Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold53
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: 4419549
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 41486 characters in sequence are not A, C, G, or T
File 19 of 28
Found at i:2806946 original size:85 final size:85
Alignment explanation
Indices: 2806795--2806983 Score: 229
Period size: 85 Copynumber: 2.2 Consensus size: 85
2806785 TCAAGTATCA
* * ** *
2806795 CTTTTTGTCCTTTGTTGACTTGTCAGTTCATTTCTGGTCAACCTTTTTATCCTTAGTTTGCTTGT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTCATCTCTGGTCAACCTTTTTATCCTTAGTTAACCTGT
* *
2806860 CGACTTAGTCTTAGGTAAAT
66 CGACTTAGTCCTAGGTAAAC
* * *
2806880 CTTTTTATCCTTTGTTGATTTGTCAGTTCAATCT-TGGTCAA-CTTTTGTATTCTTTGTTAACCT
1 CTTTTTATCCTTTGTTGACTTGTCAGTTC-ATCTCTGGTCAACCTTTT-TATCCTTAGTTAACCT
* *
2806943 GTCGACTTAGTCCTGGGTAACC
64 GTCGACTTAGTCCTAGGTAAAC
*
2806965 CTTTTCATCCTTTGTTGAC
1 CTTTTTATCCTTTGTTGAC
2806984 CTGACTGCCT
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
84 5 0.06
85 80 0.91
86 3 0.03
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (85 bp):
CTTTTTATCCTTTGTTGACTTGTCAGTTCATCTCTGGTCAACCTTTTTATCCTTAGTTAACCTGT
CGACTTAGTCCTAGGTAAAC
Found at i:2807993 original size:14 final size:15
Alignment explanation
Indices: 2807965--2807994 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2807955 TTAAATCACC
2807965 ATAAAATCAATTTTT
1 ATAAAATCAATTTTT
*
2807980 ATAAATTCAATTTTT
1 ATAAAATCAATTTTT
2807995 TTATGCGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAAAATCAATTTTT
Found at i:2808316 original size:24 final size:25
Alignment explanation
Indices: 2808277--2808328 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
2808267 CTATTCATGA
*
2808277 TTAATAATTTTAATTTTCTTTAATT
1 TTAATAATTTTAATTTTATTTAATT
* *
2808302 TTAA-AATTTTTATTTTATTTTATT
1 TTAATAATTTTAATTTTATTTAATT
2808326 TTA
1 TTA
2808329 TATTTTCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTAATAATTTTAATTTTATTTAATT
Found at i:2810004 original size:167 final size:165
Alignment explanation
Indices: 2809497--2810085 Score: 706
Period size: 164 Copynumber: 3.6 Consensus size: 165
2809487 TTTCTTATTT
* * *
2809497 TTTTGAATTTTTAAAATTCATAAAATATTAGTATTTATTTCATATTAATTTAGTTTTCAAAAATT
1 TTTT-AATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
* *
2809562 CATTCATTTCCATAAATTTTGAA-TTTTTCCTTGAAATTACTTTTTTTTCGAAATATGAAGTTTT
65 CATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTTTCGAAATATGGAGTTTT
* *
2809626 TTACTCCGTAAATTGTTTT-GGGGAGATTTTTCTTGG
130 CTACTCCGT-AATTTTTTTCGGGGAGATTTTTCTTGG
* * **
2809662 TTTTGATTTTTAAAATTCATTAAATATTATTATTTATTTCATATTAATTCTTTTTTCAAAAATTC
1 TTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTC
* ** **
2809727 ATTCATTTCCATAAATTTTGAATTTTTTTCTTGAAA--TCCCTTTTTTCGAAATACAGAGTTTTC
66 ATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTTTCGAAATATGGAGTTTTC
* * *
2809790 TACTTCGTAAATTTTTTCGGGGGGATTTTTCTTGG
131 TACTCCGTAATTTTTTTCGGGGAGATTTTTCTTGG
* * * *
2809825 TTTTTGATTTTTTAAATTTATCAAATATTATTATTTATTTTATATTAATTCAGTTTTCAAAAATT
1 -TTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATT
* * *
2809890 CATTCATTTGCATGAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTTTTCAAAATATGGAGTTT
65 CATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAATTTC-TTTTTTTTCGAAATATGGAGTTT
*
2809955 TCTACTCCGTAATTTTTTTCAGGGAGATTTTTC-TGG
129 TCTACTCCGTAATTTTTTTCGGGGAGATTTTTCTTGG
* * * * * * * *
2809991 ATTTAAAATTTTTTAAATTCATCTAATATTTTTATTGAATCTC-CATTAATTCAGTTTTAAAAAA
1 -TTT-TAATTTTTAAAATTCATCAAATATTATTATT-TATTTCATATTAATTCAGTTTTCAAAAA
* * * *
2810055 TTTAATTTATTT-CATTAATTTTGATTTTTTT
63 -TTCATTCATTTCCATAAATTTTGAATTTTTT
2810086 TGCATATAGT
Statistics
Matches: 364, Mismatches: 51, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
162 7 0.02
163 43 0.12
164 169 0.46
165 16 0.04
166 8 0.02
167 109 0.30
168 12 0.03
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.53
Consensus pattern (165 bp):
TTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTC
ATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAATTTCTTTTTTTTCGAAATATGGAGTTTTC
TACTCCGTAATTTTTTTCGGGGAGATTTTTCTTGG
Found at i:2810570 original size:6 final size:6
Alignment explanation
Indices: 2810539--2810585 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
2810529 AGCTCAGCAA
* *
2810539 AAAAAG AAGGAAG AGAAAAG AGAAAG AAAAAG AAAAA- AAAAAG AAAA
1 AAAAAG AA-AAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
2810586 TATAGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.15
6 20 0.59
7 8 0.24
8 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2810572 original size:17 final size:17
Alignment explanation
Indices: 2810537--2810605 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
2810527 TAAGCTCAGC
* * *
2810537 AAAAAAAGAAGGAAGAG
1 AAAAAAAAAAGAAAAAG
* *
2810554 AAAAGAGAAAGAAAAAG
1 AAAAAAAAAAGAAAAAG
2810571 AAAAAAAAAAGAAAATATAG
1 AAAAAAAAAAG-AAA-A-AG
*
2810591 AAAAAAAATAGAAAA
1 AAAAAAAAAAGAAAA
2810606 GCTAGGCTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
17 21 0.51
18 4 0.10
19 4 0.10
20 12 0.29
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAG
Found at i:2811852 original size:162 final size:160
Alignment explanation
Indices: 2811516--2811978 Score: 701
Period size: 161 Copynumber: 2.9 Consensus size: 160
2811506 AAAATTAAAC
* * *
2811516 AATATTTATTTTTTTTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTTAAA
1 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAAGGTATAAAAGA-TTTCAA
* **
2811581 AACCTTTCGTATTCTTTCGAGCTTCCATTAGGGTACGAATGGTATTTTCAAAAATAAATAAAATT
65 AACCCTTCGTATTCTTTCGAGCTTCCATTAGGGTAAAAATGGTATTTTCAAAAATAAATAAAATT
** *
2811646 AGCTTAAATTGGTATTATTGGGATAAATTAT
130 AAATTAAATTGGTATTATTGAGATAAATTAT
*
2811677 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAAGGTATAAAATATTTCAAA
1 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAAGGTATAAAAGATTTCAAA
* *
2811742 ACCCTGTCGTATTCTTTCGGGCTTCCATTAGGGTATAAAATGGTATTTTTAAAAATAAATAAAAT
66 ACCCT-TCGTATTCTTTCGAGCTTCCATTAGGGTA-AAAATGGTATTTTCAAAAATAAATAAAAT
*
2811807 TAAATTAAATTGGTATTATTGAGATAAATTCT
129 TAAATTAAATTGGTATTATTGAGATAAATTAT
* *
2811839 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGTATCCGTAGAGGTATAAAAGATTTCAAA
1 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAAGGTATAAAAGATTTCAAA
* * * * *
2811904 ACCCTTCGTATTCTTTCAAGATTTCATTAGGGTACGAAATGATATTTTCAAAAATAAATAAAATT
66 ACCCTTCGTATTCTTTCGAGCTTCCATTAGGGTA-AAAATGGTATTTTCAAAAATAAATAAAATT
*
2811969 AAATTGAATT
130 AAATTAAATT
2811979 AATACTTTCG
Statistics
Matches: 275, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
160 10 0.04
161 144 0.52
162 121 0.44
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (160 bp):
AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAAGGTATAAAAGATTTCAAA
ACCCTTCGTATTCTTTCGAGCTTCCATTAGGGTAAAAATGGTATTTTCAAAAATAAATAAAATTA
AATTAAATTGGTATTATTGAGATAAATTAT
Found at i:2819569 original size:19 final size:19
Alignment explanation
Indices: 2819547--2819585 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2819537 TTCTTCTCTA
* *
2819547 TTTTTCCTTTTTTTCTTTC
1 TTTTTCCTTCTTTCCTTTC
*
2819566 TTTTTTCTTCTTTCCTTTC
1 TTTTTCCTTCTTTCCTTTC
2819585 T
1 T
2819586 ATCTAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTCCTTCTTTCCTTTC
Found at i:2819576 original size:14 final size:13
Alignment explanation
Indices: 2819549--2819583 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
2819539 CTTCTCTATT
2819549 TTTCCTTTTTTTC
1 TTTCCTTTTTTTC
*
2819562 TTTCTTTTTTCTTC
1 TTTCCTTTTT-TTC
2819576 TTTCCTTT
1 TTTCCTTT
2819584 CTATCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCCTTTTTTTC
Found at i:2821744 original size:84 final size:83
Alignment explanation
Indices: 2821541--2821747 Score: 263
Period size: 84 Copynumber: 2.5 Consensus size: 83
2821531 TAAAATCGAC
* * * *
2821541 AAGTCAACAAAGGATAAAGAAATTTACCTAGGACTAAGACAATTGGTAAACAAGGGATGAAAGGT
1 AAGTCAACAAAGGATAAAGAAATTTACCAAGGACTGAG-CAATAGGTAAACAAGGGATAAAAGGT
2821606 TGACCAAGGCTGAACCGAT
65 TGACCAAGGCTGAACCGAT
* * * * * *
2821625 AAGTCAATAATGGATAAAGGAGTTCACCAAGGACTGAGCTGATAGGT-AACTAAGGGATAAAAGG
1 AAGTCAACAAAGGATAAAGAAATTTACCAAGGACTGAGC-AATAGGTAAAC-AAGGGATAAAAGG
*
2821689 TTGACCAGGGCTGAACCGAT
64 TTGACCAAGGCTGAACCGAT
* *
2821709 AAGTCAACAAAGGGTAAAGAAATTTATCAAGGACTGAGC
1 AAGTCAACAAAGGATAAAGAAATTTACCAAGGACTGAGC
2821748 CGACAAGCAA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
83 4 0.04
84 99 0.96
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (83 bp):
AAGTCAACAAAGGATAAAGAAATTTACCAAGGACTGAGCAATAGGTAAACAAGGGATAAAAGGTT
GACCAAGGCTGAACCGAT
Found at i:2822116 original size:44 final size:44
Alignment explanation
Indices: 2822043--2822429 Score: 329
Period size: 44 Copynumber: 8.8 Consensus size: 44
2822033 GTAACCATGC
* * * *
2822043 GAAAAGAATCTGACCAAGGTGGTAGCCATATGTCAGACCGAAAT
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCGAAAT
* * * * *
2822087 GAGAAGAGTTTGACCAGGGTGGTAACCATA-ATCAAACAGGAAT
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCGAAAT
** * * * * *
2822130 GAGGTAG-ATTTGACTAAGGTGATAACCATATGTCAAATCAAAAT
1 GA-AAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCGAAAT
* * *
2822174 GAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCGAAAT
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCGAAAT
* * * * * *
2822218 GATAAGAGTTTGACCAAGGTGGTAACCATACGTTAAACAGGAAA-
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAAC-CGAAAT
** *
2822262 GAGGCAG-ATTTGACCAGGGTGGTAACCATATGTCAAATC-AGAAT
1 GA-AAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCGA-AAT
* * *
2822306 GAAAAGAATCTAACCAGGGTAGTAACCATATGTCAAA-CGAAAAT
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCG-AAAT
** * *
2822350 GAAAAGTGTTTAACCAGGGTGGTAACCATATGTTAAACAC-AAAT
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAAC-CGAAAT
* * *
2822394 GAAAAGAACTTAACCAGGGTGGTAACCATACGTCAA
1 GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAA
2822430 GAAGAATAAA
Statistics
Matches: 272, Mismatches: 59, Indels: 24
0.77 0.17 0.07
Matches are distributed among these distances:
42 1 0.00
43 37 0.14
44 226 0.83
45 7 0.03
46 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (44 bp):
GAAAAGAATTTGACCAGGGTGGTAACCATATGTCAAACCGAAAT
Found at i:2822322 original size:132 final size:131
Alignment explanation
Indices: 2822043--2822388 Score: 487
Period size: 132 Copynumber: 2.6 Consensus size: 131
2822033 GTAACCATGC
* * *
2822043 GAAAAGAATCTGACCAAGGTGGTAGCCATATGTCAGACCGAAATGAGAAGAGTTTGACCAGGGTG
1 GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTG
* * * * *
2822108 GTAACCATAATCAAACAGGAATGAGGTAGATTTGACTAAGGTGATAACCATATGTCAAATCAAAA
66 GTAACCATAGTTAAACAGGAAAGAGGCAGATTTGACCAAGGTGATAACCATATGTCAAATCAAAA
2822173 T
131 T
* * *
2822174 GAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCGAAATGATAAGAGTTTGACCAAGGTG
1 GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTG
* * *
2822239 GTAACCATACGTTAAACAGGAAAGAGGCAGATTTGACCAGGGTGGTAACCATATGTCAAATCAGA
66 GTAACCATA-GTTAAACAGGAAAGAGGCAGATTTGACCAAGGTGATAACCATATGTCAAATCAAA
2822304 AT
130 AT
* * * * *
2822306 GAAAAGAATCTAACCAGGGTAGTAACCATATGTCA-AACGAAAATGAAAAGTGTTTAACCAGGGT
1 GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCG-AAATGAAAAGAGTTTGACCAGGGT
2822370 GGTAACCATATGTTAAACA
65 GGTAACCATA-GTTAAACA
2822389 CAAATGAAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
131 72 0.38
132 119 0.62
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (131 bp):
GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTG
GTAACCATAGTTAAACAGGAAAGAGGCAGATTTGACCAAGGTGATAACCATATGTCAAATCAAAA
T
Found at i:2822410 original size:132 final size:131
Alignment explanation
Indices: 2822043--2822429 Score: 483
Period size: 132 Copynumber: 2.9 Consensus size: 131
2822033 GTAACCATGC
* * *
2822043 GAAAAGAATCTGACCAAGGTGGTAGCCATATGTCAGACCGAAATGAGAAGAGTTTGACCAGGGTG
1 GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTG
* * * * * * *
2822108 GTAACCATAATCAAACAGGAATGAGGTAGATTTGACTAAGGTGATAACCATATGTCAAATCAAAA
66 GTAACCATAGTTAAACAGAAATGAGGAAGATTTGACCAGGGTGGTAACCATATGTCAAATCAAAA
2822173 T
131 T
* * *
2822174 GAAAAGAATCTGACCAGGGTGGTAACCATACGTCAGACCGAAATGATAAGAGTTTGACCAAGGTG
1 GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTG
* *
2822239 GTAACCATACGTTAAACAGGAAA-GAGGCAGATTTGACCAGGGTGGTAACCATATGTCAAATCAG
66 GTAACCATA-GTTAAACA-GAAATGAGGAAGATTTGACCAGGGTGGTAACCATATGTCAAATCAA
2822303 AAT
129 AAT
* * * * *
2822306 GAAAAGAATCTAACCAGGGTAGTAACCATATGTCA-AACGAAAATGAAAAGTGTTTAACCAGGGT
1 GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCG-AAATGAAAAGAGTTTGACCAGGGT
* * * * *
2822370 GGTAACCATATGTTAAACACAAATGA-AAAGAACTTAACCAGGGTGGTAACCATACGTCAA
65 GGTAACCATA-GTTAAACAGAAATGAGGAAG-ATTTGACCAGGGTGGTAACCATATGTCAA
2822430 GAAGAATAAA
Statistics
Matches: 223, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
131 77 0.35
132 143 0.64
133 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (131 bp):
GAAAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAAAAGAGTTTGACCAGGGTG
GTAACCATAGTTAAACAGAAATGAGGAAGATTTGACCAGGGTGGTAACCATATGTCAAATCAAAA
T
Found at i:2823454 original size:16 final size:15
Alignment explanation
Indices: 2823433--2823462 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2823423 ATTGGCCTAA
2823433 CAAGATCAAGGTTCAT
1 CAAGATCAA-GTTCAT
2823449 CAAGATCAAGTTCA
1 CAAGATCAAGTTCA
2823463 AGAAGATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (15 bp):
CAAGATCAAGTTCAT
Found at i:2823468 original size:15 final size:16
Alignment explanation
Indices: 2823431--2823469 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
2823421 AAATTGGCCT
2823431 AACAAGATCAAGGTTC
1 AACAAGATCAAGGTTC
*
2823447 ATCAAGATCAA-GTTC
1 AACAAGATCAAGGTTC
*
2823462 AAGAAGAT
1 AACAAGAT
2823470 GTCTTTCGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (16 bp):
AACAAGATCAAGGTTC
Found at i:2824751 original size:13 final size:13
Alignment explanation
Indices: 2824714--2824751 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2824704 AACTCACTCA
*
2824714 GTATCGATACAGT
1 GTATCGATACATT
*
2824727 GTATCAATACATT
1 GTATCGATACATT
2824740 GTATCGATACAT
1 GTATCGATACAT
2824752 GGTGAAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2830146 original size:13 final size:13
Alignment explanation
Indices: 2830128--2830158 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2830118 ACTTTTCACT
*
2830128 ATGTATCGATATA
1 ATGTATCGACATA
2830141 ATGTATCGACATA
1 ATGTATCGACATA
2830154 ATGTA
1 ATGTA
2830159 CCAAGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGACATA
Found at i:2835519 original size:12 final size:12
Alignment explanation
Indices: 2835504--2835551 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
2835494 TAGCTAGTTT
2835504 TCTATTTTCTTC
1 TCTATTTTCTTC
*
2835516 TCTATTTT-TCC
1 TCTATTTTCTTC
2835527 TCT-TTTTCTT-
1 TCTATTTTCTTC
*
2835537 TCTTTTTTCTTC
1 TCTATTTTCTTC
2835549 TCT
1 TCT
2835552 CTCTTTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 7 0.23
11 13 0.42
12 11 0.35
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTATTTTCTTC
Found at i:2838392 original size:147 final size:149
Alignment explanation
Indices: 2837928--2838499 Score: 680
Period size: 148 Copynumber: 3.9 Consensus size: 149
2837918 ATGCCAAAGA
* * * **
2837928 TACATATTAGGCATAGGTTCACTTTTACTTTTTCAAGTCCTCGAGGCTCACCAGGCACTTCTAAG
1 TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCAAGTCCTCTAGAATCACCAGGCACTTCTAAG
* ** *
2837993 TCGATAGTAGACCTTAAAAACCTTTTAGCATTTTTCCT-AAAACCTAGCCCTATGAAATTACC-A
66 TCGATGGTAGACCTTAAGGACCTTTTAGCATTTTTCCTCAAAACCTAGCCCTATGAAACTACCGA
2838056 GGTTGCTTCTATGCTAACGG
131 -GTTGCTTCTATGCTAACGG
* * * *
2838076 TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCAAGTCCTCTAAAATCATCAGGCATTTCTAAA
1 TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCAAGTCCTCTAGAATCACCAGGCACTTCTAAG
* * * * *
2838141 TCGATGGTAGACTTTAAGGACTTTTTAGCTTTTTTCCCTCAAAACCTATCCCTATGAAACTACTG
66 TCGATGGTAGACCTTAAGGACCTTTTAGCATTTTT-CCTCAAAACCTAGCCCTATGAAACTACCG
* * *
2838206 GGTTGCCTCTATGCTAAGGG
130 AGTTGCTTCTATGCTAACGG
* * *
2838226 TACGTATTAGGTGTAGGTTCGCTTTTAC-TTTTCAAGTCCTCTAGGATCACC-GAGCACTTCTAA
1 TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCAAGTCCTCTAGAATCACCAG-GCACTTCTAA
* *
2838289 GTCAATGGTAGACCTT-AGAGACCTTTTAGCATTTTT-CT-AGAAACCTAGCCCTATGAAATTAC
65 GTCGATGGTAGACCTTAAG-GACCTTTTAGCATTTTTCCTCA-AAACCTAGCCCTATGAAACTAC
* * *
2838351 CGAATTGCTTCTATG-TCGATGG
128 CGAGTTGCTTCTATGCT-AACGG
* * * *
2838373 TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCGAGTCCT-TTGTAATCACTA-GCATTTCTAA
1 TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCAAGTCCTCTAG-AATCACCAGGCACTTCTAA
* *
2838436 GTCGATGGTAGACCTTAAGGACCTTTTAGCATTTTT-CTCCCAAACCTAGCCTTATGAAACTACC
65 GTCGATGGTAGACCTTAAGGACCTTTTAGCATTTTTCCT-CAAAACCTAGCCCTATGAAACTACC
2838500 ATCTCGCTTA
Statistics
Matches: 360, Mismatches: 51, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
146 2 0.01
147 107 0.30
148 127 0.35
149 60 0.17
150 64 0.18
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (149 bp):
TACATATTAGGCGTAGGTTCGCTTTTACTTTTTCAAGTCCTCTAGAATCACCAGGCACTTCTAAG
TCGATGGTAGACCTTAAGGACCTTTTAGCATTTTTCCTCAAAACCTAGCCCTATGAAACTACCGA
GTTGCTTCTATGCTAACGG
Found at i:2839307 original size:33 final size:33
Alignment explanation
Indices: 2839261--2839363 Score: 138
Period size: 33 Copynumber: 3.1 Consensus size: 33
2839251 GTCGTTTGAG
2839261 ACAATGTATCGATACAAT-T-CCTTATGTATCCAT
1 ACAATGTATCGATACAATGTGCC--ATGTATCCAT
* **
2839294 ACATTGTATCGATACAATGTGCCATGTATTGAT
1 ACAATGTATCGATACAATGTGCCATGTATCCAT
*
2839327 ACAATGTATCGATACAATGTGCCATGTATCGAT
1 ACAATGTATCGATACAATGTGCCATGTATCCAT
2839360 ACAA
1 ACAA
2839364 ACAGTGGTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
33 60 0.95
34 1 0.02
35 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTGCCATGTATCCAT
Found at i:2839335 original size:13 final size:13
Alignment explanation
Indices: 2839317--2839346 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2839307 ACAATGTGCC
*
2839317 ATGTATTGATACA
1 ATGTATCGATACA
2839330 ATGTATCGATACA
1 ATGTATCGATACA
2839343 ATGT
1 ATGT
2839347 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2839355 original size:20 final size:20
Alignment explanation
Indices: 2839298--2839363 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
2839288 ATCCATACAT
2839298 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
*
2839318 TGTATTGATAC-A------A
1 TGTATCGATACAATGTGCCA
2839331 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
2839351 TGTATCGATACAA
1 TGTATCGATACAA
2839364 ACAGTGGTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
19 1 0.03
20 24 0.65
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAATGTGCCA
Found at i:2839435 original size:39 final size:39
Alignment explanation
Indices: 2839392--2839467 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
2839382 CTGTCAGTTT
* *
2839392 CATGTATCGATACAGTTGTGCATGTATCAATACAATGAA
1 CATGTATCAATACAATTGTGCATGTATCAATACAATGAA
2839431 CATGTATCAATACAATTGTGCATGTATCAATACAATG
1 CATGTATCAATACAATTGTGCATGTATCAATACAATG
2839468 TATCGATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (39 bp):
CATGTATCAATACAATTGTGCATGTATCAATACAATGAA
Found at i:2839436 original size:19 final size:19
Alignment explanation
Indices: 2839412--2839467 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
2839402 TACAGTTGTG
2839412 CATGTATCAATACAATGAA
1 CATGTATCAATACAATGAA
**
2839431 CATGTATCAATACAATTGTG
1 CATGTATCAATACAA-TGAA
2839451 CATGTATCAATACAATG
1 CATGTATCAATACAATG
2839468 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.30
Consensus pattern (19 bp):
CATGTATCAATACAATGAA
Found at i:2839465 original size:20 final size:20
Alignment explanation
Indices: 2839392--2839466 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
2839382 CTGTCAGTTT
* *
2839392 CATGTATCGATACAGTTGTG
1 CATGTATCAATACAATTGTG
**
2839412 CATGTATCAATACAA-TGAA
1 CATGTATCAATACAATTGTG
2839431 CATGTATCAATACAATTGTG
1 CATGTATCAATACAATTGTG
2839451 CATGTATCAATACAAT
1 CATGTATCAATACAAT
2839467 GTATCGATAC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.35
20 31 0.65
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCAATACAATTGTG
Found at i:2842052 original size:13 final size:13
Alignment explanation
Indices: 2842034--2842058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2842024 TAGTAACCCA
2842034 TGTATCGATACAT
1 TGTATCGATACAT
2842047 TGTATCGATACA
1 TGTATCGATACA
2842059 AAGAACATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2846090 original size:20 final size:20
Alignment explanation
Indices: 2846065--2846183 Score: 68
Period size: 20 Copynumber: 5.8 Consensus size: 20
2846055 ATTTGAGACA
2846065 ATGTATCGATACAATGTGTC
1 ATGTATCGATACAATGTGTC
*
2846085 ATGTATCGATAGAAATAGTGGT-
1 ATGTATCGATA-CAAT-GT-GTC
* * * *
2846107 ACGATAACTATTGCCAAT-T-TC
1 ATG-TATCGA-T-ACAATGTGTC
2846128 ATGTATCGATACAATTGTGT-
1 ATGTATCGATACAA-TGTGTC
* *
2846148 ATGTATGGATACAATG-ATC
1 ATGTATCGATACAATGTGTC
*
2846167 ATGTATCGACACAATGT
1 ATGTATCGATACAATGT
2846184 ATCGATACAA
Statistics
Matches: 73, Mismatches: 14, Indels: 24
0.66 0.13 0.22
Matches are distributed among these distances:
18 4 0.05
19 18 0.25
20 30 0.41
21 6 0.08
22 5 0.07
23 6 0.08
24 4 0.05
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTGTC
Found at i:2846172 original size:19 final size:18
Alignment explanation
Indices: 2846121--2846183 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
2846111 TAACTATTGC
*
2846121 CAATTTCATGTATCGATA
1 CAATGTCATGTATCGATA
* *
2846139 CAATTGTGTATGTATGGATA
1 CAA-TGT-CATGTATCGATA
*
2846159 CAATGATCATGTATCGACA
1 CAATG-TCATGTATCGATA
2846178 CAATGT
1 CAATGT
2846184 ATCGATACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.11
19 18 0.50
20 14 0.39
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (18 bp):
CAATGTCATGTATCGATA
Found at i:2851661 original size:19 final size:19
Alignment explanation
Indices: 2851637--2851699 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2851627 TAGCCAAACT
2851637 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
*
2851656 TGTATCGAT----ATA--A
1 TGTATCGATACACAAAGTA
2851669 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
2851688 TGTATCGATACA
1 TGTATCGATACA
2851700 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:2851678 original size:32 final size:32
Alignment explanation
Indices: 2851637--2851732 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
2851627 TAGCCAAACT
*
2851637 TGTATCGATACACAAAGTATGTATCGATATAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
2851669 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
**
2851701 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAGTA-TGTATCGATACA
2851733 TTGGCTTGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.80
33 12 0.20
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:2851705 original size:13 final size:13
Alignment explanation
Indices: 2851655--2851712 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
2851645 TACACAAAGT
*
2851655 ATGTATCGATATA
1 ATGTATCGATACA
2851668 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
2851685 GTATGTATCGATACA
1 --ATGTATCGATACA
2851700 ATGTATCGATACA
1 ATGTATCGATACA
2851713 CAAAAAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 3 0.08
19 10 0.26
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2857866 original size:13 final size:13
Alignment explanation
Indices: 2857848--2857886 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2857838 ACATTTTTCT
2857848 TTGTATCGATACA
1 TTGTATCGATACA
2857861 TTGTATCGATACA
1 TTGTATCGATACA
*
2857874 CTGTATCGATACA
1 TTGTATCGATACA
2857887 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2859548 original size:23 final size:21
Alignment explanation
Indices: 2859506--2859548 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
2859496 GTTTAATGTT
**
2859506 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
2859527 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
2859549 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:2860467 original size:13 final size:13
Alignment explanation
Indices: 2860449--2860474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2860439 TACACAAAGT
2860449 ATGTATCGATACA
1 ATGTATCGATACA
2860462 ATGTATCGATACA
1 ATGTATCGATACA
2860475 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2860472 original size:32 final size:33
Alignment explanation
Indices: 2860431--2860494 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2860421 TAGCCCAACT
**
2860431 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2860463 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2860495 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2864895 original size:19 final size:20
Alignment explanation
Indices: 2864871--2864910 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
2864861 ACAATTCTGT
2864871 ATGTATCAATACAATG-ATC
1 ATGTATCAATACAATGTATC
*
2864890 ATGTATCGATACAATGTATC
1 ATGTATCAATACAATGTATC
2864910 A
1 A
2864911 ATACAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGTATCAATACAATGTATC
Found at i:2864907 original size:32 final size:33
Alignment explanation
Indices: 2864871--2864935 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
2864861 ACAATTCTGT
* *
2864871 ATGTATCAATACAATG-ATCATGTATCGATACA
1 ATGTATCAATACAAAGCATAATGTATCGATACA
2864903 ATGTATCAATACAAAGCATAATGTATCGATACA
1 ATGTATCAATACAAAGCATAATGTATCGATACA
2864936 TCTGGATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (33 bp):
ATGTATCAATACAAAGCATAATGTATCGATACA
Found at i:2869201 original size:22 final size:23
Alignment explanation
Indices: 2869171--2869214 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
2869161 GTATATTTTA
2869171 ATTTATTAT-TATT-AAATTAAAT
1 ATTTATTATAT-TTAAAATTAAAT
*
2869193 ATTTTTTATATTTAAAATTAAA
1 ATTTATTATATTTAAAATTAAA
2869215 ATAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTATTATATTTAAAATTAAAT
Found at i:2869453 original size:30 final size:31
Alignment explanation
Indices: 2869412--2869471 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
2869402 ATAATTTTTT
*
2869412 ATATATTAATTTCA-AATATATAAAATAAAAA
1 ATATATTAATTTAATAATA-ATAAAATAAAAA
*
2869443 ATAT-TTAATTTAATAATAATAAATTAAAA
1 ATATATTAATTTAATAATAATAAAATAAAA
2869472 TTAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
ATATATTAATTTAATAATAATAAAATAAAAA
Found at i:2873633 original size:103 final size:102
Alignment explanation
Indices: 2873381--2873844 Score: 504
Period size: 103 Copynumber: 4.5 Consensus size: 102
2873371 TTAATTGTAG
* * * * * * * * *
2873381 TTGAAAAGCGGGATTGGAGTATCCTCTCGGAAAGAT-GAGGTTGGAGTATCCCCATTGATTACAA
1 TTGAAGAGCGGGGTTGGAGTATCCCCT-AGAAAGGTCGGGGTTCGAGTATCCCCATGGATAACAA
* * * *
2873445 ATAATTTTGACAAAGAAGAATTCAAACCTTGACACATT
65 ATAATTTTGACAAAGAAGAATTCAAATCTAGATAAATT
* **
2873483 TCGAAGAGCGGGGTTGGAGTATCCCCTCAGAAAAAT-GGGG-TCAGAGTATCCCCATGGATAACA
1 TTGAAGAGCGGGGTTGGAGTATCCCCT-AGAAAGGTCGGGGTTC-GAGTATCCCCATGGATAACA
* *
2873546 AATAATTTTGACAAATGAGGAATTCAATTCTAGATAAATT
64 AATAATTTTGACAAA-GAAGAATTCAAATCTAGATAAATT
* ** *
2873586 TTGAAGAGCGGGGTTGGAATATCTTCTTGAAAGGTCGGGGTTCGAGTATCCCCATGGATAACAAA
1 TTGAAGAGCGGGGTTGGAGTATCCCCTAGAAAGGTCGGGGTTCGAGTATCCCCATGGATAACAAA
*
2873651 TAATTTTGACAAAGAAAGAGTTCAAATCTAGATAAATT
66 TAATTTTGACAAAG-AAGAATTCAAATCTAGATAAATT
* * * * * * * *
2873689 TTGAAGAGCGAGGCTAGAGTATCCCCTCGAAAGGTCAGGGTTGGAGTATTCCCGTGGATAACAAA
1 TTGAAGAGCGGGGTTGGAGTATCCCCTAGAAAGGTCGGGGTTCGAGTATCCCCATGGATAACAAA
* *
2873754 TAATTTTGACAAAGGAGGAGTTCAAATCTAGATAAATT
66 TAATTTTGACAAA-GAAGAATTCAAATCTAGATAAATT
* ** *
2873792 TTGAAGAGCGGGGTTGGAGTATACCCTCA-AAAGGTCAAGGTTAGAGTATCCCC
1 TTGAAGAGCGGGGTTGGAGTATCCCCT-AGAAAGGTCGGGGTTCGAGTATCCCC
2873845 TCAAAAGGTT
Statistics
Matches: 309, Mismatches: 46, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
101 1 0.00
102 72 0.23
103 233 0.75
104 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (102 bp):
TTGAAGAGCGGGGTTGGAGTATCCCCTAGAAAGGTCGGGGTTCGAGTATCCCCATGGATAACAAA
TAATTTTGACAAAGAAGAATTCAAATCTAGATAAATT
Found at i:2873786 original size:206 final size:205
Alignment explanation
Indices: 2873419--2873809 Score: 559
Period size: 206 Copynumber: 1.9 Consensus size: 205
2873409 GGAAAGATGA
* * * * *
2873419 GGTTGGAGTATCCCCATTGATTACAAATAATTTTGACAAAGAAGAATTCAAACCTTGACACATTT
1 GGTTCGAGTATCCCCATGGATAACAAATAATTTTGACAAAGAAGAATTCAAACCTAGACAAATTT
* * * *
2873484 CGAAGAGCGGGGTTGGAGTATCCCCTCAGAAAAATGGGGTCAGAGTATCCCCATGGATAACAAAT
66 CGAAGAGCGAGGCTAGAGTATCCCCTCAGAAAAATAGGGTCAGAGTATCCCCATGGATAACAAAT
* *
2873549 AATTTTGACAAATGAGGAATTCAATTCTAGATAAATTTTGAAGAGCGGGGTTGGAATATCTTCTT
131 AATTTTGACAAAGGAGGAATTCAAATCTAGATAAATTTTGAAGAGCGGGGTTGGAATATCTTCTT
2873614 GAAAGGTCGG
196 GAAAGGTCGG
* * *
2873624 GGTTCGAGTATCCCCATGGATAACAAATAATTTTGACAAAGAAAGAGTTCAAATCTAGATAAATT
1 GGTTCGAGTATCCCCATGGATAACAAATAATTTTGACAAAG-AAGAATTCAAACCTAGACAAATT
* ** ** * *
2873689 TTGAAGAGCGAGGCTAGAGTATCCCCTC-GAAAGGTCAGGGTTGGAGTATTCCCGTGGATAACAA
65 TCGAAGAGCGAGGCTAGAGTATCCCCTCAGAAAAAT-AGGGTCAGAGTATCCCCATGGATAACAA
*
2873753 ATAATTTTGACAAAGGAGGAGTTCAAATCTAGATAAATTTTGAAGAGCGGGGTTGGA
129 ATAATTTTGACAAAGGAGGAATTCAAATCTAGATAAATTTTGAAGAGCGGGGTTGGA
2873810 GTATACCCTC
Statistics
Matches: 162, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
205 43 0.27
206 119 0.73
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (205 bp):
GGTTCGAGTATCCCCATGGATAACAAATAATTTTGACAAAGAAGAATTCAAACCTAGACAAATTT
CGAAGAGCGAGGCTAGAGTATCCCCTCAGAAAAATAGGGTCAGAGTATCCCCATGGATAACAAAT
AATTTTGACAAAGGAGGAATTCAAATCTAGATAAATTTTGAAGAGCGGGGTTGGAATATCTTCTT
GAAAGGTCGG
Found at i:2873860 original size:27 final size:27
Alignment explanation
Indices: 2873800--2873869 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
2873790 TTTTGAAGAG
*
2873800 CGGGGTTGGAGTATACCCTCAAAAGGT
1 CGGGGTTGGAGTATCCCCTCAAAAGGT
** *
2873827 CAAGGTTAGAGTATCCCCTCAAAAGGT
1 CGGGGTTGGAGTATCCCCTCAAAAGGT
* *
2873854 TGGGGTTGGAGAATCC
1 CGGGGTTGGAGTATCC
2873870 TCATGCTAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCTCAAAAGGT
Found at i:2873895 original size:129 final size:130
Alignment explanation
Indices: 2873703--2873942 Score: 376
Period size: 129 Copynumber: 1.9 Consensus size: 130
2873693 AGAGCGAGGC
* * * *
2873703 TAGAGTATCCCCTCGAAAGGTCAGGGTTGGAGTATTCCCGTGGATAACAAATAATTTTGACAAAG
1 TAGAGTATCCCCTCAAAAGGTCAGGGTTGGAGTAATCCCATGGATAACAAATAATTTTGACAAAA
*
2873768 GAGGAGTTCAAATCTAGATAAATTTTGAAGAGCGGGGTTGGAGTATACCCTCAAAAGGTCAAGGT
66 GAGGAGTTCAAATCTAGATAAATTTTGAAGAACGGGGTTGGAGTATACCCTCAAAAGGTCAAGGT
** * *
2873833 TAGAGTATCCCCTCAAAAGGTTGGGGTTGGAG-AATCCTCAT-GCTAACAAATGATTTTGACAAA
1 TAGAGTATCCCCTCAAAAGGTCAGGGTTGGAGTAATCC-CATGGATAACAAATAATTTTGACAAA
2873896 AGAGGAGTTCAAATCTAGATAAATTTTGAAGAACGGGGTTGGAGTAT
65 AGAGGAGTTCAAATCTAGATAAATTTTGAAGAACGGGGTTGGAGTAT
2873943 CCCAATGGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
129 69 0.69
130 31 0.31
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (130 bp):
TAGAGTATCCCCTCAAAAGGTCAGGGTTGGAGTAATCCCATGGATAACAAATAATTTTGACAAAA
GAGGAGTTCAAATCTAGATAAATTTTGAAGAACGGGGTTGGAGTATACCCTCAAAAGGTCAAGGT
Found at i:2873965 original size:76 final size:73
Alignment explanation
Indices: 2873855--2874020 Score: 215
Period size: 76 Copynumber: 2.2 Consensus size: 73
2873845 TCAAAAGGTT
* * * *
2873855 GGGGTTGGAGAATCCTCATGCTAACAAATGATTTTGACAAAAGAGGAGTTCAAATCTAGATAAAT
1 GGGGTTGGAGTATCC-CATGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTAAATAAA-
2873920 TTTGAAGAAC
64 TTTGAAGAAC
*
2873930 GGGGTTGGAGTATCCCAATGGATAACAAATAATTTTGACAAAGGAGGAGTTCAAATCTAAATAAA
1 GGGGTTGGAGTATCCC-AT-GATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTAAATAAA
**
2873995 TTTGAAGAGT
64 TTTGAAGAAC
* *
2874005 AGAGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
2874021 CGTGAATAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
74 1 0.01
75 38 0.47
76 41 0.51
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (73 bp):
GGGGTTGGAGTATCCCATGATAACAAATAATTTTGACAAAAGAGGAGTTCAAATCTAAATAAATT
TGAAGAAC
Found at i:2874419 original size:20 final size:20
Alignment explanation
Indices: 2874348--2874411 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
2874338 AATCCTTATT
*
2874348 TGTATCGATACATA-TACAGA
1 TGTATCGATACAAATTACA-A
* *
2874368 TGTATCGATACAAGTTGCAA
1 TGTATCGATACAAATTACAA
2874388 TGTATCGATACAAATTACAA
1 TGTATCGATACAAATTACAA
2874408 TGTA
1 TGTA
2874412 ATGATACATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
20 35 0.92
21 3 0.08
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAATTACAA
Found at i:2877558 original size:52 final size:52
Alignment explanation
Indices: 2877424--2877560 Score: 163
Period size: 52 Copynumber: 2.6 Consensus size: 52
2877414 TGCCTGCATG
* * * * *
2877424 TATCGATAC-ATTAAAGAATGCATCGATACACTTGGGTGAAAAACCTAGAATG
1 TATCGATACAATGAAA-AATGTATCGATACATTTGGGTCAAAAACCTAGAATA
*
2877476 TATCGATA-AACTGAAAAATGTATCGATACATTTGGGTCAAAAA-CTCATAATA
1 TATCGATACAA-TGAAAAATGTATCGATACATTTGGGTCAAAAACCT-AGAATA
*
2877528 TATCGATACAATGAAAAATGTATAGATACATTT
1 TATCGATACAATGAAAAATGTATCGATACATTT
2877561 TCTTTTCAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
51 2 0.03
52 66 0.89
53 6 0.08
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (52 bp):
TATCGATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCTAGAATA
Found at i:2879026 original size:78 final size:82
Alignment explanation
Indices: 2878943--2879175 Score: 211
Period size: 80 Copynumber: 3.0 Consensus size: 82
2878933 AAGAATTCGA
*
2878943 TATTGTGGAAAT-AAAAAATGGGGTTGGAGTGTC-CCTT-CAGA-GGTAAGGGTTAGAGTAT-CC
1 TATTGTGGAAATAAAAAAAT-GGGTTGGAGTATCTCCTTGCAGATGGT-AGGGTTAGAGTATCCC
*
2879003 CAGAGAT-AAAAATTTTGG
64 CAAAGATGAAAAATTTTGG
* * *
2879021 TATTGTGGAAGTAAAAAAATGGGTTGGAGTATCTCCTTGGAGATGGTGGGGTTAGAGTATCCCCA
1 TATTGTGGAAATAAAAAAATGGGTTGGAGTATCTCCTTGCAGATGGTAGGGTTAGAGTATCCCCA
*
2879086 AAGATGAAAAA-TTTAG
66 AAGATGAAAAATTTTGG
* * * * * * * * *
2879102 CATTTTAGAAGTAAAAATA-GGGTTAGAGTATCCCCTCAG-AGATGGT-GGGTTGGAGTAT--CC
1 TATTGTGGAAATAAAAAAATGGGTTGGAGTATCTCCT-TGCAGATGGTAGGGTTAGAGTATCCCC
*
2879162 AGAGATGAAAAATT
65 AAAGATGAAAAATT
2879176 CGATGTTGTA
Statistics
Matches: 132, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
77 13 0.10
78 24 0.18
79 22 0.17
80 37 0.28
81 31 0.23
82 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (82 bp):
TATTGTGGAAATAAAAAAATGGGTTGGAGTATCTCCTTGCAGATGGTAGGGTTAGAGTATCCCCA
AAGATGAAAAATTTTGG
Found at i:2879371 original size:79 final size:80
Alignment explanation
Indices: 2878989--2879371 Score: 385
Period size: 79 Copynumber: 4.9 Consensus size: 80
2878979 TCAGAGGTAA
* ** * * *
2878989 GGGTTAGAGTAT-CCCAGAGAT-AAAAATTTTG-GTATTGTGGAAGTAAAAAAATGGGTTGGAGT
1 GGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGT-TT-TAGAAGT-AAAAATTGGGTTAGAGT
* **
2879051 ATCTCCTTGGAGATGGTG
63 ATCCCCTCAGAGATGGTG
* ** *
2879069 GGGTTAGAGTATCCCCAAAGATGAAAAATTTAGCATTTTAGAAGTAAAAATAGGGTTAGAGTATC
1 GGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGTTTTAGAAGTAAAAATTGGGTTAGAGTATC
2879134 CCCTCAGAGATGGT-
66 CCCTCAGAGATGGTG
* * * * *
2879148 GGGTTGGAGTAT--CCAGAGATGAAAAATTC-GATGTTGTAGAACT-AAAA-TGGGATAGGAGTA
1 GGGTTAGAGTATCCCCAAAGATGAAAAATTCAG-TGTTTTAGAAGTAAAAATTGGGTTA-GAGTA
2879208 TCCCCTCAGAGATGGTG
64 TCCCCTCAGAGATGGTG
** * * ** * *
2879225 GGGTTAGAGTATCCCCCGAGATGAAGAATTCAATGTTTTAGAAGT-AAAACGGGGTTGGATTATC
1 GGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGTTTTAGAAGTAAAAATTGGGTTAGAGTATC
2879289 CCCTCAGAGATGGTG
66 CCCTCAGAGATGGTG
*
2879304 GGGTCAGAGTATCCCCAAAGATG-AAAATTCAGTGTTTTAGAAGTAAAAATGTGGGTTAGAGTA-
1 GGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGTTTTAGAAGTAAAAAT-TGGGTTAGAGTAT
2879367 CCCCT
65 CCCCT
2879372 TTTGATGTTT
Statistics
Matches: 253, Mismatches: 38, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
75 5 0.02
76 26 0.10
77 34 0.13
78 19 0.08
79 90 0.36
80 53 0.21
81 14 0.06
82 11 0.04
83 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (80 bp):
GGGTTAGAGTATCCCCAAAGATGAAAAATTCAGTGTTTTAGAAGTAAAAATTGGGTTAGAGTATC
CCCTCAGAGATGGTG
Found at i:2881820 original size:21 final size:20
Alignment explanation
Indices: 2881771--2881824 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2881761 CATTACAAGC
* *
2881771 ATGTGTCGATACATTCACTT
1 ATGTATCGATACATTAACTT
2881791 ATGTATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
*
2881811 ATTTTATCGATACA
1 A-TGTATCGATACA
2881825 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:2887295 original size:20 final size:19
Alignment explanation
Indices: 2887239--2887296 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
2887229 TCAAAAACCC
* *
2887239 AGAATATATCGATACAATG
1 AGAATGTATCGATACATTG
*
2887258 AGAAATGTAACGATACATTG
1 AG-AATGTATCGATACATTG
2887278 AAGAATGTATCGATACATT
1 -AGAATGTATCGATACATT
2887297 TCGGTCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (19 bp):
AGAATGTATCGATACATTG
Found at i:2887307 original size:72 final size:72
Alignment explanation
Indices: 2887190--2887365 Score: 307
Period size: 72 Copynumber: 2.4 Consensus size: 72
2887180 ATTTGCCTAC
2887190 ATGTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATATCGATACA
1 ATGTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATATCGATACA
2887255 ATGAGAA
66 ATGAGAA
* *
2887262 ATGTAACGATACATTGAAGAATGTATCGATACATTTCGGTCAAAAACCCAGAATATATCGATACA
1 ATGTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATATCGATACA
2887327 ATGAGAA
66 ATGAGAA
*
2887334 ATGTATCGATACAATTGTAAGCATGTATCGAT
1 ATGTATCGATAC-ATTG-AAGAATGTATCGAT
2887366 GCATGTATCG
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
72 81 0.83
73 4 0.04
74 13 0.13
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (72 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATTTAGGTCAAAAACCCAGAATATATCGATACA
ATGAGAA
Found at i:2888195 original size:61 final size:61
Alignment explanation
Indices: 2888130--2888371 Score: 394
Period size: 61 Copynumber: 4.0 Consensus size: 61
2888120 TTGGAGTTAA
* * * * * *
2888130 AGATGCGAAGAATGATAATGGTGCCAATATGCTAATTCACGGCTAGCAATAACAGGCTTGT
1 AGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTTGT
2888191 AGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTTGT
1 AGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTTGT
*
2888252 TGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTTGT
1 AGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTTGT
* * *
2888313 AGATGAGAAGAATAACAAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGGCTT
1 AGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTT
2888372 AACAATGACC
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 170 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.25
Consensus pattern (61 bp):
AGATGAGAAGAATAATAAAGGTGCCAATATGCTGATTCACGGCTAGCGATATCAGGCTTGT
Found at i:2888397 original size:52 final size:51
Alignment explanation
Indices: 2888329--2888790 Score: 431
Period size: 52 Copynumber: 8.9 Consensus size: 51
2888319 GAAGAATAAC
* * *
2888329 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGG-CTTAACAATGAC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAA-AAAGAA
* * **
2888381 CAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAAAGAA
* * * * *
2888433 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AAGAA
* **
2888485 CAAGGCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-AAAGAA
* * * * * * *
2888537 AAATGTGCCAATGTGCTGAGTCAAGGCCAGCAACATTGGACTTAAAGATGAC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AAGAA
* * * * *
2888589 CAAGGCGCTAATATGTTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-AAAGAA
** * * * * *
2888641 AAAGGTGCCAACGTGTTGATTCAAGGCCAGTGACATTGGACTTAAAGATGAC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AAGAA
** * *
2888693 AAAGGCACCAATATGTTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA-AAAGAA
* * * * * * *
2888745 AAAGGTGCCAATGTGTTGATTCATGGCTAGTGACATTGGAATTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
2888791 GATAATAAAG
Statistics
Matches: 330, Mismatches: 72, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
51 8 0.02
52 317 0.96
53 5 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (51 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAAGAA
Found at i:2888509 original size:104 final size:104
Alignment explanation
Indices: 2888329--2888793 Score: 664
Period size: 104 Copynumber: 4.5 Consensus size: 104
2888319 GAAGAATAAC
* * * *
2888329 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTAGG-CTTAACA-ATGACCAAGGCGCCAA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAA-AGATGACCAAGGCACCAA
** *
2888392 TATGCTGATTCAAGGCCAATGATATTGGACTTAAAAAAGAA
64 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
*
2888433 AAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGCACCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGCACCAATA
2888498 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
* * * * *
2888537 AAATGTGCCAATGTGCTGAGTCAAGGCCAGCAACATTGGACTTAAAGATGACCAAGGCGCTAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGCACCAATA
* *
2888602 TGTTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAA
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
* * * *
2888641 AAAGGTGCCAACGTGTTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGCACCAATA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGCACCAATA
* *
2888706 TGTTGATTCAAGGCTAGCGATATTGGACTTAAGAAAGAA
66 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
* * * * *
2888745 AAAGGTGCCAATGTGTTGATTCATGGCTAGTGACATTGGAATTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
2888794 AATAAAGGCG
Statistics
Matches: 330, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
103 3 0.01
104 327 0.99
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (104 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACCAAGGCACCAATA
TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAAGAA
Found at i:2890069 original size:35 final size:34
Alignment explanation
Indices: 2890037--2890105 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 34
2890027 AAAGAAAAGG
*
2890037 AAAGT-GTCCTGCTTCTTAAGGACAAAGTGAAAA
1 AAAGTAGTCCTGCTTCTCAAGGACAAAGTGAAAA
* *
2890070 AGAGTACGTCCTGCTTCTCAAGGACAAA-AGAAAA
1 AAAGTA-GTCCTGCTTCTCAAGGACAAAGTGAAAA
2890104 AA
1 AA
2890106 GGAAAATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
33 4 0.13
34 6 0.20
35 20 0.67
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (34 bp):
AAAGTAGTCCTGCTTCTCAAGGACAAAGTGAAAA
Found at i:2890209 original size:88 final size:86
Alignment explanation
Indices: 2890090--2890445 Score: 368
Period size: 88 Copynumber: 4.1 Consensus size: 86
2890080 CTGCTTCTCA
* * *
2890090 AGGACAAAA--GAAAAAAGGAAAATGAAATGCGTCTTGCTCTTTGAGGATAAAGGA-AAAAGGAA
1 AGGACAAAAGGGAAAAGAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGA-AAAGGAGAAAAGGAA
2890152 AATAAAGTGCGTCCTGCTCTTTG
64 AATAAAGTGCGTCCTGCTCTTTG
** *
2890175 AAAACTAGAAGGGAAAAGTAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAA-G
1 AGGAC-AAAAGGGAAAAG-AGGAAATGAAGTGCGTCCTGCTCTTTGAGG--AAAAGGAGAAAAGG
2890239 AAGGGAATGGAACA-T--GTCCTGCTCTTTG
62 AA---AAT--AA-AGTGCGTCCTGCTCTTTG
* * * ** *
2890267 AGGACAAAAGAGAAAAG-GAAAATAAAGTATGTCCTGCTCTTTGAGGACAGAGGAGAAAAGGAAA
1 AGGACAAAAGGGAAAAGAGGAAATGAAGTGCGTCCTGCTCTTTGAGGA-AAAGGAGAAAAGGAAA
*
2890331 ATAAAATGCGTCCTGCTCTTTG
65 ATAAAGTGCGTCCTGCTCTTTG
* *
2890353 AGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAGGAGGAAGAGGAA
1 AGGACAAAAGGGAAAAG-AGGAAATGAAGTGCGTCCTGCTCTTTGAGGAAAAGGA-GAAAAGGAA
* *
2890418 AATAAAGTGCATCCTCCTCTTTG
64 AATAAAGTGCGTCCTGCTCTTTG
2890441 AGGAC
1 AGGAC
2890446 TAGGAGGTGC
Statistics
Matches: 224, Mismatches: 26, Indels: 39
0.78 0.09 0.13
Matches are distributed among these distances:
83 1 0.00
84 3 0.01
85 3 0.01
86 35 0.16
87 5 0.02
88 99 0.44
89 40 0.18
90 5 0.02
91 10 0.04
92 19 0.08
94 3 0.01
95 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (86 bp):
AGGACAAAAGGGAAAAGAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAAAAGGAGAAAAGGAAAA
TAAAGTGCGTCCTGCTCTTTG
Found at i:2890313 original size:43 final size:43
Alignment explanation
Indices: 2890090--2890445 Score: 339
Period size: 43 Copynumber: 8.1 Consensus size: 43
2890080 CTGCTTCTCA
* *
2890090 AGGACAAAAGAAAAAAGGAAAATGAAA-TGCGTCTTGCTCTTTG
1 AGGACAAAAGAGAAAAGGAAAAT-AAAGTGCGTCCTGCTCTTTG
* *
2890133 AGGATAAAGGA-AAAAGGAAAATAAAGTGCGTCCTGCTCTTTG
1 AGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTG
** * * * *
2890175 AAAACTAGAAGGGAAAAGTAGGAAATGAAGTGCGTCCTGCTCTTTG
1 AGGAC-AAAAGAGAAAAG--GAAAATAAAGTGCGTCCTGCTCTTTG
2890221 AGGACAAAAGGAGAAAA-GAAGGGAATGGAACA-T--GTCCTGCTCTTTG
1 AGGACAAAA-GAGAAAAGGAA---AAT--AA-AGTGCGTCCTGCTCTTTG
**
2890267 AGGACAAAAGAGAAAAGGAAAATAAAGTATGTCCTGCTCTTTG
1 AGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTG
* * *
2890310 AGGACAGAGGAGAAAAGGAAAATAAAATGCGTCCTGCTCTTTG
1 AGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTG
* * *
2890353 AGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
1 AGGACAAAAGAGAAAAG--GAAAATAAAGTGCGTCCTGCTCTTTG
* * * *
2890398 AGGAC-AAGGAGGAAGAGGAAAATAAAGTGCATCCTCCTCTTTG
1 AGGACAAAAGA-GAAAAGGAAAATAAAGTGCGTCCTGCTCTTTG
2890441 AGGAC
1 AGGAC
2890446 TAGGAGGTGC
Statistics
Matches: 259, Mismatches: 35, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.00
41 6 0.02
42 28 0.11
43 109 0.42
44 8 0.03
45 43 0.17
46 61 0.24
48 2 0.01
49 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (43 bp):
AGGACAAAAGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTG
Found at i:2890578 original size:60 final size:61
Alignment explanation
Indices: 2890421--2891116 Score: 825
Period size: 60 Copynumber: 11.4 Consensus size: 61
2890411 AGAGGAAAAT
* ** * *
2890421 AAAGTGCATCCTCCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTATAAAAAGAAA
1 AAAG-GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCT-TTAAAAG-GA
* * ** * * * **
2890485 AAAGACGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAAGTCGTGTGGGC-TTCGAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
*
2890545 GAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
2890606 AAAGGCGTCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGA
* ** * **
2890667 AAGAGGCATCCTGCTCTTTGAGAACTGGAAGGTGCCACCAACTCGTGTGGGCTTCGAAA-GA
1 AA-AGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
2890728 GAAA-GCGTCATGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 -AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-A
* * * * *
2890790 AAA-ACTTCCTGCTCTTTGAGAACTAAAGGGTGTCACCAACTTGTGTGGGCTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
**
2890850 AAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * * *
2890910 AAAGGCATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
2890970 GAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGTCACCAACTTGTGT-GGCTTTAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
** * * *
2891030 AAAGGTGTCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTCGGCTTTAAAAAGAAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GA
*
2891092 AAAGGCATCCTGCTCTTGGAGGACT
1 AAAGGCATCCTGCTCTTTGAGGACT
2891117 GGAAGGGCTA
Statistics
Matches: 540, Mismatches: 79, Indels: 28
0.83 0.12 0.04
Matches are distributed among these distances:
59 26 0.05
60 253 0.47
61 145 0.27
62 48 0.09
63 64 0.12
64 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (61 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:2890763 original size:183 final size:182
Alignment explanation
Indices: 2890421--2891116 Score: 850
Period size: 183 Copynumber: 3.8 Consensus size: 182
2890411 AGAGGAAAAT
* * *
2890421 AAAGTGCATCCTCCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTATAAAAAGAAAA
1 AAAG-GCATCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA
* * * * * * * *
2890486 AAGACGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAAGTCGTGTGGGCTTCGAAGGAGAAGGC
64 GAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCGAAAGAGAAAGC
*
2890551 ATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
128 ATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* *
2890606 AAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGA
* * *
2890671 GGCATCCTGCTCTTTGAGAACTGGAAGGTGCCACCAACTCGTGTGGGCTTCGAAAGAGAAAGCGT
66 GGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTCGAAAGAGAAAGCAT
* *
2890736 CATGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
130 CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-A
* * * * *
2890790 AAA-ACTTCCTGCTCTTTGAGAACTAAAGGGTGTCACCAACTTGTGTGGGCTTT-AAAAGGAAA-
1 AAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
* ** * *
2890852 AGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAGGCA
65 AGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCGAAAGAGAAA-GCA
* * *
2890917 TCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGA
129 TCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
* * *
2890970 GAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGTCACCAACTTGTGT-GGCTTTAAAAGGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG
* * * ** *
2891034 -GTG--TCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTCGGCTTTAAAAAGAAAAAAG
65 AG-GCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGC-TTCGAAAG-AGAAA-
*
2891096 GCATCCTGCTCTTGGAGGACT
126 GCATCCTGCTCTTTGAGGACT
2891117 GGAAGGGCTA
Statistics
Matches: 455, Mismatches: 46, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
180 50 0.11
181 86 0.19
182 97 0.21
183 170 0.37
184 48 0.11
185 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (182 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGA
GGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTCGAAAGAGAAAGCATC
CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
Found at i:2890882 original size:121 final size:120
Alignment explanation
Indices: 2890427--2891116 Score: 777
Period size: 121 Copynumber: 5.7 Consensus size: 120
2890417 AAATAAAGTG
* * * * *
2890427 CATCCTCCTCTTTGAGGACT-AGGAGGTGCCACCAACTTGTGTGGGCTATAAAAAGAAAAAAGAC
1 CATCCTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCT-TTAAAAG-GAAAAGGC
* * * * * ** **
2890491 GTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAAGTCGTGTGGGC-TTCGAAGGAGAAGG
63 ATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAA
* *
2890550 CATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 CATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* *
2890615 CTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGA
66 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-A
* * * **
2890671 GGCATCCTGCTCTTTGAGAACTGGAA-GGTGCCACCAACTCGTGTGGGCTTCGAAA-GAGAAA-G
1 --CATCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGG
* * *
2890733 CGTCATGCTCTTTAAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAAAAA
62 CATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAA
* * *
2890794 CTTCCTGCTCTTTGAGAACTAAAGGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
1 CATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
*
2890859 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAA
66 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
* * * *
2890913 GGCATCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAGGCA
1 --CATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
2890977 TCCTGCTCTTTGAGGACTAAAAGGTGTCACCAACTTGTGT-GGCTTTAAAAGGAAAAGG
64 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-A
** * * *
2891035 TGTCCTACTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTCGGCTTTAAAAAGAAAAAAGGCA
1 CATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCA
*
2891099 TCCTGCTCTTGGAGGACT
64 TCCTGCTCTTTGAGGACT
2891117 GGAAGGGCTA
Statistics
Matches: 492, Mismatches: 55, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
119 28 0.06
120 83 0.17
121 177 0.36
122 76 0.15
123 121 0.25
124 7 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (120 bp):
CATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAA
Found at i:2896601 original size:13 final size:13
Alignment explanation
Indices: 2896583--2896608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2896573 CAATGTTTTG
2896583 TGTATCGATACAT
1 TGTATCGATACAT
2896596 TGTATCGATACAT
1 TGTATCGATACAT
2896609 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2896620 original size:32 final size:33
Alignment explanation
Indices: 2896563--2896626 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2896553 TACAAGCCAA
**
2896563 TGTATCGATACAATGTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
2896596 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
2896627 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:2899175 original size:13 final size:13
Alignment explanation
Indices: 2899157--2899181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2899147 ATAATCCCCC
2899157 TGTATCGATACAG
1 TGTATCGATACAG
2899170 TGTATCGATACA
1 TGTATCGATACA
2899182 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2901291 original size:15 final size:15
Alignment explanation
Indices: 2901255--2901292 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2901245 TTCATCAATT
* *
2901255 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
2901270 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
2901285 TCATTTTG
1 TCATTTTG
2901293 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:2905316 original size:20 final size:20
Alignment explanation
Indices: 2905291--2905342 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
2905281 TACAAGCCAA
**
2905291 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
2905311 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
2905330 TGTATCGATACAA
1 TGTATCGATACAA
2905343 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:2907589 original size:11 final size:11
Alignment explanation
Indices: 2907552--2907590 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2907542 TCTCTCTCTC
2907552 TTTTTTGTGCT
1 TTTTTTGTGCT
*
2907563 TTCTTTT-TGTT
1 TT-TTTTGTGCT
2907574 TTTTTTGTGCT
1 TTTTTTGTGCT
2907585 TTTTTT
1 TTTTTT
2907591 TTTGCTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 4 0.17
11 16 0.67
12 4 0.17
ACGTcount: A:0.00, C:0.08, G:0.13, T:0.79
Consensus pattern (11 bp):
TTTTTTGTGCT
Found at i:2913507 original size:19 final size:20
Alignment explanation
Indices: 2913483--2913536 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2913473 AGGTTAGTTT
2913483 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTATA
** *
2913502 TGTATCGATACATTTACTATT
1 TGTATCGATACA-AAACTATA
2913523 TGTATCGATACAAA
1 TGTATCGATACAAA
2913537 TTGTAGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTATA
Found at i:2913528 original size:21 final size:19
Alignment explanation
Indices: 2913480--2913536 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
2913470 TGCAGGTTAG
2913480 TTTTGTATCGATACAAAAC
1 TTTTGTATCGATACAAAAC
* **
2913499 TTATGTATCGATACATTTAC
1 TTTTGTATCGATACA-AAAC
2913519 TATTTGTATCGATACAAA
1 T-TTTGTATCGATACAAA
2913537 TTGTAGAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTTGTATCGATACAAAAC
Found at i:2917149 original size:19 final size:19
Alignment explanation
Indices: 2917104--2917165 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
2917094 ACTGTCAGTT
2917104 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
2917123 TCCATGTATCAATACAATGA
1 T-CATGTATCGATACAATGA
2917143 TCATGTATCGATACAATGTA
1 TCATGTATCGATACAATG-A
2917163 TCA
1 TCA
2917166 ATACAAAGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:2917167 original size:32 final size:33
Alignment explanation
Indices: 2917126--2917189 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2917116 ACAATTGTCC
* *
2917126 ATGTATCAATACAATG-ATCATGTATCGATACA
1 ATGTATCAATACAAAGCATAATGTATCGATACA
2917158 ATGTATCAATACAAAGCATAATGTATCGATAC
1 ATGTATCAATACAAAGCATAATGTATCGATAC
2917190 TTTTGGGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGCATAATGTATCGATACA
Found at i:2926679 original size:20 final size:20
Alignment explanation
Indices: 2926621--2926679 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2926611 AAAATTGCTT
* * *
2926621 GAATGTATTGATACGTTGAA
1 GAATGTATCGATACATTTAA
* *
2926641 GAATGTATCGAAACTTTTAA
1 GAATGTATCGATACATTTAA
2926661 GAATGTATCGATACATTTA
1 GAATGTATCGATACATTTA
2926680 GGTCAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.36
Consensus pattern (20 bp):
GAATGTATCGATACATTTAA
Found at i:2931669 original size:28 final size:24
Alignment explanation
Indices: 2931615--2931669 Score: 56
Period size: 28 Copynumber: 2.1 Consensus size: 24
2931605 AAAAATTAAA
**
2931615 AATAATTATTTTATATTAAATTTT
1 AATAATTATTTTATATTAAATAAT
2931639 AATAATTAATTTTTATTATTTAAATAAT
1 AATAATT-A-TTTTA-TA-TTAAATAAT
2931667 AAT
1 AAT
2931670 TTAGTCCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 7 0.28
25 1 0.04
26 5 0.20
27 2 0.08
28 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AATAATTATTTTATATTAAATAAT
Found at i:2932200 original size:6 final size:6
Alignment explanation
Indices: 2932191--2932222 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2932181 ATAATTATGT
*
2932191 ATTTTA ATTTTG ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
2932223 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
ATTTTA
Found at i:2932208 original size:12 final size:12
Alignment explanation
Indices: 2932173--2932222 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
2932163 TAATAATTTG
*
2932173 ATTTT-ATTATA
1 ATTTTGATTTTA
*
2932184 ATTATGTATTTTA
1 ATTTTG-ATTTTA
2932197 ATTTTGATTTTA
1 ATTTTGATTTTA
*
2932209 ATTTTAATTTTA
1 ATTTTGATTTTA
2932221 AT
1 AT
2932223 AATATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 4 0.12
12 19 0.58
13 10 0.30
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (12 bp):
ATTTTGATTTTA
Found at i:2934306 original size:2 final size:2
Alignment explanation
Indices: 2934301--2934334 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2934291 ATCTCTCTTC
2934301 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2934335 GCTTCTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2936218 original size:21 final size:21
Alignment explanation
Indices: 2936192--2936240 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2936182 AGTGGTGAAA
*
2936192 AGATTAATTATTATAGCGGTG
1 AGATTAAGTATTATAGCGGTG
* * *
2936213 AGATTAGGTGTTATAGTGGTG
1 AGATTAAGTATTATAGCGGTG
2936234 AGATTAA
1 AGATTAA
2936241 AATAGTGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.29, T:0.37
Consensus pattern (21 bp):
AGATTAAGTATTATAGCGGTG
Found at i:2936376 original size:39 final size:40
Alignment explanation
Indices: 2936298--2936377 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
2936288 AGGTGATTGG
* **
2936298 ATTAAAATGTGTATATATATAAAATAAATAGCTAAAAATT
1 ATTAAAATGTATATATATATAAAATAAATAAATAAAAATT
* *
2936338 ATTAAAAT-TATATTTATATAAAAT-AATAAAATATAAATT
1 ATTAAAATGTATATATATATAAAATAAAT-AAATAAAAATT
2936377 A
1 A
2936378 GAAATATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.09
39 23 0.68
40 8 0.24
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (40 bp):
ATTAAAATGTATATATATATAAAATAAATAAATAAAAATT
Found at i:2936936 original size:20 final size:20
Alignment explanation
Indices: 2936894--2936946 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2936884 TTCAACAATT
2936894 TGTATCGATACAATAAAGTAA
1 TGTATCGATAC-ATAAAGTAA
*
2936915 TGTATTGATACATAAA-TGAA
1 TGTATCGATACATAAAGT-AA
2936935 TGTATCGATACA
1 TGTATCGATACA
2936947 CGTTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.62
21 10 0.34
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATAAAGTAA
Found at i:2937122 original size:52 final size:51
Alignment explanation
Indices: 2937002--2937139 Score: 190
Period size: 51 Copynumber: 2.7 Consensus size: 51
2936992 TCTGGAAAGA
* *
2937002 AAATGTATCGATACATT-TTTCATCGTATCGATACAATTTGGGTTTTTGACC
1 AAATGTATCGATACATTCTTT-ATTGTATTGATACAATTTGGGTTTTTGACC
*
2937053 AAATCTATCGATACATTCTTTATTGTATTGATA-AATTCTGGGTTTTTGACC
1 AAATGTATCGATACATTCTTTATTGTATTGATACAATT-TGGGTTTTTGACC
* *
2937104 TAAATGTATCGATACATTCTTTAATGTATTAATACA
1 -AAATGTATCGATACATTCTTTATTGTATTGATACA
2937140 TACAAATAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
50 4 0.05
51 39 0.51
52 33 0.43
53 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATACATTCTTTATTGTATTGATACAATTTGGGTTTTTGACC
Found at i:2945703 original size:63 final size:62
Alignment explanation
Indices: 2945600--2945759 Score: 241
Period size: 63 Copynumber: 2.5 Consensus size: 62
2945590 GTTAAAAGCA
*
2945600 ATGTATCGA-TACATTGTACCATGTATCGATACAAACAGTGGTAGGGTAGCTACTTCCAATCTC
1 ATGTATC-ATTACATTGT-CCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAATCTC
* *
2945663 ATGTATCATTACAGTTGTCCATGTATCGATACAAATAGTGGTAGGGTAGCTGCTGCCAATCTC
1 ATGTATCATTACA-TTGTCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAATCTC
*
2945726 ATGTATCGTTACAATTGTCCATGTATCGATACAA
1 ATGTATCATTAC-ATTGTCCATGTATCGATACAA
2945760 TGAACATGTA
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
62 1 0.01
63 84 0.93
64 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (62 bp):
ATGTATCATTACATTGTCCATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAATCTC
Found at i:2945769 original size:19 final size:19
Alignment explanation
Indices: 2945725--2945797 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
2945715 CTGCCAATCT
* **
2945725 CATGTATCGTTACAATTGTC
1 CATGTATCGATACAA-TGAA
2945745 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2945764 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
2945785 -ATGTATCGATACA
1 CATGTATCGATACA
2945798 TCTGTGTGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.38
20 28 0.60
21 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2946343 original size:22 final size:22
Alignment explanation
Indices: 2946318--2946390 Score: 103
Period size: 22 Copynumber: 3.4 Consensus size: 22
2946308 TTTCATTTTT
*
2946318 TCCCCCTTAATTAAAGAATTTC
1 TCCCCCTTAATCAAAGAATTTC
*
2946340 TCCCCTTTAATCAAA-AATTTC
1 TCCCCCTTAATCAAAGAATTTC
* *
2946361 TCCCCCATAATCAAAGCATTTC
1 TCCCCCTTAATCAAAGAATTTC
2946383 TCCCCCTT
1 TCCCCCTT
2946391 TGTCAAATCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
21 19 0.43
22 25 0.57
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (22 bp):
TCCCCCTTAATCAAAGAATTTC
Found at i:2946344 original size:21 final size:21
Alignment explanation
Indices: 2946316--2946387 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
2946306 TTTTTCATTT
*
2946316 TTTC-CCCCTTAATTAAAGAA
1 TTTCTCCCCTTAATCAAAGAA
2946336 TTTCTCCCCTTTAATCAAA-AA
1 TTTCTCCCC-TTAATCAAAGAA
* *
2946357 TTTCTCCCCCATAATCAAAGCA
1 TTTCT-CCCCTTAATCAAAGAA
2946379 TTTCTCCCC
1 TTTCTCCCC
2946388 CTTTGTCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
20 4 0.09
21 23 0.51
22 18 0.40
ACGTcount: A:0.29, C:0.33, G:0.03, T:0.35
Consensus pattern (21 bp):
TTTCTCCCCTTAATCAAAGAA
Found at i:2947742 original size:20 final size:22
Alignment explanation
Indices: 2947717--2947756 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2947707 GTTTTTGTTG
2947717 AAGATTTTG-A-TGAAAAATGA
1 AAGATTTTGAAGTGAAAAATGA
2947737 AAGATTTTGAAGTGAAAAAT
1 AAGATTTTGAAGTGAAAAAT
2947757 AAGAAATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (22 bp):
AAGATTTTGAAGTGAAAAATGA
Found at i:2947904 original size:13 final size:13
Alignment explanation
Indices: 2947886--2947914 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2947876 AAATAGTACC
2947886 CAATGTATCGATA
1 CAATGTATCGATA
2947899 CAATGTATCGATA
1 CAATGTATCGATA
2947912 CAA
1 CAA
2947915 GGAATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2954089 original size:20 final size:20
Alignment explanation
Indices: 2954064--2954118 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
2954054 CTGCCAATCT
**
2954064 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
2954084 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
2954103 CATGTATCGATGCAAT
1 CATGTATCGATACAAT
2954119 ATATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2956737 original size:41 final size:41
Alignment explanation
Indices: 2956660--2956739 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
2956650 TGAGTAAACA
* *
2956660 AGTTAGGAAAGTTGATTGGGATAAAAACATACAAGTCAACG
1 AGTTAGGAAAGTTGACTGAGATAAAAACATACAAGTCAACG
* * *
2956701 AGTTAGGAGAA-TTGACTGAGATGAAACCATATAAGTCAA
1 AGTTAGGA-AAGTTGACTGAGATAAAAACATACAAGTCAA
2956740 AGAAGAGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (41 bp):
AGTTAGGAAAGTTGACTGAGATAAAAACATACAAGTCAACG
Found at i:2956963 original size:115 final size:115
Alignment explanation
Indices: 2956822--2957039 Score: 278
Period size: 115 Copynumber: 1.9 Consensus size: 115
2956812 GACTAGGATG
* * * * *
2956822 AAACCATACGAGCTAGCGAGGGAAAAAAGTTGGTC-GAGACAAAACCATACGAACCAACATGTCA
1 AAACCATACGAGCCAACGAGGAAAAAAAATTGGTCAG-GACAAAACCATACGAACCAACAAGTCA
* * *
2956886 GAAAGTTTAATCT-GGATGAAACCATATGAGTCAACAAAGTTAGCAAGGACA
65 GAAAGGTT-ATCTAGGACGAAACCATACGAGTCAACAAAGTTAGCAAGGACA
* * ** *
2956937 AAACCATATGAGCCAACGAGGAAAAAAAATTTGTCAGGATGAAACCATATGAACCAACAAGTCAG
1 AAACCATACGAGCCAACGAGGAAAAAAAATTGGTCAGGACAAAACCATACGAACCAACAAGTCAG
*
2957002 AAAGGTTATTTAGGACGAAACCATACGAGTCAACAAAG
66 AAAGGTTATCTAGGACGAAACCATACGAGTCAACAAAG
2957040 GGTGAAAAGA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
114 3 0.03
115 83 0.95
116 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.17
Consensus pattern (115 bp):
AAACCATACGAGCCAACGAGGAAAAAAAATTGGTCAGGACAAAACCATACGAACCAACAAGTCAG
AAAGGTTATCTAGGACGAAACCATACGAGTCAACAAAGTTAGCAAGGACA
Found at i:2957402 original size:20 final size:21
Alignment explanation
Indices: 2957372--2957410 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2957362 AGGTCAAAAC
2957372 CCTAGAAAGTATCGATACAGA
1 CCTAGAAAGTATCGATACAGA
*
2957393 CCTA-AAAGTATTGATACA
1 CCTAGAAAGTATCGATACA
2957411 TATTGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGA
Found at i:2965794 original size:15 final size:14
Alignment explanation
Indices: 2965774--2965803 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2965764 TGTAAAAAGG
2965774 GGAGAGATATTTTTT
1 GGAGAGAT-TTTTTT
2965789 GGAGAGATTTTTTT
1 GGAGAGATTTTTTT
2965803 G
1 G
2965804 AAATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GGAGAGATTTTTTT
Found at i:2966553 original size:19 final size:20
Alignment explanation
Indices: 2966509--2966556 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2966499 ACACCCAGAT
*
2966509 GTATCGATATATATTGCTTT
1 GTATCGATATATATTGCTTG
* *
2966529 GTATCGATGTATGTT-CTTG
1 GTATCGATATATATTGCTTG
2966548 GTATCGATA
1 GTATCGATA
2966557 CACAGTGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (20 bp):
GTATCGATATATATTGCTTG
Found at i:2969427 original size:153 final size:153
Alignment explanation
Indices: 2969082--2969687 Score: 564
Period size: 153 Copynumber: 4.0 Consensus size: 153
2969072 AAGTATCATT
* * * *
2969082 AAAGGGTAAACCTATCCTAAATGCACACCTTTGGCATAAAAGTATCTCGATGACTACCTCAAACT
1 AAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAAGCATCTCGATGACTACATCAGACT
* * * ** * * * *
2969147 TGGTTTTAAAAAAATTACTAAAATACCTTTA-GGTTTACTTTCGA-CGTGAGAGTATCCTA-ATA
66 TGATTCTAAAAAAATTACCAAAATACCTTTAGGGACTACTTTC-ATCTTGAAAGCATCCTAGATG
*
2969209 ACCCTAAAGGACACGAAAGGATATG
130 ACCCTAAAGGACTC-AAAGGATATG
* * ** * ** * *
2969234 AAAGGAAAAACATATCCTAGTTGTATGCCTTTGGCATAAAAGCATCTCGGTGACTACATTAGACT
1 AAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAAGCATCTCGATGACTACATCAGACT
* ** ** * * *
2969299 CGATTCTAGGAAAATTATCC-AAATACCAATACGGATTACATTCATCTTGAAAGCATCCTAG-TG
66 TGATTCTAAAAAAATTA-CCAAAATACCTTTAGGGACTACTTTCATCTTGAAAGCATCCTAGATG
2969362 ACCCTAAAGGACTCAAAGGGATATG
130 ACCCTAAAGGACTCAAA-GGATATG
* * * * *
2969387 AAAGGATAAACCTACCCTAAATGCACAGCTTTGGCATAAAAACATCTCGTTGACTACGTCAGACT
1 AAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAAGCATCTCGATGACTACATCAGACT
* * * * * *
2969452 AGGTTCTAGAAAAATTACCAAAATACCTTTAGGGACTACCTTT-GTTTTGAAAGCATCC-CGATG
66 TGATTCTAAAAAAATTACCAAAATACCTTTAGGGACTA-CTTTCATCTTGAAAGCATCCTAGATG
* * *
2969515 ATCCTAAAGGACTCAAAATGATAATA
130 ACCCTAAAGGACTC-AAAGGAT-ATG
* * * **
2969541 AAAGGGTAAACCTATCATAAATGCACACCTTTGGCATAAAAGCATC-CTGATGACTGCATTGGAC
1 AAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAAGCATCTC-GATGACTACATCAGAC
* * * *
2969605 TTGATTCTCAAAAAAATTACCAAAATGCCCCTTAGGGACTACTTTTATCTTGAAAGCAT-CTTGA
65 TTGATTCT-AAAAAAATTACCAAAAT-ACCTTTAGGGACTACTTTCATCTTGAAAGCATCCTAGA
*
2969669 TGACCCTAAAAGACTCAAA
128 TGACCCTAAAGGACTCAAA
2969688 AATGATAAAA
Statistics
Matches: 364, Mismatches: 75, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
152 80 0.22
153 155 0.43
154 66 0.18
155 24 0.07
156 39 0.11
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (153 bp):
AAAGGATAAACCTATCCTAAATGCACACCTTTGGCATAAAAGCATCTCGATGACTACATCAGACT
TGATTCTAAAAAAATTACCAAAATACCTTTAGGGACTACTTTCATCTTGAAAGCATCCTAGATGA
CCCTAAAGGACTCAAAGGATATG
Found at i:2973950 original size:98 final size:97
Alignment explanation
Indices: 2973819--2973994 Score: 235
Period size: 98 Copynumber: 1.8 Consensus size: 97
2973809 AAAAATAGGG
* * * * * ** * *
2973819 TTGGAGTATCCCCTCGGAGGAATGGCGTTGGAGTGTCCTTGATGATGACAATTTGGGTAAGAATA
1 TTGGAGTATCCCCTCAGAAGAATGGCGTTGGAGTATCCTCGATAATGACAATTTAAGCAAAAATA
2973884 AGATTTAAATCTTAACAAGTTTAAAAAAGGAA
66 AGATTTAAATCTTAACAAGTTTAAAAAAGGAA
* * *
2973916 TTGGAGTATCCTCTCAGAAGAATAGGGGTTGGAGTATCCTCGATAATGATAATTTAAGCAAAAAT
1 TTGGAGTATCCCCTCAGAAGAAT-GGCGTTGGAGTATCCTCGATAATGACAATTTAAGCAAAAAT
2973981 AAGATTTAAATCTT
65 AAGATTTAAATCTT
2973995 GAAGAGTTAC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
97 20 0.30
98 46 0.70
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.30
Consensus pattern (97 bp):
TTGGAGTATCCCCTCAGAAGAATGGCGTTGGAGTATCCTCGATAATGACAATTTAAGCAAAAATA
AGATTTAAATCTTAACAAGTTTAAAAAAGGAA
Found at i:2976473 original size:21 final size:20
Alignment explanation
Indices: 2976426--2976479 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2976416 TACATTAAGC
** *
2976426 ATGTATCGACGCATTCACTT
1 ATGTATCGATACATTAACTT
2976446 ATGTATCGATACATTAACTT
1 ATGTATCGATACATTAACTT
2976466 ATTGTATCGATACA
1 A-TGTATCGATACA
2976480 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Found at i:2976887 original size:41 final size:40
Alignment explanation
Indices: 2976842--2976940 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 40
2976832 CCAAACAAAT
* * *
2976842 CAACAAGTTAGAGGGGTTATCCAGGACAAAACAATATGAAC
1 CAACAAGTTAAAAGGGTTATCCAGGACAAAACAATAAG-AC
* * *
2976883 CAACAAGTTAAAAGGGTTGTTCAGGACAAAACCATAAGAC
1 CAACAAGTTAAAAGGGTTATCCAGGACAAAACAATAAGAC
*
2976923 CAACAAGTTAAAAAGGTT
1 CAACAAGTTAAAAGGGTT
2976941 TATGAAAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 19 0.37
41 32 0.63
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (40 bp):
CAACAAGTTAAAAGGGTTATCCAGGACAAAACAATAAGAC
Found at i:2978478 original size:19 final size:19
Alignment explanation
Indices: 2978454--2978492 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2978444 ATTTGATGCT
2978454 ATTGGCTTAAAATTTTCAA
1 ATTGGCTTAAAATTTTCAA
2978473 ATTGGCTTAAAATTTTCAA
1 ATTGGCTTAAAATTTTCAA
2978492 A
1 A
2978493 ATAATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (19 bp):
ATTGGCTTAAAATTTTCAA
Found at i:2978909 original size:16 final size:16
Alignment explanation
Indices: 2978890--2978920 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2978880 TCCTCATTTT
2978890 TTTTTCTTGTTTTTCA
1 TTTTTCTTGTTTTTCA
*
2978906 TTTTTCTTTTTTTTC
1 TTTTTCTTGTTTTTC
2978921 TTACTATCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTCTTGTTTTTCA
Found at i:2983180 original size:313 final size:314
Alignment explanation
Indices: 2982612--2983183 Score: 724
Period size: 313 Copynumber: 1.8 Consensus size: 314
2982602 GATGAACCTA
* * * *
2982612 TCCTAAATACACACTTTTGGCATAAAAGTATCTTCGTGACTACATCGAACTCAATTCTAGGATAA
1 TCCTAAATACACACCTTTGGCATAAAAGAATCTCCGTGACTACATCGAACTCAATTCTAGGAAAA
** * *
2982677 TTATTAAAATACTCTTAGGGACTACTTTCATCTTGAAAGCATCTTGATGATCATAAAAAACTCAA
66 TTAACAAAATACTCTTAGGGACTACCTTCATCTTGAAAGCATCTGGATGATCATAAAAAACTCAA
* * * * *
2982742 AATGATAATAAAGGGGTGACCCTATCCTAAATGCATGCTTTTGGCACAAAAGCATCTTAGTGACT
131 AATGATAATAAAGAGGTGAACCTATCCTAAATGCATACCTTTGGCACAAAAGCATCTGAGTGACT
* * * * *
2982807 ACATCAGACTCGATTTTATGAAAATTACTAAAATACCCATAAAGACTACCTTTGTCTTGAAAGCG
196 ACATCAGACTCAACTCTATAAAAATTACCAAAATACCCATAAAGACTACCTTTGTCTTGAAAGCG
2982872 TTCGGTGACCTTAAAGGACTTGAAAAGATATTAAAAGATGAACCTATCCTAAAC
261 TTCGGTGACCTTAAAGGACTTGAAAAGATATTAAAAGATGAACCTATCCTAAAC
* *** *
2982926 TCCTAAATACACACCTTTGGCATAAAAGAATC-CCGGTGACTA-AGTCGGACTTGGTTTTAGGAA
1 TCCTAAATACACACCTTTGGCATAAAAGAATCTCC-GTGACTACA-TCGAACTCAATTCTAGGAA
*
2982989 AATTAACAAAATA-TCCTTAGGGACTACCTTCATCTTGAAAGCATCTGGA-GATCATAAAAGACT
64 AATTAACAAAATACT-CTTAGGGACTACCTTCATCTTGAAAGCATCTGGATGATCATAAAAAACT
** ** *
2983052 TGAAATGATAATAAAGAGGTGAACCTATCCTAAATTTATACCTTTGGCATAAAAGCATCTCGA-T
128 CAAAATGATAATAAAGAGGTGAACCTATCCTAAATGCATACCTTTGGCACAAAAGCATCT-GAGT
* * * * * * * *
2983116 GATTGCATTAGACTTAACTCTA-AAAAATTACCAAAATGCCCTTTAAGGACTACTTTTGTCTTGA
192 GACTACATCAGACTCAACTCTATAAAAATTACCAAAATACCC-ATAAAGACTACCTTTGTCTTGA
2983180 AAGC
256 AAGC
2983184 ATCCTGACGA
Statistics
Matches: 216, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
312 16 0.07
313 106 0.49
314 94 0.44
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (314 bp):
TCCTAAATACACACCTTTGGCATAAAAGAATCTCCGTGACTACATCGAACTCAATTCTAGGAAAA
TTAACAAAATACTCTTAGGGACTACCTTCATCTTGAAAGCATCTGGATGATCATAAAAAACTCAA
AATGATAATAAAGAGGTGAACCTATCCTAAATGCATACCTTTGGCACAAAAGCATCTGAGTGACT
ACATCAGACTCAACTCTATAAAAATTACCAAAATACCCATAAAGACTACCTTTGTCTTGAAAGCG
TTCGGTGACCTTAAAGGACTTGAAAAGATATTAAAAGATGAACCTATCCTAAAC
Found at i:2984356 original size:51 final size:52
Alignment explanation
Indices: 2984301--2984404 Score: 156
Period size: 51 Copynumber: 2.0 Consensus size: 52
2984291 AAAAAAAACC
* *
2984301 ATCATGTTAGGCCCAGCCAATATCAAATAACTCACC-AAAAATATTTTTCTA
1 ATCATGTTAGGCCCAGCCAACATCAAATAACGCACCAAAAAATATTTTTCTA
** *
2984352 ATCATGTTAGGCTTAGCCAACATCAAATAACGCCCCAAAAAATATTTTTCTA
1 ATCATGTTAGGCCCAGCCAACATCAAATAACGCACCAAAAAATATTTTTCTA
2984404 A
1 A
2984405 CTCAATAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 31 0.66
52 16 0.34
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (52 bp):
ATCATGTTAGGCCCAGCCAACATCAAATAACGCACCAAAAAATATTTTTCTA
Found at i:2988923 original size:16 final size:16
Alignment explanation
Indices: 2988902--2988938 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2988892 TCCGTGTTCC
*
2988902 TGATGGTTGCTCTCTA
1 TGATGGTAGCTCTCTA
2988918 TGATGGTAGCTCTCTA
1 TGATGGTAGCTCTCTA
2988934 TGATG
1 TGATG
2988939 TGGGATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (16 bp):
TGATGGTAGCTCTCTA
Found at i:2991401 original size:20 final size:20
Alignment explanation
Indices: 2991376--2991415 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2991366 AGGGTTCATT
2991376 ATATAAGGGTCTAGAGGATG
1 ATATAAGGGTCTAGAGGATG
2991396 ATATAAGGGTCTAGAGGATG
1 ATATAAGGGTCTAGAGGATG
2991416 CCTAAATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.25
Consensus pattern (20 bp):
ATATAAGGGTCTAGAGGATG
Found at i:2995445 original size:19 final size:20
Alignment explanation
Indices: 2995421--2995474 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2995411 ATCGATATAT
2995421 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
2995440 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
2995461 TGTATCGATACAAA
1 TGTATCGATACAAA
2995475 TTGTAGCAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:2997064 original size:22 final size:22
Alignment explanation
Indices: 2997036--2997078 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2997026 TTCCTATGAA
* *
2997036 TATAACTGAATGTAAATATCAC
1 TATAACTAAATATAAATATCAC
*
2997058 TATAACTAAATATATATATCA
1 TATAACTAAATATAAATATCA
2997079 ATCAAATGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (22 bp):
TATAACTAAATATAAATATCAC
Found at i:2997231 original size:21 final size:21
Alignment explanation
Indices: 2997207--2997258 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2997197 AAAAGTGATC
* *
2997207 TACATATC-CTAACATGGAATG
1 TACATATCAC-AACACGAAATG
*
2997228 TACATTTCACAACACGAAATG
1 TACATATCACAACACGAAATG
2997249 TACATATCAC
1 TACATATCAC
2997259 TACAATTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (21 bp):
TACATATCACAACACGAAATG
Found at i:3001614 original size:33 final size:33
Alignment explanation
Indices: 3001559--3001654 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
3001549 TTTGAGACAA
* *
3001559 TGTATCAATACAAT-TCCTCATGTATCGATAAAT
1 TGTATCGATACAATCTGC-CATGTATCGATAAAT
* * *
3001592 TGTATCGATATAGTCTGCCATGTATCGATAGAT
1 TGTATCGATACAATCTGCCATGTATCGATAAAT
* *
3001625 TGTATCGATACAATGTGTCATGTATCGATA
1 TGTATCGATACAATCTGCCATGTATCGATA
3001655 CAAACAGTGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 51 0.96
34 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAATCTGCCATGTATCGATAAAT
Found at i:3001650 original size:20 final size:20
Alignment explanation
Indices: 3001625--3001742 Score: 91
Period size: 20 Copynumber: 5.8 Consensus size: 20
3001615 ATCGATAGAT
3001625 TGTATCGATACAATGTGTCA
1 TGTATCGATACAATGTGTCA
* *
3001645 TGTATCGATACAAACAGTGGTAA
1 TGTATCGATAC-AA-TGT-GTCA
* * *
3001668 GGTAGCTACTACCAAT-T-TCA
1 TGTATCGA-TA-CAATGTGTCA
3001688 TGTATCGATACAAT-TGTGCA
1 TGTATCGATACAATGTGT-CA
**
3001708 TGTATCGATACAATG-AACA
1 TGTATCGATACAATGTGTCA
3001727 TGTATCGATACAATGT
1 TGTATCGATACAATGT
3001743 ATCGATACAA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
18 5 0.06
19 20 0.26
20 34 0.44
21 2 0.03
22 3 0.04
23 8 0.10
24 4 0.05
25 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAATGTGTCA
Found at i:3001730 original size:19 final size:19
Alignment explanation
Indices: 3001686--3001741 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
3001676 CTACCAATTT
**
3001686 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
3001706 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
3001725 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3001742 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3001744 original size:13 final size:13
Alignment explanation
Indices: 3001726--3001752 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3001716 TACAATGAAC
3001726 ATGTATCGATACA
1 ATGTATCGATACA
3001739 ATGTATCGATACA
1 ATGTATCGATACA
3001752 A
1 A
3001753 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3003541 original size:6 final size:6
Alignment explanation
Indices: 3003530--3003576 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
3003520 TTATACTTTC
*
3003530 TTTTTA TTTTTA TTTATAA TTTTTA TTTTTA --TTTA TTTCTTA TTTTT
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTT
3003577 TTATTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
4 4 0.11
6 20 0.57
7 11 0.31
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:3003545 original size:23 final size:22
Alignment explanation
Indices: 3003501--3003584 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 22
3003491 CTTGGAAAAC
* *
3003501 ACTTTTTATTATTATTTTTTTAT
1 ACTTTTTTTTATT-TTTATTTAT
3003524 ACTTTCTTTTTATTTTTATTTAT
1 ACTTT-TTTTTATTTTTATTTAT
*
3003547 A---ATTTTTATTTTTATTTATT
1 ACTTTTTTTTATTTTTATTTA-T
*
3003567 TCTTATTTTTTTATTTTT
1 AC-T-TTTTTTTATTTTT
3003585 TTGTGGAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
19 16 0.33
20 1 0.02
23 14 0.29
24 7 0.14
25 11 0.22
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (22 bp):
ACTTTTTTTTATTTTTATTTAT
Found at i:3003718 original size:2 final size:2
Alignment explanation
Indices: 3003713--3003739 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3003703 GATTTTTAAA
3003713 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3003740 ACAAGCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3004157 original size:17 final size:17
Alignment explanation
Indices: 3004137--3004174 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3004127 TTCTTTCATT
3004137 TTCTTCTTCTTCCTTCC
1 TTCTTCTTCTTCCTTCC
* *
3004154 TTCTTCTTTTTCCTTCT
1 TTCTTCTTCTTCCTTCC
3004171 TTCT
1 TTCT
3004175 CACCCATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
TTCTTCTTCTTCCTTCC
Found at i:3004579 original size:9 final size:9
Alignment explanation
Indices: 3004555--3004589 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3004545 TTTCCACCCC
3004555 TTTTTTTCT
1 TTTTTTTCT
*
3004564 CTCTTTTTCT
1 -TTTTTTTCT
3004574 TTTTTTTCT
1 TTTTTTTCT
3004583 TTTTTTT
1 TTTTTTT
3004590 AAACAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:3007541 original size:19 final size:18
Alignment explanation
Indices: 3007510--3007561 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
3007500 AAATCGAAAA
*
3007510 TTAAAAAT-AAAAATAATT
1 TTAAAAATCAAAAA-AATC
3007528 TTAAAAATTCAAAAAAATC
1 TTAAAAA-TCAAAAAAATC
*
3007547 TAAAAAAATCAAAAA
1 T-TAAAAATCAAAAA
3007562 TCAAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 7 0.24
19 12 0.41
20 10 0.34
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
TTAAAAATCAAAAAAATC
Found at i:3011373 original size:13 final size:13
Alignment explanation
Indices: 3011355--3011379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3011345 ATGTTGCATA
3011355 GTATCGATACATT
1 GTATCGATACATT
3011368 GTATCGATACAT
1 GTATCGATACAT
3011380 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:3011488 original size:13 final size:13
Alignment explanation
Indices: 3011470--3011494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3011460 ACACACAGTA
3011470 TGTATCGATACAT
1 TGTATCGATACAT
3011483 TGTATCGATACA
1 TGTATCGATACA
3011495 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3011491 original size:32 final size:33
Alignment explanation
Indices: 3011450--3011517 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3011440 GTAGCCAAAC
**
3011450 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
3011482 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
3011515 TTG
1 TTG
3011518 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:3013115 original size:9 final size:9
Alignment explanation
Indices: 3013098--3013133 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
3013088 TCAACCATCA
*
3013098 AAGACGATG
1 AAGATGATG
3013107 AAGATGATG
1 AAGATGATG
3013116 AAGATGATG
1 AAGATGATG
*
3013125 ATGATGATG
1 AAGATGATG
3013134 GTGACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.33, T:0.22
Consensus pattern (9 bp):
AAGATGATG
Found at i:3017688 original size:22 final size:21
Alignment explanation
Indices: 3017645--3017685 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3017635 CAAATTTCTT
3017645 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
3017667 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
3017686 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:3018967 original size:32 final size:33
Alignment explanation
Indices: 3018901--3019212 Score: 416
Period size: 34 Copynumber: 9.3 Consensus size: 33
3018891 TAGATTTTTT
*
3018901 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTT-TAAAGCCCAC
3018935 AACTCCGTGGCACCTTCTT-TTTTAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCAC
*
3018967 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTT-TAAAGCCCAC
3019001 AACTCCGTGGCACCTTCTT-TTTTAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCAC
*
3019033 AACTCCGTGGCACCTTCTTCTTTCCAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTT-TAAAGCCCAC
3019067 AACTCCGTGGCACCTTCTT-TTTTAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCAC
* * *
3019099 AACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCAA
1 AACTCCGTGGCAC-CTTCTT--CTTTT-AAAGCCCAC
* *
3019136 AACTCCGTGGCACTTTTTTCTTTTAAAGCCCAC
1 AACTCCGTGGCACCTTCTTCTTTTAAAGCCCAC
* *
3019169 AACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCAC
1 AACTCCGTGGCAC-CTTCTT--CTTTTAAAGCCCAC
3019204 AACTCCGTG
1 AACTCCGTG
3019213 ACATCTTTTT
Statistics
Matches: 253, Mismatches: 13, Indels: 23
0.88 0.04 0.08
Matches are distributed among these distances:
32 77 0.30
33 41 0.16
34 85 0.34
35 16 0.06
36 14 0.06
37 20 0.08
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (33 bp):
AACTCCGTGGCACCTTCTTCTTTTAAAGCCCAC
Done.