Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 50
Found at i:6822725 original size:19 final size:19
Alignment explanation
Indices: 6822689--6822725 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6822679 TAAAGATAAT
*
6822689 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAACAAAAG
*
6822708 TTGATTTTGAAAATAAAA
1 TTGATTTTGAAAACAAAA
6822726 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACAAAAG
Found at i:6826875 original size:16 final size:15
Alignment explanation
Indices: 6826849--6826878 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6826839 CTAATAATTT
6826849 CTTTTGAGTTCAAGC
1 CTTTTGAGTTCAAGC
6826864 CTTTTCGAGTTCAAG
1 CTTTT-GAGTTCAAG
6826879 TTTTAATATT
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
CTTTTGAGTTCAAGC
Found at i:6833482 original size:18 final size:17
Alignment explanation
Indices: 6833445--6833488 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
6833435 GCCAAATAAT
6833445 TAATAAAAAAACTGAAA
1 TAATAAAAAAACTGAAA
6833462 TAATAAAATATAACT-AAA
1 TAATAAAA-A-AACTGAAA
6833480 TAATTAAAA
1 TAA-TAAAA
6833489 GTTCCTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.33
18 7 0.29
19 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (17 bp):
TAATAAAAAAACTGAAA
Found at i:6842530 original size:3 final size:3
Alignment explanation
Indices: 6842522--6842578 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
6842512 AATTATTTTT
* *
6842522 TAA TAA TAA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6842570 TAA TAA TAA
1 TAA TAA TAA
6842579 AATGAGTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6843128 original size:113 final size:113
Alignment explanation
Indices: 6842974--6843440 Score: 706
Period size: 113 Copynumber: 4.1 Consensus size: 113
6842964 TCTTCTTTCT
* * * * ** * *
6842974 TCATTATGAACTCTCTCT-GAAAAGTTGATCTATTGAGTGATGAATTCGAGCGAAAA-GTTGAAC
1 TCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAGTGATGGATTTGAGC-AAAAGGTTGAAC
* *
6843037 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTC
65 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
6843086 TCATTATGAACTTTTTCTGG-AGAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAAC
1 TCATTATGAACTTTCTCTGGCA-AAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAAC
* *
6843150 AAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTCTTC
65 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
6843199 TCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTAATGGATTTGAGCAAAAGGTTGAACA
1 TCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
6843264 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
66 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
6843312 TTATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
1 TCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
*
6843377 AATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGGTGATGAGTTCTTC
66 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA---GATGAGTTCTTC
6843428 TCATTATGAACTT
1 TCATTATGAACTT
6843441 CTTATTCCTT
Statistics
Matches: 324, Mismatches: 24, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
112 21 0.06
113 278 0.86
114 1 0.00
116 24 0.07
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
TCATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
Found at i:6843440 original size:43 final size:43
Alignment explanation
Indices: 6843379--6843485 Score: 187
Period size: 43 Copynumber: 2.5 Consensus size: 43
6843369 GTTGAACAAA
* *
6843379 TTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGGTGATGAG
1 TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGGTGATGAG
*
6843422 TTCTTCTCATTATGAACTTCTTATTCCTTCTTTAGGTGATGAG
1 TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGGTGATGAG
6843465 TTCTTCTCATTATGAACTTCT
1 TTCTTCTCATTATGAACTTCT
6843486 ATTGGAAAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.18, C:0.21, G:0.12, T:0.50
Consensus pattern (43 bp):
TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGGTGATGAG
Found at i:6843552 original size:159 final size:156
Alignment explanation
Indices: 6843266--6843601 Score: 548
Period size: 159 Copynumber: 2.1 Consensus size: 156
6843256 GTTGAACAAA
* *
6843266 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
6843331 GCAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAAC
66 GAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
6843396 TTCTTCTTCCTTCTTCAGGTGATGAG
131 TTCTTCATCCTTCTTCAGGTGATGAG
*
6843422 TTCTTCTCATTATGAACTTCTTATTCCTTCTTTAGGTGATGAGTTCTTCTCATTATGAAC-TTCT
1 TTCTTCTCATTATGAACTTCTTATTCCTTCTTCA---GATGAGTTCTTCTCATTATGAACTTTCT
*
6843486 ATTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTAT
63 -CTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTAT
6843551 GAACTTCTTCATCCTTCTTCAGGTGATGAG
127 GAACTTCTTCATCCTTCTTCAGGTGATGAG
6843581 TTCTTCTCATTATGAACTTCT
1 TTCTTCTCATTATGAACTTCT
6843602 ATTGGAAAAG
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
156 32 0.19
158 4 0.02
159 131 0.78
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (156 bp):
TTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCATCCTTCTTCAGGTGATGAG
Found at i:6843626 original size:116 final size:116
Alignment explanation
Indices: 6843422--6843752 Score: 585
Period size: 116 Copynumber: 2.9 Consensus size: 116
6843412 AGGTGATGAG
*
6843422 TTCTTCTCATTATGAACTTCTT-ATTCCTTCTTTAGGTGATGAGTTCTTCTCATTATGAACTTCT
1 TTCTTCTCATTATGAACTTCTTCA-TCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTTCT
6843486 ATTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
65 ATTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
6843538 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTTCTA
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTTCTA
6843603 TTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
66 TTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
* * * *
6843654 TTCTTCTCATTGTGAACTTCTTCTTCATTCTTCAGGTGATGAGTTCTTCTCATTATGAAC-TCAA
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTTC-T
6843718 ATTGGAAAAGCTAATCCATCAAATGATGGATTTGA
65 ATTGGAAAAGCTAATCCATCAAATGATGGATTTGA
6843753 ATCTTTGCTA
Statistics
Matches: 208, Mismatches: 5, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
115 2 0.01
116 205 0.99
117 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (116 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGGTGATGAGTTCTTCTCATTATGAACTTCTA
TTGGAAAAGCTAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:6844709 original size:83 final size:83
Alignment explanation
Indices: 6844567--6844780 Score: 410
Period size: 83 Copynumber: 2.6 Consensus size: 83
6844557 ATGTGGTTCA
*
6844567 TACCAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
6844632 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
*
6844650 TATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
6844715 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
6844733 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
6844781 TAGGACATGG
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 128 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
AAATTCAATGATTGATTT
Found at i:6858934 original size:3 final size:3
Alignment explanation
Indices: 6858926--6858979 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
6858916 AATTATTTTT
* *
6858926 TAA TAA TAA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6858974 TAA TAA
1 TAA TAA
6858980 AATGAGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6859541 original size:35 final size:35
Alignment explanation
Indices: 6859453--6859546 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
6859443 CAATCTTATG
* *
6859453 ATTATAATTTGAATATTAACTACAATATAATATAT
1 ATTATAATTTGAATATTAATTATAATATAATATAT
6859488 A-TATATATATT--ATAATTAATTATAATATAATATAT
1 ATTATA-AT-TTGAAT-ATTAATTATAATATAATATAT
6859523 ATTATAATTTGAATATTAAATTAT
1 ATTATAATTTGAATATT-AATTAT
6859547 TTTAATGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
34 8 0.16
35 28 0.56
36 14 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (35 bp):
ATTATAATTTGAATATTAATTATAATATAATATAT
Found at i:6860239 original size:27 final size:24
Alignment explanation
Indices: 6860201--6860259 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 24
6860191 TTAATATTCA
6860201 AATTATAATATATATTATATTATAATT
1 AATTATAATATATA-TATA-TAT-ATT
6860228 AATTATAATATATATATATATATT
1 AATTATAATATATATATATATATT
6860252 ATATTATA
1 A-ATTATA
6860260 CTTAATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 4 0.13
25 9 0.29
26 4 0.13
27 14 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTATAATATATATATATATATT
Found at i:6860265 original size:29 final size:29
Alignment explanation
Indices: 6860208--6860267 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
6860198 TCAAATTATA
*
6860208 ATATATATTATATTATAATTAATTATAAT
1 ATATATATTATATTATAATTAACTATAAT
6860237 ATATATATATATATTAT-ATTATACT-TAAT
1 ATATATAT-TATATTATAATTA-ACTATAAT
6860266 AT
1 AT
6860268 TCAAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATATATTATATTATAATTAACTATAAT
Found at i:6862642 original size:17 final size:17
Alignment explanation
Indices: 6862611--6862644 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6862601 GTGAAGGAAG
* *
6862611 AAGAAAAAGATGAAGAA
1 AAGAAAAACAAGAAGAA
6862628 AAGAAAAACAAGAAGAA
1 AAGAAAAACAAGAAGAA
6862645 TGAGGTAGAC
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:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (17 bp):
AAGAAAAACAAGAAGAA
Found at i:6864779 original size:21 final size:21
Alignment explanation
Indices: 6864734--6864780 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6864724 AGTTTATTTA
*
6864734 AATA-TTATTAAGGAAGTACT
1 AATACTTATTAAGGAAGTACC
*
6864754 TATACTTATTAAAGG-AGTACC
1 AATACTTATT-AAGGAAGTACC
6864775 AATACT
1 AATACT
6864781 ACCTATCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 15 0.68
22 4 0.18
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (21 bp):
AATACTTATTAAGGAAGTACC
Found at i:6867442 original size:22 final size:24
Alignment explanation
Indices: 6867417--6867464 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
6867407 CGTTTACTTT
6867417 TTGTTTA-ATTTTAAT-ACTCCAA
1 TTGTTTATATTTTAATCACTCCAA
*
6867439 TTGTTTATATTTTAATCACTCTAA
1 TTGTTTATATTTTAATCACTCCAA
6867463 TT
1 TT
6867465 TATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.54
Consensus pattern (24 bp):
TTGTTTATATTTTAATCACTCCAA
Found at i:6867779 original size:37 final size:37
Alignment explanation
Indices: 6867728--6867810 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
6867718 AAAACGAAAC
* *
6867728 AAAAATTAAAATGTTAGGTATGGTTTTGAAACAAATG
1 AAAATTTAGAATGTTAGGTATGGTTTTGAAACAAATG
6867765 AAAATTTAGAATGTTAGGTATGGTTTTGAAACAAATG
1 AAAATTTAGAATGTTAGGTATGGTTTTGAAACAAATG
6867802 AAAATTTAG
1 AAAATTTAG
6867811 GCACTAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (37 bp):
AAAATTTAGAATGTTAGGTATGGTTTTGAAACAAATG
Found at i:6869188 original size:18 final size:18
Alignment explanation
Indices: 6869165--6869205 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
6869155 TGTTAGGTAT
*
6869165 AGTTTTGAAAAAATTAAA
1 AGTTTTGAAAAAATAAAA
6869183 AGTTTTGAAAAAATAAAA
1 AGTTTTGAAAAAATAAAA
6869201 AGTTT
1 AGTTT
6869206 AGGTACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (18 bp):
AGTTTTGAAAAAATAAAA
Found at i:6871160 original size:13 final size:13
Alignment explanation
Indices: 6871142--6871167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6871132 TTATCCAGGG
6871142 AAAAGTAAACTAT
1 AAAAGTAAACTAT
6871155 AAAAGTAAACTAT
1 AAAAGTAAACTAT
6871168 CGTCAGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAAGTAAACTAT
Found at i:6873672 original size:28 final size:30
Alignment explanation
Indices: 6873635--6873695 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
6873625 AAATCAAAAC
6873635 AAATAAAAAA-ATAGAAATAGAA-A-ATAAA
1 AAATAAAAAAGAT-GAAATAGAATATATAAA
* *
6873663 AAATTAAAAAGATGAAATTGAATATATAAA
1 AAATAAAAAAGATGAAATAGAATATATAAA
6873693 AAA
1 AAA
6873696 GGGTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 17 0.61
29 3 0.11
30 8 0.29
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (30 bp):
AAATAAAAAAGATGAAATAGAATATATAAA
Found at i:6875006 original size:32 final size:33
Alignment explanation
Indices: 6874958--6875039 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 33
6874948 CTATATATTA
* *
6874958 TATATAAATTTTCAAAAATGTTTTTTTT--AAAC
1 TATAT-AATTTTCCAAAATATTTTTTTTAAAAAC
6874990 TATATAATTTTCCAAAATATTTTTTTTGAAAAAC
1 TATATAATTTTCCAAAATATTTTTTTT-AAAAAC
6875024 TATATAA-TTTCCAAAA
1 TATATAATTTTCCAAAA
6875040 GAGTTTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
31 20 0.44
32 5 0.11
33 9 0.20
34 11 0.24
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (33 bp):
TATATAATTTTCCAAAATATTTTTTTTAAAAAC
Found at i:6875016 original size:34 final size:32
Alignment explanation
Indices: 6874958--6875039 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 32
6874948 CTATATATTA
***
6874958 TATATAAATTTT-CAAAAATGTTTTTTTTAAAC
1 TATAT-AATTTTCCAAAAATGTTTTTGAAAAAC
*
6874990 TATATAATTTTCCAAAATATTTTTTTTGAAAAAC
1 TATATAATTTTCCAAAA-A-TGTTTTTGAAAAAC
6875024 TATATAA-TTTCCAAAA
1 TATATAATTTTCCAAAA
6875040 GAGTTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
31 6 0.14
32 10 0.23
33 10 0.23
34 17 0.40
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (32 bp):
TATATAATTTTCCAAAAATGTTTTTGAAAAAC
Found at i:6875107 original size:27 final size:29
Alignment explanation
Indices: 6875047--6875108 Score: 110
Period size: 27 Copynumber: 2.2 Consensus size: 29
6875037 AAAGAGTTTT
6875047 AAAAATTATATATTATATATAAGTTTTCA
1 AAAAATTATATATTATATATAAGTTTTCA
6875076 AAAAATTATATA-T-TATATAAGTTTTCA
1 AAAAATTATATATTATATATAAGTTTTCA
6875103 AAAAAT
1 AAAAAT
6875109 GATTTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 20 0.61
28 1 0.03
29 12 0.36
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAAATTATATATTATATATAAGTTTTCA
Found at i:6875223 original size:37 final size:37
Alignment explanation
Indices: 6875076--6875257 Score: 210
Period size: 36 Copynumber: 4.8 Consensus size: 37
6875066 TAAGTTTTCA
* *
6875076 AAAAATTATATATTATATAAGTTTTCAAAAAATGATTTT
1 AAAAACTATATATTATATAA-TTTTC-AAAAATGTTTTT
* *
6875115 AAAAACCATATATTATAT-ATTTTCTAAAATG-TTTT
1 AAAAACTATATATTATATAATTTTCAAAAATGTTTTT
* *
6875150 AAAAACTATATATTATATAGTTTTCAAAAGTG-TTTT
1 AAAAACTATATATTATATAATTTTCAAAAATGTTTTT
6875186 AAAAACTATATATTATATACATTTTC-AAAATGTTTTT
1 AAAAACTATATATTATATA-ATTTTCAAAAATGTTTTT
6875223 AAAAAAACTATATATTATATATGTATTTTCAAAAA
1 --AAAAACTATATATTATATA---ATTTTCAAAAA
6875258 CCATTTGCGA
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 21 0.17
36 44 0.35
37 14 0.11
38 1 0.01
39 35 0.28
41 6 0.05
42 4 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (37 bp):
AAAAACTATATATTATATAATTTTCAAAAATGTTTTT
Found at i:6875749 original size:84 final size:83
Alignment explanation
Indices: 6875610--6876517 Score: 744
Period size: 84 Copynumber: 10.8 Consensus size: 83
6875600 GCCTCTAAGA
* * * * *
6875610 TGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATGACCCTTATTGACTTAAGCTATGCTGT
1 TGAGCGTAGTCGAACTCGAAGGTCTT-GGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGT
*
6875675 AAATGATACGCCTTGGAGC
65 AAATGATATGCCTTGGAGC
* * * *
6875694 TGAGCGTAGTCAAAACTCGAAGGTCTTGGTTGGTAGATAACCATTATCGACTTAAGTTATGCTGC
1 TGAGCGTAGTC-GAACTCGAAGGTCTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGT
* *
6875759 AAGTGATATGCCTTAGAGC
65 AAATGATATGCCTTGGAGC
* * * * * *
6875778 TGAGCGTAGTCGAAACTCGAAGGTCTTTGG-TGACAGATAACCCTTTTGGCCTTGAGTTATGTTG
1 TGAGCGTAGTCG-AACTCGAAGGTC-TTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTG
* * * *
6875842 TAAATTATGTGCCCTTTGCCTCTAAGA
64 TAAATGATATG-CC-TTG-----GAGC
* * * * *
6875869 TGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATGACCCTTATTGACTTAAGCTATGCTGT
1 TGAGCGTAGTCGAACTCGAAGGTCTT-GGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGT
*
6875934 AAATGATACGCCTTGGAGC
65 AAATGATATGCCTTGGAGC
* * * *
6875953 TGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGATAACCATTATCGACTTAAGTTATGCTGC
1 TGAGCGTAGTCGAACTCGAAGGTC-TTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGT
* *
6876018 AAGTGATATGCCTTAGAGC
65 AAATGATATGCCTTGGAGC
* * * * * *
6876037 TGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTTTGGCCTTGAGTTATGTTG
1 TGAGCGTAGTCGAACTCGAAGGTC--TTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTG
* * * *
6876101 TAAATTATGTGCCCTCGAAGC
64 TAAATGATATG-CCTTGGAGC
* * * * * * *
6876122 TGAGTGCAATCGAACTTGAGGGTC-T--TTGGTAGATAACCCTTCTCGACTTAAGTTATGCT-TC
1 TGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGT-
***
6876183 AAATGATGCACCTTGGAGC
65 AAATGATATGCCTTGGAGC
* * * * *
6876202 TGAGCGTAGTCGAACTTGAAGGTCTTTGTTGGCAGATAACCCTTCTCAACTTAAGTTATGCTATA
1 TGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGTA
6876267 AATGATATGCCTTGGAGC
66 AATGATATGCCTTGGAGC
* * * * *
6876285 TGAGCGTAGTCGAACTCGAAGGTCTT--TTGGTCACAGATAACCCTTCTAG-CATTGATTTATGT
1 TGAGCGTAGTCGAACTCGAAGGTCTTGGTTGG---CAGATAACCCTTATCGAC-TTAAGTTATGC
* * *
6876347 TGTAAATGATGTGCCCTCGAAGC
62 TGTAAATGATATG-CCTTGGAGC
* * * * * * * *
6876370 TGAGTGTAATCGAACTCGAGGGAC-T--TTGGCAGATAACCCTTCTCGACTTAAGCTATACTGCA
1 TGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGTA
*
6876432 AATGATGTGCCTTGGAGC
66 AATGATATGCCTTGGAGC
* * * * * * * * * *
6876450 TAAAG-GTAGTCAAACTCAAAGGTATTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 T-GAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGT
6876514 AAAT
65 AAAT
6876518 AGGGAAAAAT
Statistics
Matches: 661, Mismatches: 132, Indels: 63
0.77 0.15 0.07
Matches are distributed among these distances:
80 49 0.07
81 74 0.11
82 2 0.00
83 109 0.16
84 279 0.42
85 79 0.12
86 2 0.00
89 5 0.01
90 16 0.02
91 46 0.07
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (83 bp):
TGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGTA
AATGATATGCCTTGGAGC
Found at i:6876309 original size:248 final size:248
Alignment explanation
Indices: 6875601--6876515 Score: 1197
Period size: 248 Copynumber: 3.6 Consensus size: 248
6875591 ATTTGGTTTG
* * * * *
6875601 CCTCTAAGATGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATGACCCTTATTGACTTAAG
1 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGCAGATAACCCTTATCGACTTAAG
* *
6875666 CTATGCTGTAAATGATACGCCTTGGAGCTGAGCGTAGTCAAAACTCGAAGGTCTTGGTTGGTAGA
62 CTATGCTGTAAATGATACGCCTTGGAGCTGAGCGTAGTC-AAACTCGAAGGTCTTTGTTGGCAGA
6875731 TAACCATTATCGACTTAAGTTATGCTGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCGAAACTC
126 TAACCATTATCGACTTAAGTTATGCTGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCG-AACTC
6875796 GAAGGTC-TTTGGTGACAGATAACCCTTTTGGCCTTGAGTTATGTTGTAAATTATGTGCCC
190 GAAGGTCTTTTGGTGACAGATAACCCTTTTGGCCTTGAGTTATGTTGTAAATTATGTG--C
* * * * *
6875856 TTTGCCTCTAAGATGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATGACCCTTATTGACT
1 ----CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T---TTGGCAGATAACCCTTATCGACT
6875921 TAAGCTATGCTGTAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGG
58 TAAGCTATGCTGTAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTT-GTTGG
*
6875986 TAGATAACCATTATCGACTTAAGTTATGCTGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCGAA
122 CAGATAACCATTATCGACTTAAGTTATGCTGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCGAA
6876051 CTCGAAGGTCTTTTGGTGACAGATAACCCTTTTGGCCTTGAGTTATGTTGTAAATTATGTGC
187 CTCGAAGGTCTTTTGGTGACAGATAACCCTTTTGGCCTTGAGTTATGTTGTAAATTATGTGC
* * * * *
6876113 CCTCGAAGCTGAGTGCAATCGAACTTGAGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGTTAT
1 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTATCGACTTAAGCTAT
* * * *
6876178 GCT-TCAAATGATGCACCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGTTGGCAGATAAC
66 GCTGT-AAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGTTGGCAGATAAC
* * * ** * *
6876242 CCTTCTCAACTTAAGTTATGCTATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG
130 CATTATCGACTTAAGTTATGCTGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGG
* * * * * *
6876307 TCTTTTGGTCACAGATAACCCTTCTAGCATTGATTTATGTTGTAAATGATGTGC
195 TCTTTTGGTGACAGATAACCCTTTTGGCCTTGAGTTATGTTGTAAATTATGTGC
* *
6876361 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGACTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTATCGACTTAAGCTAT
* * ** * * *
6876426 ACTGCAAATGATGTGCCTTGGAGCTAAAG-GTAGTCAAACTCAAAGGTATTTGTTGGCAGATAAC
66 GCTGTAAATGATACGCCTTGGAGCT-GAGCGTAGTCAAACTCGAAGGTCTTTGTTGGCAGATAAC
* * * * *
6876490 CCTTCTAGCCTTGAGTTATGCTGCAA
130 CATTATCGACTTAAGTTATGCTGCAA
6876516 ATAGGGAAAA
Statistics
Matches: 602, Mismatches: 49, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
248 250 0.42
249 73 0.12
252 1 0.00
253 28 0.05
257 1 0.00
258 27 0.04
259 222 0.37
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (248 bp):
CCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTATCGACTTAAGCTAT
GCTGTAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACC
ATTATCGACTTAAGTTATGCTGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGT
CTTTTGGTGACAGATAACCCTTTTGGCCTTGAGTTATGTTGTAAATTATGTGC
Found at i:6876421 original size:165 final size:167
Alignment explanation
Indices: 6875691--6876517 Score: 685
Period size: 165 Copynumber: 4.9 Consensus size: 167
6875681 TACGCCTTGG
* * * *
6875691 AGCTGAGCGTAGTCAAAACTCGAAGGTCTTGGTTGGTAGATAACCATTATCGACTTAAGTTATGC
1 AGCTGAGCGTAATC-GAACTCGAAGGTCTT-GTTGGCAGATAACCCTTATCGACTTAAGTTATGC
* * *
6875756 TGCAAGTGATATGCCTTAGAGCTGAGCGTAGTCGAAACTCGAAGGTCTTTGGTGACAGATAACCC
64 TGTAAATGATATGCCTTGGAGCTGAGCGTAGTCG-AACTCGAAGGTCTTTGGTGACAGATAACCC
* * * * * *
6875821 TTTTGGCCTTGAGTTATGTTGTAAATTATGTGCCCTTTGCCTCTA
128 TTCTAGCATTGAGTTATGTTGCAAATGATGTG--C--T-CCTCGA
* * * * *
6875866 AGATGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATGACCCTTATTGACTTAAGCTATGC
1 AGCTGAGCGTAATCGAACTCGAAGGTCTT--GTTGGCAGATAACCCTTATCGACTTAAGTTATGC
* * ** *
6875931 TGTAAATGATACGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGTAGATAACCA
64 TGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCC
* * * * * * * *
6875996 TTATCG-ACTTAAGTTATGCTGCAAGTGATATGC-CTTAG-
128 TTCTAGCA-TTGAGTTATGTTGCAAATGATGTGCTCCTCGA
* * * * *
6876034 AGCTGAGCGTAGTCGAACTCGAAGGTCTT-TTGGTGACAGATAACCCTTTTGGCCTTGAGTTATG
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTGTT-G-G-CAGATAACCCTTATCGACTTAAGTTATG
* * * * * * * * * *
6876098 TTGTAAATTATGTGCCCTCGAAGCTGAGTGCAATCGAACTTGAGGGTCTTTGGT---AGATAACC
63 CTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACC
* * * * *
6876160 CTTCTCG-ACTTAAGTTATGCTT-CAAATGA--TGCACCTTGG
127 CTTCTAGCA-TTGAGTTATG-TTGCAAATGATGTGCTCCTCGA
* * * *
6876199 AGCTGAGCGTAGTCGAACTTGAAGGTCTTTGTTGGCAGATAACCCTTCTCAACTTAAGTTATGCT
1 AGCTGAGCGTAATCGAACTCGAAGGTC-TTGTTGGCAGATAACCCTTATCGACTTAAGTTATGCT
* *
6876264 ATAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCT
65 GTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCT
* *
6876329 TCTAGCATTGATTTATGTTGTAAATGATGTGC-CCTCGA
129 TCTAGCATTGAGTTATGTTGCAAATGATGTGCTCCTCGA
* * * * * *
6876367 AGCTGAGTGTAATCGAACTCGAGGGAC-T-TTGGCAGATAACCCTTCTCGACTTAAGCTATACTG
1 AGCTGAGCGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTG
* * * * * * * *
6876430 CAAATGATGTGCCTTGGAGCTAAAG-GTAGTCAAACTCAAAGGTATTTGTTGGCAGATAACCCTT
66 TAAATGATATGCCTTGGAGCT-GAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTT
* *
6876494 CTAGCCTTGAGTTATGCTGCAAAT
130 CTAGCATTGAGTTATGTTGCAAAT
6876518 AGGGAAAAAT
Statistics
Matches: 530, Mismatches: 101, Indels: 53
0.77 0.15 0.08
Matches are distributed among these distances:
163 29 0.05
164 79 0.15
165 126 0.24
166 10 0.02
167 31 0.06
168 86 0.16
169 35 0.07
173 1 0.00
174 31 0.06
175 102 0.19
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (167 bp):
AGCTGAGCGTAATCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTG
TAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
TAGCATTGAGTTATGTTGCAAATGATGTGCTCCTCGA
Found at i:6883127 original size:15 final size:15
Alignment explanation
Indices: 6883107--6883152 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
6883097 CTTAGGTGCA
*
6883107 TCACATTCATTATTT
1 TCACATTCATCATTT
6883122 TCACATTCATCATTT
1 TCACATTCATCATTT
*
6883137 TAACATTCATCATTT
1 TCACATTCATCATTT
6883152 T
1 T
6883153 AGCATACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (15 bp):
TCACATTCATCATTT
Found at i:6884023 original size:247 final size:248
Alignment explanation
Indices: 6883587--6884463 Score: 1245
Period size: 248 Copynumber: 3.5 Consensus size: 248
6883577 ACTCATGGGT
* * *
6883587 AGAAGGGTTATCTCCCAACAAAGACCTTCAAGTTCGACTACGTTAAACTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATCATTT
* ** *
6883652 ACATTATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTCGATTACACTCAGCTT
66 GCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
*
6883717 CAAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCG
131 CTAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCG
6883782 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCA-AACTTAAGTCG
196 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * * **
6883834 AGAAGGGTTATCTGCCAACAAAGACATTCGAGTTCGACCACGTTCAGCTCCAAACCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATCATTT
* * * * * *
6883899 GTAGCATAACTTAAATCGAGAAGGGTTGTCTGCCAAAGACCCTCGAGTTGGATTACACTCAGCTT
66 GCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
* * *
6883964 CTAGGGCACATCATTTACAACATAACTTAAGGCTAGAAGAGTTATCTGTGACCAAAAGACCTTCG
131 CTAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCG
* * * *
6884029 AGTTCGACTATGCTCAGCTCCAAGGCATATTATTTGTAGCATAACTTAAGTTG
196 AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * * * *
6884082 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCGCATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATCATTT
* * * *
6884147 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGATTGCACTCAACTT
66 GCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
* * *
6884212 -TGAGGGCACATCATTTACAGCCTAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAAGACCTTC
131 CT-AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTC
* * * *
6884276 GAGTTTGACTACGCTCAGCTCTAAGGCACATCACTTGCAGCATAACTTAAGTCG
195 GAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
*
6884330 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCGCATCATT
1 AGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATCATT
* * * * * *
6884395 TGCAGCATATCTTAAGTCAATAAGGGCCATCTGCTAACCGAAGATCTTCGAGTTCGATTACACTC
65 TGCAGCATATCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGATTACACTC
6884460 AGCT
126 AGCT
6884464 CAGAGGCAAA
Statistics
Matches: 552, Mismatches: 71, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
247 212 0.38
248 243 0.44
249 70 0.13
253 27 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (248 bp):
AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATCATTT
GCAGCATATCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
CTAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCG
AGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
Found at i:6884066 original size:165 final size:164
Alignment explanation
Indices: 6883587--6884464 Score: 694
Period size: 165 Copynumber: 5.3 Consensus size: 164
6883577 ACTCATGGGT
* * * * * *
6883587 AGAAGGGTTATCTCCCAACAAAGACCTTCAAGTTCGACTACGTTAAACTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCC-ACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTT
* ** * * ** *
6883652 ACATTATATCTTAAGTCGAGAAGGGCTATCTG--CCAAAGACCCTT-GAGTTCGATTACACTCAG
65 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGTACCAAAGA-CCTTCGAGTTCGACCACGCTCAG
* ** ** * ** *
6883714 CTTCAAGGGCACATCATTTACAGCATAACTCAAGGCT
129 CTCCAA-ACCACATCATTTGTAGCATAACTTAAATCG
* *
6883751 AGAAGGGTTATCTGTGACCA-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCAT
1 AGAAGGGTTATC--TG-CCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCAT
* * * *
6883815 TTGCAGCA-AACTTAAGTCGAGAAGGGTTATCTGCCAACAAAGACATTCGAGTTCGACCACGTTC
63 TTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TACCAAAGACCTTCGAGTTCGACCACGCTC
6883879 AGCTCCAAACCACATCATTTGTAGCATAACTTAAATCG
127 AGCTCCAAACCACATCATTTGTAGCATAACTTAAATCG
* * * * * *
6883917 AGAAGGGTTGTCTG-C-CAAAGACCCTCGAGTTGGATTACACTCAGCTTCTAGGGCACATCATTT
1 AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTT
* * * * * * *
6883980 ACAACATAACTTAAGGCTAGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTATGCTCA
65 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGT-ACC-AAAGACCTTCGAGTTCGACCACGCTCA
** * * * *
6884045 GCTCCAAGGCATATTATTTGTAGCATAACTTAAGTTG
128 GCTCCAAACCACATCATTTGTAGCATAACTTAAATCG
* *
6884082 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCGCATCATTT
1 AGAAGGGTTATCTGCC-ACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTT
* * * *** * *
6884147 GCAGCATAGCTTAAGTCGAGAAGGGCTATC--TACCAAAGACCCTCGAGTTCGATTGCACTCAAC
65 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGTACCAAAGACCTTCGAGTTCGACCACGCTCAGC
** *** ** * * ** *
6884210 TTTGAGGGCACATCATTTACAGCCTAACTCAAGGCT
130 -TCCAAACCACATCATTTGTAGCATAACTTAAATCG
* * * *
6884246 AGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCACATCACT
1 AGAAGGGTTATCTGCCA-C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATT
* * *
6884311 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGTTC
64 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTG--TACCAAAGACCTTCGAGTTCGACCACGCTC
* ** * * * * *
6884376 AACTCCAAGGCGCATCATTTGCAGCATATCTTAAGTCA
127 AGCTCCAAACCACATCATTTGTAGCATAACTTAAATCG
* ** * * * * *
6884414 ATAAGGGCCATCTGCTAACCGAAGATCTTCGAGTTCGATTACACTCAGCTC
1 AGAAGGGTTATCTGC-CA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
6884465 AGAGGCAAAC
Statistics
Matches: 575, Mismatches: 116, Indels: 42
0.78 0.16 0.06
Matches are distributed among these distances:
162 26 0.05
163 42 0.07
164 102 0.18
165 184 0.32
166 39 0.07
167 65 0.11
168 87 0.15
169 30 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (164 bp):
AGAAGGGTTATCTGCCACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTG
CAGCATAACTTAAGTCGAGAAGGGTTATCTGTACCAAAGACCTTCGAGTTCGACCACGCTCAGCT
CCAAACCACATCATTTGTAGCATAACTTAAATCG
Found at i:6884086 original size:84 final size:83
Alignment explanation
Indices: 6883587--6884464 Score: 824
Period size: 84 Copynumber: 10.6 Consensus size: 83
6883577 ACTCATGGGT
** * * * * *
6883587 AGAAGGGTTATCTCCCAACAAAGACCTTCAAGTTCGACTACGTTAAACTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* ** *
6883652 ACATTATATCTTAAGTCG
66 GCAGCATAACTTAAGTCG
* * * *
6883670 AGAAGGGCTATCTG---CCAAAGACCCTT-GAGTTCGATTACACTCAGCTTCAAGGGCACATCAT
1 AGAAGGGTTATCTGTCACCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
* * * *
6883731 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCG
* *
6883751 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
6883816 TGCAGCA-AACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * * * **
6883834 AGAAGGGTTATCTGCCAACAAAGACATTCGAGTTCGACCACGTTCAGCTCCAAACCACATCATTT
1 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
6883899 GTAGCATAACTTAAATCG
66 GCAGCATAACTTAAGTCG
* * * * * * *
6883917 AGAAGGGTTGTCTG---CCAAAGACCCTCGAGTTGGATTACACTCAGCTTCTAGGGCACATCATT
1 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
6883979 TACAACATAACTTAAGGCT
65 TGCAGCATAACTTAAGTCG
* * * * *
6883998 AGAAGAGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATTATT
1 AGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
6884063 TGTAGCATAACTTAAGTTG
65 TGCAGCATAACTTAAGTCG
* * * * *
6884082 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCGCATCATTT
1 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
*
6884147 GCAGCATAGCTTAAGTCG
66 GCAGCATAACTTAAGTCG
* * * * * * ** *
6884165 AGAAGGGCTATC--T-ACCAAAGACCCTCGAGTTCGATTGCACTCAACTTTGAGGGCACATCATT
1 AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * * *
6884227 TACAGCCTAACTCAAGGCT
65 TGCAGCATAACTTAAGTCG
* * * *
6884246 AGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGGCACATCACT
1 AGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
6884311 TGCAGCATAACTTAAGTCG
65 TGCAGCATAACTTAAGTCG
* * * *
6884330 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCGCATCATT
1 AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
6884395 TGCAGCATATCTTAAGTCA
65 TGCAGCATAACTTAAGTCG
* ** * * * * *
6884414 ATAAGGGCCATCTGCTAACCGAAGATCTTCGAGTTCGATTACACTCAGCTC
1 AGAAGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
6884465 AGAGGCAAAC
Statistics
Matches: 633, Mismatches: 142, Indels: 39
0.78 0.17 0.05
Matches are distributed among these distances:
80 71 0.11
81 113 0.18
82 45 0.07
83 126 0.20
84 202 0.32
85 76 0.12
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (83 bp):
AGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCG
Found at i:6885054 original size:10 final size:11
Alignment explanation
Indices: 6885039--6885079 Score: 66
Period size: 12 Copynumber: 3.7 Consensus size: 11
6885029 TTTCGTCCAC
6885039 ATATTATAT-T
1 ATATTATATAT
6885049 ATATTATATAT
1 ATATTATATAT
6885060 ATATATATATAT
1 ATAT-TATATAT
6885072 ATATTATA
1 ATATTATA
6885080 GTTCGCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.31
11 9 0.31
12 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTATATAT
Found at i:6885060 original size:2 final size:2
Alignment explanation
Indices: 6885039--6885079 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
6885029 TTTCGTCCAC
6885039 AT AT -T AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6885077 AT A
1 AT A
6885080 GTTCGCAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 4 0.11
2 31 0.89
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:6885191 original size:75 final size:78
Alignment explanation
Indices: 6885105--6885283 Score: 215
Period size: 75 Copynumber: 2.3 Consensus size: 78
6885095 TTGAAAATAC
* *
6885105 ATATATAATATATAGTTTTTATAAA-AATATTTTGAAAA-TGTATACAGTATATAGT-TTTT-AA
1 ATATATAATATATAGTTTTTA-AAATAATATTTTGAAAACT-TATACAATATATAATATTTTGAA
6885166 AACATTTTAGAAAA-
64 AACATTTTAGAAAAT
* * * *
6885180 ATATATAATATATGGTTTTTAAAATCATTTTTTGAAAACTTATATAATATATAATATTTTGAAAA
1 ATATATAATATATAGTTTTTAAAATAATATTTTGAAAACTTATACAATATATAATATTTTGAAAA
*
6885245 CATTTTTGAAAACTT
66 CATTTTAGAAAA--T
*
6885260 ATATATAATATATAATTTTTAAAA
1 ATATATAATATATAGTTTTTAAAA
6885284 CTCTTTTGGA
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
74 3 0.03
75 43 0.49
76 5 0.06
77 15 0.17
80 22 0.25
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (78 bp):
ATATATAATATATAGTTTTTAAAATAATATTTTGAAAACTTATACAATATATAATATTTTGAAAA
CATTTTAGAAAAT
Found at i:6885229 original size:39 final size:37
Alignment explanation
Indices: 6885092--6885302 Score: 196
Period size: 39 Copynumber: 5.5 Consensus size: 37
6885082 TCGCAAATGG
* *
6885092 TTTTTGAAAATACATATATAATATATAGTTTTTATAAAAA
1 TTTTTG-AAA-ACTTATATAATATATAGTTTTTA-AAACA
* *
6885132 TATTTTGAAAA-TGTATACAGTATATAGTTTTTAAAACA
1 T-TTTTGAAAACT-TATATAATATATAGTTTTTAAAACA
* * *
6885170 TTTTAGAAAA-ATATATAATATATGGTTTTTAAAATCA
1 TTTTTGAAAACTTATATAATATATAGTTTTTAAAA-CA
*
6885207 TTTTTTGAAAACTTATATAATATATAATATTTTGAAAACA
1 -TTTTTGAAAACTTATATAATATATAGT-TTTT-AAAACA
*
6885247 TTTTTGAAAACTTATATATAATATATAATTTTTAAAAC-
1 TTTTTGAAAAC-T-TATATAATATATAGTTTTTAAAACA
*
6885285 TCTTTTGGAAA-TTATATA
1 T-TTTTGAAAACTTATATA
6885303 GTTTTTTAAA
Statistics
Matches: 147, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
36 26 0.18
37 11 0.07
38 15 0.10
39 56 0.38
40 15 0.10
41 24 0.16
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAACTTATATAATATATAGTTTTTAAAACA
Found at i:6885411 original size:13 final size:13
Alignment explanation
Indices: 6885393--6885454 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
6885383 TTTTTTAAAA
6885393 ATAATTTATTATT
1 ATAATTTATTATT
6885406 ATAATTTATTATT
1 ATAATTTATTATT
* *
6885419 GTTATTTATTA-T
1 ATAATTTATTATT
*
6885431 -TAATTT-TTACT
1 ATAATTTATTATT
*
6885442 ATTATTTATTATT
1 ATAATTTATTATT
6885455 TTTTCTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
10 3 0.07
11 6 0.15
12 6 0.15
13 26 0.63
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (13 bp):
ATAATTTATTATT
Found at i:6885425 original size:26 final size:24
Alignment explanation
Indices: 6885396--6885455 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
6885386 TTTAAAAATA
* *
6885396 ATTTATTATTATAATTTATTATTGTT
1 ATTTATTATT-TAATTT-TTACTATT
6885422 ATTTATTA-TTAATTTTTACTATT
1 ATTTATTATTTAATTTTTACTATT
6885445 ATTTATTATTT
1 ATTTATTATTT
6885456 TTTCTTATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 14 0.45
24 8 0.26
25 1 0.03
26 8 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTATTATTTAATTTTTACTATT
Found at i:6885444 original size:20 final size:19
Alignment explanation
Indices: 6885409--6885477 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
6885399 TATTATTATA
*
6885409 ATTTATTATTGTTA-T-TT
1 ATTTATTATTTTTACTATT
6885426 A-TTATTAATTTTTACTATT
1 ATTTATT-ATTTTTACTATT
*
6885445 ATTTATTATTTTTTCTTATT
1 ATTTATTATTTTTAC-TATT
6885465 CATTTATT-TTTTT
1 -ATTTATTATTTTT
6885478 TGTCTAGGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 7 0.16
18 1 0.02
19 10 0.23
20 14 0.32
21 7 0.16
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (19 bp):
ATTTATTATTTTTACTATT
Found at i:6886695 original size:5 final size:5
Alignment explanation
Indices: 6886687--6886720 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
6886677 CTTATTTTAT
6886687 TATTC TATTC TATTC TATTC TATTC TATTC TATT
1 TATTC TATTC TATTC TATTC TATTC TATTC TATT
6886721 GTTTTGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTC
Found at i:6886848 original size:13 final size:13
Alignment explanation
Indices: 6886830--6886859 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6886820 CGAATCGAAT
6886830 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
6886843 TTTTAATTTTTAA
1 TTTTAAATTTTAA
6886856 TTTT
1 TTTT
6886860 CGTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:6887076 original size:2 final size:2
Alignment explanation
Indices: 6887069--6887094 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6887059 GGTTCCGACA
6887069 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
6887095 GAGTTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6898169 original size:16 final size:16
Alignment explanation
Indices: 6898148--6898183 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6898138 TGTAATAGTA
6898148 AGACTTAGACTGTGAG
1 AGACTTAGACTGTGAG
6898164 AGACTTAGACTGTGAG
1 AGACTTAGACTGTGAG
6898180 AGAC
1 AGAC
6898184 ACAGATGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (16 bp):
AGACTTAGACTGTGAG
Found at i:6901773 original size:41 final size:41
Alignment explanation
Indices: 6901746--6901823 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
6901736 GCGAATTGGG
* * *
6901746 AAAATCGCAATGCGATACTAACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATAATAA
* *
6901787 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATA
6901824 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTAACTATCGCAACGCGATAATAA
Found at i:6901774 original size:20 final size:20
Alignment explanation
Indices: 6901749--6901843 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
6901739 AATTGGGAAA
*
6901749 ATCGCAATGCGATACTAACT
1 ATCGCAACGCGATACTAACT
* * **
6901769 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-AACT
* *
6901790 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTAACT
* *
6901810 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTAACT
*
6901830 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6901844 ATACATAATC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:6902059 original size:22 final size:22
Alignment explanation
Indices: 6902031--6902074 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6902021 CACTCTCTCA
6902031 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
6902053 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
6902075 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:6902363 original size:20 final size:20
Alignment explanation
Indices: 6902338--6902375 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6902328 CGATTCTCTC
6902338 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
6902358 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
6902376 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:6903716 original size:18 final size:18
Alignment explanation
Indices: 6903695--6903739 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6903685 TCCACTTCGG
*
6903695 GAGCTATCACCTCGCCCA
1 GAGCTATCACCTCACCCA
*
6903713 GAGCTATCACCTCACCTA
1 GAGCTATCACCTCACCCA
*
6903731 GAGCAATCA
1 GAGCTATCA
6903740 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.38, G:0.16, T:0.18
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:6904321 original size:19 final size:19
Alignment explanation
Indices: 6904231--6904332 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 19
6904221 GAAAATGACT
***
6904231 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
* *
6904251 ATCGCAATGCGAAATAAAA
1 ATCGCAACGCGAAATGAAA
*
6904270 ATTGCAACGCGAAATG-AA
1 ATCGCAACGCGAAATGAAA
*
6904288 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
6904302 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
6904321 ATTGCAATGCGA
1 ATCGCAACGCGA
6904333 TTTGTCATCA
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
14 10 0.16
16 4 0.06
18 9 0.14
19 31 0.49
20 9 0.14
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:6906224 original size:20 final size:19
Alignment explanation
Indices: 6906193--6906372 Score: 121
Period size: 19 Copynumber: 9.8 Consensus size: 19
6906183 TCTTTTGGTT
6906193 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
6906212 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
6906233 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
6906252 G--A-G--AATCGCAACGCA
1 GAAATGAAAATCGCAACG-A
**
6906267 -AAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
6906282 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
6906299 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
6906319 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
6906338 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
6906357 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6906373 TGCGATTTTT
Statistics
Matches: 131, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
14 16 0.12
15 3 0.02
16 4 0.03
17 4 0.03
18 1 0.01
19 54 0.41
20 47 0.36
21 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:6906276 original size:33 final size:33
Alignment explanation
Indices: 6906218--6906316 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
6906208 ACGAGATAAT
*
6906218 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
* *
6906252 GAGAATCGCAACGCAAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
6906285 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
6906317 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 43 0.75
34 14 0.25
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:6906310 original size:19 final size:19
Alignment explanation
Indices: 6906288--6906377 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
6906278 GCGACCAGAC
6906288 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6906307 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
6906327 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
6906346 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
6906365 AATCGCAATGCGA
1 AATCGCAACGCGA
6906378 TTTTTGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:6906320 original size:39 final size:38
Alignment explanation
Indices: 6906288--6906377 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
6906278 GCGACCAGAC
6906288 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
6906327 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
6906365 AATCGCAATGCGA
1 AATCGCAACGCGA
6906378 TTTTTGTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:6907022 original size:41 final size:41
Alignment explanation
Indices: 6906970--6907047 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
6906960 CGAAAGTCAG
* * *
6906970 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
6907011 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
6907048 CCCAATTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:6907044 original size:20 final size:20
Alignment explanation
Indices: 6906951--6907044 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
6906941 CGCTATGTAA
*
6906951 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
6906971 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
6906991 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
6907012 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
6907032 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
6907045 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:6907063 original size:41 final size:41
Alignment explanation
Indices: 6907033--6907128 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
6907023 ATAGTCAGTA
* * * *
6907033 TCGCATTGCGATTTTCCCAATTCGTGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
6907074 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
6907115 TCGCATTGCGAATT
1 TCGCATTGCGAATT
6907129 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:6907064 original size:21 final size:21
Alignment explanation
Indices: 6907033--6907108 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
6907023 ATAGTCAGTA
*
6907033 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* * **
6907054 TCGTGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
* *
6907074 TCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
6907095 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
6907109 ACTTATTCGC
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:6907082 original size:20 final size:20
Alignment explanation
Indices: 6907059--6907125 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
6907049 CCAATTCGTG
6907059 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
* ** *
6907079 TTGCGAATTTCCCAATTCGCG
1 TTGCG-ATTTACTTATTCGCA
6907100 TTGCGATTTACTTATTCGCA
1 TTGCGATTTACTTATTCGCA
6907120 TTGCGA
1 TTGCGA
6907126 ATTGGGAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACTTATTCGCA
Found at i:6909987 original size:3 final size:3
Alignment explanation
Indices: 6909979--6910061 Score: 139
Period size: 3 Copynumber: 27.7 Consensus size: 3
6909969 TTTTTATCCA
* * *
6909979 TAT TAT TAT TAT TAA TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6910027 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6910062 ATTTATATTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6911525 original size:22 final size:20
Alignment explanation
Indices: 6911484--6911528 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
6911474 ATAGAATTAT
**
6911484 TATTTTATTATATTGTTAAA
1 TATTTTATTATATTCATAAA
6911504 TATTTTGATATATATTCATAAA
1 TATTTT-AT-TATATTCATAAA
6911526 TAT
1 TAT
6911529 ATATAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTTATTATATTCATAAA
Found at i:6922869 original size:9 final size:8
Alignment explanation
Indices: 6922822--6922882 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
6922812 ATTATGCTTG
6922822 AAGAAAAA
1 AAGAAAAA
6922830 AA-AAAAA
1 AAGAAAAA
6922837 AA-AAAAA
1 AAGAAAAA
*
6922844 AAAAAAAA
1 AAGAAAAA
6922852 AAGAAAGAA
1 AAGAAA-AA
6922861 AA-AATAGAA
1 AAGAA-A-AA
6922870 AATGAAAAA
1 AA-GAAAAA
6922879 AAGA
1 AAGA
6922883 GAAGAAAAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
7 14 0.30
8 16 0.34
9 14 0.30
10 1 0.02
11 2 0.04
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (8 bp):
AAGAAAAA
Found at i:6922869 original size:13 final size:12
Alignment explanation
Indices: 6922822--6922891 Score: 72
Period size: 12 Copynumber: 5.7 Consensus size: 12
6922812 ATTATGCTTG
6922822 AAGAAAAAAA-A
1 AAGAAAAAAAGA
*
6922833 AA-AAAAAAAAA
1 AAGAAAAAAAGA
*
6922844 AAAAAAAAAAGA
1 AAGAAAAAAAGA
6922856 AAGAAAAAATAGAA
1 AAGAAAAAA-AG-A
6922870 AATGAAAAAAAGA
1 AA-GAAAAAAAGA
6922883 GAAGAAAAA
1 -AAGAAAAA
6922892 GAAAGGGGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
10 7 0.14
11 5 0.10
12 16 0.31
13 9 0.18
14 7 0.14
15 7 0.14
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:6922871 original size:19 final size:18
Alignment explanation
Indices: 6922822--6922896 Score: 75
Period size: 19 Copynumber: 4.2 Consensus size: 18
6922812 ATTATGCTTG
6922822 AAGAAAAAAA-AAAAA-A
1 AAGAAAAAAAGAAAAAGA
* *
6922838 AAAAAAAAAAAAAAAAGA
1 AAGAAAAAAAGAAAAAGA
*
6922856 AAGAAAAAATAGAAAATGA
1 AAGAAAAAA-AGAAAAAGA
6922875 AA-AAAAGAGAAGAAAAAGA
1 AAGAAAA-A-AAGAAAAAGA
6922894 AAG
1 AAG
6922897 GGGGTCAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 9 0.19
17 5 0.10
18 13 0.27
19 20 0.42
20 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (18 bp):
AAGAAAAAAAGAAAAAGA
Found at i:6922877 original size:14 final size:13
Alignment explanation
Indices: 6922822--6922891 Score: 78
Period size: 11 Copynumber: 5.6 Consensus size: 13
6922812 ATTATGCTTG
6922822 AAGAAAAAAA-AA
1 AAGAAAAAAAGAA
6922834 AA-AAAAAAA-AA
1 AAGAAAAAAAGAA
6922845 AA-AAAAAAAG-A
1 AAGAAAAAAAGAA
6922856 AAGAAAAAATAGAA
1 AAGAAAAAA-AGAA
*
6922870 AATGAAAAAAAGAG
1 AA-GAAAAAAAGAA
6922884 AAGAAAAA
1 AAGAAAAA
6922892 GAAAGGGGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
11 21 0.40
12 8 0.15
13 8 0.15
14 8 0.15
15 7 0.13
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:6922880 original size:1 final size:1
Alignment explanation
Indices: 6922825--6922864 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
6922815 ATGCTTGAAG
* *
6922825 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6922865 TAGAAAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:6924337 original size:183 final size:183
Alignment explanation
Indices: 6924148--6924604 Score: 896
Period size: 183 Copynumber: 2.5 Consensus size: 183
6924138 TGAATTTGCC
6924148 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
6924213 AAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATTTAGAAGATGAATTT
6924278 GCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 GCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
6924331 AATAGCATCTTCTGGAGGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
6924396 AAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATTTAGAAGATGAATTT
6924461 GCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
131 GCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
6924514 GATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
6924579 AAGTGTTCTTTGAGTTATCTGATCTG
66 AAGTGTTCTTTGAGTTATCTGATCTG
6924605 TTTTGGTAAG
Statistics
Matches: 271, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 271 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (183 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATTTAGAAGATGAATTT
GCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:6924382 original size:133 final size:133
Alignment explanation
Indices: 6924001--6924371 Score: 724
Period size: 133 Copynumber: 2.8 Consensus size: 133
6923991 CATTAAATGA
6924001 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
6924066 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAATGAATT
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAATGAATT
6924131 TAG
131 TAG
6924134 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
*
6924199 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATT
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAATGAATT
6924264 TAG
131 TAG
6924267 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
*
6924332 ATAGCATCTTCTGGAGGTGTTCTTTGAGTTATCTGATCTG
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
6924372 ATTAGACAGA
Statistics
Matches: 236, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 236 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (133 bp):
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAATGAATT
TAG
Found at i:6924432 original size:50 final size:50
Alignment explanation
Indices: 6924281--6924421 Score: 273
Period size: 50 Copynumber: 2.8 Consensus size: 50
6924271 TGAATTTGCC
6924281 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
6924331 AATAGCATCTTCTGGAGGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
6924381 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
6924422 GTTTAACAGA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:6924540 original size:50 final size:50
Alignment explanation
Indices: 6924464--6924604 Score: 273
Period size: 50 Copynumber: 2.8 Consensus size: 50
6924454 TGAATTTGCC
6924464 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
6924514 GATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
6924564 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
6924605 TTTTGGTAAG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 89 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:6925490 original size:114 final size:114
Alignment explanation
Indices: 6925290--6926038 Score: 1444
Period size: 114 Copynumber: 6.5 Consensus size: 114
6925280 TGCAAGGTAG
*
6925290 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
6925355 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
6925404 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
6925469 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
6925518 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
6925583 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
6925632 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
6925697 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
6925746 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
6925811 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
6925860 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
6925925 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGGAA
66 AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGA-GAA
6925975 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
1 -AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
6926039 CATCAAGAGC
Statistics
Matches: 629, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
114 566 0.90
115 3 0.00
116 18 0.03
118 1 0.00
119 41 0.07
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (114 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTTGAATTCATCACTTGATGGATCATTCTTTTCCAGAGAA
Found at i:6926293 original size:3 final size:3
Alignment explanation
Indices: 6926285--6926361 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
6926275 TTTTTATCCA
* * *
6926285 TAT TAT TAT TAT TAA TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6926333 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6926362 ATTTATATTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6932593 original size:19 final size:19
Alignment explanation
Indices: 6932569--6932614 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6932559 ATCACTGTGT
*
6932569 ACTAGTTCCAAATACTGTC
1 ACTAGTGCCAAATACTGTC
6932588 ACTAGTGCCAAATACTGTC
1 ACTAGTGCCAAATACTGTC
6932607 ACTAGTGC
1 ACTAGTGC
6932615 TTAAGCAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (19 bp):
ACTAGTGCCAAATACTGTC
Found at i:6939123 original size:2 final size:2
Alignment explanation
Indices: 6939118--6939161 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6939108 AATAAAAAAG
6939118 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
6939160 AT
1 AT
6939162 TGATTAAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6947720 original size:17 final size:17
Alignment explanation
Indices: 6947700--6947737 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6947690 AAATCAGAAC
6947700 AAAAAG-ACGAAACTTCA
1 AAAAAGCAC-AAACTTCA
*
6947717 AAAAAGCACCAACTTCA
1 AAAAAGCACAAACTTCA
6947734 AAAA
1 AAAA
6947738 GCTTGGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.61, C:0.21, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAAGCACAAACTTCA
Found at i:6949419 original size:17 final size:17
Alignment explanation
Indices: 6949390--6949457 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
6949380 TAACAGTTAG
*
6949390 TTTAATAAATGAACTAA
1 TTTAATGAATGAACTAA
* *
6949407 TTTGATGAATGAACTAG
1 TTTAATGAATGAACTAA
*
6949424 TTTAATTAATGAACTAA
1 TTTAATGAATGAACTAA
* *
6949441 CTTTATTAAATGAACTA
1 -TTTAATGAATGAACTA
6949458 GAAACATGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 28 0.67
18 14 0.33
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.38
Consensus pattern (17 bp):
TTTAATGAATGAACTAA
Found at i:6949426 original size:34 final size:35
Alignment explanation
Indices: 6949387--6949458 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
6949377 AATTAACAGT
*
6949387 TAGTTTAATAAATGAACTAA-TTTGA-TGAATGAAC
1 TAGTTTAATAAATGAACTAACTTT-ATTAAATGAAC
*
6949421 TAGTTTAATTAATGAACTAACTTTATTAAATGAAC
1 TAGTTTAATAAATGAACTAACTTTATTAAATGAAC
6949456 TAG
1 TAG
6949459 AAACATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (35 bp):
TAGTTTAATAAATGAACTAACTTTATTAAATGAAC
Found at i:6955917 original size:64 final size:64
Alignment explanation
Indices: 6955847--6956033 Score: 175
Period size: 64 Copynumber: 2.9 Consensus size: 64
6955837 TGCACTAAGG
* * *
6955847 GTGCATCGATGCGTAAAATGC-ATTCGATGTTTCAA-ACA-AGCTTGAGTGTATCGATGCATGGT
1 GTGCATCGATGCATAAAAT-CAATTCGATGTTTCAATA-ATA-CATGAGTGCATCGATGCATGGT
*
6955909 TT
63 AT
* *
6955911 GTGCATCGGTGCATAAAATCAATTCGATGTTTTAATAATACATGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATCAATTCGATGTTTCAATAATACATGAGTGCATCGATGCATGGTAT
* * *** * * * *
6955975 GTGCATCGGTACATAAAAGGTATTTGATG-TTCAATTAAAACAAGGGTGCATCGATGCAT
1 GTGCATCGATGCATAAAATCAATTCGATGTTTCAA-TAATACATGAGTGCATCGATGCAT
6956034 TGATTTATGC
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
63 5 0.05
64 97 0.93
65 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATCAATTCGATGTTTCAATAATACATGAGTGCATCGATGCATGGTAT
Found at i:6962051 original size:17 final size:16
Alignment explanation
Indices: 6962029--6962068 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
6962019 AATTTTTGAT
6962029 TTTTGGTACCCAAATTC
1 TTTTGGT-CCCAAATTC
6962046 TTTTGGGTCCCAAATTC
1 TTTT-GGTCCCAAATTC
6962063 TTTTGG
1 TTTTGG
6962069 GTCCATATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 17 0.77
18 3 0.14
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (16 bp):
TTTTGGTCCCAAATTC
Found at i:6962069 original size:17 final size:17
Alignment explanation
Indices: 6962037--6962072 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6962027 ATTTTTGGTA
6962037 CCCAAATTCTTTTGGGT
1 CCCAAATTCTTTTGGGT
6962054 CCCAAATTCTTTTGGGT
1 CCCAAATTCTTTTGGGT
6962071 CC
1 CC
6962073 ATATTCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (17 bp):
CCCAAATTCTTTTGGGT
Found at i:6965438 original size:22 final size:22
Alignment explanation
Indices: 6965389--6965438 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
6965379 GAATTCAAAC
*
6965389 TGTTATTTTATATAACTTAAGA
1 TGTTATTTTATATAACTTAAAA
* *
6965411 TATTATTTTATGTAACTTAAAA
1 TGTTATTTTATATAACTTAAAA
6965433 TGTTAT
1 TGTTAT
6965439 CCAAATCACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (22 bp):
TGTTATTTTATATAACTTAAAA
Found at i:6966065 original size:189 final size:187
Alignment explanation
Indices: 6965689--6966140 Score: 516
Period size: 189 Copynumber: 2.4 Consensus size: 187
6965679 TGAGTTCTCT
* * * *
6965689 AATTAAATAAAACTTATAACTAATGTTATCTTTTAACGTTTTAACCTG-AAAATTAATCTGATCT
1 AATTGAATAAAACTTATAACTAATGATATCTTTT-ACGTTTTAACCTGAAAAATTATTC-GATCC
* * * * * * *** * *
6965753 ATACGATTTAGTATGGATAACATAATATTTTTTGTTCCAATTGAAAATGTTATACTGCCCACTCT
64 ACATGATTTAGTAAGGACAACATAATATTTTCTATTCCAACCAAAAATGTTACACTACCCACTCT
* * *
6965818 AAAAAAAGTTAGATATTTTGATAATAATTCCATTTAGAACTTATAATATTACAGTTTATC
129 -AAAAAAGTTAGATATTTTGATAATAATTCCAGTTACAACCTATAATATTACAGTTTATC
* * * *
6965878 AATTGAATAAAACTTACAACTAATGATATCCTTTTATGTTTCAACATGAAAAATTATTCGATCCA
1 AATTGAATAAAACTTATAACTAATGATAT-CTTTTACGTTTTAACCTGAAAAATTATTCGATCCA
* * *
6965943 CATGATTTAGTAAGGACAACATAATATTTTCTATTTCAACCAAAAATTTTACACTACCCGCTCT-
65 CATGATTTAGTAAGGACAACATAATATTTTCTATTCCAACCAAAAATGTTACACTACCCACTCTA
* * **
6966007 AAAAAGTTAGATA-TTTGGTAATACTTTTAGTTACAACCTATAATATTACTTGAGTTTATC
130 AAAAAGTTAGATATTTTGATAATAATTCCAGTTACAACCTATAATATTAC---AGTTTATC
* *
6966067 AATTGAATAAAACTTATAATTAATTGTATAT-TTTTACGTTTTAACCTGAAAAATTATTTGATCC
1 AATTGAATAAAACTTATAACTAA-TG-ATATCTTTTACGTTTTAACCTGAAAAATTATTCGATCC
6966131 ACATGATTTA
64 ACATGATTTA
6966141 ATATAGACAA
Statistics
Matches: 221, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
186 29 0.13
187 13 0.06
189 159 0.72
190 16 0.07
191 4 0.02
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (187 bp):
AATTGAATAAAACTTATAACTAATGATATCTTTTACGTTTTAACCTGAAAAATTATTCGATCCAC
ATGATTTAGTAAGGACAACATAATATTTTCTATTCCAACCAAAAATGTTACACTACCCACTCTAA
AAAAGTTAGATATTTTGATAATAATTCCAGTTACAACCTATAATATTACAGTTTATC
Found at i:6967531 original size:17 final size:17
Alignment explanation
Indices: 6967509--6967574 Score: 114
Period size: 17 Copynumber: 3.9 Consensus size: 17
6967499 TAGTAAGAGG
6967509 TCATATGCTTAGTCAGA
1 TCATATGCTTAGTCAGA
6967526 TCATATGCTTAGTCAGA
1 TCATATGCTTAGTCAGA
* *
6967543 TCATATGCTTAGTTAGG
1 TCATATGCTTAGTCAGA
6967560 TCATATGCTTAGTCA
1 TCATATGCTTAGTCA
6967575 CATGGCTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (17 bp):
TCATATGCTTAGTCAGA
Found at i:6971370 original size:22 final size:21
Alignment explanation
Indices: 6971319--6971370 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
6971309 ATCTGGAATT
*
6971319 ACTGTAGCAAGGTATCGGTAC
1 ACTGTAGCAAGGTATCGATAC
*
6971340 ACTGTAGCAGGGTATCGATAC
1 ACTGTAGCAAGGTATCGATAC
*
6971361 CCTTGTAGCA
1 AC-TGTAGCA
6971371 TTCTGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAAGGTATCGATAC
Found at i:6973891 original size:21 final size:22
Alignment explanation
Indices: 6973865--6973916 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
6973855 GGCCGAAATT
*
6973865 ACTGTAGCAAGGTATCGGTA-C
1 ACTGTAGCAAGGTATCGATACC
*
6973886 ACTGTAGCAGGGTATCGATACC
1 ACTGTAGCAAGGTATCGATACC
6973908 ACTGTAGCA
1 ACTGTAGCA
6973917 TTCTAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (22 bp):
ACTGTAGCAAGGTATCGATACC
Found at i:6973990 original size:27 final size:27
Alignment explanation
Indices: 6973955--6974006 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6973945 TTCATGGTAT
* **
6973955 TGTATATTAATGTTCATTGTATTGTAC
1 TGTACATTAATGTTCACAGTATTGTAC
*
6973982 TGTACATTACTGTTCACAGTATTGT
1 TGTACATTAATGTTCACAGTATTGT
6974007 TCATATCGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (27 bp):
TGTACATTAATGTTCACAGTATTGTAC
Found at i:6982635 original size:13 final size:13
Alignment explanation
Indices: 6982617--6982641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6982607 TTAAATATAC
6982617 GATTATTTATTTT
1 GATTATTTATTTT
6982630 GATTATTTATTT
1 GATTATTTATTT
6982642 ATAATTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
GATTATTTATTTT
Found at i:6984506 original size:6 final size:7
Alignment explanation
Indices: 6984497--6984562 Score: 64
Period size: 8 Copynumber: 8.9 Consensus size: 7
6984487 AAATTAAATT
6984497 TATTA-A
1 TATTATA
6984503 TATTATA
1 TATTATA
6984510 TA-TATA
1 TATTATA
6984516 TATATATA
1 TAT-TATA
6984524 TATATATA
1 TAT-TATA
6984532 TATATATA
1 TAT-TATA
6984540 TATATATA
1 TAT-TATA
6984548 TATATATA
1 TAT-TATA
6984556 TAATTAT
1 T-ATTAT
6984563 TTTTAATATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
6 11 0.20
7 3 0.05
8 40 0.71
9 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TATTATA
Found at i:6984513 original size:2 final size:2
Alignment explanation
Indices: 6984502--6984557 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
6984492 AAATTTATTA
6984502 AT AT -T 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
6984543 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
6984558 ATTATTTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6984664 original size:36 final size:36
Alignment explanation
Indices: 6984616--6984696 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
6984606 GATTACTAAA
**
6984616 CCCGTCCCCGTCCCCGTTTAACATAAACGATTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGATTTGAC
* * *
6984652 CCCGTCCTCGTCCCCGTTTAGCATAAACGGTTTGAC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGATTTGAC
6984688 CCCGTCCCC
1 CCCGTCCCC
6984697 ATTTAATTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.16, C:0.42, G:0.15, T:0.27
Consensus pattern (36 bp):
CCCGTCCCCGTCCCCGTTTAACATAAACGATTTGAC
Found at i:6987277 original size:31 final size:31
Alignment explanation
Indices: 6987242--6987307 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
6987232 AACATACGAC
*
6987242 GCATTATCTGAGTGCAAACCTGACATACTGT
1 GCATTATCTGAATGCAAACCTGACATACTGT
* *
6987273 GCATTATTTGAATGCAAACCTGACATATTGT
1 GCATTATCTGAATGCAAACCTGACATACTGT
6987304 GCAT
1 GCAT
6987308 CATTCAGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (31 bp):
GCATTATCTGAATGCAAACCTGACATACTGT
Found at i:6990440 original size:20 final size:21
Alignment explanation
Indices: 6990401--6990451 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
6990391 ATAGTTTTTT
6990401 CATATTTTAAAAAGCTTTAAA
1 CATATTTTAAAAAGCTTTAAA
* * *
6990422 TATGTTTTAAACA-CTTTAAA
1 CATATTTTAAAAAGCTTTAAA
6990442 CATATTTTAA
1 CATATTTTAA
6990452 TTAACTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (21 bp):
CATATTTTAAAAAGCTTTAAA
Found at i:6991635 original size:128 final size:128
Alignment explanation
Indices: 6991430--6991680 Score: 412
Period size: 128 Copynumber: 2.0 Consensus size: 128
6991420 TAGAAACGAA
* * *
6991430 TTCGCCCCGATGTGTGTAATCGCTACAGTAGGCAGACCGTCCCCCGTGGTTAATACGGTCGCTCC
1 TTCGCCCCGATGTGTGTAATCGCTACAGTAGGCAGACCATCCCCCGAGGTTAACACGGTCGCTCC
**
6991495 GAATTTCGTACACCCGAAACTGGAGTAGACTGTTGATGGTATTGCACTTCTGATGGTAGTCGT
66 GAATTTCGTACACCCGAAACTGGAGTAGACTACTGATGGTATTGCACTTCTGATGGTAGTCGT
* * * *
6991558 TTCGTCCCGATGTGTGTAATCGCTGCAGTAGGCGGACCATCCCCCGAGGTTAACACGGTCGCTCT
1 TTCGCCCCGATGTGTGTAATCGCTACAGTAGGCAGACCATCCCCCGAGGTTAACACGGTCGCTCC
*
6991623 GAATTTCTTACACCCGAAACTGGAGTAGACTACTGATGGTATTGCACTTCTGATGGTA
66 GAATTTCGTACACCCGAAACTGGAGTAGACTACTGATGGTATTGCACTTCTGATGGTA
6991681 ACAGCTGAAA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 113 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (128 bp):
TTCGCCCCGATGTGTGTAATCGCTACAGTAGGCAGACCATCCCCCGAGGTTAACACGGTCGCTCC
GAATTTCGTACACCCGAAACTGGAGTAGACTACTGATGGTATTGCACTTCTGATGGTAGTCGT
Found at i:6991908 original size:6 final size:6
Alignment explanation
Indices: 6991897--6991921 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6991887 GACACGTATT
6991897 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
6991922 GCCGTGCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:6993302 original size:15 final size:15
Alignment explanation
Indices: 6993236--6993305 Score: 86
Period size: 15 Copynumber: 4.7 Consensus size: 15
6993226 TAAATATCTA
6993236 ATTGTATTTTATGGT
1 ATTGTATTTTATGGT
* * *
6993251 ATTGAAATTTATGTT
1 ATTGTATTTTATGGT
* *
6993266 ATTTTAATTTATGGT
1 ATTGTATTTTATGGT
*
6993281 ATTGTATTTTATGTT
1 ATTGTATTTTATGGT
6993296 ATTGTATTTT
1 ATTGTATTTT
6993306 TTGGACCATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.61
Consensus pattern (15 bp):
ATTGTATTTTATGGT
Found at i:6997063 original size:200 final size:201
Alignment explanation
Indices: 6996549--6997096 Score: 529
Period size: 201 Copynumber: 2.7 Consensus size: 201
6996539 TTTCTTTTTG
* * * * * * ** * *
6996549 TTTCGAACCATTT-TCAACACAATTTTTACACCGTTTATAATGTCTCGTATGTGGGGATACTAGC
1 TTTCGAACCATTTGT-AACACAATTTTTACACTGCTTACAATATCTCATATATGTCGATATTACC
* * * * * * *
6996613 ATCAATTGAAAAATAAGT-ACAAATACTACACCTTTAATATTATAAATTACGAAAGTTTTCAGAT
65 ATCAACTGAAAGATAAATCAC-AATACTACGCCTCTAATATTATAAATTACGAAAATTTTCATAT
* * *
6996677 TAAATTCCT-AAAAATACTCCTCGAACATGCCTATCAAGCCATTTTAGCTTATTCTTCATGCACA
129 TAACTACCTGAAAAATAC-CCTCGAACATGCCTATCAAACCATTTTAGCTTATTCTTCATGCACA
6996741 AAACCAAGC
193 AAACCAAGC
* * *
6996750 TTTCGAACCATTTGTAATACAATTTTTACACTGCTTACAATGTCTCATATATGTCGATATTACCC
1 TTTCGAACCATTTGTAACACAATTTTTACACTGCTTACAATATCTCATATATGTCGATATTACCA
** * * * *
6996815 TCAGTTGAAAGATAAGTTATAATACTATGCCTCTAATATTATAAATTACGAAAATTTTCATATTA
66 TCAACTGAAAGATAAATCACAATACTACGCCTCTAATATTATAAATTACGAAAATTTTCATATTA
* * * *
6996880 ACTACTTGAAAAATACCCATCGAATATGTCTATCAAACCATTTTAGCTTTTTCTTCATGCACAAA
131 ACTACCTGAAAAATACCC-TCGAACATGCCTATCAAACCATTTTAGCTTATTCTTCATGCACAAA
6996945 A-CAAGC
195 ACCAAGC
* * * * *** * * * *
6996951 TTTGGAACC-TTTTTCAACGCGATTTTTGTTC-GTTTACAATATCTCGTATGTGTCGATGTTGA-
1 TTTCGAACCATTTGT-AACACAATTTTTACACTGCTTACAATATCTCATATATGTCGATATT-AC
* * * * *
6997013 CATCAACTGAAAGATAAATCCCAATATTACGCCTCTAATCTTATAAATTACAAAAAACTTT-ATA
64 CATCAACTGAAAGATAAATCACAATACTACGCCTCTAATATTATAAATTAC-GAAAATTTTCATA
6997077 TTAACTACCTG-AAAATACCC
128 TTAACTACCTGAAAAATACCC
6997097 CTAAAATATG
Statistics
Matches: 288, Mismatches: 52, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
199 9 0.03
200 82 0.28
201 144 0.50
202 53 0.18
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (201 bp):
TTTCGAACCATTTGTAACACAATTTTTACACTGCTTACAATATCTCATATATGTCGATATTACCA
TCAACTGAAAGATAAATCACAATACTACGCCTCTAATATTATAAATTACGAAAATTTTCATATTA
ACTACCTGAAAAATACCCTCGAACATGCCTATCAAACCATTTTAGCTTATTCTTCATGCACAAAA
CCAAGC
Found at i:6999043 original size:28 final size:28
Alignment explanation
Indices: 6998984--6999043 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
6998974 GTTACCTGAT
* *
6998984 TATTAAAAGTTAAAAAATGATTACCAAT
1 TATTAAAAGTTAAAAAATGATCACCAAC
* *
6999012 TATTAAAAGTTATAAAATGATCACCGAC
1 TATTAAAAGTTAAAAAATGATCACCAAC
6999040 TATT
1 TATT
6999044 TATTTATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.33
Consensus pattern (28 bp):
TATTAAAAGTTAAAAAATGATCACCAAC
Found at i:7000474 original size:20 final size:20
Alignment explanation
Indices: 7000449--7000487 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7000439 TTTGGTATCA
7000449 TTTTTTTTC-TTGTAATTATT
1 TTTTTTTTCATT-TAATTATT
7000469 TTTTTTTTCATTTAATTAT
1 TTTTTTTTCATTTAATTAT
7000488 GTAACAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTTTTCATTTAATTATT
Found at i:7006735 original size:20 final size:20
Alignment explanation
Indices: 7006710--7006747 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7006700 TCGTTGGGAC
7006710 CTTATGGTATCGATACTATG
1 CTTATGGTATCGATACTATG
7006730 CTTATGGTATCGATACTA
1 CTTATGGTATCGATACTA
7006748 CTATACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
CTTATGGTATCGATACTATG
Found at i:7009980 original size:22 final size:22
Alignment explanation
Indices: 7009952--7010011 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
7009942 GAGGGTTTAT
*
7009952 AGTGGTCATTTGGGACATATCC
1 AGTGGTCATTCGGGACATATCC
* **
7009974 AGTGGTCCTTCGGGATGTATCC
1 AGTGGTCATTCGGGACATATCC
7009996 AGTGGT-ACTTCGGGAC
1 AGTGGTCA-TTCGGGAC
7010012 GTAGTGGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (22 bp):
AGTGGTCATTCGGGACATATCC
Found at i:7016134 original size:74 final size:73
Alignment explanation
Indices: 7016059--7016223 Score: 160
Period size: 74 Copynumber: 2.3 Consensus size: 73
7016049 TTTTCTTTTA
*
7016059 AAATATATTAAATTAAAAATCATTA-AT-TAAATT-AAATAGTTTGATTAAATTTAAATATATAT
1 AAATATAATAAA-TAAAAAT--TTATATATAAATTAAAATAGTTTGATTAAATTTAAATATATAT
7016121 ATATATATATT
63 ATATATATATT
* * * * * *
7016132 AAATTTAATATATATAAATTTATATATAATTTCAAAATAGTTTGATTAAATTTAAATTTGTATAT
1 AAATATAATAAATAAAAATTTATATATAAATT-AAAATAGTTTGATTAAATTTAAATATATATAT
*
7016197 AT-TAAATTT
65 ATATATA-TT
* *
7016206 AAAT-TTATATATAAAAAT
1 AAATATAATAAATAAAAAT
7016224 ATTTTAAATT
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
70 3 0.04
71 2 0.03
72 11 0.14
73 24 0.31
74 37 0.48
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.45
Consensus pattern (73 bp):
AAATATAATAAATAAAAATTTATATATAAATTAAAATAGTTTGATTAAATTTAAATATATATATA
TATATATT
Found at i:7016155 original size:26 final size:27
Alignment explanation
Indices: 7016102--7016156 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
7016092 AAATAGTTTG
*
7016102 ATTAAATTTAAATATATATATATATAT
1 ATTAAATTTAAATATATATAAATATAT
*
7016129 ATTAAATTT-AATATATATAAATTTAT
1 ATTAAATTTAAATATATATAAATATAT
7016155 AT
1 AT
7016157 ATAATTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTAAATTTAAATATATATAAATATAT
Found at i:7016163 original size:26 final size:27
Alignment explanation
Indices: 7016102--7016158 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
7016092 AAATAGTTTG
*
7016102 ATTAAATTTAAATATATATATATATAT
1 ATTAAATTTAAATATATAAATATATAT
*
7016129 ATTAAATTTAATATATATAAATTTATAT
1 ATTAAATTTAA-ATATATAAATATATAT
7016157 AT
1 AT
7016159 AATTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTAAATTTAAATATATAAATATATAT
Found at i:7016294 original size:21 final size:20
Alignment explanation
Indices: 7016104--7016293 Score: 84
Period size: 21 Copynumber: 9.7 Consensus size: 20
7016094 ATAGTTTGAT
*
7016104 TAAATTTAAATATATATATA
1 TAAATTTAAATTTATATATA
*
7016124 TATATATTAAATTTA-ATATA
1 TAAAT-TTAAATTTATATATA
7016144 T--A--TAAA-TT-TATATA
1 TAAATTTAAATTTATATATA
* *
7016158 T-AATTTCAAA-ATAGTTTGAT-
1 TAAATTT-AAATTTA-TAT-ATA
*
7016178 TAAATTTAAATTTGTATATA
1 TAAATTTAAATTTATATATA
7016198 TTAAATTTAAATTTATATATAA
1 -TAAATTTAAATTTATATAT-A
*
7016220 AAATATTTTAAATTT-TATATA
1 TAA-A-TTTAAATTTATATATA
* * *
7016241 TAATTTTTAAA-ATA-AAATA
1 TAA-ATTTAAATTTATATATA
* **
7016260 TATA-TTATGTTTAATATATA
1 TAAATTTAAATTT-ATATATA
7016280 TAAATTTAAATTTA
1 TAAATTTAAATTTA
7016294 AGCAAACTAT
Statistics
Matches: 127, Mismatches: 22, Indels: 42
0.66 0.12 0.22
Matches are distributed among these distances:
14 8 0.06
15 5 0.04
17 4 0.03
18 6 0.05
19 10 0.08
20 32 0.25
21 46 0.36
22 7 0.06
23 9 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAATTTAAATTTATATATA
Found at i:7016710 original size:29 final size:30
Alignment explanation
Indices: 7016612--7016718 Score: 126
Period size: 30 Copynumber: 3.6 Consensus size: 30
7016602 TAAAAAATAA
* * *
7016612 TTTACGTAAAATGGATTACCTGAAAATTAT
1 TTTACGTAAAATGAATTACCTGAAAACTGT
* *
7016642 TTTACGTAAAATGAATTACATGAAAACCGT
1 TTTACGTAAAATGAATTACCTGAAAACTGT
* *
7016672 TTTACATAAAATTAATTACCT-AAAACTGT
1 TTTACGTAAAATGAATTACCTGAAAACTGT
* *
7016701 TTTATGTAAAATAAATTA
1 TTTACGTAAAATGAATTA
7016719 TATTTTCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
29 22 0.34
30 43 0.66
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.36
Consensus pattern (30 bp):
TTTACGTAAAATGAATTACCTGAAAACTGT
Found at i:7017663 original size:64 final size:65
Alignment explanation
Indices: 7017562--7017687 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 65
7017552 TCAGGTTGGA
* * * *
7017562 AGATTTAGCTAGTGGATTAAATTGATAAAATATATAAATATT-AAAAATAAATATATAATTACAC
1 AGATTTAACTAATAGATTAAATTGATAAAATATATAAATATTAAAAAATAAATAAATAATTACAC
*
7017626 AGATTTAACTAATAGATTAAATTGATAGAATATATAAATATTAAAAAATAAATAAATAATTA
1 AGATTTAACTAATAGATTAAATTGATAAAATATATAAATATTAAAAAATAAATAAATAATTA
7017688 TGCTAATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
64 38 0.68
65 18 0.32
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (65 bp):
AGATTTAACTAATAGATTAAATTGATAAAATATATAAATATTAAAAAATAAATAAATAATTACAC
Found at i:7022684 original size:3 final size:3
Alignment explanation
Indices: 7022671--7022729 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
7022661 TTTTTTATCG
7022671 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
7022716 -TA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA
7022730 CATTTTACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7029965 original size:4 final size:4
Alignment explanation
Indices: 7029956--7029998 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
7029946 GATCGAGAAA
*
7029956 ACAT ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
7029999 AAATTTGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
4 33 0.94
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:7030408 original size:36 final size:36
Alignment explanation
Indices: 7030356--7030497 Score: 141
Period size: 36 Copynumber: 4.0 Consensus size: 36
7030346 TGAGAATTTT
7030356 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGCTTGAGACAATTTCTTTC
* * *
7030393 GAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC--TC
1 AAAACAAATTTTGTCTCGCTTGAGACA-ATTTCTTTC
* * * *
7030428 AAAACAAATTCTGTCTCGTTTAAGACAAATTCTCTT-
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCT-TTC
* *
7030464 AAAACAAACTTCGTCTCGCTTGAGAC-ATTT-TTTC
1 AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTC
7030498 CTTTGAGATA
Statistics
Matches: 84, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
33 2 0.02
34 4 0.05
35 27 0.32
36 40 0.48
37 11 0.13
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGCTTGAGACAATTTCTTTC
Found at i:7030443 original size:71 final size:72
Alignment explanation
Indices: 7030356--7030490 Score: 175
Period size: 71 Copynumber: 1.9 Consensus size: 72
7030346 TGAGAATTTT
* * * * * * *
7030356 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCT-TTCGAAGCAAATTTTGTCTCGCTTGAGACA
1 AAAACAAATTTCTGTCTCGCTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTCGCTTGAGACA
7030420 GCTTTCTC
65 GCTTTCTC
*
7030428 AAAACAAA-TTCTGTCTCGTTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 AAAACAAATTTCTGTCTCGCTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
7030491 TTTTTTCCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
71 44 0.81
72 10 0.19
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (72 bp):
AAAACAAATTTCTGTCTCGCTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAG
CTTTCTC
Found at i:7030633 original size:105 final size:106
Alignment explanation
Indices: 7030457--7030654 Score: 292
Period size: 105 Copynumber: 1.9 Consensus size: 106
7030447 TTAAGACAAA
* * *
7030457 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTT
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACACTTTTCCCTTTGAGATACAAATTTCGAATTT
7030522 GATTCAC-TTAAAACAAAATTAATCTCACCTTAGATTGTTGT
66 GATTCACATT-AAACAAAATTAATCTCACCTTAGATTGTTGT
* * *
7030563 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGAC-CTTTTCCCTTTGAGATCCAAATTTCGAATTT
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACACTTTTCCCTTTGAGATACAAATTTCGAATTT
* * *
7030627 GTTTCACATTAAACAAAGTTGATCTCAC
66 GATTCACATTAAACAAAATTAATCTCAC
7030655 TTGAGATCGT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
105 49 0.60
106 33 0.40
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (106 bp):
TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACACTTTTCCCTTTGAGATACAAATTTCGAATTT
GATTCACATTAAACAAAATTAATCTCACCTTAGATTGTTGT
Found at i:7031027 original size:29 final size:29
Alignment explanation
Indices: 7030985--7031141 Score: 255
Period size: 29 Copynumber: 5.5 Consensus size: 29
7030975 CTTTTGAGGA
*
7030985 AAAAATCTTTGAGTTTGTTCCTTTCGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
7031014 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
7031043 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
7031072 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
**
7031101 AAAAATCTTTGAG-TTGTTTATTTTGAA-
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
7031128 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
7031142 CTATTTATTT
Statistics
Matches: 122, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
27 13 0.11
28 12 0.10
29 97 0.80
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:7031230 original size:52 final size:54
Alignment explanation
Indices: 7031152--7031255 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 54
7031142 CTATTTATTT
**
7031152 TGAAACAAAGTTTTGTCTCTCTTGAGACAA-TTT-CGTGAAAAATCTTTGAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGCGAAAAAAATCTTTGAGTC
7031204 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGCGAAAAAAATCTTTGAG
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGCGAAAAAAATCTTTGAG
7031256 ATTGTTTCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 30 0.62
53 3 0.06
54 15 0.31
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGCGAAAAAAATCTTTGAGTC
Found at i:7031277 original size:30 final size:31
Alignment explanation
Indices: 7031243--7031307 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
7031233 ATTTTGCGAA
*
7031243 AAAAATCTTTGAGATTGTTTCTTTTG-AAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAAC
*
7031273 AAAAATCTTTGAGTTTGTTTCTTTGGAAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAAC
7031304 AAAA
1 AAAA
7031308 TTTACCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (31 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAAC
Found at i:7031566 original size:31 final size:28
Alignment explanation
Indices: 7031528--7031624 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
7031518 GAGACAGTTG
7031528 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
7031559 -TTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
*
7031587 CTTTTGAAACAAATCTTTGAAT-TGGTTT
1 CTTTTGAAACAAATCTTTGAGTCT-GTTT
*
7031615 CTCTTGAAAC
1 CTTTTGAAAC
7031625 CATAACTCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.02
28 45 0.75
29 3 0.05
30 3 0.05
31 8 0.13
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:7031575 original size:28 final size:27
Alignment explanation
Indices: 7031543--7031624 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 27
7031533 GAAACACATT
7031543 ATCTTTGAGCTTGTTTTTCTTGAAACAA
1 ATCTTTGAG-TTGTTTTTCTTGAAACAA
7031571 ATCTTTGAGTCTGTTTCTT-TTGAAACAA
1 ATCTTTGAGT-TGTTT-TTCTTGAAACAA
* *
7031599 ATCTTTGAATTGGTTTCTCTTGAAAC
1 ATCTTTGAGTT-GTTTTTCTTGAAAC
7031625 CATAACTCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.06
28 43 0.90
29 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (27 bp):
ATCTTTGAGTTGTTTTTCTTGAAACAA
Found at i:7031780 original size:46 final size:45
Alignment explanation
Indices: 7031724--7031991 Score: 159
Period size: 46 Copynumber: 6.2 Consensus size: 45
7031714 TAACCAGCCG
* *
7031724 TCCTCATCACGTAGGAACCGCGTTATCACCTTTAGATGGCCAGAAC
1 TCCTCATCACGTAGGAACCGTGTCATCACC-TTAGATGGCCAGAAC
* * * * *
7031770 TCTTCATCACGTATGAGCCGTGTCATTC-CC-CAGA---CCAGATC
1 TCCTCATCACGTAGGAACCGTGTCA-TCACCTTAGATGGCCAGAAC
* * ** * *
7031811 TCCTCATCACGTAGGAGCCGTGTCA--ACCATAGATAACCAGCAG
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC
* *
7031854 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCTAGAAC
1 TCCTCATCACGTAGGAACCGTGTCATCACC-TTAGATGGCCAGAAC
* * * * * * **
7031900 TCTTCATCACGTATGAGCAGTGTCA--ACCCTCGA---CCAGATT
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC
* * * *
7031940 TCCTCATCACGTAGGAACCATGTCA-C-CCTTAGACGACCCGAAC
1 TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC
*
7031983 TCTTCATCA
1 TCCTCATCA
7031992 TGTATGAGCA
Statistics
Matches: 167, Mismatches: 42, Indels: 29
0.70 0.18 0.12
Matches are distributed among these distances:
39 2 0.01
40 32 0.19
41 29 0.17
43 42 0.25
44 6 0.04
45 3 0.02
46 51 0.31
47 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (45 bp):
TCCTCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC
Found at i:7032176 original size:3 final size:3
Alignment explanation
Indices: 7032163--7032218 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
7032153 TTTTTTATCG
7032163 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
7032207 TTA TTA ATA TTA
1 TTA TTA TTA TTA
7032219 CATTTTACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.85
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7035670 original size:30 final size:30
Alignment explanation
Indices: 7035636--7035692 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7035626 TTAAAATTTT
7035636 AAAATTAT-ATTGAAACAAAAAAATATTTCC
1 AAAATTATAATT-AAACAAAAAAATATTTCC
**
7035666 AAAATTATAATTAAATTAAAAAATATT
1 AAAATTATAATTAAACAAAAAAATATT
7035693 CTCTCTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATTATAATTAAACAAAAAAATATTTCC
Found at i:7039104 original size:2 final size:2
Alignment explanation
Indices: 7039097--7039191 Score: 181
Period size: 2 Copynumber: 47.5 Consensus size: 2
7039087 ATAAATACAT
*
7039097 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7039139 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
7039181 AC AC AC AC AC A
1 AC AC AC AC AC A
7039192 TACATACATG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.48, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:7041937 original size:36 final size:37
Alignment explanation
Indices: 7041897--7041975 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
7041887 GATAGATATA
*
7041897 ATGCATTCGATG-TTTCA-AAATAGCCTGAGTGCATCG
1 ATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCG
7041933 ATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCG
1 ATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCG
7041970 ATGCAT
1 ATGCAT
7041976 GGTAAGCGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
36 12 0.30
37 25 0.62
38 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (37 bp):
ATGCATTCGATGTTTTCATAAAACCCTGAGTGCATCG
Found at i:7044739 original size:23 final size:21
Alignment explanation
Indices: 7044704--7044785 Score: 74
Period size: 23 Copynumber: 3.7 Consensus size: 21
7044694 GCATGGCAGT
*
7044704 GTGCATCAATGCACATTCAGGG
1 GTGCATCGATGCACATTCA-GG
* * *
7044726 CGTGCATCGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCAGG
*
7044748 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC--AGG
7044771 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
7044786 TGTTAAGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.32
22 1 0.02
23 19 0.40
24 12 0.26
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
GTGCATCGATGCACATTCAGG
Done.