Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004578.1 Hibiscus syriacus cultivar Beakdansim tig00010204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1248949
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:997997 original size:61 final size:61
Alignment explanation
Indices: 997930--998097 Score: 243
Period size: 61 Copynumber: 2.8 Consensus size: 61
997920 GAATATGAAA
*
997930 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
* * *
997991 ATCGCAACGCGAAAATACGCGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
* *
998052 ATCGCAACGCGAT-TCTGAC-T-ATCGCAACGCGATTCTGACTAACGCA
1 ATCGCAACGCGATAAC--ACGTGATCGCAACGCGATTCTGACTATCGCA
998098 TCACTGAATT
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
60 25 0.26
61 69 0.72
62 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (61 bp):
ATCGCAACGCGATAACACGTGATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
Found at i:998949 original size:24 final size:24
Alignment explanation
Indices: 998917--998970 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
998907 GTATTCGAAA
*
998917 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
998941 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
998965 TTTGAT
1 TTTGAT
998971 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:999181 original size:12 final size:13
Alignment explanation
Indices: 999166--999198 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
999156 AGAAGAAAGA
999166 GAAGAAA-TCCCC
1 GAAGAAATTCCCC
999178 GAAGAAAATTCCCC
1 GAAG-AAATTCCCC
999192 GAAGAAA
1 GAAGAAA
999199 ATGCCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.09
Consensus pattern (13 bp):
GAAGAAATTCCCC
Found at i:999192 original size:14 final size:14
Alignment explanation
Indices: 999173--999200 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
999163 AGAGAAGAAA
999173 TCCCCGAAGAAAAT
1 TCCCCGAAGAAAAT
999187 TCCCCGAAGAAAAT
1 TCCCCGAAGAAAAT
999201 GCCACGGGAG
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:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (14 bp):
TCCCCGAAGAAAAT
Found at i:1000282 original size:19 final size:19
Alignment explanation
Indices: 1000258--1000306 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1000248 ATGACCAACA
1000258 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
1000277 AAATCGCAACGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
1000296 ATTATCGCAAT
1 A-AATCGCAAT
1000307 TCAGTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:1000391 original size:21 final size:19
Alignment explanation
Indices: 1000320--1000413 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 19
1000310 GTTTTCAGAT
* *
1000320 TCGCAACGCGATTTTGACCA
1 TCGCAATGCGATTTTGA-AA
*
1000340 TCGCATTGCGATTTTCGAAA
1 TCGCAATGCGATTTT-GAAA
**
1000360 TCCGCGTTGCGATTTTAGATAA
1 T-CGCAATGCGATTTT-GA-AA
* *
1000382 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGATTTTG-AAA
*
1000402 TCGCAACGCGAT
1 TCGCAATGCGAT
1000414 AACACGTGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 28 0.47
21 28 0.47
22 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (19 bp):
TCGCAATGCGATTTTGAAA
Found at i:1000426 original size:41 final size:41
Alignment explanation
Indices: 1000381--1000535 Score: 127
Period size: 41 Copynumber: 3.8 Consensus size: 41
1000371 ATTTTAGATA
* *
1000381 ATCGCAATGCGAATATGTA-AATCGCAACGCGATAACACGTG
1 ATCGCAACGCGAATATG-ACAATCGCAACGCGATAACACGCG
* * * *
1000422 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGCG
1 ATCGCAACGCGAATATGACAATCGCAACGCGATAACACGCG
* * * * * * *
1000463 ATCGCAACGCGATTCTGACTATCGCAACGAGAT-TC-TGACT
1 ATCGCAACGCGAATATGACAATCGCAACGCGATAACACG-CG
* * *
1000503 ATCGCAACGCGATTCTGACTATCGCAACGCGAT
1 ATCGCAACGCGAATATGACAATCGCAACGCGAT
1000536 TCTGACTAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 34 0.34
41 65 0.65
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATATGACAATCGCAACGCGATAACACGCG
Found at i:1000427 original size:21 final size:21
Alignment explanation
Indices: 1000401--1000475 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
1000391 GAATATGTAA
1000401 ATCGCAACGCGATAACACGTG
1 ATCGCAACGCGATAACACGTG
*
1000422 ATCGCAACGCGAT-TCTGAC-T-
1 ATCGCAACGCGATAAC--ACGTG
* *
1000442 ATCGCAACGCGATAATACGCG
1 ATCGCAACGCGATAACACGTG
1000463 ATCGCAACGCGAT
1 ATCGCAACGCGAT
1000476 TCTGACTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGATAACACGTG
Found at i:1000447 original size:20 final size:20
Alignment explanation
Indices: 1000422--1000548 Score: 186
Period size: 20 Copynumber: 6.3 Consensus size: 20
1000412 ATAACACGTG
1000422 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1000442 ATCGCAACGCGATAATAC-G-CG
1 ATCGCAACGCGAT--T-CTGACT
1000463 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1000483 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1000503 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1000523 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1000543 AACGCA
1 ATCGCA
1000549 TCACTGAATT
Statistics
Matches: 97, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 77 0.79
21 14 0.14
22 2 0.02
23 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1001401 original size:24 final size:24
Alignment explanation
Indices: 1001369--1001422 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1001359 GTATTCGAAA
*
1001369 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1001393 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1001417 TTTGAT
1 TTTGAT
1001423 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1001633 original size:12 final size:13
Alignment explanation
Indices: 1001618--1001650 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1001608 AGAAGAAAGA
1001618 GAAGAAA-TCCCC
1 GAAGAAATTCCCC
1001630 GAAGAAAATTCCCC
1 GAAG-AAATTCCCC
1001644 GAAGAAA
1 GAAGAAA
1001651 ATGCCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.09
Consensus pattern (13 bp):
GAAGAAATTCCCC
Found at i:1001644 original size:14 final size:14
Alignment explanation
Indices: 1001625--1001652 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1001615 AGAGAAGAAA
1001625 TCCCCGAAGAAAAT
1 TCCCCGAAGAAAAT
1001639 TCCCCGAAGAAAAT
1 TCCCCGAAGAAAAT
1001653 GCCACGGGAG
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:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (14 bp):
TCCCCGAAGAAAAT
Found at i:1002734 original size:19 final size:19
Alignment explanation
Indices: 1002710--1002758 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
1002700 ATGACCAACA
1002710 AAATCGCAATGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
1002729 AAATCGCAACGCGATCTCT
1 AAATCGCAATGCGATCTCT
*
1002748 ATTATCGCAAT
1 A-AATCGCAAT
1002759 TCAGTTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (19 bp):
AAATCGCAATGCGATCTCT
Found at i:1002878 original size:41 final size:41
Alignment explanation
Indices: 1002833--1002987 Score: 127
Period size: 41 Copynumber: 3.8 Consensus size: 41
1002823 ATTTTAGATA
* *
1002833 ATCGCAATGCGAATATGTA-AATCGCAACGCGATAACACGTG
1 ATCGCAACGCGAATATG-ACAATCGCAACGCGATAACACGCG
* * * *
1002874 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGCG
1 ATCGCAACGCGAATATGACAATCGCAACGCGATAACACGCG
* * * * * * *
1002915 ATCGCAACGCGATTCTGACTATCGCAACGAGAT-TC-TGACT
1 ATCGCAACGCGAATATGACAATCGCAACGCGATAACACG-CG
* * *
1002955 ATCGCAACGCGATTCTGACTATCGCAACGCGAT
1 ATCGCAACGCGAATATGACAATCGCAACGCGAT
1002988 TCTGACTAAC
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 34 0.34
41 65 0.65
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAATATGACAATCGCAACGCGATAACACGCG
Found at i:1002879 original size:21 final size:21
Alignment explanation
Indices: 1002853--1002927 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
1002843 GAATATGTAA
1002853 ATCGCAACGCGATAACACGTG
1 ATCGCAACGCGATAACACGTG
*
1002874 ATCGCAACGCGAT-TCTGAC-T-
1 ATCGCAACGCGATAAC--ACGTG
* *
1002894 ATCGCAACGCGATAATACGCG
1 ATCGCAACGCGATAACACGTG
1002915 ATCGCAACGCGAT
1 ATCGCAACGCGAT
1002928 TCTGACTATC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGATAACACGTG
Found at i:1002899 original size:20 final size:20
Alignment explanation
Indices: 1002874--1003000 Score: 186
Period size: 20 Copynumber: 6.3 Consensus size: 20
1002864 ATAACACGTG
1002874 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1002894 ATCGCAACGCGATAATAC-G-CG
1 ATCGCAACGCGAT--T-CTGACT
1002915 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1002935 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1002955 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1002975 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
1002995 AACGCA
1 ATCGCA
1003001 TCACTGAATT
Statistics
Matches: 97, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 77 0.79
21 14 0.14
22 2 0.02
23 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1003851 original size:24 final size:24
Alignment explanation
Indices: 1003819--1003872 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1003809 GTATTCGAAA
*
1003819 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1003843 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1003867 TTTGAT
1 TTTGAT
1003873 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1004078 original size:12 final size:13
Alignment explanation
Indices: 1004063--1004095 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1004053 GAAGAAGAGA
1004063 GAAGAAA-TCCCC
1 GAAGAAATTCCCC
1004075 GAAGAAAATTCCCC
1 GAAG-AAATTCCCC
1004089 GAAGAAA
1 GAAGAAA
1004096 ATGCCACGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.09
Consensus pattern (13 bp):
GAAGAAATTCCCC
Found at i:1004089 original size:14 final size:14
Alignment explanation
Indices: 1004070--1004097 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1004060 AGAGAAGAAA
1004070 TCCCCGAAGAAAAT
1 TCCCCGAAGAAAAT
1004084 TCCCCGAAGAAAAT
1 TCCCCGAAGAAAAT
1004098 GCCACGGGAG
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:0.43, C:0.29, G:0.14, T:0.14
Consensus pattern (14 bp):
TCCCCGAAGAAAAT
Found at i:1006164 original size:18 final size:18
Alignment explanation
Indices: 1006129--1006171 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
1006119 CAAGCAAAAG
**
1006129 GCAATCAAAATCGCAATC
1 GCAATCAAAATCAAAATC
1006147 GCAATCAAAATCAAAATC
1 GCAATCAAAATCAAAATC
*
1006165 CCAATCA
1 GCAATCA
1006172 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.28, G:0.07, T:0.16
Consensus pattern (18 bp):
GCAATCAAAATCAAAATC
Found at i:1006377 original size:20 final size:20
Alignment explanation
Indices: 1006349--1006643 Score: 225
Period size: 20 Copynumber: 15.7 Consensus size: 20
1006339 CACATTCATT
*
1006349 TGACCATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
1006369 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
1006389 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
1006409 TGACTATCGCAATC-TGAATT
1 TGACTATCGCAA-CGCGAATA
* *
1006429 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1006446 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
1006463 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
1006480 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
1006497 TGACTATTGCAACGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
1006517 TGACCATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
1006537 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
1006557 TGACTATCGCAA--TG-AGA
1 TGACTATCGCAACGCGAATA
1006574 T-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAATA
* *
1006590 TGACTATCGCAACACGAATT
1 TGACTATCGCAACGCGAATA
* * * *
1006610 TGATTATCGCAATGGGAATT
1 TGACTATCGCAACGCGAATA
1006630 TGACTATCGCAACG
1 TGACTATCGCAACG
1006644 AGAAAATCGC
Statistics
Matches: 221, Mismatches: 33, Indels: 42
0.75 0.11 0.14
Matches are distributed among these distances:
14 23 0.10
15 2 0.01
16 6 0.03
17 11 0.05
18 3 0.01
19 15 0.07
20 160 0.72
21 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:1006471 original size:34 final size:34
Alignment explanation
Indices: 1006433--1006510 Score: 147
Period size: 34 Copynumber: 2.3 Consensus size: 34
1006423 TGAATTTGAA
1006433 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
1 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
1006467 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
1 TATCGCAACGGGATAATCGCAATGCGAAAATGAC
*
1006501 TATTGCAACG
1 TATCGCAACG
1006511 CGAAAATGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (34 bp):
TATCGCAACGGGATAATCGCAATGCGAAAATGAC
Found at i:1006582 original size:128 final size:127
Alignment explanation
Indices: 1006354--1006602 Score: 365
Period size: 128 Copynumber: 2.0 Consensus size: 127
1006344 TCATTTGACC
* * * *
1006354 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACCATCGCAACGCGAATATAACTATCGC
* * *
1006419 AATCTGAATTTGAATATCGCAACGGGATAATCGCAATGCGAAAATGACTATCGCAACGGGATA
66 AATCCGAATTTGAATATCGCAACGAGATAATCGCAACGCG-AAATGACTATCGCAACGGGATA
* * *
1006482 ATCGCAATGCGAAAATGACTATTGCAACGCGAAAATGACCATCGCAACGCGAATTTAACTATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACCATCGCAACGCGAATATAACTATCGC
* *
1006547 AA-CGCGAATTTGACTATCGCAATGAGATAATCGCAACGCGAAATGACTATCGCAAC
66 AATC-CGAATTTGAATATCGCAACGAGATAATCGCAACGCGAAATGACTATCGCAAC
1006603 ACGAATTTGA
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
127 17 0.16
128 91 0.84
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (127 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACCATCGCAACGCGAATATAACTATCGC
AATCCGAATTTGAATATCGCAACGAGATAATCGCAACGCGAAATGACTATCGCAACGGGATA
Found at i:1006585 original size:34 final size:34
Alignment explanation
Indices: 1006542--1006677 Score: 121
Period size: 34 Copynumber: 3.9 Consensus size: 34
1006532 GAATTTAACT
*
1006542 ATCGCAACGCGAATTTGACTATCGCAATGAGATA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
* *
1006576 ATCGCAACGCGAA-ATGACTATCGCAACACGAATTTGATT
1 ATCGCAACGCGAATTTGACTATCGC-A-ACG-A---GATA
* * *
1006615 ATCGCAATGGGAATTTGACTATCGCAACGAGAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
* * * *
1006649 ATCGCAAAGTGTATTAGACTATCGCAACG
1 ATCGCAACGCGAATTTGACTATCGCAACG
1006678 CGAATATGAT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
33 10 0.12
34 41 0.49
35 2 0.02
36 1 0.01
37 1 0.01
38 3 0.04
39 15 0.18
40 10 0.12
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (34 bp):
ATCGCAACGCGAATTTGACTATCGCAACGAGATA
Found at i:1006608 original size:53 final size:54
Alignment explanation
Indices: 1006522--1006623 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 54
1006512 GAAAATGACC
* *
1006522 ATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAATGAGATA
1 ATCGCAACGCGAATATAACTATCGCAACACGAATTTGACTATCGCAATGAGATA
* *
1006576 ATCGCAACGCGAA-ATGACTATCGCAACACGAATTTGATTATCGCAATG
1 ATCGCAACGCGAATATAACTATCGCAACACGAATTTGACTATCGCAATG
1006624 GGAATTTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 31 0.70
54 13 0.30
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (54 bp):
ATCGCAACGCGAATATAACTATCGCAACACGAATTTGACTATCGCAATGAGATA
Found at i:1006618 original size:73 final size:73
Alignment explanation
Indices: 1006354--1006687 Score: 234
Period size: 74 Copynumber: 4.5 Consensus size: 73
1006344 TCATTTGACC
* * *
1006354 ATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATGACTATCGC
1 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGATTATCGCAACGCGAATTTGACTATCGC
*
1006419 AATCTGAATTTGAAT
65 AA-C-G-A---GAAA
* * ** * * * * *
1006434 ATCGCAACG-G-GAT-A--ATCGCAATGCGAAAATGACTATCGCAACGGGATAATCG-CAAT-GC
1 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGCGA-ATTTGACTATCGC
* **
1006492 GAA-AATGACT
65 -AACGA-GAAA
* * * *
1006502 ATTGCAACGCGAAAATGACCATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGC
1 ATCGCAACGCG-AAATGACTATCGCAACGCGAATTTGATTATCGCAACGCGAATTTGACTATCGC
* *
1006567 AATGAGATA
65 AACGAGAAA
* * *
1006576 ATCGCAACGCGAAATGACTATCGCAACACGAATTTGATTATCGCAATGGGAATTTGACTATCGCA
1 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGCGAATTTGACTATCGCA
1006641 ACGAGAAA
66 ACGAGAAA
* * * * *
1006649 ATCGCAAAGTGTATTAGACTATCGCAACGCGAATATGAT
1 ATCGCAACGCGAAAT-GACTATCGCAACGCGAATTTGAT
1006688 GCAGATTGAA
Statistics
Matches: 204, Mismatches: 38, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
68 12 0.06
69 1 0.00
70 1 0.00
71 2 0.01
72 1 0.00
73 70 0.34
74 99 0.49
75 5 0.02
76 1 0.00
77 2 0.01
79 1 0.00
80 9 0.04
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (73 bp):
ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGATTATCGCAACGCGAATTTGACTATCGCA
ACGAGAAA
Found at i:1006818 original size:36 final size:34
Alignment explanation
Indices: 1006778--1006857 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 34
1006768 TCAACTTTTA
* *
1006778 ATCAATTAAACAAGCACAAATAATAATTATTTACAT
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
1006814 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
1006844 ATCAATTAAACAAA
1 ATCAATTAAACAAA
1006858 TCAACTCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 26 0.68
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.29
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:1006828 original size:30 final size:30
Alignment explanation
Indices: 1006793--1006858 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
1006783 TTAAACAAGC
* *
1006793 ACAAATAATAATTATTTACATATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
1006823 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
1006853 ACAAAT
1 ACAAAT
1006859 CAACTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.32
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:1008260 original size:21 final size:21
Alignment explanation
Indices: 1008236--1008316 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
1008226 GAATGTTGGG
*
1008236 AGGGACCTCTTCAACGATGAC
1 AGGGACCTCTTGAACGATGAC
* * **
1008257 AGGGGCCTCTTGAACGGTGGG
1 AGGGACCTCTTGAACGATGAC
* *
1008278 AGGGGA-CTCTTGAAAGATGAT
1 A-GGGACCTCTTGAACGATGAC
*
1008299 AGGGGCCTCTTGAACGAT
1 AGGGACCTCTTGAACGAT
1008317 AGGAGAGGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.21
Consensus pattern (21 bp):
AGGGACCTCTTGAACGATGAC
Found at i:1008331 original size:42 final size:42
Alignment explanation
Indices: 1008234--1008343 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
1008224 TAGAATGTTG
* * * * *
1008234 GGAGGG-ACCTCTTCAACGATGACAGGGGCCTCTTGAACGGTG
1 GGAGGGCA-CTCTTGAAAGATGATAGGGGCCTCTTGAACGATA
*
1008276 GGAGGGGACTCTTGAAAGATGATAGGGGCCTCTTGAACGATA
1 GGAGGGCACTCTTGAAAGATGATAGGGGCCTCTTGAACGATA
*
1008318 GGAGAGGCA-TCTTGAACGATGATAGG
1 GGAG-GGCACTCTTGAAAGATGATAGG
1008344 TGAGTCGGGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 55 0.93
43 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.20
Consensus pattern (42 bp):
GGAGGGCACTCTTGAAAGATGATAGGGGCCTCTTGAACGATA
Found at i:1008881 original size:20 final size:20
Alignment explanation
Indices: 1008853--1008955 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 20
1008843 AGAATAGTCA
* *
1008853 CAACACGAAAATGATTATCG
1 CAACGCGAAAATGACTATCG
**
1008873 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
* *
1008893 CAACGC-AAATTTGACTATCA
1 CAACGCGAAA-ATGACTATCG
*
1008913 CAA--C-AAGAT-A--ATCG
1 CAACGCGAAAATGACTATCG
*
1008927 CAATGCG-AAATGACTATCG
1 CAACGCGAAAATGACTATCG
1008946 CAACGCGAAA
1 CAACGCGAAA
1008956 CCAAAATCGC
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
14 6 0.09
16 5 0.08
17 2 0.03
18 3 0.05
19 12 0.19
20 36 0.56
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:1009009 original size:20 final size:19
Alignment explanation
Indices: 1008980--1009159 Score: 119
Period size: 20 Copynumber: 9.6 Consensus size: 19
1008970 CGAAACTAAA
1008980 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCA-T
*
1009000 TTCGCATTGCGAT--T-A-
1 TTCGCGTTGCGATAGTCAT
* *
1009015 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTC-AT
1009034 TTCGCGTTGCGATAGTCAT
1 TTCGCGTTGCGATAGTCAT
1009053 TTCTGCGTTGCGATAGTCATT
1 TTC-GCGTTGCGATAGTCA-T
* *
1009074 TTCGCATTGTGAT--T-A-
1 TTCGCGTTGCGATAGTCAT
* * *
1009089 -TCCCGTTGCAATAGTCAAA
1 TTCGCGTTGCGATAGTC-AT
* *
1009108 TTCGCGTTGTGATAGTCAAA
1 TTCGCGTTGCGATAGTC-AT
*
1009128 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCA-T
*
1009148 TTCGTGTTGCGA
1 TTCGCGTTGCGA
1009160 CTATTCTTCT
Statistics
Matches: 127, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
14 18 0.14
16 2 0.02
17 2 0.02
18 4 0.03
19 5 0.04
20 92 0.72
21 4 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (19 bp):
TTCGCGTTGCGATAGTCAT
Found at i:1009027 original size:34 final size:34
Alignment explanation
Indices: 1008984--1009105 Score: 136
Period size: 34 Copynumber: 3.4 Consensus size: 34
1008974 ACTAAATTCG
1008984 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
** * *
1009018 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTTCGCATTGCGAT--T-A--TC-C
*
1009058 CGTTGCGATAGTCATTTTCGCATTGTGATTATCC
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
*
1009092 CGTTGCAATAGTCA
1 CGTTGCGATAGTCA
1009106 AATTCGCGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
34 39 0.54
35 2 0.03
36 1 0.01
37 2 0.03
38 1 0.01
39 2 0.03
40 25 0.35
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (34 bp):
CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
Found at i:1009072 original size:74 final size:74
Alignment explanation
Indices: 1008977--1009151 Score: 289
Period size: 74 Copynumber: 2.4 Consensus size: 74
1008967 AAGCGAAACT
*
1008977 AAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTT
1 AAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCAATAGTCAAATTCGCGTT
1009042 GCGATAGTC
66 GCGATAGTC
* *
1009051 -ATTTCTGCGTTGCGATAGTCATTTTCGCATTGTGATTATCCCGTTGCAATAGTCAAATTCGCGT
1 AAATTC-GCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCAATAGTCAAATTCGCGT
*
1009115 TGTGATAGTC
65 TGCGATAGTC
*
1009125 AAATTCGCGTTGCGATAATCATTTTCG
1 AAATTCGCGTTGCGATAGTCATTTTCG
1009152 TGTTGCGACT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
73 4 0.04
74 85 0.91
75 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (74 bp):
AAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCAATAGTCAAATTCGCGTT
GCGATAGTC
Found at i:1011162 original size:20 final size:20
Alignment explanation
Indices: 1011139--1011194 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1011129 TTTGAAACTT
1011139 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
1011159 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
1011179 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
1011195 TTTGACTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1011204 original size:20 final size:19
Alignment explanation
Indices: 1011142--1011247 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 19
1011132 GAAACTTAAA
* **
1011142 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCG-AAATGACT
* *
1011162 ATCGCAACACGAAAATGATT
1 ATCGCAACGCG-AAATGACT
*
1011182 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAA-ATGACT
*
1011202 ATCGCAA--CGAGAT-A--
1 ATCGCAACGCGAAATGACT
*
1011216 ATCGCAACGCGAAATGGCT
1 ATCGCAACGCGAAATGACT
1011235 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1011248 TTTTGTCGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 7 0.10
16 6 0.08
17 1 0.01
18 3 0.04
19 15 0.21
20 39 0.55
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:1011616 original size:22 final size:22
Alignment explanation
Indices: 1011589--1011667 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
1011579 GATGGAGATA
1011589 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1011611 GACGGATTTCGCCGGAAATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
1011633 GACGGATTTTGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1011655 GACGGATGTCGCC
1 GACGGATTTCGCC
1011668 ATAGAGAGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.19, C:0.18, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1011856 original size:20 final size:20
Alignment explanation
Indices: 1011831--1011956 Score: 164
Period size: 20 Copynumber: 6.2 Consensus size: 20
1011821 TTATCGCAAC
*
1011831 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
*
1011851 GCGATAGTCAGAATCGAGTT
1 GCGATAGTCAGAATCGCGTT
** *
1011871 GCGATCACGT-ATTATCGTGTT
1 GCGAT-A-GTCAGAATCGCGTT
*
1011892 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
*
1011912 GCGATAGTTAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
1011932 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
1011952 GCGAT
1 GCGAT
1011957 CACGTGTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 73 0.80
21 14 0.15
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:1011884 original size:61 final size:61
Alignment explanation
Indices: 1011819--1011936 Score: 182
Period size: 61 Copynumber: 1.9 Consensus size: 61
1011809 TGCGATTTTA
1011819 TATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGAGTTGCGATCACG
1 TATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGAGTTGCGATCACG
**** * *
1011880 TATTATCGTGTTGCGATAGTCAGAATCTCGTTGCGATAGTTAGAATCGCGTTGCGAT
1 TATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGAGTTGCGAT
1011937 AGTCAGAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (61 bp):
TATTATCGCAACGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGAGTTGCGATCACG
Found at i:1011893 original size:41 final size:41
Alignment explanation
Indices: 1011847--1011977 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
1011837 GTCAGAATCT
*
1011847 CGTTGCGATAGTCAGAATCGAGTTGCGATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
* * **
1011888 TGTTGCGATAGTCAGAATCTCGTTGCGAT-A-GTTAGAATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACG-TATTATCG
*
1011928 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
1011969 CGTTGCGAT
1 CGTTGCGAT
1011978 TTACATATTC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 34 0.44
41 41 0.53
42 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCG
Found at i:1012936 original size:15 final size:16
Alignment explanation
Indices: 1012906--1012937 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1012896 GATTCGAAAA
1012906 AAATATTTGAAATTTT
1 AAATATTTGAAATTTT
1012922 AAATATTTG-AATTTT
1 AAATATTTGAAATTTT
1012937 A
1 A
1012938 GATCGGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
AAATATTTGAAATTTT
Found at i:1013026 original size:22 final size:20
Alignment explanation
Indices: 1013001--1013049 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1012991 ATTAATATTT
*
1013001 TATATTTTATAACTTTATACAA
1 TATATTTTAT-AC-CTATACAA
*
1013023 TATATTTTATACCTCTACAA
1 TATATTTTATACCTATACAA
1013043 TATATTT
1 TATATTT
1013050 ATCAAAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.52
21 2 0.08
22 10 0.40
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATTTTATACCTATACAA
Found at i:1017519 original size:31 final size:30
Alignment explanation
Indices: 1017484--1017558 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
1017474 TAAGGCGACC
* * *
1017484 CTTGGGTAAGCTCTGCGGCCCTGAGATTTTT
1 CTTGGGTAGGCTCCGCGGCCC-GAGAATTTT
*
1017515 CTTGGGTAGGCCTCCGTGGCCCGAGAATTTT
1 CTTGGGTAGG-CTCCGCGGCCCGAGAATTTT
1017546 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
1017559 ACATGCCCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 3 0.08
31 27 0.69
32 9 0.23
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (30 bp):
CTTGGGTAGGCTCCGCGGCCCGAGAATTTT
Found at i:1025690 original size:24 final size:24
Alignment explanation
Indices: 1025663--1025764 Score: 98
Period size: 24 Copynumber: 4.2 Consensus size: 24
1025653 CATGAATATT
*
1025663 TTATCTGATTTATGTTCTGATTTC
1 TTATCTGAATTATGTTCTGATTTC
* *
1025687 TTATCTGAATTATGTTATAATTT-
1 TTATCTGAATTATGTTCTGATTTC
** * *
1025710 TTGATCTGGTTTCTGTTCTGATATC
1 TT-ATCTGAATTATGTTCTGATTTC
* *
1025735 TTATCTTAATTCTGTTCTGATTTC
1 TTATCTGAATTATGTTCTGATTTC
*
1025759 TGATCT
1 TTATCT
1025765 TTGTTTACTG
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
23 2 0.03
24 58 0.94
25 2 0.03
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.56
Consensus pattern (24 bp):
TTATCTGAATTATGTTCTGATTTC
Found at i:1025729 original size:48 final size:48
Alignment explanation
Indices: 1025661--1025764 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
1025651 CACATGAATA
*
1025661 TTTT-ATCTGATTTATGTTCTGATTTCTTATCTGAATTATGTTATAAT
1 TTTTGATCTGATTTATGTTCTGATATCTTATCTGAATTATGTTATAAT
* * * * * *
1025708 TTTTGATCTGGTTTCTGTTCTGATATCTTATCTTAATTCTGTTCTGAT
1 TTTTGATCTGATTTATGTTCTGATATCTTATCTGAATTATGTTATAAT
*
1025756 TTCTGATCT
1 TTTTGATCT
1025765 TTGTTTACTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 4 0.08
48 44 0.92
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.57
Consensus pattern (48 bp):
TTTTGATCTGATTTATGTTCTGATATCTTATCTGAATTATGTTATAAT
Found at i:1029783 original size:12 final size:12
Alignment explanation
Indices: 1029766--1029832 Score: 71
Period size: 12 Copynumber: 5.6 Consensus size: 12
1029756 GTTTAATCTT
1029766 ATTTCTGTTCTG
1 ATTTCTGTTCTG
*
1029778 ATTTCTGATCTG
1 ATTTCTGTTCTG
* * *
1029790 AATTATGTTCTA
1 ATTTCTGTTCTG
*
1029802 ATTTCTGATCTG
1 ATTTCTGTTCTG
*
1029814 GTTTCTGTTCTG
1 ATTTCTGTTCTG
*
1029826 ATATCTG
1 ATTTCTG
1029833 ATCTAAATTC
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.16, C:0.15, G:0.16, T:0.52
Consensus pattern (12 bp):
ATTTCTGTTCTG
Found at i:1029838 original size:36 final size:36
Alignment explanation
Indices: 1029761--1029843 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1029751 TGAATGTTTA
* *
1029761 ATCTTATTTCTGTTCTGATTTCTGATCTGAATTATG
1 ATCTAATTTCTGATCTGATTTCTGATCTGAATTATG
* * * *
1029797 TTCTAATTTCTGATCTGGTTTCTGTTCTG-ATATCTG
1 ATCTAATTTCTGATCTGATTTCTGATCTGAAT-TATG
*
1029833 ATCTAAATTCT
1 ATCTAATTTCT
1029844 ATTTTGATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (36 bp):
ATCTAATTTCTGATCTGATTTCTGATCTGAATTATG
Found at i:1029843 original size:24 final size:24
Alignment explanation
Indices: 1029768--1029858 Score: 101
Period size: 24 Copynumber: 3.8 Consensus size: 24
1029758 TTAATCTTAT
1029768 TTCTGTTCTGATTTCTGATCTGAA
1 TTCTGTTCTGATTTCTGATCTGAA
* * **
1029792 TTATGTTCTAATTTCTGATCTGGT
1 TTCTGTTCTGATTTCTGATCTGAA
* *
1029816 TTCTGTTCTGATATCTGATCTAAA
1 TTCTGTTCTGATTTCTGATCTGAA
* * *
1029840 TTCTATTTTGATTTTTGAT
1 TTCTGTTCTGATTTCTGAT
1029859 ATTTATTTAC
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.19, C:0.13, G:0.14, T:0.54
Consensus pattern (24 bp):
TTCTGTTCTGATTTCTGATCTGAA
Found at i:1030052 original size:32 final size:31
Alignment explanation
Indices: 1029999--1030073 Score: 123
Period size: 32 Copynumber: 2.4 Consensus size: 31
1029989 AAGGCGACCT
* *
1029999 TTGGGTAGGCTCTGTGGCCCTGAGATTTTTC
1 TTGGGTAGGCTCCGTGGCCCTGAGAATTTTC
1030030 TTGGGTAGGTCTCCGTGGCCCTGAGAATTTTC
1 TTGGGTAGG-CTCCGTGGCCCTGAGAATTTTC
1030062 TTGGGTAGGCTC
1 TTGGGTAGGCTC
1030074 GCAGTCCCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 12 0.29
32 29 0.71
ACGTcount: A:0.11, C:0.20, G:0.33, T:0.36
Consensus pattern (31 bp):
TTGGGTAGGCTCCGTGGCCCTGAGAATTTTC
Found at i:1034187 original size:31 final size:32
Alignment explanation
Indices: 1034151--1034222 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
1034141 GTGACCCTTG
*
1034151 GGTAGGCTCTAC-GGCCCTGAGATTTTTCTTA
1 GGTAGGCTCTACGGGCCCTGAGAATTTTCTTA
* *
1034182 GGTAGGC-CTCCGTGGCCCTGAGAATTTTCTTG
1 GGTAGGCTCTACG-GGCCCTGAGAATTTTCTTA
1034214 GGTAGGCTC
1 GGTAGGCTC
1034223 ACATGCTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.09
31 7 0.20
32 24 0.69
33 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.32
Consensus pattern (32 bp):
GGTAGGCTCTACGGGCCCTGAGAATTTTCTTA
Found at i:1035500 original size:2 final size:2
Alignment explanation
Indices: 1035495--1035769 Score: 60
Period size: 2 Copynumber: 137.0 Consensus size: 2
1035485 GAAACAACTA
*
1035495 AT AT AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * * *
1035536 GT AT AA ACT AT AT AT ACC AT GT AT AA ACT AT A- AT ACT AT AT AGT
1 AT AT AT A-T AT AT AT A-T AT AT AT AT A-T AT AT AT A-T AT AT A-T
* * * * * *
1035580 TT AT AT AT AA ACT AT -T AA ACT AT AT AT AA ACT AC AT AGT TT AT
1 AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT
* * * *
1035623 -T A- AT AT AA AT -T AT AT AGT TT AT AT AT AA AT -T AT AT AT AA
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* * * *
1035662 ACT AT ACT AT TT AT AT TT AT AT AT -T AT GT AT A- AT -T AT AA AT
1 A-T AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
1035703 A- AT AT AT AT -T GT AT AA AT -T AT AT AGT TT AT -T A- AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
1035741 ACT AT AT AGT TT AT AT AT AT AGT AT AT AT
1 A-T AT AT A-T AT AT AT AT AT A-T AT AT AT
1035770 GATTTAGGGT
Statistics
Matches: 191, Mismatches: 49, Indels: 66
0.62 0.16 0.22
Matches are distributed among these distances:
1 16 0.08
2 155 0.81
3 20 0.10
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1035527 original size:20 final size:20
Alignment explanation
Indices: 1035493--1035660 Score: 85
Period size: 20 Copynumber: 7.9 Consensus size: 20
1035483 TTGAAACAAC
*
1035493 TAATATATA-TATATATATA
1 TAATATAAACTATATATATA
1035512 TAATATAAACTATATATATA
1 TAATATAAACTATATATATA
*
1035532 TTATGTATAAACTATATATACCATGTA
1 -TA-ATATAAACTATATAT---A--TA
*
1035559 TAAACTATAATACTATATAGTTTA
1 T-AA-TATAA-ACTATATA-TATA
*
1035583 T-ATATAAACTAT-TAAACTA
1 TAATATAAACTATATATA-TA
* *
1035602 T-ATATAAACTACATAGTTTA
1 TAATATAAACTATATA-TATA
* *
1035622 TTAATATAAATTATATAGTTTA
1 -TAATATAAACTATATA-TATA
*
1035644 T-ATATAAATTATATATA
1 TAATATAAACTATATATA
1035661 AACTATACTA
Statistics
Matches: 120, Mismatches: 12, Indels: 34
0.72 0.07 0.20
Matches are distributed among these distances:
19 24 0.20
20 33 0.28
21 9 0.08
22 32 0.27
24 3 0.03
25 1 0.01
26 1 0.01
27 8 0.07
28 8 0.07
29 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (20 bp):
TAATATAAACTATATATATA
Found at i:1035528 original size:11 final size:11
Alignment explanation
Indices: 1035500--1035667 Score: 69
Period size: 11 Copynumber: 16.4 Consensus size: 11
1035490 AACTAATATA
*
1035500 TATATATATA-
1 TATATATAAAC
1035510 TATAATATAAAC
1 TAT-ATATAAAC
* *
1035522 TATATATATAT
1 TATATATAAAC
*
1035533 TATGTATAAAC
1 TATATATAAAC
1035544 TATATAT--AC
1 TATATATAAAC
* *
1035553 CATGTATAAAC
1 TATATATAAAC
1035564 TATA-AT--AC
1 TATATATAAAC
*
1035572 TATATAGT---T
1 TATATA-TAAAC
1035581 TATATATAAAC
1 TATATATAAAC
1035592 --TAT-TAAAC
1 TATATATAAAC
1035600 TATATATAAAC
1 TATATATAAAC
* ** *
1035611 TACATAGTTTAT
1 TATATA-TAAAC
1035623 TA-ATATAAA-
1 TATATATAAAC
***
1035632 T-TATATAGTT
1 TATATATAAAC
*
1035642 TATATATAAAT
1 TATATATAAAC
1035653 TATATATAAAC
1 TATATATAAAC
1035664 TATA
1 TATA
1035668 CTATTTATAT
Statistics
Matches: 118, Mismatches: 24, Indels: 31
0.68 0.14 0.18
Matches are distributed among these distances:
8 12 0.10
9 23 0.19
10 12 0.10
11 64 0.54
12 7 0.06
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (11 bp):
TATATATAAAC
Found at i:1035528 original size:22 final size:22
Alignment explanation
Indices: 1035500--1035660 Score: 83
Period size: 22 Copynumber: 7.4 Consensus size: 22
1035490 AACTAATATA
1035500 TATATATATATATAATATAAAC
1 TATATATATATATAATATAAAC
*
1035522 TATATATATAT-TATGTATAAAC
1 TATATATATATATA-ATATAAAC
** *
1035544 TATATATA-CCAT-GTATAAAC
1 TATATATATATATAATATAAAC
1035564 TATAATACTATATAGTTTATATATAAAC
1 TAT-ATA-TATATA---TA-ATATAAAC
1035592 TAT-TA-A-ACTAT-ATATAAAC
1 TATATATATA-TATAATATAAAC
* *
1035611 TACATAGTTTAT-TAATATAAA-
1 TATATA-TATATATAATATAAAC
* *
1035632 T-TATATAGTTTAT-ATATAAAT
1 TATATATA-TATATAATATAAAC
1035653 TATATATA
1 TATATATA
1035661 AACTATACTA
Statistics
Matches: 108, Mismatches: 11, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
19 11 0.10
20 25 0.23
21 10 0.09
22 43 0.40
23 3 0.03
24 3 0.03
26 3 0.03
28 10 0.09
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (22 bp):
TATATATATATATAATATAAAC
Found at i:1035577 original size:28 final size:27
Alignment explanation
Indices: 1035537--1035607 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
1035527 ATATATTATG
*
1035537 TATAAACTATATATACCATGTATAAAC
1 TATAAACTATATATACCATATATAAAC
**
1035564 TATAATACTATATAGT-TTATATATAAAC
1 TATAA-ACTATATA-TACCATATATAAAC
1035592 TATTAAACTATATATA
1 TA-TAAACTATATATA
1035608 AACTACATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 6 0.16
28 27 0.73
29 4 0.11
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (27 bp):
TATAAACTATATATACCATATATAAAC
Found at i:1035660 original size:31 final size:32
Alignment explanation
Indices: 1035621--1035726 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 32
1035611 TACATAGTTT
1035621 ATTA-ATATAAATTATA-TAGTTTATA-TATAA
1 ATTATATATAAATTATACTA-TTTATATTATAA
* *
1035651 ATTATATATAAACTATACTATTTATATTTATAT
1 ATTATATATAAATTATACTATTTATA-TTATAA
* * *
1035684 ATTATGTAT-AATTATAAATAATATATATTGTATAA
1 ATTATATATAAATTAT-ACT-ATTTATA-T-TATAA
1035719 ATTATATA
1 ATTATATA
1035727 GTTTATTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
30 4 0.07
31 17 0.28
32 7 0.11
33 14 0.23
34 8 0.13
35 11 0.18
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATTATATATAAATTATACTATTTATATTATAA
Found at i:1035693 original size:17 final size:17
Alignment explanation
Indices: 1035673--1035726 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1035663 CTATACTATT
* *
1035673 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
1035690 TATAATTATAAATAATA
1 TATATTTATAAATTATA
1035707 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
1035725 TA
1 TA
1035727 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:1035706 original size:79 final size:81
Alignment explanation
Indices: 1035623--1035770 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 81
1035613 CATAGTTTAT
** *
1035623 TAATATAAATTATATAGTTTATATA-TAAATTATATATAAACTATACTA-TTTATATTTATA-TA
1 TAATATAAATTATATAAATTATATAGTAAATTA-ATATAAACTATA-TAGTTTATATATATAGTA
1035685 T-TATGTATAATTATAAA
64 TATATGTATAATTATAAA
* * **
1035702 TAATATATATTGTATAAATTATATAGTTTATTAATATAAACTATATAGTTTATATATATAGTATA
1 TAATATAAATTATATAAATTATATAGTAAATTAATATAAACTATATAGTTTATATATATAGTATA
1035767 TATG
66 TATG
1035771 ATTTAGGGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 44 0.76
80 8 0.14
81 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (81 bp):
TAATATAAATTATATAAATTATATAGTAAATTAATATAAACTATATAGTTTATATATATAGTATA
TATGTATAATTATAAA
Found at i:1035760 original size:22 final size:22
Alignment explanation
Indices: 1035564--1035761 Score: 75
Period size: 22 Copynumber: 9.2 Consensus size: 22
1035554 ATGTATAAAC
1035564 TATAATACTATATAG-TT-TATA
1 TATAA-ACTATATAGTTTATATA
*
1035585 TATAAACTAT-TA---AACTATA
1 TATAAACTATATAGTTTA-TATA
*
1035604 TATAAACTACATAGTTTAT-TAA
1 TATAAACTATATAGTTTATAT-A
*
1035626 TATAAATTATATAGTTTATATA
1 TATAAACTATATAGTTTATATA
***
1035648 TA-AATTA-TATATAAACTATACTA
1 TATAA--ACTATATAGTTTATA-TA
* ** *
1035671 TTTATATTTATATA-TTATGTATAA
1 TATA-AACTATATAGTT-TATAT-A
* *
1035695 TTATAAA-TA-ATA-TATAT-TG
1 -TATAAACTATATAGTTTATATA
*
1035714 TATAAATTATATAGTTTAT-TAA
1 TATAAACTATATAGTTTATAT-A
1035736 TATAAACTATATAGTTTATATA
1 TATAAACTATATAGTTTATATA
1035758 TATA
1 TATA
1035762 GTATATATGA
Statistics
Matches: 134, Mismatches: 21, Indels: 43
0.68 0.11 0.22
Matches are distributed among these distances:
18 6 0.04
19 17 0.13
20 11 0.08
21 15 0.11
22 59 0.44
23 10 0.07
24 12 0.09
25 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (22 bp):
TATAAACTATATAGTTTATATA
Found at i:1035943 original size:13 final size:13
Alignment explanation
Indices: 1035814--1035954 Score: 60
Period size: 13 Copynumber: 10.3 Consensus size: 13
1035804 TTTATGGAAT
1035814 TATATATAAACTA
1 TATATATAAACTA
*
1035827 TATAATTTATAGA-TAA
1 TAT-A--TATAAACT-A
*
1035843 TAGTATTTAAACTA
1 TA-TATATAAACTA
1035857 TATATACT-AACTTA
1 TATATA-TAAAC-TA
1035871 TACTATATGTAAACTA
1 TA-TATA--TAAACTA
* *
1035887 TATATACTATATAGTT
1 TATATA-TA-A-ACTA
*
1035903 TACATATAAACTA
1 TATATATAAACTA
*
1035916 TATGTATAAAC--
1 TATATATAAACTA
*
1035927 --TATATAAATTA
1 TATATATAAACTA
1035938 TATATATAAACTA
1 TATATATAAACTA
1035951 TATA
1 TATA
1035955 GTTTACATAT
Statistics
Matches: 95, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
9 7 0.07
13 34 0.36
14 16 0.17
15 13 0.14
16 21 0.22
17 4 0.04
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.41
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:1035951 original size:55 final size:58
Alignment explanation
Indices: 1035885--1036150 Score: 187
Period size: 60 Copynumber: 4.6 Consensus size: 58
1035875 ATATGTAAAC
* * *
1035885 TATATATACTATATAGTTTACATATAAACTATATGTATAAACTATATAAA-T-TA-TA
1 TATATAAACTATATAGTTTACATATAAACTATATATAAAAACTATATAAACTATATTA
* *
1035940 TATATAAACTATATAGTTTACATATGAACTATATATAAAAATTATATAAACTATAGTTTA
1 TATATAAACTATATAGTTTACATATAAACTATATATAAAAACTATATAAACTATA--TTA
* * * * * * *
1036000 TATATAAACTATATA-TTATA-GTTTATA-TTTATATATAAATTATATAAATTATATAGTTGA
1 TATATAAACTATATAGTT-TACATATAAACTATATATAAAAACTATATAAA--CTATA-TT-A
* * *
1036060 TATATGAAC--TATAGTTCACATATGAACTATATATAAACAA-TAGT-TAAACTATATAGTTTA
1 TATATAAACTATATAGTTTACATATAAACTATATATAAA-AACTA-TATAAAC--TATA--TTA
*
1036120 TATATGAAC--TATAGTTTACATATAAACTATA
1 TATATAAACTATATAGTTTACATATAAACTATA
1036151 GTTGATATTT
Statistics
Matches: 169, Mismatches: 25, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
55 45 0.27
56 1 0.01
57 2 0.01
58 24 0.14
59 12 0.07
60 80 0.47
61 5 0.03
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (58 bp):
TATATAAACTATATAGTTTACATATAAACTATATATAAAAACTATATAAACTATATTA
Found at i:1036003 original size:18 final size:18
Alignment explanation
Indices: 1035982--1036158 Score: 65
Period size: 18 Copynumber: 10.2 Consensus size: 18
1035972 ATATAAAAAT
1035982 TATATAAACTATAGTTTA
1 TATATAAACTATAGTTTA
1036000 TATATAAACTATA---TA
1 TATATAAACTATAGTTTA
***
1036015 T-TATAGTTTATA-TTTA
1 TATATAAACTATAGTTTA
1036031 TATATAAA-T-TA---TA
1 TATATAAACTATAGTTTA
* * *
1036044 TAAAT-TA-TATAGTTGA
1 TATATAAACTATAGTTTA
* *
1036060 TATATGAACTATAGTTCA
1 TATATAAACTATAGTTTA
* * *
1036078 CATATGAACTATA-TATAAA
1 TATATAAACTATAGT-T-TA
*
1036097 CAATAGTTAAACTATATAGTTTA
1 -TATA-T-AAACTAT--AGTTTA
*
1036120 TATATGAACTATAGTTTA
1 TATATAAACTATAGTTTA
* *
1036138 CATATAAACTATAGTTGA
1 TATATAAACTATAGTTTA
1036156 TAT
1 TAT
1036159 TTACATATGA
Statistics
Matches: 120, Mismatches: 22, Indels: 34
0.68 0.12 0.19
Matches are distributed among these distances:
12 2 0.02
13 8 0.07
14 8 0.07
15 5 0.04
16 9 0.08
17 6 0.05
18 57 0.47
19 1 0.01
20 9 0.08
21 2 0.02
22 9 0.08
23 1 0.01
24 2 0.02
25 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.42
Consensus pattern (18 bp):
TATATAAACTATAGTTTA
Found at i:1036150 original size:29 final size:29
Alignment explanation
Indices: 1036059--1036150 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
1036049 TATATAGTTG
* *
1036059 ATATATGAACTATAGTTCACATATGAACT
1 ATATATGAACTATAGTTAACATATAAACT
* * ***
1036088 ATATATAAACAATAGTTAAACTATATAGTTT
1 ATATATGAACTATAGTT-AAC-ATATAAACT
*
1036119 ATATATGAACTATAGTTTACATATAAACT
1 ATATATGAACTATAGTTAACATATAAACT
1036148 ATA
1 ATA
1036151 GTTGATATTT
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 24 0.50
30 4 0.08
31 20 0.42
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (29 bp):
ATATATGAACTATAGTTAACATATAAACT
Found at i:1036161 original size:24 final size:20
Alignment explanation
Indices: 1036104--1036194 Score: 73
Period size: 18 Copynumber: 4.5 Consensus size: 20
1036094 AAACAATAGT
* *
1036104 TAAACTATATAGTTTATATA
1 TAAACTATATAATTTACATA
* *
1036124 TGAAC--TATAGTTTACATA
1 TAAACTATATAATTTACATA
1036142 TAAACTATAGTTGATATTTACATA
1 TAAACTATA--T-A-ATTTACATA
*
1036166 TGAA-T-TATAATTTACATA
1 TAAACTATATAATTTACATA
1036184 TAAACTATATA
1 TAAACTATATA
1036195 TAAACTATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
18 28 0.49
19 2 0.04
20 11 0.19
22 3 0.05
23 2 0.04
24 11 0.19
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.42
Consensus pattern (20 bp):
TAAACTATATAATTTACATA
Found at i:1036192 original size:18 final size:19
Alignment explanation
Indices: 1035920--1036195 Score: 85
Period size: 20 Copynumber: 13.7 Consensus size: 19
1035910 AAACTATATG
*
1035920 TATAAACTATATAAATTATATA
1 TATAAACTATAT--ATT-TACA
1035942 TATAAACTATATAGTTTACA
1 TATAAACTATATA-TTTACA
* ** *
1035962 TATGAACTATATATAAAAATTA
1 TATAAACTATATAT--TTA-CA
* *
1035984 TATAAACTATA-GTTTATA
1 TATAAACTATATATTTACA
*
1036002 TATAAACTATATATTATA-G
1 TATAAACTATATATT-TACA
* ** ** *
1036021 TTTATATTTATATATAAATTA
1 TATA-AACTATATATTTA-CA
* * *
1036042 TATAAATTATATAGTTGATA
1 TATAAACTATATA-TTTACA
* * *
1036062 TATGAACTATA-GTTCACA
1 TATAAACTATATATTTACA
* **
1036080 TATGAACTATATATAAACAA
1 TATAAACTATATATTTAC-A
*
1036100 TAGTTAAACTATATAGTTTATA
1 TA--TAAACTATATA-TTTACA
* *
1036122 TATGAACTATA-GTTTACA
1 TATAAACTATATATTTACA
1036140 TATAAACTATAGTTGATATTTACA
1 TATAAAC--TA--T-ATATTTACA
* *
1036164 TATGAATTATA-ATTTACA
1 TATAAACTATATATTTACA
1036182 TATAAACTATATAT
1 TATAAACTATATAT
1036196 AAACTATATA
Statistics
Matches: 190, Mismatches: 42, Indels: 47
0.68 0.15 0.17
Matches are distributed among these distances:
18 55 0.29
19 14 0.07
20 59 0.31
21 9 0.05
22 39 0.21
23 3 0.02
24 11 0.06
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (19 bp):
TATAAACTATATATTTACA
Found at i:1036195 original size:11 final size:11
Alignment explanation
Indices: 1036181--1036205 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1036171 TATAATTTAC
1036181 ATATAAACTAT
1 ATATAAACTAT
1036192 ATATAAACTAT
1 ATATAAACTAT
1036203 ATA
1 ATA
1036206 GTTTACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAACTAT
Found at i:1036214 original size:31 final size:31
Alignment explanation
Indices: 1036171--1036287 Score: 90
Period size: 31 Copynumber: 3.7 Consensus size: 31
1036161 ACATATGAAT
* *
1036171 TATAATTTACATATAAACTATATATAAACTA
1 TATAGTTTATATATAAACTATATATAAACTA
* * * * *
1036202 TATAGTTTACATATGAACTATATATATAGTT
1 TATAGTTTATATATAAACTATATATAAACTA
** * * *
1036233 TATTAGTGAACTATATAAACTATTTATATAGTA
1 TA-TAGTTTA-TATATAAACTATATATAAACTA
* *
1036266 TATACTATATATATAAACTATA
1 TATAGTTTATATATAAACTATA
1036288 GTTTATATTT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
31 40 0.58
32 9 0.13
33 20 0.29
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
TATAGTTTATATATAAACTATATATAAACTA
Found at i:1036232 original size:24 final size:24
Alignment explanation
Indices: 1036200--1036280 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
1036190 ATATATAAAC
1036200 TATATAGTTTACATA-TGAACTATA
1 TATATAGTTTA-ATAGTGAACTATA
*
1036224 TATATAGTTTATTAGTGAACTATA
1 TATATAGTTTAATAGTGAACTATA
* *
1036248 TAAACTA-TTTATATAGTATATACTATA
1 TATA-TAGTTTA-ATAGT-GA-ACTATA
1036275 TATATA
1 TATATA
1036281 AACTATAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 2 0.04
24 27 0.57
25 6 0.13
26 3 0.06
27 9 0.19
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.44
Consensus pattern (24 bp):
TATATAGTTTAATAGTGAACTATA
Found at i:1036269 original size:7 final size:6
Alignment explanation
Indices: 1036257--1036449 Score: 76
Period size: 7 Copynumber: 30.3 Consensus size: 6
1036247 ATAAACTATT
* * * *
1036257 TATATA GTATATA CTATATA TATAAA CTATAGTT TATATT TATATA CTACATA
1 TATATA -TATATA -TATATA TATATA -TATA-TA TATATA TATATA -TATATA
* *
1036310 CTATAGTA TATATT TATATA CTATATA TAT-TA TATATA AACTATA TATACTA
1 -TATA-TA TATATA TATATA -TATATA TATATA TATATA TA-TATA TATA-TA
* * *
1036362 TATAGTA TA-ATT TACATA TGA-ACTA TATATA TAAACTA TATACTA TAGT-TGA
1 TATA-TA TATATA TATATA T-ATA-TA TATATA TATA-TA TATA-TA TA-TAT-A
* *
1036414 TATTTA TATA-A TATATA -ATATA -ATTTA TACTATA TA
1 TATATA TATATA TATATA TATATA TATATA TA-TATA TA
1036450 AATTCAAAGT
Statistics
Matches: 148, Mismatches: 19, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
5 22 0.15
6 45 0.30
7 78 0.53
8 3 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:1036272 original size:18 final size:18
Alignment explanation
Indices: 1036246--1036280 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1036236 TAGTGAACTA
*
1036246 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
*
1036264 TATATACTATATATATA
1 TATAAACTATATATATA
1036281 AACTATAGTT
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:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:1036285 original size:40 final size:41
Alignment explanation
Indices: 1036241--1036321 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
1036231 TTTATTAGTG
* *
1036241 AACTATA-TAAACTATTTATATAGTATATACTATA-TATATA
1 AACTATAGTAAA-TATTTATATACTACATACTATAGTATATA
**
1036281 AACTATAGTTTATATTTATATACTACATACTATAGTATATA
1 AACTATAGTAAATATTTATATACTACATACTATAGTATATA
1036322 TTTATATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (41 bp):
AACTATAGTAAATATTTATATACTACATACTATAGTATATA
Found at i:1036406 original size:20 final size:20
Alignment explanation
Indices: 1036189--1036408 Score: 88
Period size: 20 Copynumber: 11.1 Consensus size: 20
1036179 ACATATAAAC
* *
1036189 TATATATAAACTATATAGTT
1 TATATATAAACTATATACTA
* *
1036209 TACATATGAACTATATA-TA
1 TATATATAAACTATATACTA
*
1036228 TAGTTTATTAGTGAACTATATAAACTA
1 TA---TA-TA-TAAACTATAT--ACTA
* *
1036255 T-T-TATATAGTATATACTA
1 TATATATAAACTATATACTA
*
1036273 TATATATAAACTATAGT-TTA
1 TATATATAAACTATA-TACTA
* * *
1036293 TATTTATATACTACATACTA
1 TATATATAAACTATATACTA
**
1036313 TAGTATAT-ATTTATATACTA
1 TA-TATATAAACTATATACTA
1036333 TATATAT----TATATA-TA
1 TATATATAAACTATATACTA
* * *
1036348 AACTATATATACTATATAGTA
1 TA-TATATAAACTATATACTA
* *
1036369 TA-ATTTACA-TATGA-ACTA
1 TATATATAAACTAT-ATACTA
1036387 TATATATAAACTATATACTA
1 TATATATAAACTATATACTA
1036407 TA
1 TA
1036409 GTTGATATTT
Statistics
Matches: 151, Mismatches: 26, Indels: 46
0.68 0.12 0.21
Matches are distributed among these distances:
15 3 0.02
16 11 0.07
18 13 0.09
19 22 0.15
20 74 0.49
21 10 0.07
22 1 0.01
23 3 0.02
24 10 0.07
26 1 0.01
27 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATATAAACTATATACTA
Found at i:1036416 original size:27 final size:26
Alignment explanation
Indices: 1036386--1036452 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
1036376 CATATGAACT
* *
1036386 ATATATATAAACTATATACTATAGTTG
1 ATATATATAAA-TATATAATATAATTG
* *
1036413 ATATTTATATAATATATAATATAATTT
1 ATATATATA-AATATATAATATAATTG
1036440 ATACTATATAAAT
1 ATA-TATATAAAT
1036453 TCAAAGTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (26 bp):
ATATATATAAATATATAATATAATTG
Found at i:1036465 original size:2 final size:2
Alignment explanation
Indices: 1036257--1036449 Score: 76
Period size: 2 Copynumber: 91.0 Consensus size: 2
1036247 ATAAACTATT
* * *
1036257 TA TA TA GTA TA TA CTA TA TA TA TA AA CTA TA GTT TA TA TT TA TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA
* *
1036301 TA CTA CA TA CTA TA GTA TA TA TT TA TA TA CTA TA TA TA T- TA TA
1 TA -TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
1036344 TA TA AA CTA TA TA TA CTA TA TA GTA TA -A TT TA CA TA TGA -A CTA
1 TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA T-A TA -TA
* *
1036387 TA TA TA TA AA CTA TA TA CTA TA GT- TGA TA TT TA TA TA -A TA TA
1 TA TA TA TA TA -TA TA TA -TA TA -TA T-A TA TA TA TA TA TA TA TA
*
1036429 TA -A TA TA -A TT TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA
1036450 AATTCAAAGT
Statistics
Matches: 144, Mismatches: 22, Indels: 50
0.67 0.10 0.23
Matches are distributed among these distances:
1 7 0.05
2 109 0.76
3 28 0.19
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1036476 original size:94 final size:93
Alignment explanation
Indices: 1036291--1036486 Score: 204
Period size: 94 Copynumber: 2.1 Consensus size: 93
1036281 AACTATAGTT
* * *
1036291 TATATTTATATACTACATACTATAGTATATATTTATATACTATATATATTATATATAAACTATAT
1 TATATATATAAACTACATACTATAGTATATATTTATATAATATATATATTATATATAAACTATAT
* *
1036356 ATACTATATAGTATAATTTACATATGAA
66 ATAATATAAAGTATAATTTACATATGAA
* * *
1036384 CTATATATATAAACTATATACTATAGT-TGATATTTATATAATATATA-A-TATAATTTATACTA
1 -TATATATATAAACTACATACTATAGTAT-ATATTTATATAATATATATATTAT-ATATAAACTA
**
1036446 TATA-AAT-TCAAAGTATATATTATATGTATGAA
63 TATATAATAT-AAAGTATA-ATT-TACATATGAA
1036478 TACTATATA
1 TA-TATATA
1036487 GTTCAATACA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
91 1 0.01
92 12 0.14
93 19 0.22
94 54 0.63
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (93 bp):
TATATATATAAACTACATACTATAGTATATATTTATATAATATATATATTATATATAAACTATAT
ATAATATAAAGTATAATTTACATATGAA
Found at i:1036537 original size:18 final size:16
Alignment explanation
Indices: 1036514--1036797 Score: 83
Period size: 18 Copynumber: 16.9 Consensus size: 16
1036504 ATAGACGATT
1036514 TATATAGTATATACTAC
1 TATATAGTATATA-TAC
1036531 ATATATAGTTTATATATAC
1 -TATATAG--TATATATAC
*
1036550 TATATAGTTTACATATGAAC
1 TATATAG--TATATAT--AC
*
1036570 TATATA-TA-A-AAAC
1 TATATAGTATATATAC
* *
1036583 TATATA-TA-A-AAAG
1 TATATAGTATATATAC
* *
1036596 TATATGGTATATACAAAC
1 TATATAGTATAT--ATAC
*
1036614 TATATA-T-TATATAG
1 TATATAGTATATATAC
1036628 T-TATTAGTATATATAAAC
1 TATA-TAGTATATAT--AC
* *
1036646 TATATATTATATAGTTC
1 TATATAGTATATA-TAC
1036663 -AT-TAGTATATATAAAC
1 TATATAGTATATAT--AC
*
1036679 TATACAGTATATATAAAC
1 TATATAGTATATAT--AC
1036697 TATATAGTATATATAAAC
1 TATATAGTATATAT--AC
*
1036715 TATATGGTATATATAAAC
1 TATATAGTATATAT--AC
* * *
1036733 TATACATTATATATAG
1 TATATAGTATATATAC
1036749 T-TCATTAGTATATATAAAC
1 TAT-A-TAGTATATAT--AC
* *
1036768 TATATATTATATAGTTC
1 TATATAGTATATA-TAC
1036785 -AT-TAGTATATATA
1 TATATAGTATATATA
1036798 ACCTATATAT
Statistics
Matches: 213, Mismatches: 27, Indels: 56
0.72 0.09 0.19
Matches are distributed among these distances:
13 21 0.10
14 9 0.04
15 20 0.09
16 17 0.08
17 15 0.07
18 106 0.50
19 10 0.05
20 15 0.07
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (16 bp):
TATATAGTATATATAC
Found at i:1036619 original size:13 final size:13
Alignment explanation
Indices: 1036567--1036600 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1036557 TTTACATATG
1036567 AACTATATATAAA
1 AACTATATATAAA
1036580 AACTATATATAAA
1 AACTATATATAAA
*
1036593 AAGTATAT
1 AACTATAT
1036601 GGTATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:1036712 original size:36 final size:36
Alignment explanation
Indices: 1036585--1036780 Score: 169
Period size: 36 Copynumber: 5.7 Consensus size: 36
1036575 ATAAAAACTA
* * * *
1036585 TATATAAAAAGTATATGGTATATACAAACTATATA-
1 TATATATAAACTATATAGTATATATAAACTATATAG
**
1036620 T-TATAT-AGTTAT-TAGTATATATAAACTATATA-
1 TATATATAAACTATATAGTATATATAAACTATATAG
** *
1036652 T-TATAT-AGTTCAT-TAGTATATATAAACTATACAG
1 TATATATAAACT-ATATAGTATATATAAACTATATAG
*
1036686 TATATATAAACTATATAGTATATATAAACTATATGG
1 TATATATAAACTATATAGTATATATAAACTATATAG
* * **
1036722 TATATATAAACTATACATTATATAT-AGTTCAT-TAG
1 TATATATAAACTATATAGTATATATAAACT-ATATAG
*
1036757 TATATATAAACTATATATTATATA
1 TATATATAAACTATATAGTATATA
1036781 GTTCATTAGT
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
32 28 0.20
33 25 0.18
34 5 0.04
35 35 0.25
36 46 0.33
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (36 bp):
TATATATAAACTATATAGTATATATAAACTATATAG
Found at i:1036762 original size:17 final size:17
Alignment explanation
Indices: 1036740--1036797 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
1036730 AACTATACAT
1036740 TATATATAGTTCATTAG
1 TATATATAGTTCATTAG
**
1036757 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
1036772 TATTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
1036790 TATATATA
1 TATATATA
1036798 ACCTATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:1036765 original size:89 final size:83
Alignment explanation
Indices: 1036602--1036780 Score: 241
Period size: 89 Copynumber: 2.1 Consensus size: 83
1036592 AAAGTATATG
** *
1036602 GTATATACAAACTATATATTATATAGTTATTAGTATATATAAACTATATATTATATAGTTCATTA
1 GTATATACAAACTATATATTATATAACTATTAGTATATATAAACTATACATTATATAGTTCATTA
1036667 GTATATATAAACTATACA
66 GTATATATAAACTATACA
* *
1036685 GTATATATAAACTATATAGTATATATAAACTATATGGTATATATAAACTATACATTATATATAGT
1 GTATATACAAACTATATA-T-TATAT-AACTAT-TAGTATATATAAACTATACA-T-TATATAGT
*
1036750 TCATTAGTATATATAAACTATATA
60 TCATTAGTATATATAAACTATACA
*
1036774 TTATATA
1 GTATATA
1036781 GTTCATTAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
83 17 0.20
84 1 0.01
85 5 0.06
86 4 0.05
87 18 0.22
88 1 0.01
89 37 0.45
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (83 bp):
GTATATACAAACTATATATTATATAACTATTAGTATATATAAACTATACATTATATAGTTCATTA
GTATATATAAACTATACA
Found at i:1036786 original size:122 final size:119
Alignment explanation
Indices: 1036585--1036804 Score: 368
Period size: 122 Copynumber: 1.8 Consensus size: 119
1036575 ATAAAAACTA
* *
1036585 TATATAAAAAGTATATGGTATATACAAACTATATATTATATAGTTATTAGTATATATAAACTATA
1 TATATAAAAACTATATGGTATATACAAACTATACATTATATAGTTATTAGTATATATAAACTATA
1036650 TATTATATAGTTCATTAGTATATATAAACTATACAGTATATATAAACTATATAG
66 TATTATATAGTTCATTAGTATATATAAACTATACAGTATATATAAACTATATAG
* *
1036704 TATATATAAACTATATGGTATATATAAACTATACATTATATATAGTTCATTAGTATATATAAACT
1 TATATAAAAACTATATGGTATATACAAACTATACA-T-TATATAGTT-ATTAGTATATATAAACT
*
1036769 ATATATTATATAGTTCATTAGTATATATAACCTATA
63 ATATATTATATAGTTCATTAGTATATATAAACTATA
1036805 TATTAATTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
119 31 0.33
120 1 0.01
121 9 0.10
122 52 0.56
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (119 bp):
TATATAAAAACTATATGGTATATACAAACTATACATTATATAGTTATTAGTATATATAAACTATA
TATTATATAGTTCATTAGTATATATAAACTATACAGTATATATAAACTATATAG
Found at i:1036807 original size:33 final size:33
Alignment explanation
Indices: 1036684--1036809 Score: 146
Period size: 33 Copynumber: 3.7 Consensus size: 33
1036674 TAAACTATAC
**
1036684 AGTATATATAAACTATATAGTATATATA-AACTATAT
1 AGTATATATAAACTATATA-T-TATATAGTTC-AT-T
* *
1036720 GGTATATATAAACTATACATTATATATAGTTCATT
1 AGTATATATAAACTATATA-T-TATATAGTTCATT
1036755 AGTATATATAAACTATATATTATATAGTTCATT
1 AGTATATATAAACTATATATTATATAGTTCATT
*
1036788 AGTATATATAACCTATATATTA
1 AGTATATATAAACTATATATTA
1036810 ATTTATTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
33 34 0.42
34 1 0.01
35 18 0.22
36 27 0.33
37 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (33 bp):
AGTATATATAAACTATATATTATATAGTTCATT
Found at i:1036940 original size:61 final size:61
Alignment explanation
Indices: 1036866--1036999 Score: 207
Period size: 61 Copynumber: 2.2 Consensus size: 61
1036856 TATAAGGATC
*
1036866 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATA-ATTTGTAACATTAAATTTGGACT
1 AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATATA-TTGTAACATTAAATTTGGACT
* * * *
1036927 AAATTGAAGAAATTTGAAATATTAAGCTTAAATTAATTTATTGTATCATTAAATTTGGACT
1 AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATATATTGTAACATTAAATTTGGACT
1036988 AAATTGAACAAA
1 AAATTGAACAAA
1037000 CTTAAAACTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 65 0.98
62 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.37
Consensus pattern (61 bp):
AAATTGAACAAATTTGAAATATGAAGCTTAAATTAATATATTGTAACATTAAATTTGGACT
Found at i:1037643 original size:6 final size:6
Alignment explanation
Indices: 1037632--1037796 Score: 217
Period size: 6 Copynumber: 27.7 Consensus size: 6
1037622 CTTAACCCTG
*
1037632 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AATCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* *
1037680 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACTCA AACCCG
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * * *
1037728 AACCTGA AA-CCG AACCCA AACCCA AACCCA AACCC- GATCCG AACCCG
1 AACC-CA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
*
1037775 AACCCA AACCTA AACCCA AACC
1 AACCCA AACCCA AACCCA AACC
1037797 TGATTTTGAA
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
5 5 0.04
6 132 0.95
7 2 0.01
ACGTcount: A:0.47, C:0.47, G:0.04, T:0.03
Consensus pattern (6 bp):
AACCCA
Found at i:1041238 original size:19 final size:19
Alignment explanation
Indices: 1041207--1041253 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1041197 AATAACATTT
*
1041207 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTAGAA
*
1041225 ATAATATAAAGAATTGGAA
1 ATAATATAAAGAATTAGAA
*
1041244 TTAATATAAA
1 ATAATATAAA
1041254 AACCAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
ATAATATAAAGAATTAGAA
Found at i:1042896 original size:21 final size:21
Alignment explanation
Indices: 1042850--1042896 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
1042840 TTTAAAACTA
1042850 AAATAATATGTATAATATAAT
1 AAATAATATGTATAATATAAT
*
1042871 AAATAATATG-ATAATATTAT
1 AAATAATATGTATAATATAAT
1042891 ATAATA
1 A-AATA
1042897 TTTTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
AAATAATATGTATAATATAAT
Found at i:1043778 original size:21 final size:20
Alignment explanation
Indices: 1043754--1043792 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1043744 TTTTCATAAA
1043754 ATGTTTTCAATTATATTTTTT
1 ATGTTTTCAATTA-ATTTTTT
*
1043775 ATGTTTTCTATTAATTTT
1 ATGTTTTCAATTAATTTT
1043793 GTCAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
ATGTTTTCAATTAATTTTTT
Found at i:1046148 original size:30 final size:31
Alignment explanation
Indices: 1046089--1046149 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
1046079 CAACAATCCA
* * *
1046089 TAACTTTTCCAAAATTATTGATTTAGTCCCC
1 TAACTTTTCAAAAATTATAGAATTAGTCCCC
1046120 TAACTTTTCAAAAATTATAGAATT-GTCCCC
1 TAACTTTTCAAAAATTATAGAATTAGTCCCC
1046150 AAATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (31 bp):
TAACTTTTCAAAAATTATAGAATTAGTCCCC
Found at i:1047495 original size:54 final size:54
Alignment explanation
Indices: 1047410--1048130 Score: 951
Period size: 54 Copynumber: 13.4 Consensus size: 54
1047400 TTCTCTGGAG
* * * * *
1047410 TGCACACGTAGTGCCGATACGGTCGTCCATCAACATATGATGAATTTTATGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* * *
1047464 TGCATACTTAGTGCCTATACTGTTGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* * * **
1047518 TGTACACTTAGTGCCTATATGATTGTTCATCAACATATGATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* ** *
1047572 TGCACACTTAGTGCCAATACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* * ** *
1047626 TGCACATTTAGTGCCTATA-GGATTGTTCATTAACATATGATGAATTCAGTGAGT
1 TGCACACTTAGTGCCTATACGG-TTGTTCATCAACATATGATGAATTTTGTGGGT
* * * *
1047680 TGCACACTTAGTGCCTACACGATCGTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* * *
1047734 TGCACACTTAGTGCCTATACGGTCGTTCATTAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* *
1047788 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* * *
1047842 TGCACACTTAGTGCCTATATGGTCGTTCATCAATATATGATGAATTTTGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
*
1047896 TGCACACTTAATGCCTATACGGTCT-TTCATCAACATATGATGAATTTTGTGGGT
1 TGCACACTTAGTGCCTATACGGT-TGTTCATCAACATATGATGAATTTTGTGGGT
* * *
1047950 TGCACACTTAGTACCTATACGGTTATTCATCAACATATGATGAATTATGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* *
1048004 TGCACACTTAGTGCCTATACGGTTGTTCATCAATATATGATGAATTTCGTGGGT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
* * * * * * * * * **
1048058 TCCACAATTTGTACATATATGGTCGTTTATCAACATATGATGAATTTCGTGATT
1 TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
1048112 TGCACACTTAGTGCCTATA
1 TGCACACTTAGTGCCTATA
1048131 GTACACATAG
Statistics
Matches: 596, Mismatches: 67, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
53 3 0.01
54 592 0.99
55 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTTGTGGGT
Found at i:1053884 original size:54 final size:54
Alignment explanation
Indices: 1053788--1054175 Score: 539
Period size: 54 Copynumber: 7.2 Consensus size: 54
1053778 TGCACAAGTT
* * *
1053788 GTGCCGATACGGTCGTTCATCAACATATGATGAATTAT-GTGGGTTTCACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACTTA
* * * * *
1053842 GTGTCTATATGATTGTTCATCAACAAATGATGAATTAT-GTGGGTTGTACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACTTA
* * * *
1053896 GTTCTTATACAGTTGTTCATCAACATATGATGAATTAT-GTGTGTTGCACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATT-TCGTGGGTTGCACACTTA
* * * *
1053950 GTGTCTATACGGTTGTTCATTAACAAATGATGAATTTCGTGGATTGCACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
*
1054004 GTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
*
1054058 GTGCCTATACGGTAGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
* * *
1054112 GTACCTATACGGTCGTTCATCAATATATGATGAATTTCGTGGGTTGCACACTTA
1 GTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
1054166 GTGCCTATAC
1 GTGCCTATAC
1054176 ATAAGGTTGT
Statistics
Matches: 298, Mismatches: 35, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 297 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (54 bp):
GTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTA
Found at i:1054533 original size:16 final size:16
Alignment explanation
Indices: 1054463--1054531 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
1054453 GGTATTACCC
*
1054463 GACCTACTTTCAACCT
1 GACCTATTTTCAACCT
*
1054479 GACCTACTTTCAACCT
1 GACCTATTTTCAACCT
1054495 GACCTATTTTCAACCT
1 GACCTATTTTCAACCT
* *
1054511 GACCTGTTTTTAACCT
1 GACCTATTTTCAACCT
1054527 GACCT
1 GACCT
1054532 GTAAATGATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (16 bp):
GACCTATTTTCAACCT
Found at i:1054818 original size:23 final size:24
Alignment explanation
Indices: 1054780--1054845 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
1054770 ATGCAAAGGA
1054780 AAATTAATATAATTTAATTTATAT
1 AAATTAATATAATTTAATTTATAT
*
1054804 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAATTTAATTTATAT
* *
1054827 AAATAAAAATAATATTAAT
1 AAATTAATATAAT-TTAAT
1054846 AATTAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 21 0.58
24 10 0.28
25 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
AAATTAATATAATTTAATTTATAT
Found at i:1055143 original size:15 final size:17
Alignment explanation
Indices: 1055123--1055169 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
1055113 TAATTTATTT
1055123 TATATAGTTTATAT-C-
1 TATATAGTTTATATACA
*
1055138 TATATA-TATACTATACA
1 TATATAGTTTA-TATACA
1055155 TATATAGTTTATATA
1 TATATAGTTTATATA
1055170 TACTATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 1 0.04
17 10 0.38
18 3 0.12
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (17 bp):
TATATAGTTTATATACA
Found at i:1055594 original size:7 final size:7
Alignment explanation
Indices: 1055541--1055605 Score: 58
Period size: 7 Copynumber: 9.3 Consensus size: 7
1055531 TCCATTTATA
*
1055541 TTAGGAT
1 TTAGGGT
*
1055548 TTATGGT
1 TTAGGGT
*
1055555 TTAGTGT
1 TTAGGGT
*
1055562 TTAGTGT
1 TTAGGGT
***
1055569 TTATAAT
1 TTAGGGT
1055576 TTAGGGT
1 TTAGGGT
1055583 TTAGGGT
1 TTAGGGT
*
1055590 TTAGGAT
1 TTAGGGT
1055597 TTAGGGT
1 TTAGGGT
1055604 TT
1 TT
1055606 CTATAAACTA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (7 bp):
TTAGGGT
Found at i:1056555 original size:14 final size:14
Alignment explanation
Indices: 1056533--1056578 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
1056523 TTAATTTTCA
1056533 TTAGAGTTTATGGT
1 TTAGAGTTTATGGT
*
1056547 TTAGTGTTTATGGT
1 TTAGAGTTTATGGT
* * *
1056561 TTAAAATTTAGGGT
1 TTAGAGTTTATGGT
1056575 TTAG
1 TTAG
1056579 GATTTCTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:1056664 original size:2 final size:2
Alignment explanation
Indices: 1056659--1056742 Score: 104
Period size: 2 Copynumber: 44.0 Consensus size: 2
1056649 TAATTTACTT
*
1056659 TA TA TA -A TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
** *
1056700 TA TA TA TA TA TA GG T- TA TA TA TA TA TA GA T- TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1056739 TA TA
1 TA TA
1056743 CATGATTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
1 4 0.06
2 67 0.94
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1056842 original size:14 final size:14
Alignment explanation
Indices: 1056791--1056848 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
1056781 AGTTCAGGGG
*
1056791 TTAGGGTTTAAGGT
1 TTAGGGTTTAAGAT
* ** *
1056805 TAACAGTTTAAGGT
1 TTAGGGTTTAAGAT
* *
1056819 TTATGATTTAAGAT
1 TTAGGGTTTAAGAT
1056833 TTAGGGTTTAAGAT
1 TTAGGGTTTAAGAT
1056847 TT
1 TT
1056849 TATAAACTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTAAGAT
Found at i:1057013 original size:4 final size:4
Alignment explanation
Indices: 1057004--1059019 Score: 3169
Period size: 4 Copynumber: 506.8 Consensus size: 4
1056994 TATATAGTTT
*
1057004 ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057052 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057100 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057148 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1057194 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * ** * * * * *
1057242 ATATT TTAT ATA- GTTT ATAC ATAC ATAT ATAT ACTAT ATTAT ATAA ATTA-
1 ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC A-TAC ATAC A-TAC
* * * * * **
1057292 AT-T ATAC TATAT TTAT ATA- GTTT ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * ** * *
1057339 ATAC ATAC ATAT ATATT TTAT ATA- GTTT ATAC ATAC ATAC ATAT ATAT
1 ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * ** * ** *
1057387 ACTAT ATTA- ATAT AAATT ATA- ATTT ATA- A-AC TATAT ATTTT ATAT
1 A-TAC A-TAC ATAC ATA-C ATAC ATAC ATAC ATAC -ATAC A-TAC ATAC
**
1057432 AGTTT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057481 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057529 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057577 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057625 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057673 -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057720 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057768 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057816 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057864 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057912 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1057959 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058005 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058053 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058101 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058149 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058195 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1058243 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1058291 ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058339 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
1058385 ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
1058433 ATAC ATCC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058481 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1058529 ATCC ATAC ATAC ATCC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058577 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058625 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058673 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058721 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058767 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058815 --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1058861 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1058909 ATAC ATAC ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
1058957 ATGC ATAC ATAC ATAC ATGC ATAC ATGC ATGC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
1059005 ATGC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
1059020 AAATTAAAAG
Statistics
Matches: 1914, Mismatches: 65, Indels: 66
0.94 0.03 0.03
Matches are distributed among these distances:
2 13 0.01
3 17 0.01
4 1849 0.97
5 35 0.02
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:1057354 original size:109 final size:119
Alignment explanation
Indices: 1057206--1057471 Score: 435
Period size: 109 Copynumber: 2.3 Consensus size: 119
1057196 ACATACATAC
1057206 ATACATACATACATACATACATACATACATACATATATATTTTATATAG-TT-T-ATACATACAT
1 ATACATACATACATACATACATACATACATACATATATATTTTATATAGTTTATAATACATACAT
1057268 ATATATACTATATT-ATATAAA-T-TAA-TTAT-AC-TATA-TTTATATAGTTT
66 ATATATACTATATTAATATAAATTATAATTTATAACATATATTTTATATAGTTT
1057315 ATACATACATACATACATACATACATACATACATATATATTTTATATAGTTTATACATACATACA
1 ATACATACATACATACATACATACATACATACATATATATTTTATATAGTTTATA-ATACATACA
1057380 TATATATACTATATTAATATAAATTATAATTTATAAACTATATATTTTATATAGTTT
65 TATATATACTATATTAATATAAATTATAATTTAT-AAC-ATATATTTTATATAGTTT
1057437 ATACATACATACATACATACATACATACATACATA
1 ATACATACATACATACATACATACATACATACATA
1057472 CATACATACA
Statistics
Matches: 144, Mismatches: 0, Indels: 13
0.92 0.00 0.08
Matches are distributed among these distances:
109 49 0.34
110 2 0.01
111 1 0.01
113 24 0.17
114 7 0.05
115 1 0.01
116 3 0.02
117 4 0.03
119 2 0.01
121 4 0.03
122 47 0.33
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (119 bp):
ATACATACATACATACATACATACATACATACATATATATTTTATATAGTTTATAATACATACAT
ATATATACTATATTAATATAAATTATAATTTATAACATATATTTTATATAGTTT
Found at i:1059286 original size:17 final size:19
Alignment explanation
Indices: 1059203--1059276 Score: 78
Period size: 19 Copynumber: 3.8 Consensus size: 19
1059193 ATAAAATCTC
*
1059203 AATTCTCAATTTCCCTCCAA
1 AATTCTCAATTTCCCT-CTA
* * *
1059223 AATTTTCTA-TTCCTTCTA
1 AATTCTCAATTTCCCTCTA
*
1059241 AATTTCCCAATTTCCCTCTA
1 AA-TTCTCAATTTCCCTCTA
1059261 AATTCTCAATTTCCCT
1 AATTCTCAATTTCCCT
1059277 ATATTCTCAA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 4 0.09
19 22 0.51
20 17 0.40
ACGTcount: A:0.26, C:0.31, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTCTCAATTTCCCTCTA
Found at i:1059464 original size:26 final size:24
Alignment explanation
Indices: 1059410--1059482 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 24
1059400 TTAATATAAT
* *
1059410 TATAGTTTATAAACTATATACTTT-T
1 TATAGTTTAT-AA-TATATAGTTTAA
1059435 TATAGTTTATACATATATAGTTTACATA
1 TATAGTTTATA-ATATATAGTTT--A-A
1059463 TATAGTTTAT-ATATATAGTT
1 TATAGTTTATAATATATAGTT
1059483 CATATAAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 10 0.24
25 11 0.27
26 10 0.24
28 10 0.24
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (24 bp):
TATAGTTTATAATATATAGTTTAA
Found at i:1059487 original size:13 final size:13
Alignment explanation
Indices: 1059435--1059580 Score: 88
Period size: 13 Copynumber: 11.1 Consensus size: 13
1059425 ATATACTTTT
1059435 TATAGTTTATACATA
1 TATAGTTTAT--ATA
*
1059450 TATAGTTTACATA
1 TATAGTTTATATA
1059463 TATAGTTTATATA
1 TATAGTTTATATA
*
1059476 TATAGTTCATATAAA
1 TATAGTT--TATATA
* *
1059491 CATAATTTATATA
1 TATAGTTTATATA
*
1059504 TATAATTTATA-A
1 TATAGTTTATATA
1059516 TA-A--TTATATA
1 TATAGTTTATATA
* * *
1059526 TTTA-TAATATAAA
1 TATAGT-TTATATA
1059539 TATAGTTTATATA
1 TATAGTTTATATA
* *
1059552 TAAACTTATATTATA
1 TATAGTT-TA-TATA
1059567 TATA-TATTATATA
1 TATAGT-TTATATA
1059580 T
1 T
1059581 TTTTTCAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 22
0.73 0.11 0.15
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 3 0.03
13 60 0.57
14 6 0.06
15 27 0.26
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:1059530 original size:17 final size:18
Alignment explanation
Indices: 1059502--1059582 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 18
1059492 ATAATTTATA
1059502 TATATAATTTATA-ATAAT
1 TATAT-ATTTATATATAAT
1059520 TATATATTTATAATATAA-
1 TATATATTTAT-ATATAAT
*
1059538 -ATATAGTTTATATATAAAC
1 TATATA-TTTATATAT-AAT
1059557 T-TATA-TTATATATATAT
1 TATATATTTATATATA-AT
1059574 TATATATTT
1 TATATATTT
1059583 TTTCAATTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 17
0.75 0.01 0.24
Matches are distributed among these distances:
16 1 0.02
17 25 0.47
18 17 0.32
19 10 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (18 bp):
TATATATTTATATATAAT
Found at i:1059536 original size:22 final size:22
Alignment explanation
Indices: 1059492--1059579 Score: 63
Period size: 24 Copynumber: 3.7 Consensus size: 22
1059482 TCATATAAAC
1059492 ATAATTTATATATATAATTTATA
1 ATAATTTATATATATAA-TTATA
*
1059515 ATAATTATATATTTATAA-TATAA
1 ATAATT-TATATATATAATTAT-A
1059538 ATATAGTTTATATATA-AACTTATA
1 ATA-A-TTTATATATATAA-TTATA
* *
1059562 TTATATATATATTATATA
1 ATA-ATTTATA-TATATA
1059580 TTTTTTCAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
22 3 0.06
23 17 0.32
24 27 0.51
25 6 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
ATAATTTATATATATAATTATA
Found at i:1059572 original size:11 final size:11
Alignment explanation
Indices: 1059497--1059580 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
1059487 TAAACATAAT
1059497 TTATATATATAA
1 TTATATATAT-A
1059509 TT-TATA-ATAA
1 TTATATATAT-A
*
1059519 TTATATATTTA
1 TTATATATATA
* *
1059530 TAATATAAATA
1 TTATATATATA
*
1059541 -TAGTTTATATA
1 TTA-TATATATA
*
1059552 -TAAACT-TATA
1 TTATA-TATATA
1059562 TTATATATATA
1 TTATATATATA
1059573 TTATATAT
1 TTATATAT
1059581 TTTTTCAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
10 12 0.21
11 41 0.73
12 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (11 bp):
TTATATATATA
Found at i:1060443 original size:54 final size:54
Alignment explanation
Indices: 1060361--1060637 Score: 464
Period size: 54 Copynumber: 5.1 Consensus size: 54
1060351 TACAGCCTTA
* *
1060361 CCTATACGGTCGTTCATCAACAGATGATGAATTCTGTGGGTTGCACACTTAGTG
1 CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
* **
1060415 CCTATACGGTCGTCCATCAACATATGATGAATTTTGTGGGTTGCACACTTAGTG
1 CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
*
1060469 CCTATACGGTCATTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
1 CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
* * *
1060523 CCTATACAGTTGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAAGTG
1 CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTT-AGTG
1060578 CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
1 CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
1060632 CCTATA
1 CCTATA
1060638 GTACATATAG
Statistics
Matches: 208, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
54 157 0.75
55 51 0.25
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (54 bp):
CCTATACGGTCGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTG
Found at i:1062165 original size:25 final size:25
Alignment explanation
Indices: 1062136--1062193 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
1062126 ATTAAACTTT
1062136 CAAAATTTACATTTTGGTCACCAAC
1 CAAAATTTACATTTTGGTCACCAAC
1062161 CAAAATTTACATTTTGGTCACCAAC
1 CAAAATTTACATTTTGGTCACCAAC
1062186 CAAAATTT
1 CAAAATTT
1062194 TGGGGTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (25 bp):
CAAAATTTACATTTTGGTCACCAAC
Found at i:1062346 original size:2 final size:2
Alignment explanation
Indices: 1062339--1062369 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1062329 AGTTTTATTA
1062339 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1062370 TAAAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1072385 original size:108 final size:108
Alignment explanation
Indices: 1072240--1072461 Score: 300
Period size: 108 Copynumber: 2.1 Consensus size: 108
1072230 AAATGTATTG
* * * * * *
1072240 ATACACTAAGAGAGAAGTATTGATACTCCACATAGGGGTATCGATACTATACGACCACCATAGAA
1 ATACCCTAAGAAAGAAGTATTGATACACCACATAGGGGTATCAATACTATACGAACACCACAGAA
** *
1072305 GTATCGAGAATAAAAATGGTATCGATAACCCGGGTAGGTATCA
66 ACATCGAGAACAAAAATGGTATCGATAACCCGGGTAGGTATCA
* * * *
1072348 ATACCCTAAGAAAGAAGTATTGATGCACTACATAGGGGTATCAATATTATATGAACACCACAGAA
1 ATACCCTAAGAAAGAAGTATTGATACACCACATAGGGGTATCAATACTATACGAACACCACAGAA
* * *
1072413 ACATCGAGAACAAAAATGGTATCGGTACCCCGGGTAGGTATCG
66 ACATCGAGAACAAAAATGGTATCGATAACCCGGGTAGGTATCA
1072456 ATACCC
1 ATACCC
1072462 AAAGGGCAGT
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
108 98 1.00
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (108 bp):
ATACCCTAAGAAAGAAGTATTGATACACCACATAGGGGTATCAATACTATACGAACACCACAGAA
ACATCGAGAACAAAAATGGTATCGATAACCCGGGTAGGTATCA
Found at i:1073731 original size:21 final size:21
Alignment explanation
Indices: 1073706--1073844 Score: 115
Period size: 20 Copynumber: 6.8 Consensus size: 21
1073696 CGCGTTGCAT
*
1073706 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTCAAA
* * * *
1073727 ATCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
*
1073747 TTCGCGTTGCGATAG-TCTACA
1 TTCGCGTTGCGATAGTTC-AAA
* * * *
1073768 GTCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
*
1073788 TTCGCGTTGCGATAGTTGAAA
1 TTCGCGTTGCGATAGTTCAAA
* * *
1073809 TTCGCGTTGCGAT-TTTCCAT
1 TTCGCGTTGCGATAGTTCAAA
1073829 TTCGCGTTGCGATAGT
1 TTCGCGTTGCGATAGT
1073845 CTACAGTTGT
Statistics
Matches: 88, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
20 45 0.51
21 43 0.49
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTTCAAA
Found at i:1073750 original size:41 final size:41
Alignment explanation
Indices: 1073703--1073844 Score: 241
Period size: 41 Copynumber: 3.5 Consensus size: 41
1073693 ATTCGCGTTG
1073703 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
1073744 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
*
1073785 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1073826 CATTTCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
1073845 CTACAGTTGT
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.01
41 93 0.98
42 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:1073753 original size:20 final size:20
Alignment explanation
Indices: 1073728--1073841 Score: 131
Period size: 20 Copynumber: 5.6 Consensus size: 20
1073718 TAGTTGAAAA
1073728 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1073748 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
1073769 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** *
1073789 TCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGAT-TTTCCATT
1073810 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1073830 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1073842 AGTCTACAGT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
19 4 0.05
20 40 0.53
21 28 0.37
22 4 0.05
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1073798 original size:82 final size:83
Alignment explanation
Indices: 1073703--1073869 Score: 309
Period size: 82 Copynumber: 2.0 Consensus size: 83
1073693 ATTCGCGTTG
1073703 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1073768 GTCG-CGTTGCGATTTTC
66 GTCGTCGTTGCGATTTTC
*
1073785 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
*
1073850 GTTGTCGTTGCGATTTTC
66 GTCGTCGTTGCGATTTTC
1073868 CA
1 CA
1073870 AATTCGTTGT
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 67 0.82
83 15 0.18
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (83 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
GTCGTCGTTGCGATTTTC
Found at i:1073878 original size:82 final size:81
Alignment explanation
Indices: 1073710--1073891 Score: 285
Period size: 82 Copynumber: 2.2 Consensus size: 81
1073700 TTGCATTTCG
1073710 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGT
1 CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGT
*
1073775 TGCGATTTTCCATTTC
66 TGCGATTTTCCAATTC
* *
1073791 GCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTTGTC
1 -CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCG-C
1073856 GTTGCGATTTTCCAAATT-
64 GTTGCGATTTTCC-AATTC
* *
1073874 CGTTGTGATAGTTAAAAA
1 CGTTGCGATAGTTGAAAA
1073892 AAAGATTTTG
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
82 75 0.82
83 14 0.15
84 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (81 bp):
CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTCGCGT
TGCGATTTTCCAATTC
Found at i:1073884 original size:41 final size:40
Alignment explanation
Indices: 1073703--1073869 Score: 196
Period size: 41 Copynumber: 4.0 Consensus size: 40
1073693 ATTCGCGTTG
* * *
1073703 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCT-ACAGTTGCGTTGCGATTTTC
*
1073744 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTACAGTTGCGTTGCGATTTTC
*
1073785 CATTTCGCGTTGCGATAGT-TGA-AATTCGCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCT-ACAGTT-GCGTTGCGATTTTC
1073826 CATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTC
1 CATTTC-CGTTGCGATAGTCTACAGTTG-CGTTGCGATTTTC
1073868 CA
1 CA
1073870 AATTCGTTGT
Statistics
Matches: 115, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
40 3 0.03
41 92 0.80
42 20 0.17
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.38
Consensus pattern (40 bp):
CATTTCCGTTGCGATAGTCTACAGTTGCGTTGCGATTTTC
Found at i:1074229 original size:6 final size:6
Alignment explanation
Indices: 1074218--1074268 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
1074208 TCTCGTCTCG
1074218 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1074266 GGT
1 GGT
1074269 AATACGTGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1074407 original size:20 final size:20
Alignment explanation
Indices: 1074377--1074446 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
1074367 ACTGTAGACT
1074377 ATCGC-ACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1074396 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1074417 AT--CAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1074435 ATCACAACGCGA
1 ATCGCAACGCGA
1074447 TTTTCAACTA
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
18 2 0.05
19 16 0.43
20 17 0.46
21 2 0.05
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1074432 original size:39 final size:40
Alignment explanation
Indices: 1074374--1074471 Score: 155
Period size: 39 Copynumber: 2.5 Consensus size: 40
1074364 ACAACTGTAG
*
1074374 ACTATCGC-ACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATC-CAACGCGAAATGGAAAATCACAACGCGATTTTCA
1074414 ACTAT-CAACGCGAAATGGAAAATCACAACGCGATTTTCA
1 ACTATCCAACGCGAAATGGAAAATCACAACGCGATTTTCA
1074453 ACTATCGCAACGCGAAATG
1 ACTATC-CAACGCGAAATG
1074472 CAACGCGAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
38 1 0.02
39 36 0.67
40 5 0.09
41 12 0.22
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
ACTATCCAACGCGAAATGGAAAATCACAACGCGATTTTCA
Found at i:1074465 original size:21 final size:21
Alignment explanation
Indices: 1074396--1074467 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
1074386 GAAATGGAAA
1074396 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
1074417 AT--CAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
1074435 ATCACAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
1074456 ATCGCAACGCGA
1 ATCGCAACGCGA
1074468 AATGCAACGC
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
18 2 0.05
19 11 0.30
20 11 0.30
21 13 0.35
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:1074527 original size:20 final size:20
Alignment explanation
Indices: 1074504--1074609 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
1074494 AAATCGCGTT
*
1074504 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
1074524 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
1074544 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
1074565 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
1074585 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
1074606 GCGA
1 GCGA
1074610 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Done.