Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 112 of 345
Found at i:30145393 original size:37 final size:36
Alignment explanation
Indices: 30145352--30145493 Score: 139
Period size: 37 Copynumber: 4.0 Consensus size: 36
30145342 AAAAATATGG
30145352 TTAATATTTAAAAAT-TAATATTTAAAATTTTAAAAAA
1 TTAAT-TTTAAAAATAT-ATATTTAAAATTTTAAAAAA
* * *
30145389 TTAATTTGAAAAATATATTTTTAAAATATATAAAAAA
1 TTAATTTTAAAAATATATATTTAAAAT-TTTAAAAAA
* * * *
30145426 TTAATTTCACAAATATATATCT-AAA-GTTAAAAAA
1 TTAATTTTAAAAATATATATTTAAAATTTTAAAAAA
* * *
30145460 ATATTTTTAAAAATA-ATAATTAAAATTTTAAAAA
1 TTAATTTTAAAAATATATATTTAAAATTTTAAAAA
30145494 GTATTATAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
33 4 0.05
34 21 0.25
35 7 0.08
36 21 0.25
37 32 0.38
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (36 bp):
TTAATTTTAAAAATATATATTTAAAATTTTAAAAAA
Found at i:30145662 original size:29 final size:29
Alignment explanation
Indices: 30145629--30145703 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
30145619 ATTAAGGAAC
30145629 AAAATAAAA-AAGTAAAAA-AAAGAAATATG
1 AAAATAAAAGAA--AAAAACAAAGAAATATG
30145658 AAAATAAAAGAAAAAAACAAAGAAATATG
1 AAAATAAAAGAAAAAAACAAAGAAATATG
*
30145687 AAAATAAGAGAAAAAAA
1 AAAATAAAAGAAAAAAA
30145704 TAAAAAGACG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 5 0.12
29 36 0.84
30 2 0.05
ACGTcount: A:0.77, C:0.01, G:0.11, T:0.11
Consensus pattern (29 bp):
AAAATAAAAGAAAAAAACAAAGAAATATG
Found at i:30145698 original size:17 final size:16
Alignment explanation
Indices: 30145642--30145699 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
30145632 ATAAAAAAGT
*
30145642 AAAAAAAAGAAATATG
1 AAAATAAAGAAATATG
30145658 AAAATAAA-AGAA-A--
1 AAAATAAAGA-AATATG
*
30145671 AAAACAAAGAAATATG
1 AAAATAAAGAAATATG
30145687 AAAATAAGAGAAA
1 AAAATAA-AGAAA
30145700 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
13 9 0.27
14 2 0.06
15 2 0.06
16 15 0.45
17 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAATAAAGAAATATG
Found at i:30149433 original size:22 final size:24
Alignment explanation
Indices: 30149405--30149532 Score: 80
Period size: 22 Copynumber: 5.7 Consensus size: 24
30149395 TCATGGTCGA
30149405 TAAGCTCCT-TCGAGCTG-AACAG
1 TAAGCTCCTATCGAGCTGAAACAG
* *
30149427 TAAGCT-CTATTGAGCTGAAACGG
1 TAAGCTCCTATCGAGCTGAAACAG
* *
30149450 TAAGCT-CTAAT-AAGCT-AAACGG
1 TAAGCTCCT-ATCGAGCTGAAACAG
* *
30149472 TAAG-TTCTA-CTAAGCTG-AACAG
1 TAAGCTCCTATC-GAGCTGAAACAG
* *
30149494 TAAGCTCCAAT-GATCTGAAACAG
1 TAAGCTCCTATCGAGCTGAAACAG
*
30149517 TAAGCTCTTA-CGAGCT
1 TAAGCTCCTATCGAGCT
30149533 ATGGTGAGTT
Statistics
Matches: 84, Mismatches: 11, Indels: 21
0.72 0.09 0.18
Matches are distributed among these distances:
21 4 0.05
22 42 0.50
23 36 0.43
24 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (24 bp):
TAAGCTCCTATCGAGCTGAAACAG
Found at i:30149475 original size:45 final size:44
Alignment explanation
Indices: 30149417--30149524 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 44
30149407 AGCTCCTTCG
* * * * *
30149417 AGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTAATA
1 AGCTAAACAGTAAGCTCTACTAAGCTG-AACAGTAAGCTCCAATA
* * *
30149462 AGCTAAACGGTAAGTTCTACTAAGCTGAACAGTAAGCTCCAATG
1 AGCTAAACAGTAAGCTCTACTAAGCTGAACAGTAAGCTCCAATA
*
30149506 ATCTGAAACAGTAAGCTCT
1 AGCT-AAACAGTAAGCTCT
30149525 TACGAGCTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 17 0.33
45 34 0.67
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (44 bp):
AGCTAAACAGTAAGCTCTACTAAGCTGAACAGTAAGCTCCAATA
Found at i:30155995 original size:242 final size:241
Alignment explanation
Indices: 30155570--30156049 Score: 816
Period size: 242 Copynumber: 2.0 Consensus size: 241
30155560 TGATACCAAT
** * *
30155570 AAATGTAACACCTTTAACCCGTAACTATCACCGGAATAGGTTAAGAGGCATTACCAGACCTATAA
1 AAATGTAACACCCCTAACCCGTAACTATCACCAGAATAGGTTAAGAGGCATTACAAGACCTATAA
30155635 CACAATTCAAAACATTCATTTAACAAATTCCATCTCATTTCAGTAACCATCAATCATTCACATTC
66 CACAATTCAAAACATTCATTTAACAAATTCCATCTCATTTCAGTAACCATCAATCATTCACATTC
* *
30155700 AAAATGTACTTAAATTAATCATACAAAGTCTTAATCATGCATTTGGTACTAAATTGATAATATAT
131 AAAATGTACTTAAATTAATCATACAAAATCTTAATCATGCATTTGGTACTAAATTGATAACATAT
*
30155765 AAAAATTTCAAAAACTTAGAAAGTTTTCAATTTTTCAAGTGACAAAC
196 AAAAATTTCAAAAACTTAGAAA-TTTTCAACTTTTCAAGTGACAAAC
* * * * *
30155812 AAATGTAACACCCCTAACCTGTAACTGTCGCCAGAATAGGTTAAGAGGCATTACAATACCTGTAA
1 AAATGTAACACCCCTAACCCGTAACTATCACCAGAATAGGTTAAGAGGCATTACAAGACCTATAA
*
30155877 CTCAATTCAAAACATTCATTTAACAAATTCCATCTCATTTCAGTAACCATCAATCATTCACATTC
66 CACAATTCAAAACATTCATTTAACAAATTCCATCTCATTTCAGTAACCATCAATCATTCACATTC
*
30155942 AAAATGTACTTAAATTACTCATACAAAATCTTAATCATGCATTTGGTACTAAATTGATAACATAT
131 AAAATGTACTTAAATTAATCATACAAAATCTTAATCATGCATTTGGTACTAAATTGATAACATAT
*
30156007 AAAAATTTCAGAAACTTAGAAATTTTCAACTTTTCAAGTGACA
196 AAAAATTTCAAAAACTTAGAAATTTTCAACTTTTCAAGTGACA
30156050 CACGCCCGTG
Statistics
Matches: 223, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
241 20 0.09
242 203 0.91
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (241 bp):
AAATGTAACACCCCTAACCCGTAACTATCACCAGAATAGGTTAAGAGGCATTACAAGACCTATAA
CACAATTCAAAACATTCATTTAACAAATTCCATCTCATTTCAGTAACCATCAATCATTCACATTC
AAAATGTACTTAAATTAATCATACAAAATCTTAATCATGCATTTGGTACTAAATTGATAACATAT
AAAAATTTCAAAAACTTAGAAATTTTCAACTTTTCAAGTGACAAAC
Found at i:30157265 original size:22 final size:22
Alignment explanation
Indices: 30157240--30157378 Score: 120
Period size: 22 Copynumber: 6.2 Consensus size: 22
30157230 AAGCTCCTTC
*
30157240 GAGCTGAACAGTAAGCTCTATT
1 GAGCTGAACAGTAAGCTCTAAT
*
30157262 GAGCTGAA-ATGGTAAGCTTTAAT
1 GAGCTGAACA--GTAAGCTCTAAT
* * *
30157285 GAGCTGAACGGTAAGATCTATT
1 GAGCTGAACAGTAAGCTCTAAT
* *
30157307 GAG-TAGAACGGTAAGCTCTACT
1 GAGCT-GAACAGTAAGCTCTAAT
* * *
30157329 GAGATGAACGGTAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTAAT
* *
30157351 GAGCTGAAACAGTAAGCTATTAT
1 GAGCTG-AACAGTAAGCTCTAAT
30157374 GAGCT
1 GAGCT
30157379 ATGGTGAGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.02
22 58 0.60
23 36 0.38
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTAAT
Found at i:30157276 original size:45 final size:44
Alignment explanation
Indices: 30157226--30157368 Score: 139
Period size: 45 Copynumber: 3.2 Consensus size: 44
30157216 GAGTCATGGT
*
30157226 CGGTAAGCTCCTTCGAGCTGAACAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCT-CTTCGAGCTGAACGGTAAGCTCTATTGAGCTGAAA
* * *
30157271 TGGTAAGCT-TTAATGAGCTGAACGGTAAGATCTATTGAG-T-AGAA
1 CGGTAAGCTCTT--CGAGCTGAACGGTAAGCTCTATTGAGCTGA-AA
* * * *
30157315 CGGTAAGCTCTACTGAGATGAACGGTAAGCTCCAATGAGCTGAAA
1 CGGTAAGCTCTTC-GAGCTGAACGGTAAGCTCTATTGAGCTGAAA
*
30157360 CAGTAAGCT
1 CGGTAAGCT
30157369 ATTATGAGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
43 3 0.04
44 32 0.41
45 43 0.54
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (44 bp):
CGGTAAGCTCTTCGAGCTGAACGGTAAGCTCTATTGAGCTGAAA
Found at i:30158807 original size:12 final size:12
Alignment explanation
Indices: 30158790--30158818 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
30158780 CCAAAACAGA
30158790 CCAGTTTGGCAC
1 CCAGTTTGGCAC
30158802 CCAGTTTGGCAC
1 CCAGTTTGGCAC
30158814 CCAGT
1 CCAGT
30158819 GCCTCATCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.24
Consensus pattern (12 bp):
CCAGTTTGGCAC
Found at i:30158866 original size:40 final size:39
Alignment explanation
Indices: 30158811--30158945 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
30158801 CCCAGTTTGG
30158811 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAA-TTGA
* * * * * *
30158851 CACCCAGTGTCTCATCAGCTAAATCAAAGT-A-AATTGG
1 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTGA
* * *
30158888 CACCCTA-TGCCTCATCGAGTTAATCCGAAGTAGTGAATTGA
1 CACCC-AGTGCCTCATCG-GATAATTCGAAGTAAT-AATTGA
*
30158929 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
30158946 ACTCGAAGTC
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
37 16 0.22
38 12 0.16
39 1 0.01
40 26 0.35
41 19 0.26
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATTCGAAGTAATAATTGA
Found at i:30161574 original size:17 final size:16
Alignment explanation
Indices: 30161547--30161579 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
30161537 ATAGATTAAC
30161547 ATGATTTGTATATGAA
1 ATGATTTGTATATGAA
30161563 ATGATATTGTATATGAA
1 ATGAT-TTGTATATGAA
30161580 TTGGTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATGATTTGTATATGAA
Found at i:30165070 original size:46 final size:46
Alignment explanation
Indices: 30165017--30165192 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
30165007 CATTTGGGCA
30165017 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
30165063 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
30165111 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
30165156 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30165193 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 30 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30165172 original size:93 final size:93
Alignment explanation
Indices: 30165013--30165184 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30165003 AGGACATTTG
* *
30165013 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30165078 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
30165106 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
30165171 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
30165185 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:30168590 original size:67 final size:67
Alignment explanation
Indices: 30168482--30168615 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
30168472 TTCGTCTTTA
30168482 GTCCCGGAAAATGAAACTTGTACAAATTACACTCTATTCCAAGCCTAACCAAAGCCCTATTACAA
1 GTCCCGGAAAATGAAACTTGTACAAATTACACTCTATTCCAAGCCTAACCAAAGCCCTATTACAA
30168547 AT
66 AT
*
30168549 GTCCCGGAAAATGAAACTTGTACAAATTACACTCTATTCCAAGCCTAACCAAAGCCCTATTATAA
1 GTCCCGGAAAATGAAACTTGTACAAATTACACTCTATTCCAAGCCTAACCAAAGCCCTATTACAA
30168614 AT
66 AT
30168616 TTTCCAGCAT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.25
Consensus pattern (67 bp):
GTCCCGGAAAATGAAACTTGTACAAATTACACTCTATTCCAAGCCTAACCAAAGCCCTATTACAA
AT
Found at i:30175805 original size:23 final size:23
Alignment explanation
Indices: 30175779--30175824 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30175769 TATCATTCCA
30175779 GTCAGTCACATCTATGTCTCTAT
1 GTCAGTCACATCTATGTCTCTAT
30175802 GTCAGTCACATCTATGTCTCTAT
1 GTCAGTCACATCTATGTCTCTAT
30175825 CTTCTAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (23 bp):
GTCAGTCACATCTATGTCTCTAT
Found at i:30179942 original size:18 final size:19
Alignment explanation
Indices: 30179921--30179957 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
30179911 TAAAATTGAT
*
30179921 GTGTTTCTTA-AATTTTAA
1 GTGTTTATTATAATTTTAA
30179939 GTGTTTATTATAATTTTAA
1 GTGTTTATTATAATTTTAA
30179958 AAACAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.57
Consensus pattern (19 bp):
GTGTTTATTATAATTTTAA
Found at i:30188087 original size:15 final size:15
Alignment explanation
Indices: 30188067--30188096 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30188057 GAAAATATGG
30188067 AAATGTGGTGAGGAA
1 AAATGTGGTGAGGAA
30188082 AAATGTGGTGAGGAA
1 AAATGTGGTGAGGAA
30188097 GTGAAAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (15 bp):
AAATGTGGTGAGGAA
Found at i:30197644 original size:18 final size:17
Alignment explanation
Indices: 30197607--30197715 Score: 87
Period size: 18 Copynumber: 6.2 Consensus size: 17
30197597 CCAGAGAAGA
*
30197607 AAGAGGAACCAAAGAAAG
1 AAGATGAACCAAA-AAAG
*
30197625 AAGGTGAAGCCAAAAAAG
1 AAGATGAA-CCAAAAAAG
*
30197643 AAGATGAACAAAAGAAAG
1 AAGATGAACCAAA-AAAG
* * *
30197661 AAGGTGAACCCAAGAAGG
1 AAGATGAA-CCAAAAAAG
*
30197679 AAGATGAA-CAAAAGA-
1 AAGATGAACCAAAAAAG
*
30197694 AAGATGAAGCCAAAAAGG
1 AAGATGAA-CCAAAAAAG
30197712 AAGA
1 AAGA
30197716 AGGTAAGAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
15 8 0.11
16 4 0.06
17 9 0.13
18 42 0.59
19 8 0.11
ACGTcount: A:0.59, C:0.10, G:0.27, T:0.05
Consensus pattern (17 bp):
AAGATGAACCAAAAAAG
Found at i:30197658 original size:36 final size:36
Alignment explanation
Indices: 30197607--30197715 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
30197597 CCAGAGAAGA
* * *
30197607 AAGAGGAACCAAAGAAAGAAGGTGAAGCCAAAAAAG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAGG
* *
30197643 AAGATGAACAAAAGAAAGAAGGTGAACCCAAGAAGG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAGG
30197679 AAGATGAACAAAAGAAAG-A--TGAAGCCAAAAAGG
1 AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAGG
30197712 AAGA
1 AAGA
30197716 AGGTAAGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
33 16 0.24
35 1 0.02
36 49 0.74
ACGTcount: A:0.59, C:0.10, G:0.27, T:0.05
Consensus pattern (36 bp):
AAGATGAACAAAAGAAAGAAGGTGAAGCCAAAAAGG
Found at i:30197661 original size:15 final size:15
Alignment explanation
Indices: 30197638--30197701 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 15
30197628 GTGAAGCCAA
30197638 AAAAG-AAGATGAAC
1 AAAAGAAAGATGAAC
30197652 AAAAGAAAGAAGGTGAACCC
1 AAAAGAAAG-A--TGAA--C
*
30197672 AAGAAGGAAGATGAAC
1 AA-AAGAAAGATGAAC
30197688 AAAAGAAAGATGAA
1 AAAAGAAAGATGAA
30197702 GCCAAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 4 0.10
18 8 0.20
20 4 0.10
21 6 0.15
ACGTcount: A:0.61, C:0.08, G:0.25, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGATGAAC
Found at i:30197731 original size:33 final size:32
Alignment explanation
Indices: 30197618--30197745 Score: 87
Period size: 33 Copynumber: 3.8 Consensus size: 32
30197608 AGAGGAACCA
* * *
30197618 AAGAAAGAAGGTGAAGCCAAAAAAGAAGATGAACAA
1 AAGAAAGAAGATGAAGCC-AAAAAG--GAAGAAC-G
* * * *
30197654 AAGAAAGAAGGTGAACCCAAGAAGGAAG-ATG
1 AAGAAAGAAGATGAAGCCAAAAAGGAAGAACG
* *
30197685 AACAAAAGAAAGATGAAGCCAAAAAGGAAGAAGG
1 AA-GAAAG-AAGATGAAGCCAAAAAGGAAGAACG
*
30197719 TAAGAAAGAAGATGAAACCAAGAAAGG
1 -AAGAAAGAAGATGAAGCCAA-AAAGG
30197746 TGGTGAGAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
31 2 0.03
32 5 0.07
33 33 0.44
34 11 0.15
35 7 0.09
36 17 0.23
ACGTcount: A:0.59, C:0.09, G:0.27, T:0.05
Consensus pattern (32 bp):
AAGAAAGAAGATGAAGCCAAAAAGGAAGAACG
Found at i:30197743 original size:18 final size:18
Alignment explanation
Indices: 30197613--30197744 Score: 73
Period size: 18 Copynumber: 7.6 Consensus size: 18
30197603 AAGAAAGAGG
*
30197613 AACCAAAGAAAGAAGGTGA
1 AACC-AAGAAAGAAGATGA
* *
30197632 AGCCAAAAAAGAAGATG-
1 AACCAAGAAAGAAGATGA
* *
30197649 AACAAAAGAAAGAAGGTGA
1 AAC-CAAGAAAGAAGATGA
* *
30197668 ACCCAAGAAGGAAGATG-
1 AACCAAGAAAGAAGATGA
30197685 AA-C-A-AAAGAAAGATGA
1 AACCAAGAAAG-AAGATGA
* *
30197701 AGCCAA-AAAG--GAAGA
1 AACCAAGAAAGAAGATGA
***
30197716 AGGTAAGAAAGAAGATGA
1 AACCAAGAAAGAAGATGA
30197734 AACCAAGAAAG
1 AACCAAGAAAG
30197745 GTGGTGAGAA
Statistics
Matches: 83, Mismatches: 21, Indels: 19
0.67 0.17 0.15
Matches are distributed among these distances:
14 3 0.04
15 15 0.18
16 6 0.07
17 4 0.05
18 50 0.60
19 5 0.06
ACGTcount: A:0.59, C:0.10, G:0.26, T:0.05
Consensus pattern (18 bp):
AACCAAGAAAGAAGATGA
Found at i:30204314 original size:29 final size:28
Alignment explanation
Indices: 30204281--30204371 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
30204271 TTCGGTTTAT
30204281 GTTTAGGGCTTTTGAATTTGAGGATTTTG
1 GTTTAGGG-TTTTGAATTTGAGGATTTTG
*
30204310 GTTTA-AGTTATTGAATTTGAGGATTTTAG
1 GTTTAGGGTT-TTGAATTTGAGGATTTT-G
* * * *
30204339 G-TTAGGGGTTCTGATTTTGGGGATTTTT
1 GTTTA-GGGTTTTGAATTTGAGGATTTTG
30204367 GTTTA
1 GTTTA
30204372 AAGTATTTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
27 2 0.04
28 22 0.43
29 24 0.47
30 3 0.06
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (28 bp):
GTTTAGGGTTTTGAATTTGAGGATTTTG
Found at i:30205343 original size:24 final size:23
Alignment explanation
Indices: 30205316--30205378 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 23
30205306 TAAAGGTGGT
30205316 AAGGGTGTTGAAGGTTTAAATGGG
1 AAGGGTGTTGAAGGTTTAAAT-GG
*
30205340 AAGGGTGTTAAAGGTTTAAATGG
1 AAGGGTGTTGAAGGTTTAAATGG
30205363 AGAGGGTGTTG-AGGTT
1 A-AGGGTGTTGAAGGTT
30205379 GCTAGCAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.30
Consensus pattern (23 bp):
AAGGGTGTTGAAGGTTTAAATGG
Found at i:30205394 original size:24 final size:23
Alignment explanation
Indices: 30205367--30205451 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
30205357 AAATGGAGAG
*
30205367 GGTGTTGAGGTTGCTAGCAGTGAA
1 GGTGGTGAGGTTG-TAGCAGTGAA
** *
30205391 GGTGGTGAAGGTT-TAGGTGGGAAA
1 GGTGGTG-AGGTTGTAGCAGTG-AA
* *
30205415 GGTGTTGAGGTTGTTAGCAGTAAA
1 GGTGGTGAGGTTG-TAGCAGTGAA
30205439 GGTGGTGAGGTTG
1 GGTGGTGAGGTTG
30205452 GTGAGGTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
23 10 0.21
24 28 0.60
25 9 0.19
ACGTcount: A:0.21, C:0.04, G:0.46, T:0.29
Consensus pattern (23 bp):
GGTGGTGAGGTTGTAGCAGTGAA
Found at i:30205402 original size:48 final size:48
Alignment explanation
Indices: 30205350--30205450 Score: 134
Period size: 48 Copynumber: 2.1 Consensus size: 48
30205340 AAGGGTGTTA
* *
30205350 AAGGTTTAAAT-GGAGAGGGTGTTGAGGTTGCTAGCAGTGAAGGTGGTG
1 AAGGTTTAAATGGGA-AAGGTGTTGAGGTTGCTAGCAGTAAAGGTGGTG
** *
30205398 AAGGTTTAGGTGGGAAAGGTGTTGAGGTTGTTAGCAGTAAAGGTGGTG
1 AAGGTTTAAATGGGAAAGGTGTTGAGGTTGCTAGCAGTAAAGGTGGTG
30205446 -AGGTT
1 AAGGTT
30205451 GGTGAGGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
47 5 0.11
48 39 0.83
49 3 0.06
ACGTcount: A:0.25, C:0.03, G:0.44, T:0.29
Consensus pattern (48 bp):
AAGGTTTAAATGGGAAAGGTGTTGAGGTTGCTAGCAGTAAAGGTGGTG
Found at i:30205482 original size:18 final size:18
Alignment explanation
Indices: 30205437--30205492 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
30205427 GTTAGCAGTA
* *
30205437 AAGGTGGTGAGGTTGGTG
1 AAGGTGGTAAGGGTGGTG
30205455 -AGGT--TAAGGGTGGTG
1 AAGGTGGTAAGGGTGGTG
*
30205470 AAGGTGGTAAGGGTGTTG
1 AAGGTGGTAAGGGTGGTG
30205488 AAGGT
1 AAGGT
30205493 TTAAATGGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.28
16 4 0.12
17 4 0.12
18 15 0.47
ACGTcount: A:0.21, C:0.00, G:0.52, T:0.27
Consensus pattern (18 bp):
AAGGTGGTAAGGGTGGTG
Found at i:30205563 original size:57 final size:57
Alignment explanation
Indices: 30205470--30205606 Score: 184
Period size: 57 Copynumber: 2.4 Consensus size: 57
30205460 AAGGGTGGTG
* * *
30205470 AAGGTGGTAAGGGTGTTGAAGGTTTAAATGGAGAGGGTGCTGATGTTGCTGGCAGTA
1 AAGGTGGTAAGGGTGTTGAAGGTTTAAATGGAGAGGGTGCTGATATTACTGGCAATA
* ** * * *
30205527 AAGGTGGTGAGGGTGTTGAAGGTTTAGGTGGGGAGGGTGTTGATATTACTGGCAATG
1 AAGGTGGTAAGGGTGTTGAAGGTTTAAATGGAGAGGGTGCTGATATTACTGGCAATA
*
30205584 AAGGTGGTAAGGGTGGTGAAGGT
1 AAGGTGGTAAGGGTGTTGAAGGT
30205607 GGTGAGGGTG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.23, C:0.04, G:0.45, T:0.28
Consensus pattern (57 bp):
AAGGTGGTAAGGGTGTTGAAGGTTTAAATGGAGAGGGTGCTGATATTACTGGCAATA
Found at i:30205605 original size:18 final size:18
Alignment explanation
Indices: 30205582--30205621 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30205572 TTACTGGCAA
30205582 TGAAGGTGGTAAGGGTGG
1 TGAAGGTGGTAAGGGTGG
* *
30205600 TGAAGGTGGTGAGGGTGT
1 TGAAGGTGGTAAGGGTGG
30205618 TGAA
1 TGAA
30205622 AGTTTAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.53, T:0.25
Consensus pattern (18 bp):
TGAAGGTGGTAAGGGTGG
Found at i:30218817 original size:2 final size:2
Alignment explanation
Indices: 30218810--30218844 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30218800 ATTTGGCATC
30218810 AT AT 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 AT AT A
30218845 ACTTGAAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30221052 original size:2 final size:2
Alignment explanation
Indices: 30221045--30221091 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
30221035 TATTAAGAAA
30221045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30221087 AT AT A
1 AT AT A
30221092 AAGAGACACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30224029 original size:36 final size:36
Alignment explanation
Indices: 30223962--30224030 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
30223952 GAAAATATTT
* * * **
30223962 TTTTATTTTCTATTTTCTTTTCATTTTTAAAAAATA
1 TTTTATTTTCTATTTTATTTCCAATAATAAAAAATA
*
30223998 TTTTATTTTTTATTTTATTTCCAATAATAAAAA
1 TTTTATTTTCTATTTTATTTCCAATAATAAAAA
30224031 TATAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (36 bp):
TTTTATTTTCTATTTTATTTCCAATAATAAAAAATA
Found at i:30225920 original size:3 final size:3
Alignment explanation
Indices: 30225912--30225937 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30225902 GCCAAAATCT
30225912 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
30225938 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:30228915 original size:18 final size:18
Alignment explanation
Indices: 30228889--30228924 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30228879 TCAAACGGTT
*
30228889 AAATTTTTTTAATGTTTA
1 AAATATTTTTAATGTTTA
*
30228907 AAATATTTTTAATTTTTA
1 AAATATTTTTAATGTTTA
30228925 TATTTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
AAATATTTTTAATGTTTA
Found at i:30229124 original size:20 final size:20
Alignment explanation
Indices: 30229087--30229124 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30229077 ATTTTTTAAC
*
30229087 AAATTTTATTTTTATTTTCA
1 AAATTTTAGTTTTATTTTCA
30229107 AAATTTTAAGTTTT-TTTT
1 AAATTTT-AGTTTTATTTT
30229125 AAGAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
AAATTTTAGTTTTATTTTCA
Found at i:30231741 original size:26 final size:26
Alignment explanation
Indices: 30231692--30231741 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30231682 TATATAATTT
* * *
30231692 GTAAATGTTGAGGGTTAGATTTGTCA
1 GTAAATATTGAGGGTTAAAGTTGTCA
30231718 GTAAATATTGAGGGTTAAAGTTGT
1 GTAAATATTGAGGGTTAAAGTTGT
30231742 TATTATGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (26 bp):
GTAAATATTGAGGGTTAAAGTTGTCA
Found at i:30241118 original size:16 final size:16
Alignment explanation
Indices: 30241049--30241112 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
30241039 ATTTAATTTA
30241049 TTTATTTATTCATTTAGTT
1 TTTATTT-TT-ATTTA-TT
*
30241068 TCTTATTTCTTA-TT-TC
1 T-TTATTT-TTATTTATT
*
30241084 TTTATTTTTGTTTATT
1 TTTATTTTTATTTATT
30241100 TTTATTTTTATTT
1 TTTATTTTTATTT
30241113 TGTTTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
14 2 0.05
15 8 0.22
16 15 0.41
18 2 0.05
19 2 0.05
20 8 0.22
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTATTTTTATTTATT
Found at i:30241154 original size:3 final size:3
Alignment explanation
Indices: 30241146--30241171 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30241136 ATTTATTTCA
30241146 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
30241172 AACCATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:30241271 original size:12 final size:12
Alignment explanation
Indices: 30241246--30241306 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
30241236 CTTTTACTAG
30241246 TATTT-ATTTAT
1 TATTTCATTTAT
*
30241257 TATTTCATTTGT
1 TATTTCATTTAT
*
30241269 TATTTCATTCAT
1 TATTTCATTTAT
* *
30241281 TATTCCTTTTTAT
1 TATTTC-ATTTAT
*
30241294 TATTTTATTTAT
1 TATTTCATTTAT
30241306 T
1 T
30241307 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
11 5 0.13
12 26 0.67
13 8 0.21
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (12 bp):
TATTTCATTTAT
Found at i:30241317 original size:11 final size:10
Alignment explanation
Indices: 30241246--30241320 Score: 55
Period size: 12 Copynumber: 7.1 Consensus size: 10
30241236 CTTTTACTAG
30241246 TATTTATTTAT
1 TATTTATTT-T
30241257 TATTTCATTTGT
1 TATTT-ATTT-T
*
30241269 TATTTCATTCAT
1 TATTT-ATT-TT
**
30241281 TATTCCTTTT
1 TATTTATTTT
30241291 TA-TTA-TTT
1 TATTTATTTT
30241299 TATTTATTTT
1 TATTTATTTT
30241309 TATTTTATTTT
1 TA-TTTATTTT
30241320 T
1 T
30241321 GTCCTCATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
8 5 0.10
9 4 0.08
10 8 0.15
11 16 0.31
12 19 0.37
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (10 bp):
TATTTATTTT
Found at i:30241404 original size:3 final size:3
Alignment explanation
Indices: 30241396--30241448 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
30241386 AGATTACTCG
30241396 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30241444 TTA TT
1 TTA TT
30241449 TTGGGCGTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30241945 original size:17 final size:18
Alignment explanation
Indices: 30241904--30241946 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
30241894 TGTCAAAGTT
*
30241904 GGATTCTAATAGCTATAA
1 GGATTCAAATAGCTATAA
*
30241922 GGA-TCAAATAGCTAT-G
1 GGATTCAAATAGCTATAA
30241938 GGATTCAAA
1 GGATTCAAA
30241947 ACGTGAGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (18 bp):
GGATTCAAATAGCTATAA
Found at i:30243152 original size:33 final size:33
Alignment explanation
Indices: 30242998--30243173 Score: 142
Period size: 33 Copynumber: 5.4 Consensus size: 33
30242988 AAAAGGGGTA
* ** * *
30242998 ACAACTTGAAAAGGATATATGTAC-TTAAATGGT
1 ACAACTTGAAAAGGATATGTACACTTTGAGT-GT
* * * *
30243031 AC-ACTTGACAAGGTTATGTACACTTTGTGTAT
1 ACAACTTGAAAAGGATATGTACACTTTGAGTGT
* * * *
30243063 ACAATTTGAAAAGGCTAAGTACACTTTGTGTGT
1 ACAACTTGAAAAGGATATGTACACTTTGAGTGT
30243096 ACAACTTGAAAAGGATATGTACACTTTGAGTGT
1 ACAACTTGAAAAGGATATGTACACTTTGAGTGT
* * * *
30243129 ACCACTTGAAAAGGGA-ATTTACACCTCGAGTGT
1 ACAACTTGAAAA-GGATATGTACACTTTGAGTGT
* *
30243162 ACGACTGGAAAA
1 ACAACTTGAAAA
30243174 TGTTACATCC
Statistics
Matches: 116, Mismatches: 24, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
32 19 0.16
33 94 0.81
34 3 0.03
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (33 bp):
ACAACTTGAAAAGGATATGTACACTTTGAGTGT
Found at i:30249884 original size:21 final size:21
Alignment explanation
Indices: 30249860--30249901 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
30249850 AATATGTTGT
*
30249860 AAATTAAATGATTA-TGGTAGA
1 AAATGAAA-GATTATTGGTAGA
*
30249881 AAATGAAAGGTTATTGGTAGA
1 AAATGAAAGATTATTGGTAGA
30249902 TTAACAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (21 bp):
AAATGAAAGATTATTGGTAGA
Found at i:30250630 original size:33 final size:33
Alignment explanation
Indices: 30250584--30250732 Score: 133
Period size: 33 Copynumber: 4.6 Consensus size: 33
30250574 TACCTAAATG
30250584 GTAC-ACTTG-AAAGGTTATATACACTTTGTGT
1 GTACAACTTGAAAAGGTTATATACACTTTGTGT
* * *
30250615 GTACAATTTGAAAAGGCTA-AGTACACTTTGTTT
1 GTACAACTTGAAAAGGTTATA-TACACTTTGTGT
* * ** *
30250648 ATACAACTTGAAAAGGATACGTACACTTTGAGT
1 GTACAACTTGAAAAGGTTATATACACTTTGTGT
* ** * *
30250681 GTACCACTTGAAAAGGGAATATACACCTTGGGT
1 GTACAACTTGAAAAGGTTATATACACTTTGTGT
* *
30250714 GTACGACTAGAAAAGGTTA
1 GTACAACTTGAAAAGGTTA
30250733 CGTCCATCGG
Statistics
Matches: 93, Mismatches: 21, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
31 4 0.04
32 5 0.05
33 84 0.90
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTATATACACTTTGTGT
Found at i:30255100 original size:19 final size:19
Alignment explanation
Indices: 30255076--30255115 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30255066 GACGCCTCCT
*
30255076 TTGCATT-CATGCATTTGCA
1 TTGCATTACAT-CATATGCA
30255095 TTGCATTACATCATATGCA
1 TTGCATTACATCATATGCA
30255114 TT
1 TT
30255116 AAAGGCTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGCATTACATCATATGCA
Found at i:30256625 original size:40 final size:37
Alignment explanation
Indices: 30256539--30256745 Score: 248
Period size: 35 Copynumber: 5.6 Consensus size: 37
30256529 TTTTCCTCAT
*
30256539 TGAAATACCATACCTACATTT-TTCAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCTT-AACTCAGTATGGA
*
30256575 -GAAATGCCATACCTACATTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCTTAACTCAGTATGGA
30256611 TTTGATAATACCATACCTACATTTCTTAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCTTAACTCAGTATGGA
* *
30256651 TTTGATAATACCATACCTACATTTCATAGCTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCTTAACTCAGTATGGA
**
30256691 T--AATACCATACCTACATTTCACAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCTTAACTCAGTATGGA
30256726 TG--ATACCATACCTACATTTC
1 TGAAATACCATACCTACATTTC
30256746 ACACTTTTCC
Statistics
Matches: 157, Mismatches: 7, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
35 81 0.52
36 2 0.01
38 1 0.01
39 2 0.01
40 71 0.45
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCTTAACTCAGTATGGA
Found at i:30256625 original size:75 final size:73
Alignment explanation
Indices: 30256538--30256746 Score: 241
Period size: 75 Copynumber: 2.8 Consensus size: 73
30256528 GTTTTCCTCA
* * *
30256538 TTGA-AATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 TTGATAATACCATACCTACATTTTTCAACTCAGTATGGGATAATACCATACCTACATTTCATAAC
30256601 TCAGTATGG
66 TCAGTAT-G
30256610 ATTTGATAATACCATACCTACATTTCTT-AACTCAGTATGGATTTGATAATACCATACCTACATT
1 --TTGATAATACCATACCTACATTT-TTCAACTCAGTATGG----GATAATACCATACCTACATT
*
30256674 TCATAGCTCAGTATG
59 TCATAACTCAGTATG
** *
30256689 --GATAATACCATACCTACATTTCACAACTCAGTAT-GGATGATACCATACCTACATTTCA
1 TTGATAATACCATACCTACATTTTTCAACTCAGTATGGGATAATACCATACCTACATTTCA
30256747 CACTTTTCCA
Statistics
Matches: 120, Mismatches: 7, Indels: 20
0.82 0.05 0.14
Matches are distributed among these distances:
70 22 0.18
74 5 0.04
75 60 0.50
76 2 0.02
79 3 0.03
80 28 0.23
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (73 bp):
TTGATAATACCATACCTACATTTTTCAACTCAGTATGGGATAATACCATACCTACATTTCATAAC
TCAGTATG
Found at i:30265049 original size:53 final size:51
Alignment explanation
Indices: 30264924--30265074 Score: 203
Period size: 53 Copynumber: 2.9 Consensus size: 51
30264914 AGGGAAGGAA
* ** **
30264924 GCCAATGTGAAAACCCGCAAAGGGCGTTTTGAGACTTTCTAAAAAAAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTTAATAAAAAAAAAGG
* **
30264975 GCCAAAGTGAAAACTCGCAAAGGGCACTTTGAGACCAAATAAAAATGAAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTTAATAAAAA--AAAAGG
*
30265028 GCCAAAGTGAAAACCCACAAAGGGCACTTTGAGACTTAATAAAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTTAATAAAAAAA
30265075 GAGAGAGAGA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 39 0.45
53 47 0.55
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (51 bp):
GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTTAATAAAAAAAAAGG
Found at i:30266740 original size:176 final size:177
Alignment explanation
Indices: 30266237--30267077 Score: 1107
Period size: 176 Copynumber: 4.7 Consensus size: 177
30266227 GCGACATTGG
* * * * ***
30266237 TGAAAATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAATATTTAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAGCGAATCTTATC
*
30266302 TCCATGTATCGGCAATGGAGTAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
* *
30266367 GGTTGAAGAACGAGTCTTATCTTTCTGATGTA-ACAAGAAAGCAGAC
131 GGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGACAAGAAAGCAGAC
* * * *
30266413 TGAAGATTAAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAAATCTTCGCAA-ATGGCTAATCT
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGA---TCG-AAGATAGCGAATCT
* * * * *
30266477 TATCTCCATGTATCGGCAATGGGGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGC
62 TATCTCCATGTATCGGCAATGGAGCAGATTTTA-CCACCAGCCTTATCTCTCTGAGATAGCAAGA
* * **
30266542 GAGCAGGTTGTAGAATGAGTCTTATTTTTCTGAGGTAGA-AAGAAAGTGGAC
126 GAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGACAAGAAAGCAGAC
* * * * *
30266593 TGAGGATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGTAGATCGAAGATGGCGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAGCGAATCTTATC
*
30266658 TCTATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
* * * * *
30266723 GGTTGAAGAATGAGTCTTATCTTCCTGAGG-AAATAAGGAAGCAAAC
131 GGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGACAAGAAAGCAGAC
* * *
30266769 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATAGCAAATCTTATT
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAGCGAATCTTATC
* ** * * * * *
30266834 TCCATGCACTCGATAATGGAGTAGATTTAAGTCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAG
66 TCCATGTA-TCGGCAATGGAGCAGATTTTA-CCACCAGCCTTATCTCTCTGAGATAGCAAGAGAG
* * *
30266899 CAGATTGAAGAATGAATCTTATCTTTCTAAGGTAG-CAAGAAAGCAGAC
129 CAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGACAAGAAAGCAGAC
* **
30266947 TGAAGATTGAAGATCTTATCGCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAATGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAGCGAATCTTATC
* *
30267012 TCCATGTATTGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTTTGAGATAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
30267077 G
131 G
30267078 TTGTAGCGGA
Statistics
Matches: 572, Mismatches: 82, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.00
176 206 0.36
177 76 0.13
178 135 0.24
179 41 0.07
180 111 0.19
181 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (177 bp):
TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAGCGAATCTTATC
TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
GGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGACAAGAAAGCAGAC
Found at i:30266920 original size:43 final size:45
Alignment explanation
Indices: 30266873--30266966 Score: 138
Period size: 43 Copynumber: 2.1 Consensus size: 45
30266863 AGTCACCAGC
* * *
30266873 CTTATCTTTCTGAGGTAGCAAGAGAGCAGATTGAAGAATG-A-AT
1 CTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
*
30266916 CTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
30266961 CTTATC
1 CTTATC
30266967 GCCCTGAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
Found at i:30267033 original size:354 final size:354
Alignment explanation
Indices: 30266237--30267077 Score: 1200
Period size: 354 Copynumber: 2.4 Consensus size: 354
30266227 GCGACATTGG
* * * * * *
30266237 TGAAAATTGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAAATATTTAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAATGAATCTTATC
*
30266302 TCCATGTATCGGCAATGGAGTAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
* * * *
30266367 GGTTGAAGAACGAGTCTTATCTTTCTGATGTAACAAGAAAGCAGACTGAAGATTAAAGATCTTAT
131 GGTTGAAGAACGAGTCTTATCTTCCTGAGGAAACAAGAAAGCAAACTGAAGATTAAAGATCTTAT
* * * *
30266432 CTCCCTGAAGTTGCAGCGGAGCAAATCTTCGCAAATGGCTAATCTTATCTCCATGTATCGGCAAT
196 CTCCCTGAAGTTGCAGCGGAGCAAA--TTCGCAAATAGCAAATCTTATCTCCATGCATCGACAAT
* * * * *
30266497 GGGGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGCGAGCAGGTTGTAGAATGAGT
259 GGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGATTGAAGAATGAAT
* * **
30266562 CTTATTTTTCTGAGGTAGAAAGAAAGTGGAC
324 CTTATCTTTCTAAGGTAGAAAGAAAGCAGAC
* * * * ***
30266593 TGAGGATTGAAGATTTTATCTCCCTGAAGTTGCAGCAGAGTAGATCGAAGATGGCGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAATGAATCTTATC
*
30266658 TCTATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
* * * *
30266723 GGTTGAAGAATGAGTCTTATCTTCCTGAGGAAATAAGGAAGCAAACTGAAGATTGAAGATCTTAT
131 GGTTGAAGAACGAGTCTTATCTTCCTGAGGAAACAAGAAAGCAAACTGAAGATTAAAGATCTTAT
* * * *
30266788 CTCCCTGAAGTTGCAGTGGAGCAGA-TCG-AAGATAGCAAATCTTATTTCCATGCACTCGATAAT
196 CTCCCTGAAGTTGCAGCGGAGCAAATTCGCAA-ATAGCAAATCTTATCTCCATGCA-TCGACAAT
* * * *
30266851 GGAGTAGATTTAAGTCACCAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGATTGAAGAATGAAT
259 GGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGATTGAAGAATGAAT
*
30266916 CTTATCTTTCTAAGGTAGCAAGAAAGCAGAC
324 CTTATCTTTCTAAGGTAGAAAGAAAGCAGAC
*
30266947 TGAAGATTGAAGATCTTATCGCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAATGAATCTTATC
1 TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAATGAATCTTATC
* *
30267012 TCCATGTATTGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTTTGAGATAGCAAGAGAGCA
66 TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
30267077 G
131 G
30267078 TTGTAGCGGA
Statistics
Matches: 428, Mismatches: 55, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
352 2 0.00
353 22 0.05
354 208 0.49
356 196 0.46
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (354 bp):
TGAAGATTGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATAATGAATCTTATC
TCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCA
GGTTGAAGAACGAGTCTTATCTTCCTGAGGAAACAAGAAAGCAAACTGAAGATTAAAGATCTTAT
CTCCCTGAAGTTGCAGCGGAGCAAATTCGCAAATAGCAAATCTTATCTCCATGCATCGACAATGG
AGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAGATTGAAGAATGAATCT
TATCTTTCTAAGGTAGAAAGAAAGCAGAC
Found at i:30272342 original size:15 final size:16
Alignment explanation
Indices: 30272322--30272363 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
30272312 AATATTTCAC
*
30272322 TAAAAAAATAAAAA-A
1 TAAAAAAAGAAAAAGA
30272337 TAAAAAGAAGAAAAAGA
1 TAAAAA-AAGAAAAAGA
*
30272354 AAAAAAAAGA
1 TAAAAAAAGA
30272364 GAGGTCAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (16 bp):
TAAAAAAAGAAAAAGA
Found at i:30273397 original size:45 final size:45
Alignment explanation
Indices: 30273341--30273550 Score: 160
Period size: 45 Copynumber: 4.6 Consensus size: 45
30273331 AATTTACGAG
*
30273341 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAAATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAAATAGCAAA
* * * * **
30273386 TCTTATTTCCCTGAACTTGTAGTGGAATAGATTAAAGCTACAAATTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT---G-T--AAA-TAGCAAA
* ***
30273437 TCTTATCTCCCTGAAGTTGCAGT-GAAGTAGATTG--AATTTTAAA
1 TCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGTAAATAGCAAA
* ** **
30273480 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAAATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAAATAGCAAA
30273525 TCTTAGT-TCCCTGAAGTTGCAGTAGA
1 TCTTA-TCTCCCTGAAGTTGCAGTAGA
30273551 ATATATTAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.01
43 34 0.26
44 1 0.01
45 56 0.42
46 1 0.01
48 2 0.02
49 1 0.01
50 1 0.01
51 33 0.25
52 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAAATAGCAAA
Found at i:30273507 original size:139 final size:139
Alignment explanation
Indices: 30273341--30273598 Score: 392
Period size: 139 Copynumber: 1.9 Consensus size: 139
30273331 AATTTACGAG
** * *
30273341 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGTAAATAGCGAATCTTATTTCCCTGAACTTGT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAATAGCGAATCTTAGTTCCCTGAACTTGC
* *
30273406 AGTGGAATAGATTAAAGCTACAAATTACAAATCTTAT-CTCCCTGAAGTTGCAGTGAAGTAGATT
66 AGTAGAATAGATTAAAGCTACAAATTACAAATCCTATAC-CCCTGAAGTTGCAGTGAAGTAGATT
30273470 GAATTTTAAA
130 GAATTTTAAA
* * *
30273480 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAAATAGTGAATCTTAGTTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAATAGCGAATCTTAGTTCCCTGAACTTGC
* * *
30273545 AGTAGAATATATTAAAGCTACAAGTTACAAATCCTATACCTCTGAAGTTGCAGT
66 AGTAGAATAGATTAAAGCTACAAATTACAAATCCTATACCCCTGAAGTTGCAGT
30273599 AGGTCGAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
139 105 0.99
140 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (139 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAATAGCGAATCTTAGTTCCCTGAACTTGC
AGTAGAATAGATTAAAGCTACAAATTACAAATCCTATACCCCTGAAGTTGCAGTGAAGTAGATTG
AATTTTAAA
Found at i:30273876 original size:44 final size:44
Alignment explanation
Indices: 30273811--30273933 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
30273801 TCATTAAAGA
* * *
30273811 AAATCCTATCTCTCTGAAGTTGTAGTGGAGCGGATTGAAACCAC
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACCAC
* ***
30273855 AAATCTTATCTCCCT-AGAGTTGTAGAGGAGCAGATTGAAGTTAC
1 AAATCTTATCTCCCTGA-AGTTGTAGTGGAGCAGATTGAAACCAC
* * *
30273899 AAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGAT
1 AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
30273934 CGAAGATGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 64 0.97
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAACCAC
Found at i:30276569 original size:43 final size:43
Alignment explanation
Indices: 30276504--30276585 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
30276494 TTTTAGGAAA
*
30276504 AGGGAATATTGCGCTTTTGGTCCCCCAGAGTTGCCCGCGGGTT
1 AGGGAATATTGCGCTTTCGGTCCCCCAGAGTTGCCCGCGGGTT
30276547 AGGGAATATTGCGCTTTCGGTCCCCCAGAGTTGCCCGCG
1 AGGGAATATTGCGCTTTCGGTCCCCCAGAGTTGCCCGCG
30276586 TGTTCATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.15, C:0.28, G:0.32, T:0.26
Consensus pattern (43 bp):
AGGGAATATTGCGCTTTCGGTCCCCCAGAGTTGCCCGCGGGTT
Found at i:30276701 original size:3 final size:3
Alignment explanation
Indices: 30276695--30276858 Score: 83
Period size: 3 Copynumber: 54.7 Consensus size: 3
30276685 TTTTTTTACA
* *
30276695 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
30276739 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
30276784 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
30276830 T-T CTAGT T-T TAT TAT TAT TAT TAT TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
30276859 GTGTATGTAT
Statistics
Matches: 121, Mismatches: 24, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
2 12 0.10
3 97 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:30276723 original size:23 final size:23
Alignment explanation
Indices: 30276697--30276742 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
30276687 TTTTTACATA
30276697 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
30276720 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
30276743 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:30276873 original size:17 final size:16
Alignment explanation
Indices: 30276838--30276892 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 16
30276828 ATTTCTAGTT
30276838 TTATTAT-TAT-TATTA
1 TTATTATGTATGTA-TA
30276853 TTATTAGTGTATGTATA
1 TTATTA-TGTATGTATA
30276870 TTATATATGTATGTATA
1 TTAT-TATGTATGTATA
30276887 TATATT
1 T-TATT
30276893 TATATATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.17
16 1 0.03
17 21 0.60
18 7 0.20
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTATTATGTATGTATA
Found at i:30277105 original size:16 final size:17
Alignment explanation
Indices: 30277067--30277165 Score: 55
Period size: 16 Copynumber: 5.8 Consensus size: 17
30277057 TTCATATATG
30277067 TTATATA-TATATGTTT
1 TTATATATTATATGTTT
*
30277083 TCA-ATATTATAT-TTT
1 TTATATATTATATGTTT
* * *
30277098 TTATATATTTTAATATTA
1 TTATATATTAT-ATGTTT
* *
30277116 TTAGT-T-GTATATTTTT
1 TTA-TATATTATATGTTT
30277132 TTATACTATTATATGTATAT
1 TTATA-TATTATATGT-T-T
30277152 TTATAATATTATAT
1 TTAT-ATATTATAT
30277166 TGTATATTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
15 9 0.15
16 20 0.32
17 5 0.08
18 12 0.19
19 2 0.03
20 13 0.21
21 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TTATATATTATATGTTT
Found at i:30277126 original size:24 final size:22
Alignment explanation
Indices: 30277099--30277193 Score: 95
Period size: 24 Copynumber: 4.2 Consensus size: 22
30277089 TTATATTTTT
*
30277099 TATATATTTTAATATTATTAGTTG
1 TATAT-TTTTAATACTATTA-TTG
*
30277123 TATATTTTTTTATACTATTATATG
1 TATA-TTTTTAATACTATTAT-TG
* *
30277147 TATATTTATAATATTA-TATTG
1 TATATTTTTAATACTATTATTG
*
30277168 TATATTTCTAATACTATTATT-
1 TATATTTTTAATACTATTATTG
30277189 TATAT
1 TATAT
30277194 ATGTATATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
21 21 0.34
22 7 0.11
23 10 0.16
24 22 0.36
25 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (22 bp):
TATATTTTTAATACTATTATTG
Found at i:30277171 original size:21 final size:21
Alignment explanation
Indices: 30277131--30277193 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
30277121 TGTATATTTT
*
30277131 TTTATACTATTATA-TGTATA
1 TTTATAATATTATATTGTATA
30277151 TTTATAATATTATATTGTATA
1 TTTATAATATTATATTGTATA
* *
30277172 TTTCTAATACTATTATT-TATA
1 TTTATAATATTA-TATTGTATA
30277193 T
1 T
30277194 ATGTATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 13 0.34
21 21 0.55
22 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTATAATATTATATTGTATA
Found at i:30277182 original size:44 final size:45
Alignment explanation
Indices: 30277099--30277209 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 45
30277089 TTATATTTTT
* *
30277099 TATATATTT-TAATATTATTAGTTGTATATTTTTTTATACTATTATA
1 TATATATTTATAATATTA-TA-TTGTATATTTTCTAATACTATTATA
* *
30277145 TGTATATTTATAATATTATATTGTATA-TTTCTAATACTATTATT
1 TATATATTTATAATATTATATTGTATATTTTCTAATACTATTATA
*
30277189 TATATATGTAT-ATATATATAT
1 TATATATTTATAATAT-TATAT
30277210 GTGTGTGTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
43 4 0.07
44 28 0.49
45 7 0.12
46 10 0.18
47 8 0.14
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (45 bp):
TATATATTTATAATATTATATTGTATATTTTCTAATACTATTATA
Found at i:30277452 original size:39 final size:38
Alignment explanation
Indices: 30277386--30277459 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
30277376 TATACCATCT
*
30277386 TATGTATATATTTTTAAATACTATATTGTGTATATATA
1 TATGTATATATTTTTAAATACCATATTGTGTATATATA
30277424 TATGTATATATATTCTT-AATACCATATTGTGTATAT
1 TATGTATATAT-TT-TTAAATACCATATTGTGTATAT
30277460 TATCATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 11 0.33
39 20 0.61
40 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (38 bp):
TATGTATATATTTTTAAATACCATATTGTGTATATATA
Found at i:30289998 original size:77 final size:75
Alignment explanation
Indices: 30289882--30290411 Score: 589
Period size: 77 Copynumber: 7.1 Consensus size: 75
30289872 ATTTCTACAG
* * * * *
30289882 TTCAAAAAAACCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-AGACACGTTGAGGTATTTT
*
30289947 CAATTTCTGCCT
64 CAATTTCTGTCT
* * *
30289959 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
*
30290024 ATTTCTATCT
66 ATTTCTGTCT
*** * *
30290034 TTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATAATTT
1 TTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTT
*
30290099 T-TATTTCTG--T
63 TCAATTTCTGTCT
* * * *
30290109 TTC--AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
*
30290172 ATTTCTATCT
66 ATTTCTGTCT
* * *
30290182 TTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
30290247 AATTTCTGTCT
65 AATTTCTGTCT
** *
30290258 TTC-AAAAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTC
*
30290321 GATTTCTGT-T
65 AATTTCTGTCT
* * *
30290331 TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC-GGATCACATGTCGAGGTATTT
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CAC--GTTGAGGTATTT
*
30290393 TCAAATTCTG-CTT
63 TCAATTTCTGTC-T
30290406 TTCAAA
1 TTCAAA
30290412 TTAAGTTTCA
Statistics
Matches: 392, Mismatches: 43, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
70 5 0.01
71 52 0.13
72 38 0.10
73 13 0.03
74 62 0.16
75 51 0.13
76 69 0.18
77 98 0.25
78 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGTCT
Found at i:30290479 original size:87 final size:87
Alignment explanation
Indices: 30290330--30290494 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
30290320 TGATTTCTGT
* * * *
30290330 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTCGGATCACATGTCGAGGTATTTTC
1 TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTGGAGCCTCGGATCACACGTCGAGCTATTTTC
30290395 AAATTCTGCTTTTCAAATTAAG
66 AAATTCTGCTTTTCAAATTAAG
* *
30290417 TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACACG-CTGAGCTATTTT
1 TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTGGAGCCTCGGATCACACGTC-GAGCTATTTT
* *
30290481 CAATTTCTGTTTTT
65 CAAATTCTGCTTTT
30290495 AATGTCTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
86 1 0.01
87 68 0.99
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (87 bp):
TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTGGAGCCTCGGATCACACGTCGAGCTATTTTC
AAATTCTGCTTTTCAAATTAAG
Found at i:30292127 original size:3 final size:3
Alignment explanation
Indices: 30292121--30292284 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
30292111 TTTTTTTACA
* *
30292121 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T ATAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
30292165 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
30292210 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
30292256 T-T CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
30292285 GTGTATGTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 12 0.10
3 95 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:30292150 original size:23 final size:23
Alignment explanation
Indices: 30292123--30292168 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
30292113 TTTTTACATA
30292123 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
*
30292146 TTATTTATATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
30292169 ATTACTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:30292308 original size:17 final size:16
Alignment explanation
Indices: 30292286--30292317 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30292276 TTAATATTAG
30292286 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
30292303 TGTATGTATATATAT
1 TGTATGTATATATAT
30292318 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:30292523 original size:16 final size:16
Alignment explanation
Indices: 30292498--30292550 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
30292488 ATATGTTATA
*
30292498 TATATGTTTTTAATAT
1 TATATTTTTTTAATAT
30292514 TATA-TTTTTTATATAT
1 TATATTTTTTTA-ATAT
*
30292530 TATTATATATTTTAATAT
1 TA-TAT-TTTTTTAATAT
30292548 TAT
1 TAT
30292551 TAGTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 6 0.19
16 10 0.32
17 3 0.10
18 6 0.19
19 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TATATTTTTTTAATAT
Found at i:30292605 original size:21 final size:20
Alignment explanation
Indices: 30292566--30292605 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30292556 ATATATTTTT
*
30292566 TTATACTATTATATGTATAG
1 TTATAATATTATATGTATAG
30292586 TTATAATATTATATTGTATA
1 TTATAATATTATA-TGTATA
30292606 TTTCTAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (20 bp):
TTATAATATTATATGTATAG
Found at i:30292613 original size:21 final size:21
Alignment explanation
Indices: 30292565--30292627 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
30292555 TATATATTTT
*
30292565 TTTATACTATTATA-TGTATA
1 TTTATAATATTATATTGTATA
*
30292585 GTTATAATATTATATTGTATA
1 TTTATAATATTATATTGTATA
* *
30292606 TTTCTAATACTATTATT-TATA
1 TTTATAATATTA-TATTGTATA
30292627 T
1 T
30292628 ATGTATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
20 12 0.33
21 20 0.56
22 4 0.11
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTATAATATTATATTGTATA
Found at i:30292650 original size:16 final size:17
Alignment explanation
Indices: 30292629--30292665 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
30292619 TATTTATATA
30292629 TGTATATATATGTGT-G
1 TGTATATATATGTGTAG
*
30292645 TGTATATATTTGTGTAG
1 TGTATATATATGTGTAG
30292662 TGTA
1 TGTA
30292666 CAAAGTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (17 bp):
TGTATATATATGTGTAG
Found at i:30295732 original size:11 final size:12
Alignment explanation
Indices: 30295716--30295744 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30295706 TATATATATT
30295716 TAAAAATT-ATA
1 TAAAAATTCATA
30295727 TAAAAATTCATA
1 TAAAAATTCATA
30295739 TAAAAA
1 TAAAAA
30295745 ACTAATACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAAATTCATA
Found at i:30296015 original size:122 final size:119
Alignment explanation
Indices: 30295813--30296035 Score: 261
Period size: 122 Copynumber: 1.8 Consensus size: 119
30295803 TAAAATGACC
* * * *
30295813 AGAAACACACTCAAAGTAATTATATTACTTTGTAAACAAGGTATCTTAGTATTATCCAACTGAGT
1 AGAAACACACTCAAAATAATTATATTACTTTGTAAACAAGGTATCTTAATATTACCCAACTGAAT
**
30295878 TGGTGCTCGATTGACTCATGGCATCAACTCAATTAAGTAATTAATATAAAGTAT
66 TGGTGCTCGATTGACTCATAACATCAACTCAATTAAGTAATTAATATAAAGTAT
* * * *
30295932 AGAAACACCCTCAAAATAA-TATAATTTACTTTGTAAATCGATGTTATTTTAATCATTACCCAA-
1 AGAAACACACTCAAAATAATTAT-A-TTACTTTGTAAA-C-AAGGTATCTTAAT-ATTACCCAAC
* * * *
30295995 TGAATTGGTGCTTGGTTGACTCGTAATATCAACTCAATTAA
61 TGAATTGGTGCTCGATTGACTCATAACATCAACTCAATTAA
30296036 AAACTTTTGA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.04
119 18 0.21
120 12 0.14
121 1 0.01
122 43 0.51
123 8 0.09
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (119 bp):
AGAAACACACTCAAAATAATTATATTACTTTGTAAACAAGGTATCTTAATATTACCCAACTGAAT
TGGTGCTCGATTGACTCATAACATCAACTCAATTAAGTAATTAATATAAAGTAT
Found at i:30299826 original size:40 final size:40
Alignment explanation
Indices: 30299782--30299865 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
30299772 TATAATCACT
*
30299782 TTTTA-TTATATTTTTAATTTGTGTATTATTTTAAGAATTA
1 TTTTAGTTATATTTTT-ATTTATGTATTATTTTAAGAATTA
* * * * *
30299822 TTTTAGTTTTATTTTTATTTATTTCTTATTTTAATATTTA
1 TTTTAGTTATATTTTTATTTATGTATTATTTTAAGAATTA
30299862 TTTT
1 TTTT
30299866 TATGTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 28 0.76
41 9 0.24
ACGTcount: A:0.25, C:0.01, G:0.05, T:0.69
Consensus pattern (40 bp):
TTTTAGTTATATTTTTATTTATGTATTATTTTAAGAATTA
Found at i:30311411 original size:16 final size:17
Alignment explanation
Indices: 30311374--30311413 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
30311364 AGTTTATAAT
30311374 ATTT-TATATTATGTTA
1 ATTTATATATTATGTTA
30311390 ATTTTATATATTATG-TA
1 A-TTTATATATTATGTTA
30311407 ATTTATA
1 ATTTATA
30311414 ACACATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
ATTTATATATTATGTTA
Found at i:30313023 original size:20 final size:20
Alignment explanation
Indices: 30312998--30313037 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
30312988 TTATAAAATT
30312998 TTATATTAATAAAATTTAAA
1 TTATATTAATAAAATTTAAA
30313018 TTATATTAATAAAATTTAAA
1 TTATATTAATAAAATTTAAA
30313038 AGTATAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATATTAATAAAATTTAAA
Found at i:30313119 original size:17 final size:17
Alignment explanation
Indices: 30313089--30313122 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30313079 ATTTTAAAAA
*
30313089 TAAAACTATTAAAATAG
1 TAAAACTATAAAAATAG
*
30313106 TAAAATTATAAAAATAG
1 TAAAACTATAAAAATAG
30313123 GGCTTCGAGA
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:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAAACTATAAAAATAG
Found at i:30320061 original size:118 final size:118
Alignment explanation
Indices: 30319850--30320080 Score: 345
Period size: 118 Copynumber: 2.0 Consensus size: 118
30319840 TTTAATCTGG
* * **
30319850 TCTACTGCAACTTCAGATAGATAAGATTTGCTATCTTCGGTCTGCTCCACTGTAACTTCAGGGAA
1 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAA
* * * * * *
30319915 ATAAGACTTGCGGCTTTAACCTGTTCCACTATAATTTCAAGGAGATAATCTAC
66 ATAAGACTTGCGACTTCAACATGCTCCACTACAACTTCAAGGAGATAATCTAC
*
30319968 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAG
1 TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAA
* *
30320033 ATAAGACTTGTGACTTCAACATGCTCCACTACAACTTCAGGGAGATAA
66 ATAAGACTTGCGACTTCAACATGCTCCACTACAACTTCAAGGAGATAA
30320081 GCTTTAAAGT
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 100 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (118 bp):
TCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAA
ATAAGACTTGCGACTTCAACATGCTCCACTACAACTTCAAGGAGATAATCTAC
Found at i:30320065 original size:44 final size:44
Alignment explanation
Indices: 30319971--30320215 Score: 241
Period size: 44 Copynumber: 5.5 Consensus size: 44
30319961 AATCTACTCT
* * *
30319971 ACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTG-TGATCTTCA-ACTGCTCC
*
30320016 ACTACAACTTCAGGGAGATAAGACTTGTGA-CTTCAACATGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTGATCTTCAAC-TGCTCC
* * * * *
30320060 ACTACAACTTCAGGGAGATAAG-CTT-TAAAGT-TTTAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGACTTGT-GA-TCTTCAA-CTGCTCC
* * * **
30320104 ACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCGGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTGATCTTC-AACTGCTCC
*
30320149 ACTGCAACTTCAGGAAGATAAGACTTGTGA-CTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGACTTGTGATCTTCAA-CTGCTCC
30320193 ACTGCAACTTCAGGGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
30320216 TTATCCTCAA
Statistics
Matches: 165, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 96 0.58
45 62 0.38
46 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGACTTGTGATCTTCAACTGCTCC
Found at i:30320197 original size:89 final size:88
Alignment explanation
Indices: 30319971--30320217 Score: 252
Period size: 89 Copynumber: 2.8 Consensus size: 88
30319961 AATCTACTCT
* * * *
30319971 ACTGCAACTTCA-GAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAGAT
1 ACTGCAACTTCAGGA-AGATAAGACTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
*
30320035 AAGACTTGTGACTTCAACATGCTCC
64 AAGATTTGTGACTTCAACATGCTCC
* * * * * * *
30320060 ACTACAACTTCAGGGAGATAAG-CTT-TAAAGTTTTAATCTACTCTACTGCAACTTCAGAGAGAT
1 ACTGCAACTTCAGGAAGATAAGACTTGT--AGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
* **
30320123 AAGATTTGTTATCTTCGGTC-TGCTCC
64 AAGATTTGTGA-CTTC-AACATGCTCC
*
30320149 ACTGCAACTTCAGGAAGATAAGACTTGT-GACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGAAGATAAGACTTGTAG-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
30320213 AGATT
65 AGATT
30320218 ATCCTCAATG
Statistics
Matches: 127, Mismatches: 23, Indels: 16
0.77 0.14 0.10
Matches are distributed among these distances:
86 1 0.01
88 39 0.31
89 81 0.64
90 5 0.04
91 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (88 bp):
ACTGCAACTTCAGGAAGATAAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTGTGACTTCAACATGCTCC
Found at i:30320201 original size:133 final size:133
Alignment explanation
Indices: 30319960--30320214 Score: 456
Period size: 133 Copynumber: 1.9 Consensus size: 133
30319950 TTCAAGGAGA
30319960 TAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACT
1 TAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACT
*
30320025 TCAGGGAGATAAGACTTGTGACTTCAACATGCTCCACTACAACTTCAGGGAGATAAGCTTTAAAG
66 TCAGGAAGATAAGACTTGTGACTTCAACATGCTCCACTACAACTTCAGGGAGATAAGCTTTAAAG
30320090 TTT
131 TTT
* * *
30320093 TAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCGGTCTGCTCCACTGCAACT
1 TAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACT
* *
30320158 TCAGGAAGATAAGACTTGTGACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
66 TCAGGAAGATAAGACTTGTGACTTCAACATGCTCCACTACAACTTCAGGGAGATAAG
30320215 ATTATCCTCA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
133 116 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (133 bp):
TAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACT
TCAGGAAGATAAGACTTGTGACTTCAACATGCTCCACTACAACTTCAGGGAGATAAGCTTTAAAG
TTT
Found at i:30332014 original size:3 final size:3
Alignment explanation
Indices: 30332006--30332123 Score: 148
Period size: 3 Copynumber: 39.7 Consensus size: 3
30331996 GAAAGAAAAT
30332006 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
30332054 AT- ACA ATA GTA ATA ATA ATA ACA AAA ATA GTA ATA ATA GTA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
30332101 ATA ATA GTA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
30332124 GGTAATTGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
2 1 0.01
3 96 0.99
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:30333823 original size:18 final size:19
Alignment explanation
Indices: 30333800--30333838 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
30333790 GGACTTTTGA
30333800 TTTATTATTTTT-TTTGGT
1 TTTATTATTTTTATTTGGT
30333818 TTTATTATTTTTATTTGGT
1 TTTATTATTTTTATTTGGT
30333837 TT
1 TT
30333839 CTGTTTCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (19 bp):
TTTATTATTTTTATTTGGT
Found at i:30338251 original size:16 final size:17
Alignment explanation
Indices: 30338230--30338270 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
30338220 TTATATTATA
30338230 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
30338246 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
30338263 TAATTATA
1 T-ATTATA
30338271 TATGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:30338422 original size:44 final size:42
Alignment explanation
Indices: 30338347--30338441 Score: 97
Period size: 44 Copynumber: 2.2 Consensus size: 42
30338337 TATTTTCACA
*
30338347 TATATTATATTTATTAATTATATATATTGTTTTATATGTTAC-TT
1 TATATTATATCTATTAATTATATATATTG-TTTATA--TTACATT
* * *
30338391 TATATTATATCTATTATTTTTCT-TATATGTTTATATTACATT
1 TATATTATATCTATTAATTATATATAT-TGTTTATATTACATT
30338433 T-TATTATAT
1 TATATTATAT
30338442 AATCTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
41 12 0.27
42 3 0.07
43 9 0.20
44 21 0.47
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (42 bp):
TATATTATATCTATTAATTATATATATTGTTTATATTACATT
Found at i:30338467 original size:14 final size:15
Alignment explanation
Indices: 30338450--30338482 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30338440 ATAATCTTTA
30338450 TTATGTT-TTATTTT
1 TTATGTTATTATTTT
*
30338464 TTATGTTATTGTTTT
1 TTATGTTATTATTTT
30338479 TTAT
1 TTAT
30338483 ATATATCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (15 bp):
TTATGTTATTATTTT
Found at i:30350618 original size:119 final size:119
Alignment explanation
Indices: 30350407--30350800 Score: 743
Period size: 119 Copynumber: 3.3 Consensus size: 119
30350397 AAATAAATTG
*
30350407 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
*
30350472 TGTTTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAGACGTTCTCA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
*
30350526 AAGATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
30350591 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
* *
30350645 AATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
30350710 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
66 TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
30350764 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAA
1 AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAA
30350801 AATGATTTGG
Statistics
Matches: 268, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 268 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
AAGATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
TGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCA
Found at i:30350928 original size:83 final size:83
Alignment explanation
Indices: 30350815--30350968 Score: 254
Period size: 83 Copynumber: 1.9 Consensus size: 83
30350805 ATTTGGTAGA
* * *
30350815 AACAAATCGAAGACATAGCAGATTTAACTCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGC
1 AACAAATCGAAGACATAGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGATGATTTGAC
30350880 ATCCTTGTGCTTACAAGG
66 ATCCTTGTGCTTACAAGG
* * *
30350898 AACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGATGATTTGAC
1 AACAAATCGAAGACATAGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGATGATTTGAC
30350963 ATCCTT
66 ATCCTT
30350969 ACAAATCGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (83 bp):
AACAAATCGAAGACATAGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGATGATTTGAC
ATCCTTGTGCTTACAAGG
Found at i:30352640 original size:16 final size:17
Alignment explanation
Indices: 30352619--30352659 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
30352609 TTATATTATA
30352619 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
30352635 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
30352652 TAATTATA
1 T-ATTATA
30352660 TATGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:30352859 original size:14 final size:15
Alignment explanation
Indices: 30352842--30352874 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30352832 ATAATCTTTA
30352842 TTATGTT-TTATTTT
1 TTATGTTATTATTTT
*
30352856 TTATGTTATTGTTTT
1 TTATGTTATTATTTT
30352871 TTAT
1 TTAT
30352875 ATATATCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (15 bp):
TTATGTTATTATTTT
Found at i:30352914 original size:15 final size:15
Alignment explanation
Indices: 30352894--30352934 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
30352884 GTATCACAAA
*
30352894 TTATATTATTTATGT
1 TTATATTATTTATAT
*
30352909 TTATATTATATATAT
1 TTATATTATTTATAT
*
30352924 ATATATTATTT
1 TTATATTATTT
30352935 TAAAAATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATATTATTTATAT
Found at i:30354263 original size:14 final size:13
Alignment explanation
Indices: 30354234--30354277 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
30354224 AAATTATATA
30354234 TATTTATTTTACT
1 TATTTATTTTACT
*
30354247 TATTTACTTTTATT
1 TATTTA-TTTTACT
*
30354261 TATTTA-TTCACT
1 TATTTATTTTACT
30354273 TATTT
1 TATTT
30354278 GTTTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
14 12 0.44
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTATTTTACT
Found at i:30355267 original size:11 final size:11
Alignment explanation
Indices: 30355251--30355275 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30355241 ATATAATATT
30355251 TTATTATTTTA
1 TTATTATTTTA
30355262 TTATTATTTTA
1 TTATTATTTTA
30355273 TTA
1 TTA
30355276 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:30355269 original size:19 final size:20
Alignment explanation
Indices: 30355237--30355285 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
30355227 TAATTTGATT
30355237 TTTTATATAATATTTTATTA
1 TTTTATATAATATTTTATTA
*
30355257 TTTTAT-TATTATTTTATTA
1 TTTTATATAATATTTTATTA
* *
30355276 GTATATATAA
1 TTTTATATAA
30355286 AGAAAGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATATAATATTTTATTA
Found at i:30364889 original size:22 final size:22
Alignment explanation
Indices: 30364862--30364924 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
30364852 AACTAAAATG
*
30364862 GTAAGCACTATCGAGCTGAACA
1 GTAAGCTCTATCGAGCTGAACA
*
30364884 GTAAGCTCTATTGAGCTGAACA
1 GTAAGCTCTATCGAGCTGAACA
30364906 GTAAGCTC-ATACGAGCTGA
1 GTAAGCTCTAT-CGAGCTGA
30364925 TATATCGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (22 bp):
GTAAGCTCTATCGAGCTGAACA
Found at i:30369248 original size:57 final size:57
Alignment explanation
Indices: 30369160--30369273 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
30369150 AAATTAGAGA
30369160 ACAATAATGGAATTGAGTGCTTCACAATCACATTGCCATGGTAAAACCATGAACTTG
1 ACAATAATGGAATTGAGTGCTTCACAATCACATTGCCATGGTAAAACCATGAACTTG
*
30369217 ACAATAATGGAATTGAGTGCTTCACAATCACATTGCCATGGTAAAACCATGGACTTG
1 ACAATAATGGAATTGAGTGCTTCACAATCACATTGCCATGGTAAAACCATGAACTTG
30369274 CACATAGTCA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (57 bp):
ACAATAATGGAATTGAGTGCTTCACAATCACATTGCCATGGTAAAACCATGAACTTG
Found at i:30369490 original size:52 final size:52
Alignment explanation
Indices: 30369291--30369494 Score: 181
Period size: 52 Copynumber: 4.0 Consensus size: 52
30369281 TCACATATCA
* * * *
30369291 CACACCGAAGCCATAGCCC-GACCATGGTCTTACAC-GGATCACATAT-A-AT
1 CACACCGATGCCATAGCCCAG-CTATGGTCTTATACGGGAACACATATCACAT
* *
30369340 ---ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACAT
* * ** *
30369390 CACATCGACGCCATAGCCCAGCTATGGTCTTATATAGGAACACGTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
** * **
30369442 TGCACCGATGCCATAGCCCAGCTATAGTCTTATACGGGCGCACATATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
30369494 C
1 C
30369495 TTTTCCGTCA
Statistics
Matches: 123, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
46 28 0.23
47 5 0.04
48 3 0.02
49 1 0.01
50 2 0.02
52 50 0.41
53 30 0.24
54 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (52 bp):
CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACAT
Found at i:30370871 original size:3 final size:3
Alignment explanation
Indices: 30370846--30370968 Score: 52
Period size: 3 Copynumber: 39.3 Consensus size: 3
30370836 ATTCCTAATG
* * *
30370846 TTA TTA ATA CTA TTA TT- TCTA TTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** * * *
30370891 ATA TTC TGA TTA TTA ACA TGTAA TTA TTT TTAA TGTA TTA TTA GTA CTA
1 TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TT-A T-TA TTA TTA TTA TTA
* *
30370940 GTTA TTA CTA TT- TCTA GTA TTA TTA TTA T
1 -TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
30370969 ATATAATATT
Statistics
Matches: 87, Mismatches: 24, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
2 2 0.02
3 75 0.86
4 7 0.08
5 3 0.03
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:30370886 original size:18 final size:18
Alignment explanation
Indices: 30370823--30370895 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
30370813 TTTCTTTTAA
* **
30370823 TATTGTTATTATCATTCC
1 TATTGTTATTATTATTAT
* * *
30370841 TAATGTTATTAATACTAT
1 TATTGTTATTATTATTAT
30370859 TATT-TCTATTATTATTAT
1 TATTGT-TATTATTATTAT
*
30370877 TATTGTTATTATTAATAT
1 TATTGTTATTATTATTAT
30370895 T
1 T
30370896 CTGATTATTA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 41 0.95
19 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (18 bp):
TATTGTTATTATTATTAT
Found at i:30371405 original size:28 final size:29
Alignment explanation
Indices: 30371374--30371446 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
30371364 TTTAAATGCC
30371374 ATATATAT-TGTGTATATTCTTAA-ATATT
1 ATATATATATGTGTATATTCTTAATA-ATT
* * *
30371402 ATATAT-TGTATGTATTTTCTTAATAATT
1 ATATATATATGTGTATATTCTTAATAATT
*
30371430 ATAT-TATATGTATATAT
1 ATATATATATGTGTATAT
30371447 AGTACGTCCG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
27 2 0.06
28 33 0.92
29 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.55
Consensus pattern (29 bp):
ATATATATATGTGTATATTCTTAATAATT
Found at i:30371417 original size:26 final size:25
Alignment explanation
Indices: 30371374--30371442 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
30371364 TTTAAATGCC
* *
30371374 ATATATATTGTGTATATTCTTAAATA
1 ATATATATTGTATGTATTCTT-AATA
*
30371400 TTATATATTGTATGTATTTTCTTAATA
1 ATATATATTGTATGTA--TTCTTAATA
*
30371427 AT-TATATTATATGTAT
1 ATATATATTGTATGTAT
30371443 ATATAGTACG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
24 1 0.03
26 25 0.69
27 5 0.14
28 5 0.14
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (25 bp):
ATATATATTGTATGTATTCTTAATA
Found at i:30385602 original size:9 final size:10
Alignment explanation
Indices: 30385590--30385646 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
30385580 TACGTGGGAT
30385590 ATGATAT-AC
1 ATGATATGAC
*
30385599 ATGAT-TGAT
1 ATGATATGAC
30385608 ATGATATGCAC
1 ATGATATG-AC
*
30385619 ATGATATG-T
1 ATGATATGAC
30385628 ATGATATGCAC
1 ATGATATG-AC
30385639 ATGATATG
1 ATGATATG
30385647 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:30385622 original size:20 final size:20
Alignment explanation
Indices: 30385589--30385659 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
30385579 ATACGTGGGA
30385589 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
30385606 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
30385627 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
30385647 TATGAAATGCACA
1 TATGATATGCACA
30385660 CGATGTAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.16
20 39 0.80
21 2 0.04
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:30385624 original size:11 final size:11
Alignment explanation
Indices: 30385608--30385646 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
30385598 CATGATTGAT
30385608 ATGATATGCAC
1 ATGATATGCAC
*
30385619 ATGATATG--T
1 ATGATATGCAC
30385628 ATGATATGCAC
1 ATGATATGCAC
30385639 ATGATATG
1 ATGATATG
30385647 TATGAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:30385791 original size:52 final size:51
Alignment explanation
Indices: 30385713--30385848 Score: 233
Period size: 52 Copynumber: 2.7 Consensus size: 51
30385703 GAGGAAGTGC
30385713 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
30385765 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
30385816 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
30385849 AGGCCTCTAG
Statistics
Matches: 83, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 25 0.30
52 36 0.43
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:30385810 original size:25 final size:26
Alignment explanation
Indices: 30385713--30385848 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
30385703 GAGGAAGTGC
30385713 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30385739 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30385765 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
30385791 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
30385816 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
30385839 AAAAGAGGCT
1 AAAAG-GGCT
30385849 AGGCCTCTAG
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 31 0.31
26 58 0.57
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:30386974 original size:73 final size:73
Alignment explanation
Indices: 30386856--30387240 Score: 562
Period size: 73 Copynumber: 5.3 Consensus size: 73
30386846 GACATTTTTT
* * * * *
30386856 GGTATTTT-TATTTCTG-TTTTCAAAAATCAATTCATGTTGCTAGAGGTGAGTTGAGCCTCAGGA
1 GGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
30386919 CACGCTGA
66 CACGCTGA
* * * *
30386927 GGTGTTTTCAATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGT
1 GGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
30386992 CACGCTGA
66 CACGCTGA
* *
30387000 GGTATTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
1 GGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
30387065 CACGCTGA
66 CACGCTGA
* *
30387073 GGTATTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG
1 GGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
*
30387138 CATGCTGA
66 CACGCTGA
* * *
30387146 GGTATTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTCCAAGAGGTGAGTTGAGCCTCA-
1 GGTATTTTCAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
30387210 G-CACACTGA
64 GTCACGCTGA
30387219 GGTATTTTCAATTTCTGTTTTT
1 GGTATTTTCAATTTCTGTTTTT
30387241 TTTCAATTTA
Statistics
Matches: 283, Mismatches: 27, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
71 7 0.02
72 6 0.02
73 232 0.82
74 1 0.00
75 37 0.13
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (73 bp):
GGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
CACGCTGA
Found at i:30387256 original size:17 final size:17
Alignment explanation
Indices: 30387223--30387257 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30387213 CACTGAGGTA
* *
30387223 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
30387240 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
30387257 T
1 T
30387258 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:30389209 original size:3 final size:3
Alignment explanation
Indices: 30389203--30389323 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
30389193 TCATTCCTAA
* * * *
30389203 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TGT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
30389248 TAT TCT GGT TAT TAT TAT GTAAT TAT T-T TAAT GTAT TAT TAT TAC TAGT
1 TAT TAT TAT TAT TAT TAT -T-AT TAT TAT T-AT -TAT TAT TAT TAT TA-T
* * *
30389297 TAC TAC TAT T-T CTAG TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT
30389324 ATATAATATT
Statistics
Matches: 90, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
2 4 0.04
3 75 0.83
4 8 0.09
5 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:30389773 original size:28 final size:27
Alignment explanation
Indices: 30389733--30389819 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
30389723 TTTTTAATAC
*
30389733 TATATTTTTAAATACCATATATATTG-TG
1 TATATTCTTAAATA--ATATATATTGATG
*
30389761 TATATTCTTAAATATTATATATTGTATG
1 TATATTCTTAAATAATATATATTG-ATG
* *
30389789 TATTTTCTT-AATAAT-TATATTATATG
1 TATATTCTTAAATAATATATATT-GATG
30389815 TATAT
1 TATAT
30389820 ATAGTACGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 22 0.44
27 5 0.10
28 23 0.46
ACGTcount: A:0.36, C:0.05, G:0.06, T:0.54
Consensus pattern (27 bp):
TATATTCTTAAATAATATATATTGATG
Found at i:30389792 original size:26 final size:25
Alignment explanation
Indices: 30389749--30389817 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
30389739 TTTAAATACC
* *
30389749 ATATATATTGTGTATATTCTTAAATA
1 ATATATATTGTATGTATTCTT-AATA
*
30389775 TTATATATTGTATGTATTTTCTTAATA
1 ATATATATTGTATGTA--TTCTTAATA
*
30389802 AT-TATATTATATGTAT
1 ATATATATTGTATGTAT
30389818 ATATAGTACG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
24 1 0.03
26 25 0.69
27 5 0.14
28 5 0.14
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (25 bp):
ATATATATTGTATGTATTCTTAATA
Found at i:30389868 original size:2 final size:2
Alignment explanation
Indices: 30389863--30389894 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30389853 ATTTTTTAAA
*
30389863 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30389895 GTGTGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30391989 original size:22 final size:22
Alignment explanation
Indices: 30391935--30391981 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
30391925 ATCACCCCAA
*
30391935 TTTTATTTTATTTTATTTTTAAT
1 TTTTATATTA-TTTATTTTTAAT
30391958 TTTTATATTATTTATTTTT-AT
1 TTTTATATTATTTATTTTTAAT
30391979 TTT
1 TTT
30391982 ACTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 9 0.39
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTATATTATTTATTTTTAAT
Found at i:30391991 original size:4 final size:4
Alignment explanation
Indices: 30391984--30392017 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
30391974 TTTATTTTAC
30391984 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TA
30392018 TTCTTATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:30392161 original size:3 final size:3
Alignment explanation
Indices: 30392153--30392194 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
30392143 ATCATTGAGT
*
30392153 TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TT- TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T
30392195 CTTTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:30392199 original size:6 final size:5
Alignment explanation
Indices: 30392152--30392244 Score: 54
Period size: 6 Copynumber: 18.4 Consensus size: 5
30392142 TATCATTGAG
30392152 TTTAT TATTAT TATTAT TATTA- TTTAT TTTAT TTTATT TTTAT CTTTATT
1 TTTAT T-TTAT T-TTAT T-TTAT TTTAT TTTAT TTTA-T TTTAT -TTTA-T
* * *
30392202 TTTAGT TTTGT TTTA- GTTGT TTTA- TTTA- TTTA- TTTA- TTTAT TT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
30392245 ATTCTTCTCT
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
4 21 0.28
5 20 0.27
6 32 0.43
7 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:30392199 original size:12 final size:11
Alignment explanation
Indices: 30392152--30392215 Score: 60
Period size: 12 Copynumber: 5.7 Consensus size: 11
30392142 TATCATTGAG
*
30392152 TTTATTATTAT
1 TTTATTTTTAT
*
30392163 TATTATTATTA-
1 T-TTATTTTTAT
30392174 TTTA-TTTTAT
1 TTTATTTTTAT
30392184 TTTATTTTTAT
1 TTTATTTTTAT
30392195 CTTTATTTTTAGT
1 -TTTATTTTTA-T
*
30392208 TTTGTTTT
1 TTTATTTT
30392216 AGTTGTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
9 4 0.09
10 7 0.15
11 8 0.17
12 26 0.57
13 1 0.02
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (11 bp):
TTTATTTTTAT
Done.