971329 TTCCTAAAGC
*
22971339 ATAAAAAATATAAATAATAA
1 ATAAAAAAAATAAA-AATAA
*
22971359 ATAAATAAAAATCAAAATAA
1 ATAAA-AAAAATAAAAATAA
*
22971379 ATAAAAAAGAA-AAAAAGAA
1 ATAAAAAA-AATAAAAATAA
* *
22971398 A-AAGAAAAAGAAAAA
1 ATAAAAAAAATAAAAA
22971413 GAAAAAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.04
18 10 0.22
19 10 0.22
20 17 0.37
21 7 0.15
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.14
Consensus pattern (19 bp):
ATAAAAAAAATAAAAATAA
Found at i:22971368 original size:23 final size:23
Alignment explanation
Indices: 22971342--22971392 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
22971332 CTAAAGCATA
*
22971342 AAAAAT-ATAAAT-AATAAATAAAT
1 AAAAATCA-AAATAAATAAA-AAAG
22971365 AAAAATCAAAATAAATAAAAAAG
1 AAAAATCAAAATAAATAAAAAAG
22971388 AAAAA
1 AAAAA
22971393 AAGAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (23 bp):
AAAAATCAAAATAAATAAAAAAG
Found at i:22971391 original size:16 final size:16
Alignment explanation
Indices: 22971357--22971405 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
22971347 TATAAATAAT
**
22971357 AAATAAATAAAAATCA
1 AAATAAATAAAAAAGA
22971373 AAATAAATAAAAAAGA
1 AAATAAATAAAAAAGA
*
22971389 AAA-AAA-GAAAAAGA
1 AAATAAATAAAAAAGA
22971403 AAA
1 AAA
22971406 AGAAAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 10 0.33
15 3 0.10
16 17 0.57
ACGTcount: A:0.82, C:0.02, G:0.06, T:0.10
Consensus pattern (16 bp):
AAATAAATAAAAAAGA
Found at i:22971419 original size:6 final size:6
Alignment explanation
Indices: 22971390--22971421 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
22971380 TAAAAAAGAA
22971390 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
22971422 TATAATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:22972000 original size:15 final size:15
Alignment explanation
Indices: 22971975--22972009 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22971965 AACTCTATTT
*
22971975 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
22971989 TAATTAATATTAAGA
1 TAATTAATATTAAGA
22972004 TAATTA
1 TAATTA
22972010 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:22975377 original size:79 final size:79
Alignment explanation
Indices: 22975222--22975370 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
22975212 TTAACAACAG
* * * * *
22975222 AAATCGAATAAATCTTGTTGAACGATAGGAATAGAATCCTGAAACAGAATTGTTGAATTGATTTC
1 AAATCGAACAAAACCTGTTGAACGACAGGAATAGAATCCTGAAACAGAATTGTTCAATTGATTTC
22975287 TGTTTGAAAACAAA
66 TGTTTGAAAACAAA
*
22975301 AAATCGAACAAAACCTGTTGAACGACAGGAATA-AGATCTTGAAACAGAATTGTTCAATTGATTT
1 AAATCGAACAAAACCTGTTGAACGACAGGAATAGA-ATCCTGAAACAGAATTGTTCAATTGATTT
22975365 CTGTTT
65 CTGTTT
22975371 ACAAACAGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.02
79 62 0.98
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (79 bp):
AAATCGAACAAAACCTGTTGAACGACAGGAATAGAATCCTGAAACAGAATTGTTCAATTGATTTC
TGTTTGAAAACAAA
Found at i:22975939 original size:25 final size:24
Alignment explanation
Indices: 22975903--22975961 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
22975893 TTTGACTAAT
*
22975903 GGAGCCAATAACATCCGTGAATT-AA
1 GGAGCCATTAACAT-C-TGAATTAAA
*
22975928 GGAGCCATTAACGTCTGAATTAAA
1 GGAGCCATTAACATCTGAATTAAA
22975952 GGAGCCATTA
1 GGAGCCATTA
22975962 GCCTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 6 0.19
24 13 0.42
25 12 0.39
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
GGAGCCATTAACATCTGAATTAAA
Found at i:22978148 original size:51 final size:52
Alignment explanation
Indices: 22978088--22978191 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
22978078 TTTTTTAAAA
*
22978088 AGATGTTTTGTGC-TTTTTTATCTATTTATTCATACAAACAAAATCATAATT
1 AGATGTTTTGTGCTTTTTTTATCTATTTATTCATACAAACAAAATCACAATT
*
22978139 AGATGTTTTGTGCTTTTTTTATCTATTTCTTCATACAAACAAAATCACAATT
1 AGATGTTTTGTGCTTTTTTTATCTATTTATTCATACAAACAAAATCACAATT
22978191 A
1 A
22978192 AGTTTTTGTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 13 0.26
52 37 0.74
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (52 bp):
AGATGTTTTGTGCTTTTTTTATCTATTTATTCATACAAACAAAATCACAATT
Found at i:22978212 original size:52 final size:52
Alignment explanation
Indices: 22978088--22978212 Score: 148
Period size: 52 Copynumber: 2.4 Consensus size: 52
22978078 TTTTTTAAAA
** *
22978088 AGATGTTTTGTGC-TTTTTTATCTATTTATTCATACAAACAAAATCATAATT
1 AGATGTTTTGTGCATGATTTATCTATTTATTCATACAAACAAAATCACAATT
* ** *
22978139 AGATGTTTTGTGCTTTTTTTATCTATTTCTTCATACAAACAAAATCACAATT
1 AGATGTTTTGTGCATGATTTATCTATTTATTCATACAAACAAAATCACAATT
22978191 A-A-GTTTTTGTTGCATGATTTAT
1 AGATG-TTTTG-TGCATGATTTAT
22978213 GTGAATGAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
50 1 0.02
51 19 0.29
52 46 0.70
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (52 bp):
AGATGTTTTGTGCATGATTTATCTATTTATTCATACAAACAAAATCACAATT
Found at i:22988342 original size:22 final size:24
Alignment explanation
Indices: 22988292--22988342 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
22988282 TTGCAATGCT
22988292 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
22988317 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
22988338 TTTAT
1 TTTAT
22988343 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:22988554 original size:34 final size:35
Alignment explanation
Indices: 22988500--22988566 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
22988490 CAAACACCAG
*
22988500 AAAATATTTTCCAGTAAATCATTGTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTGTACAGAAAAGT
* * *
22988535 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTGTACAGAAAA
22988567 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTGTACAGAAAAGT
Found at i:22990934 original size:26 final size:26
Alignment explanation
Indices: 22990903--22990959 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
22990893 CCCTTTGGAG
*
22990903 AGAACCCGAAAAGTTAGAGTGGAGAA
1 AGAACCCGAAAAGTTAGAGCGGAGAA
*
22990929 AGAACCCGAAGAGTTAGAGCGGAGAA
1 AGAACCCGAAAAGTTAGAGCGGAGAA
22990955 AGAAC
1 AGAAC
22990960 AAGGATTCGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.32, T:0.09
Consensus pattern (26 bp):
AGAACCCGAAAAGTTAGAGCGGAGAA
Found at i:22997722 original size:17 final size:18
Alignment explanation
Indices: 22997687--22997722 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22997677 CCATATGGTT
*
22997687 CACTCGTGTGGGTCCATA
1 CACTCGTGTGGGCCCATA
22997705 CACTCGTGT-GGCCCATA
1 CACTCGTGTGGGCCCATA
22997722 C
1 C
22997723 GGCCTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (18 bp):
CACTCGTGTGGGCCCATA
Found at i:23000993 original size:19 final size:19
Alignment explanation
Indices: 23000971--23001031 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
23000961 CACTCCAAAC
23000971 ATTAAAAGAAATATATACA
1 ATTAAAAGAAATATATACA
*
23000990 ATT--AAGAAATAAAATTAC-
1 ATTAAAAGAAAT-ATA-TACA
*
23001008 ATTAAAATAAATATATACA
1 ATTAAAAGAAATATATACA
23001027 ATTAA
1 ATTAA
23001032 GAAATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
19 13 0.38
20 6 0.18
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
ATTAAAAGAAATATATACA
Found at i:23000998 original size:17 final size:17
Alignment explanation
Indices: 23000976--23001037 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
23000966 CAAACATTAA
23000976 AAGAAATATATACAATT
1 AAGAAATATATACAATT
*
23000993 AAGAAATAAAATTAC-ATT
1 AAGAAAT-ATA-TACAATT
*
23001011 AAAATAAATATATACAATT
1 --AAGAAATATATACAATT
23001030 AAGAAATA
1 AAGAAATA
23001038 AAATTAAGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 14 0.39
18 8 0.22
19 8 0.22
20 6 0.17
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
AAGAAATATATACAATT
Found at i:23001020 original size:37 final size:37
Alignment explanation
Indices: 23000969--23001043 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
23000959 GACACTCCAA
23000969 ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
1 ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
*
23001006 ACATTAAAATAAATATATACAATTAAGAAATAAAATT
1 ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
23001043 A
1 A
23001044 AGCAAGCCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (37 bp):
ACATTAAAAGAAATATATACAATTAAGAAATAAAATT
Found at i:23001870 original size:28 final size:28
Alignment explanation
Indices: 23001830--23002023 Score: 196
Period size: 28 Copynumber: 7.0 Consensus size: 28
23001820 AGTCGTGTGT
* **
23001830 CCACTGTTTTTCAAAACTTACAATTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
23001858 CCACAGTTTTTCAAATTTTACAATTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
* *
23001886 CCACAATTTTTCAGATTTTACAATTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
** * *
23001914 CCATTGCTTTTCAAATTTT-CAAATTTTA
1 CCACAGTTTTTCAAATTTTAC-AATTTTG
* * * *
23001942 CCACTG-TTTTGAGATTTTACAGTTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
* * *
23001969 CCACAATTTTTCAGATTTTACAGTTTTG
1 CCACAGTTTTTCAAATTTTACAATTTTG
*
23001997 CCAC-GATTTTTCAGATTTTACAATTTT
1 CCACAG-TTTTTCAAATTTTACAATTTT
23002024 CCTCTATTTT
Statistics
Matches: 141, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 20 0.14
28 121 0.86
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (28 bp):
CCACAGTTTTTCAAATTTTACAATTTTG
Found at i:23002042 original size:83 final size:83
Alignment explanation
Indices: 23001837--23002051 Score: 240
Period size: 83 Copynumber: 2.6 Consensus size: 83
23001827 TGTCCACTGT
** * *
23001837 TTTTCAAAACTTACAATTTTGCCAC-AGTTTTTCAAATTTTACAATTTTGCCACAATTTTTCAGA
1 TTTTCAAATTTTACAATTTTACCACTA--TTTTCAAATTTTACAGTTTTGCCACAATTTTTCAGA
*
23001901 TTTTACAATTTTGCCATTGC
64 TTTTACAATTTTGCCATCGC
* * *
23001921 TTTTCAAATTTT-CAAATTTTACCACTGTTTTGAGATTTTACAGTTTTGCCACAATTTTTCAGAT
1 TTTTCAAATTTTAC-AATTTTACCACTATTTTCAAATTTTACAGTTTTGCCACAATTTTTCAGAT
* *
23001985 TTTACAGTTTTGCCA-CGAT
65 TTTACAATTTTGCCATCG-C
* * *
23002004 TTTTCAGATTTTACAATTTT-CCTCTATTTTACAAATTTTATAGTTTTG
1 TTTTCAAATTTTACAATTTTACCACTATTTT-CAAATTTTACAGTTTTG
23002052 ACCTAAGATT
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
82 9 0.08
83 80 0.73
84 21 0.19
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (83 bp):
TTTTCAAATTTTACAATTTTACCACTATTTTCAAATTTTACAGTTTTGCCACAATTTTTCAGATT
TTACAATTTTGCCATCGC
Found at i:23002051 original size:55 final size:55
Alignment explanation
Indices: 23001847--23002043 Score: 222
Period size: 55 Copynumber: 3.6 Consensus size: 55
23001837 TTTTCAAAAC
23001847 TTACAATTTTGCCAC-AGTTTTTCAAATTTTACAATTTTGCCACAATTTTTCAGATT
1 TTACAATTTTGCCACTA-TTTTTCAAATTTTACAATTTTGCCAC-ATTTTTCAGATT
* ** * *
23001903 TTACAATTTTGCCATTGCTTTTCAAATTTT-CAAATTTTACCAC-TGTTTTGAGATT
1 TTACAATTTTGCCACTATTTTTCAAATTTTAC-AATTTTGCCACAT-TTTTCAGATT
* * * *
23001958 TTACAGTTTTGCCACAATTTTTCAGATTTTACAGTTTTGCCACGATTTTTCAGATT
1 TTACAATTTTGCCACTATTTTTCAAATTTTACAATTTTGCCAC-ATTTTTCAGATT
* *
23002014 TTACAATTTT-CCTCTATTTTACAAATTTTA
1 TTACAATTTTGCCACTATTTTTCAAATTTTA
23002044 TAGTTTTGAC
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
54 1 0.01
55 59 0.51
56 55 0.47
57 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.48
Consensus pattern (55 bp):
TTACAATTTTGCCACTATTTTTCAAATTTTACAATTTTGCCACATTTTTCAGATT
Found at i:23002459 original size:21 final size:21
Alignment explanation
Indices: 23002435--23002500 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
23002425 AGTTTATTTG
23002435 CATCGTTTAGTGGTTTATCCA
1 CATCGTTTAGTGGTTTATCCA
* ***
23002456 CATCATTTGAGCAATTTA-CCTA
1 CATCGTTT-AGTGGTTTATCC-A
* *
23002478 CACCGTTGAGTGGTTTATCCA
1 CATCGTTTAGTGGTTTATCCA
23002499 CA
1 CA
23002501 CCTTATTAGT
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (21 bp):
CATCGTTTAGTGGTTTATCCA
Found at i:23014734 original size:12 final size:13
Alignment explanation
Indices: 23014710--23014738 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23014700 GAGTTATAAC
23014710 TATTGCATTTATT
1 TATTGCATTTATT
23014723 TATTGC-TTTATT
1 TATTGCATTTATT
23014735 TATT
1 TATT
23014739 CATATATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:23021325 original size:31 final size:30
Alignment explanation
Indices: 23021290--23021348 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
23021280 TTTAAAAAAA
*
23021290 ATACATGGAAATG-ATTTTACATGATATATAG
1 ATACAT-GAAATGAATGTTACATG-TATATAG
*
23021321 ATACATGATATGAATGTTACATGTATAT
1 ATACATGAAATGAATGTTACATGTATAT
23021349 GGAAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (30 bp):
ATACATGAAATGAATGTTACATGTATATAG
Found at i:23026067 original size:3 final size:3
Alignment explanation
Indices: 23026054--23026117 Score: 53
Period size: 3 Copynumber: 21.3 Consensus size: 3
23026044 ATTTAGTCTT
* * *
23026054 TTA TTA TTTA TTA TTA TTA -AA TT- TTA TT- TTC TTG TTA TTAA GTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
23026099 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
23026118 ACATACGCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 5 0.10
3 39 0.76
4 5 0.10
5 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23026262 original size:17 final size:17
Alignment explanation
Indices: 23026231--23026274 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
23026221 CATAACTTTT
*
23026231 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
23026247 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
23026264 ATATACATTTT
1 ATATACATTTT
23026275 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:23031475 original size:14 final size:15
Alignment explanation
Indices: 23031449--23031481 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23031439 TTCCAAGCTG
23031449 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
23031464 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
23031478 GGAA
1 GGAA
23031482 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:23032974 original size:88 final size:88
Alignment explanation
Indices: 23032822--23033557 Score: 791
Period size: 88 Copynumber: 8.4 Consensus size: 88
23032812 AGAACAGATC
* * * * * *
23032822 ATTGAAGATAGCAGATCTTGTCTTCCTGTAC-CAGTAGCGAAGCAGACCAAAGACACCAGCCTTG
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGAAGACACCAGCCTTG
* * *
23032886 CCTCCCTGGGTTACAGCGGAGCAG
65 CCTCCCTAGGTTGCAGTGGAGCAG
* * *
23032910 GTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACTAGTCTTGC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
23032975 CTCCCTAGGTTGCAGTGGAGCAG
66 CTCCCTAGGTTGCAGTGGAGCAG
* * * *
23032998 ACT-AAAAGTAGTAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTG
1 ATTGAAAA-TAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTG
*
23033062 CCTCCCTAGGTTGCATTGGAGCAG
65 CCTCCCTAGGTTGCAGTGGAGCAG
* * * *
23033086 ACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATC-AAGGGCACCAGCCTTG
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAA-GACACCAGCCTTG
* *
23033150 CC-CCCTGGGTTGCAGCGGAGCAG
65 CCTCCCTAGGTTGCAGTGGAGCAG
* * * * * *
23033173 GTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGTAGATCGAAGACACCAGTCTTGC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
23033238 CTCCCAAGGTTGCAGTAGAGCAG
66 CTCCCTAGGTTGCAGTGGAGCAG
* * * * ** *
23033261 ACTGAAGATAGTAGATCTTGCCTTCCTGTACCGGTAGCGAAGCAGATCAAAGACACCAGCCTTGC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
23033326 CTCCCT-GGATTGCAGCGGAGTAG
66 CTCCCTAGG-TTGCAGTGGAGCAG
* * * * *** ** *
23033349 GTTGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGGTGCCATTCTTAC
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
23033414 CTCTCTAGGTTGCAGTGTAGCAG
66 CTCCCTAGGTTGCAGTGGAGCAG
* * * * * * * *
23033437 ACTGAAGATAGCAGATCTTTCCTTCCTGTACCGGCAGCGAAGCAGATCGAAAACTCCAGCCTTGT
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
** *
23033502 CTCCCT-GAGCAGCAGTGGAGTAG
66 CTCCCTAG-GTTGCAGTGGAGCAG
* * *
23033525 GTTAAAAATAGCAGATCTTGCCTTCCTATACTG
1 ATTGAAAATAGCAGATCTTGCCTTCCTGTACTG
23033558 GTAGTGAAGT
Statistics
Matches: 533, Mismatches: 106, Indels: 18
0.81 0.16 0.03
Matches are distributed among these distances:
87 80 0.15
88 447 0.84
89 6 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (88 bp):
ATTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
CTCCCTAGGTTGCAGTGGAGCAG
Found at i:23033093 original size:43 final size:44
Alignment explanation
Indices: 23032950--23033108 Score: 116
Period size: 44 Copynumber: 3.6 Consensus size: 44
23032940 CTGACAGCGA
* *
23032950 AGCAGATCGAAGACACTAG-TCTTGCCTCCCTAGGTTGCAGTGG
1 AGCAGATCGAAGACACCAGATCTTGCCTCCCTAGGTTGCATTGG
* * * ** * *
23032993 AGCAGA-CTAAAAGTAGTAGATCTTGCCTTCCT--GTACTG-ATAGCG
1 AGCAGATCGAAGA-CACCAGATCTTGCCTCCCTAGGT--TGCATTG-G
23033037 AAGCAGATCGAAGACACCAG-TCTTGCCTCCCTAGGTTGCATTGG
1 -AGCAGATCGAAGACACCAGATCTTGCCTCCCTAGGTTGCATTGG
* *
23033081 AGCAGA-CTGAAGATAGCAGATCTTGCCT
1 AGCAGATC-GAAGACACCAGATCTTGCCT
23033109 TCCTGTACCG
Statistics
Matches: 88, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
42 7 0.08
43 27 0.31
44 36 0.41
45 12 0.14
46 6 0.07
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (44 bp):
AGCAGATCGAAGACACCAGATCTTGCCTCCCTAGGTTGCATTGG
Found at i:23033128 original size:176 final size:175
Alignment explanation
Indices: 23032823--23033587 Score: 890
Period size: 176 Copynumber: 4.4 Consensus size: 175
23032813 GAACAGATCA
* * * * * *
23032823 TTGAAGATAGCAGATCTTGTCTTCCTGTAC-CAGTAGCGAAGCAGACCAAAGACACCAGCCTTGC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGA-TAGCGAAGCAGATCGAAGACACCAGTCTTGC
* * * ** * *
23032887 CTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAG
65 CTCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAG
* * * *
23032952 CAGATCGAAGACACTAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGA
130 CAGATCGAAGACACCAGCCTTGCCTCCCT-GGTTGCAGCGGAGCAGG
* *
23032999 CT-AAAAGTAGTAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGC
1 TTGAAAA-TAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGC
*
23033063 CTCCCTAGGTTGCATTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAG
65 CTCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAG
*
23033128 CAGATC-AAGGGCACCAGCCTTGCC-CCCTGGGTTGCAGCGGAGCAGG
130 CAGATCGAA-GACACCAGCCTTGCCTCCCT-GGTTGCAGCGGAGCAGG
* * * * *
23033174 TTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGTAGATCGAAGACACCAGTCTTGCC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * * **
23033239 TCCCAAGGTTGCAGTAGAGCAGACTGAAGATAGTAGATCTTGCCTTCCTGTACCGGTAGCGAAGC
66 TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
* *
23033304 AGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAGTAGG
131 AGATCGAAGACACCAGCCTTGCCTCCCTGG-TTGCAGCGGAGCAGG
* * * * *** * *
23033350 TTGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGGTGCCATTCTTACC
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCC
* * * *
23033415 TCTCTAGGTTGCAGTGTAGCAGACTGAAGATAGCAGATCTTTCCTTCCTGTACCGGCAGCGAAGC
66 TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
* * * ** * *
23033480 AGATCGAAAACTCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGG
131 AGATCGAAGACACCAGCCTTGCCTCCCTG-GTTGCAGCGGAGCAGG
* * * * * * * *
23033526 TTAAAAATAGCAGATCTTGCCTTCCTATACTGGTAGTGAAGTAGATTGAAGAAATCAGTCTT
1 TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTT
23033588 ATTTCCTTGA
Statistics
Matches: 507, Mismatches: 74, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
175 157 0.31
176 348 0.69
177 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (175 bp):
TTGAAAATAGCAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCC
TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
AGATCGAAGACACCAGCCTTGCCTCCCTGGTTGCAGCGGAGCAGG
Found at i:23033301 original size:263 final size:264
Alignment explanation
Indices: 23032824--23033395 Score: 846
Period size: 263 Copynumber: 2.2 Consensus size: 264
23032814 AACAGATCAT
* * *
23032824 TGAAGATAGCAGATCTTGTCTTCCTGTACC-AGTAGCGAAGCAGACCAAAGACACCAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGA-CAGCGAAGCAGATCAAAGACACCAGCCTTGCC
* * *
23032888 TCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGC
65 TCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGC
* * *
23032953 AGATCGAAGACACTAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGACTAAAAGTAGTAGATCTTG
130 AGATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTAAAAGTAGTAGATCTTG
* * * **
23033018 CCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCCTCCCTAGG-TTGCATTGGA
195 CCTTCCTGTACCGATAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT-GGATTGCAGCGGA
23033082 GCAGAC
259 GCAGAC
* *
23033088 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAGGGCACCAGCCTTGCC-
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
* *
23033152 CCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGTA
66 CCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGCA
*
23033217 GATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACT-GAAGATAGTAGATCTTG
131 GATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTAAAAG-TAGTAGATCTTG
*
23033281 CCTTCCTGTACCGGTAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAG
195 CCTTCCTGTACCGATAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAG
* **
23033346 TAGGT
260 CAGAC
* * * *
23033351 TGAAAATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGAT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGAT
23033396 TGAAGGTGCC
Statistics
Matches: 278, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
262 5 0.02
263 215 0.77
264 57 0.21
265 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (264 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
CCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCATATACTGACACCGAAGCA
GATCGAAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTAAAAGTAGTAGATCTTGC
CTTCCTGTACCGATAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGATTGCAGCGGAGC
AGAC
Found at i:23033477 original size:351 final size:352
Alignment explanation
Indices: 23032871--23033557 Score: 923
Period size: 351 Copynumber: 2.0 Consensus size: 352
23032861 AAGCAGACCA
** * **
23032871 AAGACACCAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCC
1 AAGACACCAGCCTTGCCTCCCAAGGTTACAGCAGAGCAGACTGAAAATAGCAGATCTTGCCTTCC
* * * * *
23032936 TGTACTGACAGCGAAGCAGATCGAAGACACTAGTCTTGCCTCCCTAGGTTGCAGTGGAGCAGACT
66 TGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGACT
* *
23033001 AAAAGTAGTAGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGACACCAGTCTTGCCTC
131 AAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTACCTC
*
23033066 CCTAGGTTGCATTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAG
196 CCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAG
** * ** *
23033131 ATC-AAGGGCACCAGCCTTG-CCCCCTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGC
261 ATCGAA-AACACCAGCCTTGTCCCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGC
23033194 CTTCATATACTGACACCGAAGTAGATCG
325 CTTCATATACTGACACCGAAGTAGATCG
* * * * *
23033222 AAGACACCAGTCTTGCCTCCCAAGGTTGCAGTAGAGCAGACTGAAGATAGTAGATCTTGCCTTCC
1 AAGACACCAGCCTTGCCTCCCAAGGTTACAGCAGAGCAGACTGAAAATAGCAGATCTTGCCTTCC
** * **
23033287 TGTACCGGTAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT-GGATTGCAGCGGAGTAGGT
66 TGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGG-TTGCAGCGGAGCAGAC
* * *** *
23033351 TGAAAA-TAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGGTGCCATTCTTACC
130 T-AAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTACC
* * * *
23033415 TCTCTAGGTTGCAGTGTAGCAGACTGAAGATAGCAGATCTTTCCTTCCTGTACCGGCAGCGAAGC
194 TCCCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGC
* * * *
23033480 AGATCGAAAACTCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTG
259 AGATCGAAAACACCAGCCTTGTCCCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTG
*
23033545 CCTTCCTATACTG
324 CCTTCATATACTG
23033558 GTAGTGAAGT
Statistics
Matches: 288, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
350 2 0.01
351 232 0.81
352 54 0.19
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (352 bp):
AAGACACCAGCCTTGCCTCCCAAGGTTACAGCAGAGCAGACTGAAAATAGCAGATCTTGCCTTCC
TGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGCAGCGGAGCAGACT
AAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGTCTTACCTC
CCTAGGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAG
ATCGAAAACACCAGCCTTGTCCCCCTGAGCAGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCC
TTCATATACTGACACCGAAGTAGATCG
Found at i:23033643 original size:50 final size:50
Alignment explanation
Indices: 23033584--23033695 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
23033574 AAGAAATCAG
* *
23033584 TCTTATTTCCTTGACTTTGCAATGAA-AATGATTGAAGCCACAACGACGAA
1 TCTTATTTCCTTGACGTTGCAACGAAGAA-GATTGAAGCCACAACGACGAA
* * * * * *
23033634 TCTTATTTCCCTGGCGTTGTAGCGAAGCAGATTGAAGCCACGACGACGAA
1 TCTTATTTCCTTGACGTTGCAACGAAGAAGATTGAAGCCACAACGACGAA
23033684 TCTTATCTTCCT
1 TCTTAT-TTCCT
23033696 GGCGTTAAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 46 0.90
51 5 0.10
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (50 bp):
TCTTATTTCCTTGACGTTGCAACGAAGAAGATTGAAGCCACAACGACGAA
Found at i:23047937 original size:18 final size:16
Alignment explanation
Indices: 23047916--23047949 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
23047906 GTTTTGAAAT
23047916 TGAATAATTATTTGTAAA
1 TGAATAA-TATTT-TAAA
23047934 TGAATAATATTTTAAA
1 TGAATAATATTTTAAA
23047950 AACGAACGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
TGAATAATATTTTAAA
Found at i:23062047 original size:13 final size:13
Alignment explanation
Indices: 23062029--23062053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23062019 ACGTCTAAGT
23062029 TTAGCTAGCTGAG
1 TTAGCTAGCTGAG
23062042 TTAGCTAGCTGA
1 TTAGCTAGCTGA
23062054 TTTCGAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (13 bp):
TTAGCTAGCTGAG
Found at i:23065288 original size:17 final size:16
Alignment explanation
Indices: 23065266--23065305 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23065256 TTTGCACACT
*
23065266 TTTTTTATATTCGAAAC
1 TTTTTTATACTCG-AAC
*
23065283 TTTTTTTTACTCGAAC
1 TTTTTTATACTCGAAC
23065299 TTTTTTA
1 TTTTTTA
23065306 CTTCTTTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (16 bp):
TTTTTTATACTCGAAC
Found at i:23065299 original size:16 final size:18
Alignment explanation
Indices: 23065263--23065304 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
23065253 TATTTTGCAC
*
23065263 ACTTTTTTTATATTCGAA
1 ACTTTTTTTATACTCGAA
23065281 ACTTTTTTT-TACTCG-A
1 ACTTTTTTTATACTCGAA
23065297 ACTTTTTT
1 ACTTTTTT
23065305 ACTTCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 9 0.39
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (18 bp):
ACTTTTTTTATACTCGAA
Found at i:23068658 original size:20 final size:18
Alignment explanation
Indices: 23068633--23068702 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 18
23068623 ACCATATTCT
*
23068633 ATTTTTAAATTTTAAAATTA
1 ATTTTTAAAATTT--AATTA
23068653 ATTTTTAGAAAATTTAATTA
1 ATTTTT--AAAATTTAATTA
*
23068673 ATTTTTAAAAAATTAACTTA
1 ATTTTT-AAAATTTAA-TTA
23068693 ATTTTTAAAA
1 ATTTTTAAAA
23068703 AATTAAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.27
20 26 0.59
22 6 0.14
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (18 bp):
ATTTTTAAAATTTAATTA
Found at i:23068703 original size:20 final size:19
Alignment explanation
Indices: 23068648--23068715 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 19
23068638 TAAATTTTAA
*
23068648 AATTAATTTTTAGAAAATTT
1 AATTAATTTTTA-AAAAATT
23068668 AATTAATTTTTAAAAAATT
1 AATTAATTTTTAAAAAATT
23068687 AACTTAATTTTTAAAAAATT
1 AA-TTAATTTTTAAAAAATT
23068707 AAATTAATT
1 -AATTAATT
23068716 AGAAGTATCC
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 8 0.18
20 35 0.78
21 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (19 bp):
AATTAATTTTTAAAAAATT
Found at i:23069060 original size:7 final size:7
Alignment explanation
Indices: 23069024--23069075 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
23069014 ATTATTTCAT
*
23069024 TAAAAAG
1 TAAAAGG
*
23069031 TAAAAGA
1 TAAAAGG
*
23069038 AAAAAGAG
1 TAAAAG-G
23069046 -AAAA-G
1 TAAAAGG
23069051 TAAAAGG
1 TAAAAGG
23069058 TAAAAGG
1 TAAAAGG
23069065 TAAAAGG
1 TAAAAGG
23069072 TAAA
1 TAAA
23069076 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
5 1 0.03
6 4 0.11
7 33 0.87
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (7 bp):
TAAAAGG
Found at i:23078841 original size:23 final size:24
Alignment explanation
Indices: 23078805--23078855 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
23078795 AAAATGTTGG
**
23078805 AAATTGTTTTATTG-GATTTTATT
1 AAATTGTTCAATTGAGATTTTATT
*
23078828 AAATTGTTCAATTGATGATTTTGTT
1 AAATTGTTCAATTGA-GATTTTATT
23078853 AAA
1 AAA
23078856 AGAAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 12 0.52
25 11 0.48
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (24 bp):
AAATTGTTCAATTGAGATTTTATT
Found at i:23085550 original size:17 final size:17
Alignment explanation
Indices: 23085528--23085560 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23085518 CCAAAATCGC
23085528 TATCTGGTCATCTCAAT
1 TATCTGGTCATCTCAAT
23085545 TATCTGGTCATCTCAA
1 TATCTGGTCATCTCAA
23085561 AGGTTGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (17 bp):
TATCTGGTCATCTCAAT
Found at i:23089011 original size:14 final size:14
Alignment explanation
Indices: 23088992--23089026 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
23088982 TTCAAAACTT
23088992 TTTTTTTGAATTCC
1 TTTTTTTGAATTCC
*
23089006 TTTTTTTGAATTTC
1 TTTTTTTGAATTCC
23089020 TTTTTTT
1 TTTTTTT
23089027 AAATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (14 bp):
TTTTTTTGAATTCC
Found at i:23090236 original size:93 final size:93
Alignment explanation
Indices: 23090077--23090249 Score: 346
Period size: 93 Copynumber: 1.9 Consensus size: 93
23090067 GCTTTGGGCA
23090077 ATCGAACAGTTTTCTTGGAGACTTAAAATGCTATGCGGAAAGTTACTTAGAAATCACCAATAATC
1 ATCGAACAGTTTTCTTGGAGACTTAAAATGCTATGCGGAAAGTTACTTAGAAATCACCAATAATC
23090142 AGCTCACCATTTTAAGCTCAATTCAGCT
66 AGCTCACCATTTTAAGCTCAATTCAGCT
23090170 ATCGAACAGTTTTCTTGGAGACTTAAAATGCTATGCGGAAAGTTACTTAGAAATCACCAATAATC
1 ATCGAACAGTTTTCTTGGAGACTTAAAATGCTATGCGGAAAGTTACTTAGAAATCACCAATAATC
23090235 AGCTCACCATTTTAA
66 AGCTCACCATTTTAA
23090250 AACCATACAC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 80 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (93 bp):
ATCGAACAGTTTTCTTGGAGACTTAAAATGCTATGCGGAAAGTTACTTAGAAATCACCAATAATC
AGCTCACCATTTTAAGCTCAATTCAGCT
Found at i:23090623 original size:10 final size:11
Alignment explanation
Indices: 23090597--23090625 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23090587 AGACGAGCTC
23090597 ATTGAGCTAAG
1 ATTGAGCTAAG
23090608 ATTGAGCTAA-
1 ATTGAGCTAAG
23090618 ATTGAGCT
1 ATTGAGCT
23090626 CAACCAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAAG
Found at i:23091163 original size:24 final size:23
Alignment explanation
Indices: 23091136--23091201 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 23
23091126 AATTTGAAGG
23091136 ATGTATAATGCTTTCCTTTAAATA
1 ATGTATAATGC-TTCCTTTAAATA
* * *
23091160 ATGTA-ACA-AC-TCCTTTGAATT
1 ATGTATA-ATGCTTCCTTTAAATA
23091181 ATGTATAATGCTCTCCTTTAA
1 ATGTATAATGCT-TCCTTTAA
23091202 TTGATGTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
21 15 0.47
22 2 0.06
23 2 0.06
24 13 0.41
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (23 bp):
ATGTATAATGCTTCCTTTAAATA
Found at i:23091219 original size:21 final size:20
Alignment explanation
Indices: 23091149--23091219 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 20
23091139 TATAATGCTT
* *
23091149 TCCTTTAAATAATGTAACAAC
1 TCCTTT-AATTATGTAACAGC
23091170 TCCTTTGAATTATGTATA-ATGCTC
1 TCCTTT-AATTATGTA-ACA-G--C
23091194 TCCTTTAATTGATGTAACAGC
1 TCCTTTAATT-ATGTAACAGC
23091215 TCCTT
1 TCCTT
23091220 GTATGTAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
21 21 0.51
22 1 0.02
23 6 0.15
24 13 0.32
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
TCCTTTAATTATGTAACAGC
Found at i:23091570 original size:19 final size:19
Alignment explanation
Indices: 23091546--23091584 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23091536 TTATTCCAGC
23091546 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
23091565 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
23091584 A
1 A
23091585 GTAATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:23092998 original size:20 final size:20
Alignment explanation
Indices: 23092958--23092998 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23092948 GTCTTAGCCG
*
23092958 AATTAAATGTGTCCTAGTTT
1 AATTAAATGTGTCCTAATTT
* *
23092978 AATTAAATTTGTCTTAATTT
1 AATTAAATGTGTCCTAATTT
23092998 A
1 A
23092999 TTACATGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (20 bp):
AATTAAATGTGTCCTAATTT
Found at i:23094709 original size:10 final size:10
Alignment explanation
Indices: 23094694--23094734 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
23094684 CGGTGTAAGT
23094694 ATTTGAAAAA
1 ATTTGAAAAA
23094704 ATTTGAAAAA
1 ATTTGAAAAA
* *
23094714 AATTAAAAAA
1 ATTTGAAAAA
*
23094724 ATTTCAAAAA
1 ATTTGAAAAA
23094734 A
1 A
23094735 ATTGTGAACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (10 bp):
ATTTGAAAAA
Found at i:23094715 original size:11 final size:11
Alignment explanation
Indices: 23094694--23094742 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
23094684 CGGTGTAAGT
23094694 ATTTG-AAAAA
1 ATTTGAAAAAA
23094704 ATTTGAAAAAA
1 ATTTGAAAAAA
23094715 A-TT-AAAAAA
1 ATTTGAAAAAA
*
23094724 ATTTCAAAAAA
1 ATTTGAAAAAA
23094735 ATTGTGAA
1 ATT-TGAA
23094743 CGTGATTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 7 0.21
10 9 0.26
11 15 0.44
12 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (11 bp):
ATTTGAAAAAA
Found at i:23094724 original size:20 final size:20
Alignment explanation
Indices: 23094699--23094737 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
23094689 TAAGTATTTG
*
23094699 AAAAAATTTGAAAAAAATTA
1 AAAAAATTTCAAAAAAATTA
23094719 AAAAAATTTCAAAAAAATT
1 AAAAAATTTCAAAAAAATT
23094738 GTGAACGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAAAATTTCAAAAAAATTA
Found at i:23096005 original size:16 final size:17
Alignment explanation
Indices: 23095963--23096005 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
23095953 ATGAAAAAAC
23095963 AAAAGAAAAAGAAAGTA
1 AAAAGAAAAAGAAAGTA
23095980 AAAAGAAAAAGAAAGT-
1 AAAAGAAAAAGAAAGTA
23095996 AAAAGAAAAA
1 AAAAGAAAAA
23096006 AAAAAAGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAAGAAAGTA
Found at i:23096063 original size:18 final size:20
Alignment explanation
Indices: 23096040--23096086 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
23096030 GCATGCGAGC
23096040 AAGAAAAGAAAG-TTGAA-A
1 AAGAAAAGAAAGATTGAAGA
*
23096058 AAGAAAA-AGAGATTGAAGA
1 AAGAAAAGAAAGATTGAAGA
23096077 AAGAAAAGAA
1 AAGAAAAGAA
23096087 CGTGTCCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 8 0.33
20 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (20 bp):
AAGAAAAGAAAGATTGAAGA
Found at i:23096067 original size:19 final size:19
Alignment explanation
Indices: 23096043--23096083 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23096033 TGCGAGCAAG
23096043 AAAAGAAAGTTGAA-AAAGA
1 AAAAGAAA-TTGAAGAAAGA
*
23096062 AAAAGAGATTGAAGAAAGA
1 AAAAGAAATTGAAGAAAGA
23096081 AAA
1 AAA
23096084 GAACGTGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.22, T:0.10
Consensus pattern (19 bp):
AAAAGAAATTGAAGAAAGA
Found at i:23098467 original size:27 final size:27
Alignment explanation
Indices: 23098437--23098488 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
23098427 AATTGGTAGG
* *
23098437 TACATGCATGGACGACATTGAAGATAA
1 TACATGCATGGACAACAATGAAGATAA
23098464 TACATGCATGGACAACAATGAAGAT
1 TACATGCATGGACAACAATGAAGAT
23098489 GCTTCAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAACAATGAAGATAA
Done.