Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 151 of 427
Found at i:41475868 original size:79 final size:79
Alignment explanation
Indices: 41475737--41475895 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
41475727 AACATACCTC
41475737 GGTGCAAAATATGAGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTTCCCCGTTCGAGATTGAT
1 GGTGCAAAATATGAGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTTCCCCGTTCGAGATTGAT
41475802 TTCACGCCTTTCTT
66 TTCACGCCTTTCTT
41475816 GGTGCAAAATATGAGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTTCCCCGTTCGAGATTGAT
1 GGTGCAAAATATGAGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTTCCCCGTTCGAGATTGAT
41475881 TTCACGCCTTTCTT
66 TTCACGCCTTTCTT
41475895 G
1 G
41475896 ATCTATAACA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (79 bp):
GGTGCAAAATATGAGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTTCCCCGTTCGAGATTGAT
TTCACGCCTTTCTT
Found at i:41485378 original size:40 final size:40
Alignment explanation
Indices: 41485319--41485526 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
41485309 CAATTGAATG
* * * *
41485319 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
41485359 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41485399 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41485439 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
41485479 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
41485519 ATATCCGG
1 ATATCCGG
41485527 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:41485457 original size:80 final size:80
Alignment explanation
Indices: 41485320--41485526 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
41485310 AATTGAATGA
* * ** * * *
41485320 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
41485385 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
41485398 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
41485463 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
41485480 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
41485527 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:41493527 original size:40 final size:40
Alignment explanation
Indices: 41493468--41493675 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
41493458 CAATTGAATG
* * * *
41493468 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
41493508 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41493548 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
41493588 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
41493628 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
41493668 ATATCCGG
1 ATATCCGG
41493676 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:41493606 original size:80 final size:80
Alignment explanation
Indices: 41493469--41493675 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
41493459 AATTGAATGA
* * ** * * *
41493469 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
41493534 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
41493547 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
41493612 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
41493629 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
41493676 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:41498390 original size:41 final size:41
Alignment explanation
Indices: 41498345--41498462 Score: 100
Period size: 41 Copynumber: 3.1 Consensus size: 41
41498335 TGAAAGATAA
41498345 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * *
41498386 ATGTAGACAAGAG-AGC-TGCGTGA----AA--G-A-TA-A--
1 ATGTAG-CTAG-GTCGCATGCGTGATTCCAAGTGAAGGACACC
41498416 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41498457 ATGTAG
1 ATGTAG
41498463 ACAAGAGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 30
0.61 0.07 0.33
Matches are distributed among these distances:
28 1 0.02
29 5 0.09
30 13 0.23
32 1 0.02
33 1 0.02
34 3 0.05
35 1 0.02
36 1 0.02
37 3 0.05
38 1 0.02
39 1 0.02
41 19 0.34
42 5 0.09
43 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41498401 original size:71 final size:71
Alignment explanation
Indices: 41498313--41498476 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
41498303 GAGATGTATC
41498313 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41498378 AGGACA
66 AGGACA
*
41498384 CCATGTAGACAAGAGAGCTGCGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41498449 AGGACA
66 AGGACA
41498455 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41498477 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41501722 original size:40 final size:40
Alignment explanation
Indices: 41501672--41501754 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
41501662 AAGGGTATTA
** * *
41501672 ATAAAATAGGGAAGGTATCTATACTTTGTTAAAAGTATCG
1 ATAAAATAGGGAAAATACCGATACTTTGTTAAAAGTATCG
* *
41501712 ATAAATTAGGGAAAATACCGATACTTTGTTAAATGTATCG
1 ATAAAATAGGGAAAATACCGATACTTTGTTAAAAGTATCG
41501752 ATA
1 ATA
41501755 CTTTTGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (40 bp):
ATAAAATAGGGAAAATACCGATACTTTGTTAAAAGTATCG
Found at i:41505771 original size:47 final size:47
Alignment explanation
Indices: 41505662--41505772 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
41505652 CCGGGATAAG
* *
41505662 CACATAGTGCTTCATCGGAACAAATTCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
41505709 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
41505756 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
41505773 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:41514721 original size:40 final size:34
Alignment explanation
Indices: 41514677--41514789 Score: 190
Period size: 34 Copynumber: 3.3 Consensus size: 34
41514667 AGGACCTTGT
41514677 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
41514711 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
* *
41514745 TACTGATACTGTGATGGGCTAAGGCCTTACTGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
*
41514779 TATTTGATACT
1 TA-CTGATACT
41514790 ATACTGAGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
34 68 0.91
35 7 0.09
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (34 bp):
TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
Found at i:41520642 original size:46 final size:46
Alignment explanation
Indices: 41520587--41520767 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
41520577 TAGGATGGTT
41520587 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
41520633 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
41520679 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
41520726 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41520768 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:41520748 original size:93 final size:93
Alignment explanation
Indices: 41520589--41520759 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
41520579 GGATGGTTGA
* *
41520589 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41520654 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41520682 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41520747 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41520760 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41523173 original size:6 final size:6
Alignment explanation
Indices: 41523162--41523323 Score: 138
Period size: 6 Copynumber: 26.8 Consensus size: 6
41523152 AACCAAAATG
*
41523162 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * * *
41523210 AGTAA-C AGAATC AGAATC AAAATC AAAATT AG-GTGAC GGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
41523259 AGAACC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
41523307 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
41523324 TATGTGACAG
Statistics
Matches: 128, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.08
6 109 0.85
7 7 0.05
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:41523214 original size:30 final size:29
Alignment explanation
Indices: 41523162--41523348 Score: 195
Period size: 30 Copynumber: 6.4 Consensus size: 29
41523152 AACCAAAATG
*
41523162 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCA-AATTAGTAACAGAATC
41523192 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAA-ATTAGTAACAGAATC
* * *
41523222 AGAATCAAAATCAAAATTAGGTGACGGAATC
1 AGAATCAGAATC-AAATTA-GTAACAGAATC
*
41523253 AGAATCAGAA-C----CAGTAACAGAATC
1 AGAATCAGAATCAAATTAGTAACAGAATC
*
41523277 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCA-AATTAGTAACAGAATC
* *
41523307 AGAATCAGAATCAGAATTATGTGACAGAACC
1 AGAATCAGAATCA-AATTA-GTAACAGAATC
*
41523338 AGAACCAGAAT
1 AGAATCAGAAT
41523349 GTGAATGCAA
Statistics
Matches: 134, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
24 19 0.14
25 2 0.01
29 1 0.01
30 73 0.54
31 39 0.29
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (29 bp):
AGAATCAGAATCAAATTAGTAACAGAATC
Found at i:41523260 original size:85 final size:85
Alignment explanation
Indices: 41523162--41523348 Score: 302
Period size: 85 Copynumber: 2.2 Consensus size: 85
41523152 AACCAAAATG
41523162 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
41523227 CAAAATCAAAATTAGGTGAC
66 CAAAATCAAAATTAGGTGAC
* * *
41523247 GGAATCAGAATCAGAACCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* * *
41523312 CAGAATCAGAATTATGTGAC
66 CAAAATCAAAATTAGGTGAC
* *
41523332 AGAACCAGAACCAGAAT
1 AGAATCAGAATCAGAAT
41523349 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAAAATCAAAATTAGGTGAC
Found at i:41523522 original size:27 final size:26
Alignment explanation
Indices: 41523480--41523581 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
41523470 GCTCAGTTAT
* *
41523480 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
41523507 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
41523533 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
41523561 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
41523582 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:41523767 original size:22 final size:22
Alignment explanation
Indices: 41523739--41523820 Score: 112
Period size: 22 Copynumber: 3.7 Consensus size: 22
41523729 GCAAATACAT
*
41523739 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAGAGCCAT-ATGCAGG
*
41523761 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAGAGCCATATGCAGG
*
41523783 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAGAGCCATATGCAGG
*
41523805 TTGGCACAAAGCCATA
1 TTGGCACAGAGCCATA
41523821 ATCAGAAGGC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
21 2 0.04
22 54 0.96
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (22 bp):
TTGGCACAGAGCCATATGCAGG
Found at i:41524308 original size:27 final size:27
Alignment explanation
Indices: 41524250--41524618 Score: 389
Period size: 27 Copynumber: 14.0 Consensus size: 27
41524240 AAGGGCAAAA
* * * *
41524250 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
41524276 TGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
41524303 TAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41524330 TAGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
41524357 CGATAATTCTACCCTACAGGGGTGTTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41524384 CGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
41524411 CGGTAATTCTACCTTATAGGGGTATTGC
1 TGGTAATTCTACCCTACAGGGGTATT-T
*
41524439 T-ATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
41524465 CGATAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
41524492 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41524519 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41524546 CGATAATTCTACCCTACA--GG-----
1 TGGTAATTCTACCCTACAGGGGTATTT
41524566 -GGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
41524592 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
41524619 CGATAATTTT
Statistics
Matches: 297, Mismatches: 35, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.05
21 2 0.01
25 2 0.01
26 15 0.05
27 262 0.88
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:41524371 original size:81 final size:82
Alignment explanation
Indices: 41524279--41524626 Score: 452
Period size: 81 Copynumber: 4.4 Consensus size: 82
41524269 GGTATCTTGG
* * * * **
41524279 TAATTCCACCCTACAGGGGTATTTTAG-TAATTCTACCTTATAGGGGTATTTTAGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
41524343 CTACAGGGGTATTGCGA
66 CTACAGGGGTATTGCGA
* * *
41524360 TAATTCTACCCTACAGGGGT-GTTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
* * *
41524424 TTATAGGGGTATTGCTA
66 CTACAGGGGTATTGCGA
*
41524441 TAATTCTACCCTACAGGGGTA-TTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
* *
41524505 CTACAGGGGTATTTCGG
66 CTACAGGGGTATTGCGA
*
41524522 TAATTCTACCCTACAGGGGTA-TTGCGATAATTCTACCCTACA--GG------GGTAATTCTACC
1 TAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
*
41524578 CTACAGGGGTATTTCGA
66 CTACAGGGGTATTGCGA
41524595 TAATTCTACCCTACAGGGGTA-TTTCGATAATT
1 TAATTCTACCCTACAGGGGTATTTTCGATAATT
41524627 TTATAAACCA
Statistics
Matches: 245, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
73 59 0.24
79 2 0.01
80 4 0.02
81 180 0.73
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (82 bp):
TAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC
CTACAGGGGTATTGCGA
Found at i:41524573 original size:19 final size:19
Alignment explanation
Indices: 41524549--41524588 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
41524539 GGTATTGCGA
41524549 TAATTCTACCCTACAGGGG
1 TAATTCTACCCTACAGGGG
41524568 TAATTCTACCCTACAGGGG
1 TAATTCTACCCTACAGGGG
41524587 TA
1 TA
41524589 TTTCGATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (19 bp):
TAATTCTACCCTACAGGGG
Found at i:41524587 original size:46 final size:46
Alignment explanation
Indices: 41524520--41524615 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
41524510 GGGGTATTTC
41524520 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
1 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
*
41524566 GGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
1 GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
41524612 GGTA
1 GGTA
41524616 TTTCGATAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (46 bp):
GGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTACAGG
Found at i:41524619 original size:27 final size:27
Alignment explanation
Indices: 41524568--41524626 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
41524558 CCTACAGGGG
41524568 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
41524595 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
41524622 TAATT
1 TAATT
41524627 TTATAAACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:41524670 original size:127 final size:127
Alignment explanation
Indices: 41524305--41524671 Score: 335
Period size: 135 Copynumber: 2.8 Consensus size: 127
41524295 GGGTATTTTA
* * * * *
41524305 GTAATTCTACCTTATAGGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTGCGATAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAAGGGTATTTCGATAATTCTAC
** * ** ** * * * * * *
41524369 CCTACAGGGGTGTTTCGGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTATAGGGG
65 CAAACAAGGGCATTTCGGTAATTCTACCAAACAGAGGTATTGCGATAATTCTACCCTACA-GGG
*
41524433 TATTGCTATAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAA
1 ----G---TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAA
** * * ** *
41524498 TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTAC
59 TTCTACCAAACAAGGGCATTTCGGTAATTCTACCAAACAGAGGTATTGCGATAATTCTACCCTAC
41524563 AGGG
124 AGGG
* * *
41524567 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGATAATTTTA-T
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
* *
41524631 AAACCAAGGGCATTTTGGTAATTTTA-CAAACTAGAGGTATT
66 AAA-CAAGGGCATTTCGGTAATTCTACCAAAC-AGAGGTATT
41524672 TTAGTAATTT
Statistics
Matches: 204, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
126 4 0.02
127 85 0.42
130 1 0.00
132 1 0.00
134 3 0.01
135 109 0.53
136 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (127 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGATAATTCTACC
AAACAAGGGCATTTCGGTAATTCTACCAAACAGAGGTATTGCGATAATTCTACCCTACAGGG
Found at i:41525000 original size:27 final size:27
Alignment explanation
Indices: 41524817--41524989 Score: 249
Period size: 27 Copynumber: 6.4 Consensus size: 27
41524807 GTAATTTCAT
*
41524817 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
41524844 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
** *
41524871 AATCGAGGGTAAAACAGTAATTCCGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
41524898 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
41524925 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
41524952 AATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
41524979 AATCGAGGGTA
1 AATCGAGGGTA
41524990 CTTTGGTAAT
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 128 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:41525000 original size:81 final size:81
Alignment explanation
Indices: 41524817--41524989 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
41524807 GTAATTTCAT
* *
41524817 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
41524882 AAACAGTAATTCCGTA
66 AAACAGTAATTCCGTA
41524898 AATCGAGGGTAAAATGGTAATTCTATAAA-TCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAACT-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
* * *
41524962 GAAACGGTAATTCTGTA
65 AAAACAGTAATTCCGTA
41524979 AATCGAGGGTA
1 AATCGAGGGTA
41524990 CTTTGGTAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
80 1 0.01
81 85 0.99
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCCGTA
Found at i:41525008 original size:27 final size:26
Alignment explanation
Indices: 41524611--41525013 Score: 190
Period size: 27 Copynumber: 15.1 Consensus size: 26
41524601 TACCCTACAG
* * *
41524611 GGGTATTTCGATAATTTTATAAACCAA
1 GGGTATTT-GGTAATTTTATAAATCGA
* * *
41524638 GGGCATTTTGGTAATTTTACAAA-CTA
1 GGGTA-TTTGGTAATTTTATAAATCGA
* **
41524664 GAGGTATTTTAGTAATTTTATTGATCGA
1 G-GGTA-TTTGGTAATTTTATAAATCGA
* **
41524692 GGGTATTTCAGTAATTTT-GCAATCTGA
1 GGGTATTT-GGTAATTTTATAAATC-GA
*
41524719 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTT-GGTAATTTTATAAATCGA
* *
41524746 GGATATTTGGGTAATTTTATAAACCG-
1 GGGTATTT-GGTAATTTTATAAATCGA
* *
41524772 GGGTACTTTGGTAATTTTACAACT-G-
1 GGGTA-TTTGGTAATTTTATAAATCGA
* *
41524797 GGGTATTTCAGTAATTTCAT-AATCGA
1 GGGTATTT-GGTAATTTTATAAATCGA
** *
41524823 GGGTAAAATGGTAATTTTGTAAA-CTGA
1 GGGT-ATTTGGTAATTTTATAAATC-GA
** *
41524850 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGT-ATTTGGTAATTTTATAAATCGA
**** ***
41524877 GGGTAAAACAGTAATTCCGTAAATCGA
1 GGGT-ATTTGGTAATTTTATAAATCGA
** *
41524904 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGT-ATTTGGTAATTTTATAAATCGA
** *
41524931 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGT-ATTTGGTAATTTTATAAATCGA
*** * *
41524958 GGGTGAAACGGTAATTCTGTAAATCGA
1 GGGT-ATTTGGTAATTTTATAAATCGA
* *
41524985 GGGTACTTTGGTAATTTTACAAATTGA
1 GGGTA-TTTGGTAATTTTATAAATCGA
41525012 GG
1 GG
41525014 ACATTTTAGT
Statistics
Matches: 308, Mismatches: 53, Indels: 30
0.79 0.14 0.08
Matches are distributed among these distances:
24 5 0.02
25 15 0.05
26 39 0.13
27 238 0.77
28 11 0.04
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTATAAATCGA
Found at i:41525026 original size:81 final size:81
Alignment explanation
Indices: 41524817--41525034 Score: 222
Period size: 81 Copynumber: 2.7 Consensus size: 81
41524807 GTAATTTCAT
* ** ** *
41524817 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTACAAATC-GAGGACAAAATAGTAATTTTGTAAATCGAGGGT
41524881 AAAACAGTAATTCCGTA
65 AAAACAGTAATTCCGTA
* ** * *
41524898 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
* *
41524963 AAACGGTAATTCTGTA
66 AAACAGTAATTCCGTA
*** * * *** *
41524979 AATCGAGGGTACTTTGGTAATTTTACAAATTGAGGACATTTTAGTAATTTGGTAAA
1 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAA
41525035 CTAAAGTATT
Statistics
Matches: 118, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
81 117 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGACAAAATAGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCCGTA
Found at i:41526916 original size:24 final size:24
Alignment explanation
Indices: 41526884--41526941 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 24
41526874 GAAAATATGA
41526884 GTAGTGGGTAGTTGAGGTTCAGAG
1 GTAGTGGGTAGTTGAGGTTCAGAG
41526908 GTAGTGGGTAGTTGAGGTTCAGAG
1 GTAGTGGGTAGTTGAGGTTCAGAG
41526932 GATTAGTGGG
1 G--TAGTGGG
41526942 AGAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 25 0.78
26 7 0.22
ACGTcount: A:0.21, C:0.03, G:0.47, T:0.29
Consensus pattern (24 bp):
GTAGTGGGTAGTTGAGGTTCAGAG
Found at i:41529737 original size:50 final size:50
Alignment explanation
Indices: 41529602--41529817 Score: 247
Period size: 50 Copynumber: 4.3 Consensus size: 50
41529592 GCTAAATGAC
* * * * *
41529602 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
* * * * * *
41529652 TTTGAATATTCGGCCATGA-AGGTACGGAAAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGGCCAT-ATAGGTAAGTACATATGTGATATTATATTTG-AT
* * *
41529703 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
* *
41529752 CTTGCATATTCGACCATATAGGTAAGTACATATGTGATATTATATTTGAT
1 CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
*
41529802 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
41529818 AATGAGTTGT
Statistics
Matches: 136, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
49 3 0.02
50 130 0.96
51 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (50 bp):
CTTGTATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
Found at i:41529740 original size:100 final size:100
Alignment explanation
Indices: 41529602--41529817 Score: 274
Period size: 100 Copynumber: 2.2 Consensus size: 100
41529592 GCTAAATGAC
* * ** * *
41529602 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATTTTGAATATTCGGCC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGACC
*
41529667 ATGA-AGGTACGGAAAAATGTGATATTATATTTGAAT
66 AT-ATAGGTAAGGAAAAATGTGATATTATATTTG-AT
* * *
41529703 -TTGTATATTCGGCCATATAAGTAAGTACATATGTGATGTTAAATTTGATCTTGCATATTCGACC
1 CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGACC
* * *
41529767 ATATAGGTAAGTACATATGTGATATTATATTTGAT
66 ATATAGGTAAGGAAAAATGTGATATTATATTTGAT
*
41529802 CTTGTATATTTGGCCA
1 CTTGTATATTCGGCCA
41529818 AATGAGTTGT
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 3 0.03
100 96 0.97
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (100 bp):
CTTGTATATTCGGCCACATAAGTAAGTACATATGTGATGTTAAATTGGATCTTGAATATTCGACC
ATATAGGTAAGGAAAAATGTGATATTATATTTGAT
Found at i:41532972 original size:64 final size:63
Alignment explanation
Indices: 41532891--41533074 Score: 199
Period size: 67 Copynumber: 2.9 Consensus size: 63
41532881 AGACATTATG
* *
41532891 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * *
41532954 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTATGAGA
1 -ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
41533019 TA
62 TA
** * * *
41533021 AACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
41533075 CGAACTATAT
Statistics
Matches: 98, Mismatches: 18, Indels: 9
0.78 0.14 0.07
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 24 0.24
67 29 0.30
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:41534163 original size:2 final size:2
Alignment explanation
Indices: 41534156--41534184 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
41534146 TCATGACATG
41534156 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41534185 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41541889 original size:30 final size:30
Alignment explanation
Indices: 41541855--41541914 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41541845 ATTTAATACG
41541855 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41541885 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41541915 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41544074 original size:31 final size:31
Alignment explanation
Indices: 41544032--41544095 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
41544022 CCCTTTTGTA
41544032 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
41544063 TTTCATGTTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
41544094 TT
1 TT
41544096 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:41544333 original size:24 final size:24
Alignment explanation
Indices: 41544287--41544381 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
41544277 GCTTTATCAT
*
41544287 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
41544312 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
41544336 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
41544359 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41544382 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41544366 original size:47 final size:49
Alignment explanation
Indices: 41544287--41544380 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
41544277 GCTTTATCAT
*
41544287 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
41544336 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
41544381 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:41544457 original size:20 final size:20
Alignment explanation
Indices: 41544432--41544491 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
41544422 TATGATTACC
41544432 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
41544452 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
41544472 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
41544492 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:41552012 original size:31 final size:31
Alignment explanation
Indices: 41551970--41552033 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
41551960 CCTTTTCGTA
41551970 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
41552001 TTTCATGTTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
41552032 TT
1 TT
41552034 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:41552271 original size:24 final size:24
Alignment explanation
Indices: 41552225--41552319 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
41552215 GCTTTATCAT
*
41552225 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
41552250 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
41552274 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
41552297 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41552320 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41552304 original size:47 final size:49
Alignment explanation
Indices: 41552225--41552318 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
41552215 GCTTTATCAT
*
41552225 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
41552274 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
41552319 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:41552395 original size:20 final size:20
Alignment explanation
Indices: 41552370--41552429 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
41552360 TATGATTACC
41552370 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
41552390 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
41552410 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
41552430 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:41558974 original size:27 final size:26
Alignment explanation
Indices: 41558922--41558982 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
41558912 ACATACATAT
*
41558922 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
41558948 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
41558975 ATATCTGT
1 ATATCTGT
41558983 CAGCCTCGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:41562859 original size:47 final size:47
Alignment explanation
Indices: 41562800--41562922 Score: 228
Period size: 47 Copynumber: 2.6 Consensus size: 47
41562790 ATCCATAAGT
41562800 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAGCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAGCTCAC
* *
41562847 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAGCTCAC
41562894 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
41562923 CATTCGCATC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAGCTCAC
Found at i:41563425 original size:30 final size:30
Alignment explanation
Indices: 41563391--41563450 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
41563381 ATTTAATACG
41563391 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
41563421 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
41563451 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:41576728 original size:93 final size:93
Alignment explanation
Indices: 41576621--41576791 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
41576611 GCCCCTAAGT
* *
41576621 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41576686 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
41576714 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41576779 CGAGTTCGGATGC
66 CGAGTTCGGATGC
41576792 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41576788 original size:46 final size:46
Alignment explanation
Indices: 41576616--41576788 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
41576606 AACCCGCCCC
* * * *
41576616 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
41576662 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
41576710 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
41576755 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41576789 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:41590654 original size:50 final size:51
Alignment explanation
Indices: 41590507--41590722 Score: 203
Period size: 50 Copynumber: 4.3 Consensus size: 51
41590497 GCTAAATGAC
* * * * *
41590507 CTTG-TATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGAT
1 CTTGATATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
* * * * *
41590557 TTTGA-ATATTTGGCCATGA-AGGTATGGACAAATGTGATATTATATTTGAAT
1 CTTGATATATTCGGCCAT-ATAGGTAAGTACATATGTGATATTATATTTG-AT
* * * *
41590608 -TT-ATATATTCGGCCATATAAGTAAGTACATATGTAATGTTAAATTTGAT
1 CTTGATATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
* * *
41590657 CTTGCT-TAATCGGCCATATAGGTAAGCACATATGTGATATTATATTTGAT
1 CTTGATATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
*
41590707 CTTG-TATATTTGGCCA
1 CTTGATATATTCGGCCA
41590723 AATGAGTGAT
Statistics
Matches: 133, Mismatches: 25, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
49 5 0.04
50 124 0.93
51 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (51 bp):
CTTGATATATTCGGCCATATAGGTAAGTACATATGTGATATTATATTTGAT
Found at i:41590692 original size:100 final size:100
Alignment explanation
Indices: 41590511--41590722 Score: 239
Period size: 100 Copynumber: 2.1 Consensus size: 100
41590501 AATGACCTTG
* * * ** * * *
41590511 TATATTCGGCCACATAGGTATGTACATATGTGATGTTGTATTGGATTTTGAATATTTGGCCATGA
1 TATATTCGGCCACATAAGTAAGTACATATGTAATGTTAAATTGGATCTTGAATAATCGGCCATGA
* *
41590576 AGGTATGGACAAATGTGATATTATATTTGAAT-TTA
66 AGGTAAGCACAAATGTGATATTATATTTG-ATCTTA
* * **
41590611 TATATTCGGCCATATAAGTAAGTACATATGTAATGTTAAATTTGATCTTGCTTAATCGGCCAT-A
1 TATATTCGGCCACATAAGTAAGTACATATGTAATGTTAAATTGGATCTTGAATAATCGGCCATGA
* *
41590675 TAGGTAAGCACATATGTGATATTATATTTGATCTTG
66 -AGGTAAGCACAAATGTGATATTATATTTGATCTTA
*
41590711 TATATTTGGCCA
1 TATATTCGGCCA
41590723 AATGAGTGAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
99 3 0.03
100 90 0.97
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (100 bp):
TATATTCGGCCACATAAGTAAGTACATATGTAATGTTAAATTGGATCTTGAATAATCGGCCATGA
AGGTAAGCACAAATGTGATATTATATTTGATCTTA
Found at i:41591749 original size:17 final size:17
Alignment explanation
Indices: 41591723--41591756 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
41591713 ATTGAATAGG
* *
41591723 TATTAGATATGTTTTGT
1 TATTAAATATGATTTGT
41591740 TATTAAATATGATTTGT
1 TATTAAATATGATTTGT
41591757 GCTATAAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
TATTAAATATGATTTGT
Found at i:41592677 original size:22 final size:22
Alignment explanation
Indices: 41592652--41592699 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
41592642 TTTTTTCAGG
41592652 ATTTATTTCCTCTTCTAAACAT
1 ATTTATTTCCTCTTCTAAACAT
41592674 ATTTATTTCCTCTTCTAAACAT
1 ATTTATTTCCTCTTCTAAACAT
41592696 ATTT
1 ATTT
41592700 CTAAATCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTTCCTCTTCTAAACAT
Found at i:41596201 original size:25 final size:24
Alignment explanation
Indices: 41596173--41596239 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 24
41596163 TGTGAATCGG
41596173 GAAGAGCATACGAGCTGCAAATTAA
1 GAAG-GCATACGAGCTGCAAATTAA
* * * *
41596198 GAAGCTCATACGAGTTGTAAATTAG
1 GAAG-GCATACGAGCTGCAAATTAA
41596223 GAAGGTCATACGAGCTG
1 GAAGG-CATACGAGCTG
41596240 TGGTGTGTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (24 bp):
GAAGGCATACGAGCTGCAAATTAA
Found at i:41598508 original size:48 final size:48
Alignment explanation
Indices: 41598378--41598514 Score: 147
Period size: 48 Copynumber: 2.8 Consensus size: 48
41598368 TAGGAAATTC
* * *
41598378 ATTGATTTGGCTTCGAGCCATGATATTAGCAC-TTCAG-GTACGAGCTTT
1 ATTGATTTGGCTTCG-GCCATGATATTAGCACTTTGAGTGTAC-AGATCT
* *
41598426 ACTGATTTGGCTTCGGGCCATGATA-TCGACACTTTGAGTGTA-AGATCT
1 ATTGATTTGGCTTC-GGCCATGATATTAG-CACTTTGAGTGTACAGATCT
*
41598474 ATTGATTTGGCTTCGGTCCATGATATTAGCACTTTGGGTGT
1 ATTGATTTGGCTTCGG-CCATGATATTAGCACTTTGAGTGT
41598515 GAAACACATT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
47 4 0.05
48 61 0.81
49 7 0.09
50 3 0.04
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGCCATGATATTAGCACTTTGAGTGTACAGATCT
Found at i:41598526 original size:48 final size:48
Alignment explanation
Indices: 41598377--41598552 Score: 146
Period size: 48 Copynumber: 3.7 Consensus size: 48
41598367 TTAGGAAATT
* * * *
41598377 CATTGATTTGGCTTCGAGCCATGATATTAGCAC-TTCAG-GTACGAGCTT
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGAGTGTA--AGATC
* * *
41598425 TACTGATTTGGCTTCGGGCCATGATA-TCGACACTTTGAGTGTAAGATC
1 CATTGATTTGGCTTCGGGCCATGATATTAG-CACTTTGAGTGTAAGATC
* * *
41598473 TATTGATTTGGCTTCGGTCCATGATATTAGCACTTTGGGTGTGAA-A-C
1 CATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGAGTGT-AAGATC
* * * *
41598520 ACATTGAGTTAGCTTTGGGCCATGATATGAGCA
1 -CATTGATTTGGCTTCGGGCCATGATATTAGCA
41598553 GTTAGTGTGC
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
47 3 0.03
48 91 0.87
49 8 0.08
50 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (48 bp):
CATTGATTTGGCTTCGGGCCATGATATTAGCACTTTGAGTGTAAGATC
Found at i:41598777 original size:20 final size:20
Alignment explanation
Indices: 41598752--41598789 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
41598742 GTTTATTCGC
*
41598752 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
41598772 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
41598790 TTTGGATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:41599327 original size:13 final size:13
Alignment explanation
Indices: 41599309--41599333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41599299 CTTAGGGTTG
41599309 TTTTTCCTCTCTT
1 TTTTTCCTCTCTT
41599322 TTTTTCCTCTCT
1 TTTTTCCTCTCT
41599334 AGCCGAAACT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTCCTCTCTT
Found at i:41600452 original size:28 final size:28
Alignment explanation
Indices: 41600419--41600487 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
41600409 GCGTAGATCA
41600419 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
41600447 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
41600475 CGATA-TACCCCTA
1 CGAAATTACCCCTA
41600488 GGGTTTTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:41605292 original size:20 final size:22
Alignment explanation
Indices: 41605248--41605292 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
41605238 TACACACTTT
* *
41605248 TTCATGCACTTTTTAACTGAAA
1 TTCATGCACGTTTTAACTAAAA
41605270 TTCATGCA-GTTTTAA-TAAAA
1 TTCATGCACGTTTTAACTAAAA
41605290 TTC
1 TTC
41605293 TTGTCGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 6 0.29
22 8 0.38
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (22 bp):
TTCATGCACGTTTTAACTAAAA
Found at i:41605380 original size:22 final size:20
Alignment explanation
Indices: 41605355--41605401 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
41605345 CAATACATTG
41605355 AATTTTAATTAATTTTATATCA
1 AATTTTAATT-ATTTTATA-CA
* *
41605377 AATTTTGATTATTTTCTACA
1 AATTTTAATTATTTTATACA
41605397 AATTT
1 AATTT
41605402 GCACGAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTTTAATTATTTTATACA
Found at i:41610414 original size:16 final size:15
Alignment explanation
Indices: 41610388--41610417 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
41610378 ACTAGATTGG
41610388 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
41610403 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
41610418 TCGGTATTTT
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:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:41610860 original size:27 final size:27
Alignment explanation
Indices: 41610820--41610924 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
41610810 AGGAAGCGTC
*
41610820 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
41610847 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
41610874 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
41610902 CTGGTGACTCTGTCAC-ATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
41610925 ATTCTGGCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.04
27 48 0.70
28 18 0.26
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:41610930 original size:54 final size:54
Alignment explanation
Indices: 41610820--41610931 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
41610810 AGGAAGCGTC
* * *
41610820 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* * *
41610874 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
41610928 CTGG
1 CTGG
41610932 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:41615479 original size:5 final size:5
Alignment explanation
Indices: 41615469--41615493 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
41615459 TTTTTCTTGC
41615469 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
41615494 TATTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:41623426 original size:27 final size:28
Alignment explanation
Indices: 41623396--41623455 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
41623386 CAGTTCAGCC
41623396 AATTTAAAACCCTAGGGGT-ATTTCGGT
1 AATTTAAAACCCTAGGGGTAATTTCGGT
* ** **
41623423 AATTTTACTCTTTAGGGGTAATTTCGGT
1 AATTTAAAACCCTAGGGGTAATTTCGGT
41623451 AATTT
1 AATTT
41623456 TGCTCTTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (28 bp):
AATTTAAAACCCTAGGGGTAATTTCGGT
Found at i:41623447 original size:28 final size:28
Alignment explanation
Indices: 41623408--41623476 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
41623398 TTTAAAACCC
41623408 TAGGGGT-ATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
41623435 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
41623463 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
41623477 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:41627324 original size:2 final size:2
Alignment explanation
Indices: 41627317--41627347 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
41627307 GAGACTAGTC
41627317 AT AT 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 AT AT A
41627348 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41629383 original size:30 final size:30
Alignment explanation
Indices: 41629349--41629409 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41629339 TCCTTAACTC
41629349 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41629379 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41629409 A
1 A
41629410 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41630292 original size:13 final size:13
Alignment explanation
Indices: 41630274--41630302 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
41630264 TTTAGTTTAA
41630274 TTAGTTAATTAGT
1 TTAGTTAATTAGT
41630287 TTAGTTAATTAGT
1 TTAGTTAATTAGT
41630300 TTA
1 TTA
41630303 ATAAACAACC
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:41638148 original size:48 final size:48
Alignment explanation
Indices: 41638061--41638439 Score: 533
Period size: 48 Copynumber: 7.8 Consensus size: 48
41638051 TCTCATATCG
**** *
41638061 ATGCCATGTCCCAGACATGGTCTTACACAAAATCACATATTGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * * *
41638109 ACGCTATATCCTAGATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
41638157 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC---G---ATGCCA
41638211 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
41638259 ATGCCATGACCAAGACATGGTCTTACATGGGATTACATATCGAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
* * * *
41638307 ATTCCATGTCCCAGACATGATCTTACATGGGATCACATATCGATACAA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
41638355 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
*
41638403 ATGCCATGTCCCAGACATGGTCTTACATGGGGTCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
41638440 ATGCCATAGC
Statistics
Matches: 293, Mismatches: 32, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
48 244 0.83
51 2 0.01
54 47 0.16
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:41638332 original size:150 final size:144
Alignment explanation
Indices: 41638061--41638439 Score: 535
Period size: 150 Copynumber: 2.6 Consensus size: 144
41638051 TCTCATATCG
**** * * * * *
41638061 ATGCCATGTCCCAGACATGGTCTTACACAAAATCACATATTGATGCCAACGCTAT-ATCCTAGAT
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGA-CCAAGAC
* *
41638125 ATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
65 ATGGTCTTACATGGGATCACATATCGAAGCCAATGCCATGTCCCAGACATGATCTTACATGGGAT
*
41638190 CACATATCGATGCCAATGCCA
130 CACATATCGAT----A--CAA
41638211 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGACCAAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGACCAAGACA
* *
41638276 TGGTCTTACATGGGATTACATATCGAAGCCAATTCCATGTCCCAGACATGATCTTACATGGGATC
66 TGGTCTTACATGGGATCACATATCGAAGCCAATGCCATGTCCCAGACATGATCTTACATGGGATC
41638341 ACATATCGATACAA
131 ACATATCGATACAA
* *
41638355 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGACCAAGACA
*
41638420 TGGTCTTACATGGGGTCACA
66 TGGTCTTACATGGGATCACA
41638440 ATGCCATAGC
Statistics
Matches: 210, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
144 83 0.40
146 1 0.00
150 125 0.60
151 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (144 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATGCCATGACCAAGACA
TGGTCTTACATGGGATCACATATCGAAGCCAATGCCATGTCCCAGACATGATCTTACATGGGATC
ACATATCGATACAA
Found at i:41642723 original size:33 final size:33
Alignment explanation
Indices: 41642650--41642727 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
41642640 AGCATGCAGT
* * * *
41642650 AACAGTCTCGGCCTAAGCCCTATCCAGTATCAT
1 AACAGTCTGGGCCTAAGCCCTATACAGTAACAG
* *
41642683 TACAGTCTGGGCCTGAGCCCTATACAGTAACAG
1 AACAGTCTGGGCCTAAGCCCTATACAGTAACAG
*
41642716 AATAGTCTGGGC
1 AACAGTCTGGGC
41642728 TTTAGCCTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (33 bp):
AACAGTCTGGGCCTAAGCCCTATACAGTAACAG
Found at i:41642991 original size:27 final size:26
Alignment explanation
Indices: 41642933--41642997 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 26
41642923 AGCTGCCAAA
41642933 AACAGTAAATGTGGCAAGCCACCAGC
1 AACAGTAAATGTGGCAAGCCACCAGC
* * *
41642959 ATCAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAAATGTGGCA-AGCCACCAGC
*
41642986 AACAGTGAATGT
1 AACAGTAAATGT
41642998 TAGTCACCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGTAAATGTGGCAAGCCACCAGC
Found at i:41643207 original size:27 final size:27
Alignment explanation
Indices: 41643150--41643266 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
41643140 GGGCATAATC
* * *
41643150 GTCACTTTACCATACAAGGGTATTGCT-
1 GTCATTTTACCCTACAAGGGTATT-ATG
*
41643177 GTCATTTTACCCTACAAGGGAATTATG
1 GTCATTTTACCCTACAAGGGTATTATG
* * *
41643204 GTCATTTTACCTTATAGGGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTATG
* *
41643231 GTCATTTTACCCTACATGGGTATTACG
1 GTCATTTTACCCTACAAGGGTATTATG
*
41643258 ATCATTTTA
1 GTCATTTTA
41643267 AAAATCAGGG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 75 0.99
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTATG
Found at i:41643277 original size:54 final size:54
Alignment explanation
Indices: 41643177--41643281 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
41643167 GGGTATTGCT
* * ***
41643177 GTCATTTTACCCTACAAGGGAATTATGGTCATTTTACCTTATAGGGGTATTATG
1 GTCATTTTACCCTACAAGGGAATTACGATCATTTTACAAAATAGGGGTATTATG
* *
41643231 GTCATTTTACCCTACATGGGTATTACGATCATTTTA-AAAATCAGGGGTATT
1 GTCATTTTACCCTACAAGGGAATTACGATCATTTTACAAAAT-AGGGGTATT
41643282 TCGATAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.05
54 41 0.95
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (54 bp):
GTCATTTTACCCTACAAGGGAATTACGATCATTTTACAAAATAGGGGTATTATG
Found at i:41643278 original size:27 final size:27
Alignment explanation
Indices: 41643248--41643379 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
41643238 TACCCTACAT
* * *
41643248 GGGTATTACGATCATTTTAAAAATCAG
1 GGGTATTTCGATAATTTTACAAATCAG
*
41643275 GGGTATTTCGATAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAG
** * *
41643302 GAATACTTCGATAATTTCACAAATCAG
1 GGGTATTTCGATAATTTTACAAATCAG
* * *
41643329 GGGTATTTCGGTAATTTTACAACTTAG
1 GGGTATTTCGATAATTTTACAAATCAG
41643356 GGGTATTTCGATAATTTTACAAAT
1 GGGTATTTCGATAATTTTACAAAT
41643380 TGGGGTCTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCAG
Found at i:41645950 original size:80 final size:80
Alignment explanation
Indices: 41645814--41646008 Score: 205
Period size: 80 Copynumber: 2.4 Consensus size: 80
41645804 AGAAATTGAA
* * * ** * *
41645814 TGATATCCGGGCTAAGCCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGTTAAGACCCGAA
1 TGATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAA
* * *
41645877 GGCAATTGTGCTAGTGG
64 GGCAATTGTGCAAATCG
*
41645894 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
*
41645959 CATTTGTGCAAATCG
66 CAATTGTGCAAATCG
* * * * *
41645974 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTCGTGCG
41646009 GGTTACCATA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
79 4 0.04
80 91 0.96
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
CAATTGTGCAAATCG
Found at i:41645958 original size:40 final size:39
Alignment explanation
Indices: 41645816--41646044 Score: 163
Period size: 40 Copynumber: 5.7 Consensus size: 39
41645806 AAATTGAATG
* * * **
41645816 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GAGTCATT
* * **
41645856 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCATT
41645896 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATT
* * * * *
41645936 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCATT
* * * * * * **
41645976 ATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCATT
* * *
41646016 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATATCCGGGCTAAGACCCGAAGGC-ATTG
41646045 ATCGAGTAGC
Statistics
Matches: 150, Mismatches: 34, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
39 5 0.03
40 141 0.94
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCATT
Found at i:41646024 original size:80 final size:80
Alignment explanation
Indices: 41645860--41646044 Score: 192
Period size: 80 Copynumber: 2.3 Consensus size: 80
41645850 GAAATTATAT
* * * * *
41645860 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTCG
* *
41645925 TGCGAGTCATTCTAT
66 TGCGAGTCATCCTAA
* * * * * *
41645940 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGATATCCGGGTTAAGTCCCGTAGGCCTTGG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTCG
* *
41646005 TGCGGGTTA-CCATAA
66 TGCGAGTCATCC-TAA
* * *
41646020 CCGGGCTATGTCCCGAAGGCGATTG
1 CCGGGCTAAGACCCGAAGGCAATTG
41646045 ATCGAGTAGC
Statistics
Matches: 85, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
79 1 0.01
80 84 0.99
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGTGATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATCCTAA
Found at i:41650905 original size:39 final size:39
Alignment explanation
Indices: 41650851--41651013 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
41650841 TGTGAATGAA
41650851 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
41650890 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
41650929 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
41650968 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
41651008 TGTGCG
1 TGTGCG
41651014 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:41651029 original size:40 final size:39
Alignment explanation
Indices: 41650851--41651043 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
41650841 TGTGAATGAA
* *
41650851 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
41650890 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
41650929 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
41650968 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
41651008 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
41651044 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:41656501 original size:40 final size:39
Alignment explanation
Indices: 41656390--41656540 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
41656380 TATAATCAGT
* * *
41656390 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
41656430 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
41656470 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
41656510 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
41656541 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:41656524 original size:80 final size:79
Alignment explanation
Indices: 41656390--41656540 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
41656380 TATAATCAGT
*
41656390 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
41656455 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
41656470 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
41656533 CCGGATAT
64 CCGGATAT
41656541 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:41657382 original size:17 final size:19
Alignment explanation
Indices: 41657359--41657404 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
41657349 AAGAAGCATG
41657359 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
41657377 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
41657395 AATCATGCTC
1 AATCATGCTC
41657405 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:41664493 original size:40 final size:39
Alignment explanation
Indices: 41664382--41664532 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
41664372 TATAATCAGT
* * *
41664382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
41664422 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
41664462 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
41664502 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
41664533 CATTCAATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 15 0.16
40 80 0.84
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:41664516 original size:80 final size:79
Alignment explanation
Indices: 41664382--41664532 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
41664372 TATAATCAGT
*
41664382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
41664447 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
41664462 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
41664525 CCGGATAT
64 CCGGATAT
41664533 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:41665375 original size:17 final size:19
Alignment explanation
Indices: 41665352--41665397 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
41665342 AAGAAGCATG
41665352 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
41665370 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
41665388 AATCATGCTC
1 AATCATGCTC
41665398 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:41667906 original size:25 final size:25
Alignment explanation
Indices: 41667873--41667955 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
41667863 AGTAAGTTGC
*
41667873 ATATGAATAAATATACAACAACAAT
1 ATATCAATAAATATACAACAACAAT
**
41667898 ATATCAAT--A-AT-CAACATA-GTT
1 ATATCAATAAATATACAACA-ACAAT
*
41667919 GCATATGAATAAATATACAACAACAAT
1 --ATATCAATAAATATACAACAACAAT
41667946 ATATCAATAA
1 ATATCAATAA
41667956 TCAACATACT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 8 0.19
25 17 0.40
26 3 0.07
27 6 0.14
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.27
Consensus pattern (25 bp):
ATATCAATAAATATACAACAACAAT
Found at i:41667938 original size:48 final size:48
Alignment explanation
Indices: 41667867--41667963 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
41667857 AAGCTTAGTA
41667867 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
1 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
41667915 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
1 AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
41667963 A
1 A
41667964 CTCATAATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (48 bp):
AGTTGCATATGAATAAATATACAACAACAATATATCAATAATCAACAT
Found at i:41668306 original size:46 final size:46
Alignment explanation
Indices: 41668192--41668432 Score: 176
Period size: 46 Copynumber: 5.2 Consensus size: 46
41668182 CTCAAACACG
* * *
41668192 GTCTTACACTGGCTCACATCT--TAAGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTAGCTTACATCTCGT-AGCCGATG-CATGTCCCAGACAT
*
41668238 GGTCTTACACT-GAC-TATTATCTCGTAGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTAG-CTTA-CATCTCGTAGCCGATGCATGTCCCAGACAT
* * * *
41668285 GTCTTACACTAGCTTACATCTCG-AGGCCGATGCATATCCTAGAAAA
1 GTCTTACACTAGCTTACATCTCGTA-GCCGATGCATGTCCCAGACAT
* * *
41668331 GTCTTACACTAGCACT-CGTCTC-AATGCCGATGCAATGTCCCAGACAT
1 GTCTTACACTAGC-TTACATCTCGTA-GCCGATGC-ATGTCCCAGACAT
* * * *
41668378 GGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATATCCCAAACAT
1 -GTCTTACACTAGCT-TACAT-CTCGTAGCCGATGCATGTCCCAGACAT
41668425 GTCTTACA
1 GTCTTACA
41668433 TTGGCCCACA
Statistics
Matches: 158, Mismatches: 22, Indels: 29
0.76 0.11 0.14
Matches are distributed among these distances:
45 1 0.01
46 71 0.45
47 53 0.34
48 31 0.20
49 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
GTCTTACACTAGCTTACATCTCGTAGCCGATGCATGTCCCAGACAT
Found at i:41668429 original size:94 final size:92
Alignment explanation
Indices: 41668264--41668432 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 92
41668254 TTATCTCGTA
* *
41668264 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCATATCCTAGAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATATCCCAGAA
41668329 AAGTCTTACACTAGCACTCGTCTCAAT
66 AAGTCTTACACTAGCACTCGTCTCAAT
*
41668356 GCCGATGCAATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATATCCC
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATATCCC
*
41668419 A-AACATGTCTTACA
62 AGAA-AAGTCTTACA
41668433 TTGGCCCACA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
92 8 0.12
93 15 0.22
94 43 0.63
95 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATATCCCAGAA
AAGTCTTACACTAGCACTCGTCTCAAT
Found at i:41668806 original size:30 final size:30
Alignment explanation
Indices: 41668771--41668828 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
41668761 AAATTCACAT
* *
41668771 CTTTGGTAAAATAACCATTTTTCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
*
41668801 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
41668829 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:41677062 original size:46 final size:46
Alignment explanation
Indices: 41677003--41677120 Score: 175
Period size: 46 Copynumber: 2.6 Consensus size: 46
41676993 GCCCATAAAC
* *
41677003 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAG-TTCAGACGTTCGCATCCATAAGT
* *
41677049 GAACTCGGACTCAACTCAATGAGTTCAGATGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
*
41677095 GAACTCAGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
41677121 GGATACCTAG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.03
46 63 0.97
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGT
Found at i:41678659 original size:47 final size:47
Alignment explanation
Indices: 41678588--41678864 Score: 237
Period size: 47 Copynumber: 5.9 Consensus size: 47
41678578 TGGGTAAGGT
*
41678588 GCCGATGCCATGTCTCAGACATGGTCTTACACTGGCTCACATCTCACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-A
* *
41678636 -TCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTCA-A
* *
41678683 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * * * *
41678728 GGCCGATG-CATATCCCAGACAT-GTCTTACACTAGCACTCGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
* * * * * * ***
41678774 TGCCAATGCCATATCCCAAACATGGTCTTATACTGGCTCTCATAATGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAA
* * * *
41678823 GCCAATG-CATATCCCAAACAT-GTCTTACACTGGCCCACATCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCT
41678865 TAAGTGACCC
Statistics
Matches: 195, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.01
46 82 0.42
47 83 0.43
48 27 0.14
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA
Found at i:41679200 original size:40 final size:40
Alignment explanation
Indices: 41679156--41679235 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
41679146 CTTATTTAAT
41679156 CACTAAATAAATTTAAGCAATTAAAAATTCACATCTTCGA
1 CACTAAATAAATTTAAGCAATTAAAAATTCACATCTTCGA
41679196 CACTAAATAAATTTAAGCAATTAAAAATTCACATCTTCGA
1 CACTAAATAAATTTAAGCAATTAAAAATTCACATCTTCGA
41679236 TAAAATGACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.30
Consensus pattern (40 bp):
CACTAAATAAATTTAAGCAATTAAAAATTCACATCTTCGA
Found at i:41682031 original size:11 final size:11
Alignment explanation
Indices: 41682015--41682040 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41682005 TATTAATATA
41682015 TATTTATTTTT
1 TATTTATTTTT
41682026 TATTTATTTTT
1 TATTTATTTTT
41682037 TATT
1 TATT
41682041 AGTGATGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTATTTTT
Found at i:41682981 original size:19 final size:20
Alignment explanation
Indices: 41682959--41683006 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
41682949 ACTGTTTTGG
*
41682959 TGCTATTTTTA-TGTTGTTT
1 TGCTATTTTTACTGTTATTT
41682978 TGCTACTATTTTACTGTTATTT
1 TGCTA-T-TTTTACTGTTATTT
*
41683000 CGCTATT
1 TGCTATT
41683007 ATGTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 6 0.25
22 11 0.46
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (20 bp):
TGCTATTTTTACTGTTATTT
Found at i:41687483 original size:3 final size:3
Alignment explanation
Indices: 41687475--41687506 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
41687465 GGTACGGTTA
*
41687475 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
41687507 AGAAAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:41687815 original size:33 final size:32
Alignment explanation
Indices: 41687759--41687821 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
41687749 CTTTAATTTA
* *
41687759 ATCAATTTTAGTTTATGCGTTTTTTAAAATTCG
1 ATCAATTTTAGTTTATAC-ATTTTTAAAATTCG
* *
41687792 ATCAATTTTAGTTTTTATATTTTTAAAATT
1 ATCAATTTTAGTTTATACATTTTTAAAATT
41687822 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 11 0.42
33 15 0.58
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (32 bp):
ATCAATTTTAGTTTATACATTTTTAAAATTCG
Found at i:41690215 original size:26 final size:26
Alignment explanation
Indices: 41690151--41690229 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
41690141 CAACTATCAC
*
41690151 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGC-TTGCACA
41690177 -TCTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
* *
41690202 TTTTTGCTGAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
41690228 TT
1 TT
41690230 AGAAAGCTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
24 3 0.06
25 20 0.42
26 25 0.52
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTTGCTAAGCTTGCAGCTTGCACA
Found at i:41690733 original size:25 final size:25
Alignment explanation
Indices: 41690705--41690761 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
41690695 TCAGTTTATT
41690705 TTGAACTAA-AAAACTAAACTAGT-GC
1 TTGAACTAACAAAA-TAAAC-AGTAGC
* *
41690730 TTGAAGTAACAAAATGAACAGTAGC
1 TTGAACTAACAAAATAAACAGTAGC
41690755 TTGAACT
1 TTGAACT
41690762 TTAGCCAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.11
25 20 0.74
26 4 0.15
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (25 bp):
TTGAACTAACAAAATAAACAGTAGC
Found at i:41693476 original size:12 final size:12
Alignment explanation
Indices: 41693461--41693485 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41693451 GAAGTGATTG
41693461 TAAAAAAAATTA
1 TAAAAAAAATTA
41693473 TAAAAAAAATTA
1 TAAAAAAAATTA
41693485 T
1 T
41693486 CTCAAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAAAAATTA
Found at i:41695349 original size:16 final size:16
Alignment explanation
Indices: 41695325--41695360 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41695315 ATCATTTCCC
* *
41695325 AAAAGCAAAGGAAGAG
1 AAAAACAAAGGAAAAG
41695341 AAAAACAAAGGAAAAG
1 AAAAACAAAGGAAAAG
41695357 AAAA
1 AAAA
41695361 CCCCCAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAACAAAGGAAAAG
Found at i:41696670 original size:46 final size:46
Alignment explanation
Indices: 41696516--41696687 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
41696506 AGCATCCAAA
* * * * *
41696516 CTCGTTGAGTTGAGTCCGAGTTCATTTTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCA--CTTATGGATGCAAACGCCCGAG
* * * * * *
41696564 CTCATTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC--CCGAG
41696611 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
*
41696657 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41696688 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 35 0.35
47 26 0.26
48 27 0.27
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAG
Found at i:41696680 original size:93 final size:94
Alignment explanation
Indices: 41696507--41696680 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 94
41696497 GGATGGTTGA
* * * *
41696507 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTTTATGGATGCGAATGTCCGAACTCATTGA
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCA-TCTTATGGATGCAAACGCCCGAACTCATTGA
41696572 GTTGAGTCCGAGTTCGTGAAATGTAACTAG
65 GTTGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
41696602 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCA-CTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATCTTATGGATGCAAACGCCCGAACTCATTGAG
41696666 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
41696681 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
93 40 0.56
95 31 0.44
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (94 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCATCTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:41702214 original size:22 final size:22
Alignment explanation
Indices: 41702170--41702216 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
41702160 TATATATGAT
* *
41702170 AAATGGTAGCAACATAATAGTA
1 AAATGGTAGCAAAACAATAGTA
* *
41702192 AAATTGTAGCAAAACAATGGTA
1 AAATGGTAGCAAAACAATAGTA
41702214 AAA
1 AAA
41702217 AGTGGGAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (22 bp):
AAATGGTAGCAAAACAATAGTA
Found at i:41704604 original size:23 final size:25
Alignment explanation
Indices: 41704554--41704605 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
41704544 CTTTATACTT
**
41704554 AAATAATAATAAAATAGTTGCAACTA
1 AAATAATAATAAAATA-TAACAACTA
41704580 AAATAATAATAAAAT-TAACAA-TA
1 AAATAATAATAAAATATAACAACTA
41704603 AAA
1 AAA
41704606 CAAGAGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 4 0.17
26 15 0.62
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (25 bp):
AAATAATAATAAAATATAACAACTA
Found at i:41705340 original size:12 final size:12
Alignment explanation
Indices: 41705323--41705348 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41705313 AAATAAAATT
41705323 AATTATATAATA
1 AATTATATAATA
41705335 AATTATATAATA
1 AATTATATAATA
41705347 AA
1 AA
41705349 GTAAGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTATATAATA
Found at i:41715216 original size:5 final size:5
Alignment explanation
Indices: 41715206--41715253 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
41715196 AATTAATTAG
*
41715206 TAAAA TAAAA T-AAA TAATA TAACAA TTAATAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
41715253 T
1 T
41715254 TGGGGTGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.11
5 24 0.65
6 4 0.11
7 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (5 bp):
TAAAA
Found at i:41722390 original size:22 final size:23
Alignment explanation
Indices: 41722349--41722394 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
41722339 ATAGTAGTTT
*
41722349 AAAATTTTCTTTCAATTTATTAA
1 AAAATTTTCTTGCAATTTATTAA
41722372 AAAATTTTCTTGCAA-TTATTAA
1 AAAATTTTCTTGCAATTTATTAA
41722394 A
1 A
41722395 TCTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (23 bp):
AAAATTTTCTTGCAATTTATTAA
Found at i:41726495 original size:33 final size:32
Alignment explanation
Indices: 41726443--41726508 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
41726433 AACAATCAAA
* *
41726443 TGTAGTTTGGGCCTAAGCCCATTTTAGTCTCAG
1 TGTAGTTCGGGCCTAAGCCCATTTCAGT-TCAG
* *
41726476 TGTAGTTCGGGCTTTAGCCCATTTCAGTTCAG
1 TGTAGTTCGGGCCTAAGCCCATTTCAGTTCAG
41726508 T
1 T
41726509 ATCAAATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (32 bp):
TGTAGTTCGGGCCTAAGCCCATTTCAGTTCAG
Found at i:41740817 original size:25 final size:25
Alignment explanation
Indices: 41740789--41740840 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
41740779 TTTGGCTTGA
*
41740789 CATTTACTAAGCAATATCAGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
41740814 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
41740839 CA
1 CA
41740841 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:41756048 original size:15 final size:16
Alignment explanation
Indices: 41756028--41756060 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
41756018 ACTGTGAAGC
41756028 CCAAAAT-GACCCTAG
1 CCAAAATAGACCCTAG
41756043 CCAAAATAGACCCTAG
1 CCAAAATAGACCCTAG
41756059 CC
1 CC
41756061 GGAATGTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.39, C:0.36, G:0.12, T:0.12
Consensus pattern (16 bp):
CCAAAATAGACCCTAG
Found at i:41757779 original size:40 final size:40
Alignment explanation
Indices: 41757713--41757879 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
41757703 AAATTGAATG
* * *
41757713 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
41757752 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
41757792 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
41757832 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
41757872 ATATCCGG
1 ATATCCGG
41757880 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:41764515 original size:56 final size:53
Alignment explanation
Indices: 41764422--41764530 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
41764412 TGAAAAAAAA
41764422 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
41764475 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
41764531 GAAAAGGGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:41765791 original size:40 final size:40
Alignment explanation
Indices: 41765725--41765891 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
41765715 AAATTGAATG
* * *
41765725 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
41765764 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
41765804 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
41765844 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
41765884 ATATCCGG
1 ATATCCGG
41765892 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:41772111 original size:48 final size:47
Alignment explanation
Indices: 41771793--41772160 Score: 264
Period size: 46 Copynumber: 7.8 Consensus size: 47
41771783 CATAGGGTAT
*
41771793 AATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGC-CCATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCAT-C-TC
** * *
41771841 AA-GATGATGCCATGTCCCAGACATAGTCTTACACTAGGTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GG-CTC-CATCTC
* * * * *
41771890 TATACCGATGCCATGTCCCAGTCATGGTCTTACACTGACACC-TCT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATCTC
* *
41771935 ATATGTGCCGATGCCATGTCCCAGATATGGTCTTACACT-G-TCAGATCTC
1 A-A--TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATCTC
* * * *
41771984 -GTAGCCGATG-CATATCCCAAACAT-GTCTTACACTGGCTTACATCTC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCCATCTC
* * * * * *
41772030 GAGGCTGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATCTC
*
41772076 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-C-TCAT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATC-TC
*
41772121 AATGTGGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGC
1 AA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
41772161 ACACAATTAA
Statistics
Matches: 257, Mismatches: 40, Indels: 48
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.04
45 18 0.07
46 74 0.29
47 58 0.23
48 60 0.23
49 5 0.02
50 29 0.11
51 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATCTC
Found at i:41772114 original size:94 final size:94
Alignment explanation
Indices: 41771793--41772157 Score: 270
Period size: 94 Copynumber: 3.9 Consensus size: 94
41771783 CATAGGGTAT
* * * * * **
41771793 AATGCCGATGCCATGTCCCAGACATGGTCTTACACGGGCCCATCCATC-AAGATGATGCCATGTC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATAC-TCGAGGCCGATGCCATGTC
* *
41771857 CCAGACATAGTCTTACACTAGGTCTCACATATC
65 CCAGACATAGTCTTACACTA-G-CTC-CGTCTC
* * ** * * **
41771890 TATACCGATGCCATGTCCCAGTCATGGTCTTACACTGACACCT-CTATATGTGCCGATGCCATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATACTCGA-G-GCCGATGCCATGT
* * *
41771954 CCCAGATATGGTCTTACACT-G-TCAGATCTC
64 CCCAGACATAGTCTTACACTAGCTCCG-TCTC
* * * *
41771984 -GTAGCCGATG-CATATCCCAAACAT-GTCTTACACTGGCTTACAT-CTCGAGGCTGATG-CATA
1 AAT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC--ACATACTCGAGGCCGATGCCATG
41772044 TCCCAGACAT-GTCTTACACTAGCTCTCGTCTC
63 TCCCAGACATAGTCTTACACTAGCTC-CGTCTC
* * *
41772076 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGG--CACATACTCGAGGCCGATGCCATGT
*
41772139 CCCAAACAT-GTCTTACACT
64 CCCAGACATAGTCTTACACT
41772158 GGCACACAAT
Statistics
Matches: 215, Mismatches: 37, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
90 10 0.05
91 13 0.06
92 31 0.14
93 28 0.13
94 62 0.29
95 2 0.01
96 4 0.02
97 36 0.17
98 29 0.13
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACATACTCGAGGCCGATGCCATGTCC
CAGACATAGTCTTACACTAGCTCCGTCTC
Found at i:41779711 original size:47 final size:47
Alignment explanation
Indices: 41779542--41779862 Score: 191
Period size: 47 Copynumber: 6.9 Consensus size: 47
41779532 AAACATAGGG
* * * * **
41779542 TATAATGCCAATGCCATGTCCCAGACATGGTCTTACACGGGCTTATC
1 TATAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
* * * * * *
41779589 CATCAAGT--CGATGCCATGTACCAGACATGATCTTAAATTGAC-TATC
1 TAT--AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
* * * *
41779635 GAAATCGAG-GCCGACGCCATTTCCCAGACATGGTCTTACACTGACACCTC
1 --TAT--AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
*
41779685 TATAGTGCAGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
1 TATAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
* * * *
41779732 T-T-GTAGCTGATG-CATGTCCCAAACAT-GTCTTACAGTGGCTTACATC
1 TATAGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATC
** * *
41779778 TCGAG-GCCGATG-CATGTCCCAAACAT-GTCTTACACT-AGCTC-TC
1 TATAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CACATC
* * *
41779821 GTCTCAATACCGATGCCATGTCCCAGACATGGTCTTACACTG
1 -TAT-AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTG
41779863 GCTCTCATAA
Statistics
Matches: 217, Mismatches: 37, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 16 0.07
46 55 0.25
47 80 0.37
48 18 0.08
49 30 0.14
50 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
TATAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC
Found at i:41779793 original size:46 final size:46
Alignment explanation
Indices: 41779740--41779910 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
41779730 TCTTGTAGCT
*
41779740 GATGCATGTCCCAAACATGTCTTACAGTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATCTCGAGGCC
* * * **
41779786 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATACC
1 GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAGGCC
* * * *
41779832 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCC
41779880 GATGCATGT-CCAATACATGTCTTACACTGGC
1 GATGCATGTCCCAA-ACATGTCTTACACTGGC
41779911 ACACAATTAA
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 58 0.56
47 23 0.22
48 22 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGAGGCC
Found at i:41779888 original size:47 final size:43
Alignment explanation
Indices: 41779656--41779910 Score: 165
Period size: 46 Copynumber: 5.5 Consensus size: 43
41779646 CGACGCCATT
* * *
41779656 TCCCAGACATGGTCTTACACTGACACCTCTATAGTGCAGATGCCATG
1 TCCCAGACAT-GTCTTACACTGGC-TCTCTAT-GTGCCGATG-CATG
* * *
41779703 TCCCAGACATGGTCTTACACTGACACATCT-TGTAGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTC-TCTATGT-GCCGATGCATG
* *
41779748 TCCCAAACATGTCTTACAGTGGCTTACATCTCGA-G-GCCGATGCATG
1 TCCCAGACATGTCTTACACTGGC-T-C-TCT--ATGTGCCGATGCATG
* * * * *
41779794 TCCCAAACATGTCTTACACTAGCTCTCGTCTCAATACCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTCTC-TAT--GTGCCGATG-CATG
*
41779841 TCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTCTC-T-ATGT-GCCGATGCATG
* *
41779888 TCCAATACATGTCTTACACTGGC
1 TCCCAGACATGTCTTACACTGGC
41779911 ACACAATTAA
Statistics
Matches: 171, Mismatches: 21, Indels: 33
0.76 0.09 0.15
Matches are distributed among these distances:
43 2 0.01
44 13 0.08
45 16 0.09
46 63 0.37
47 53 0.31
48 23 0.13
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGTCTTACACTGGCTCTCTATGTGCCGATGCATG
Found at i:41781623 original size:27 final size:26
Alignment explanation
Indices: 41781579--41781669 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 26
41781569 TGGCTGCCAG
* *
41781579 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGGGACAGAGCCACCAA
* *
41781605 ATACAGATATTGGGGCAGAGCCACCAG
1 A-ACAGATATTGGGACAGAGCCACCAA
* *
41781632 AACAGATATTTGTGG-GATAGCCACCAGA
1 AACAGATA-TTG-GGACAGAGCCACCA-A
41781660 AACAGATATT
1 AACAGATATT
41781670 TGTGGCATAG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
26 8 0.15
27 36 0.67
28 10 0.19
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGGGACAGAGCCACCAA
Done.