Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 135 of 172
Found at i:38822850 original size:17 final size:17
Alignment explanation
Indices: 38822825--38822857 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38822815 ATAGTATTCT
38822825 TTTGGTTGAATGGAATG
1 TTTGGTTGAATGGAATG
*
38822842 TTTGTTTGAATGGAAT
1 TTTGGTTGAATGGAAT
38822858 AGAGGTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (17 bp):
TTTGGTTGAATGGAATG
Found at i:38823036 original size:14 final size:15
Alignment explanation
Indices: 38822997--38823033 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
38822987 AATCATATTA
*
38822997 ATTATTATTAAATAT
1 ATTATAATTAAATAT
38823012 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
38823026 A-TATAATT
1 ATTATAATT
38823034 TAAGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:38823149 original size:18 final size:17
Alignment explanation
Indices: 38823128--38823162 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38823118 TTATTATTAA
*
38823128 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38823146 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38823163 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38823179 original size:16 final size:15
Alignment explanation
Indices: 38823154--38823183 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
38823144 ATATATAATT
38823154 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
38823169 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
38823184 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:38823291 original size:119 final size:120
Alignment explanation
Indices: 38822995--38823282 Score: 490
Period size: 120 Copynumber: 2.4 Consensus size: 120
38822985 TTAATCATAT
* * *
38822995 TAATTATTATTAAATATATTATAATTAAAATATATAATTTAAGAAAATTCTTAATAATCAATATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATT
* *
38823060 CTTATTTGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACA
66 CTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACA
38823115 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATT
38823180 CTTATATGAATTTACTAAAATCATAATATATGATACTAT-AAATATAATTTGAA-A
66 CTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTT-AACA
* *
38823234 TAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
38823283 TAAAATAATT
Statistics
Matches: 160, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
119 59 0.37
120 101 0.63
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAAAATT
CTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACA
Found at i:38823374 original size:91 final size:90
Alignment explanation
Indices: 38823298--38823725 Score: 723
Period size: 91 Copynumber: 4.7 Consensus size: 90
38823288 TAATTATCAC
* *
38823298 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
38823363 AATATATAATTTCATAAAATTCGTGA
66 GATATATAATTT-ATAAAATTCTTGA
*
38823389 TAATAAATTTT-TTATATGAATTTATATAATTTTAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
38823453 GATATATAATTGCATAAAATTCTTGA
66 GATATATAATT-TATAAAATTCTTGA
* *
38823479 TAATAAATTTTTTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
38823544 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTT-ATAAAATTCTTGA
*
38823570 TAATAAATTTTCTTTTATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
38823635 GATATATAATTTTATAAAATTCTTGA
66 GATATATAA-TTTATAAAATTCTTGA
*
38823661 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
38823726 AAAATGTTCT
Statistics
Matches: 319, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
90 83 0.26
91 233 0.73
92 3 0.01
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (90 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTATAAAATTCTTGA
Found at i:38823723 original size:17 final size:15
Alignment explanation
Indices: 38823692--38823730 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
38823682 TTTATACAAT
38823692 TTAAAATAATTAATA
1 TTAAAATAATTAATA
38823707 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
38823724 ATAAAAT
1 TTAAAAT
38823731 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:38842686 original size:46 final size:46
Alignment explanation
Indices: 38842619--38842710 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
38842609 TGCTTTCTTG
38842619 GTTTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
1 GTTTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
38842665 GTTTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
1 GTTTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
38842711 CTATCTCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.46
Consensus pattern (46 bp):
GTTTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
Found at i:38844816 original size:28 final size:28
Alignment explanation
Indices: 38844776--38844832 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38844766 TGTGTACAAT
38844776 TGTCGAATCTACCAAAAATAAAACCTAC
1 TGTCGAATCTACCAAAAATAAAACCTAC
*
38844804 TGTCGAATCTACCAAAAATAAAACTTAC
1 TGTCGAATCTACCAAAAATAAAACCTAC
38844832 T
1 T
38844833 TGAAAGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.25
Consensus pattern (28 bp):
TGTCGAATCTACCAAAAATAAAACCTAC
Found at i:38847519 original size:23 final size:24
Alignment explanation
Indices: 38847479--38847544 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
38847469 TATATATAAA
* * *
38847479 CAAAAATAAAACACCAAT-ATATG
1 CAAAAAGAAAAAAACAATGATATG
* * *
38847502 CTAAAAGCAAAAAACAATGGTATG
1 CAAAAAGAAAAAAACAATGATATG
*
38847526 CAAAAAGAAAAAAAAAATG
1 CAAAAAGAAAAAAACAATG
38847545 TTATTAACTT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 13 0.39
24 20 0.61
ACGTcount: A:0.64, C:0.12, G:0.11, T:0.14
Consensus pattern (24 bp):
CAAAAAGAAAAAAACAATGATATG
Found at i:38847525 original size:24 final size:24
Alignment explanation
Indices: 38847498--38847544 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38847488 AACACCAATA
* * *
38847498 TATGCTAAAAGCAAAAAACAATGG
1 TATGCAAAAAGAAAAAAAAAATGG
38847522 TATGCAAAAAGAAAAAAAAAATG
1 TATGCAAAAAGAAAAAAAAAATG
38847545 TTATTAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.09, G:0.15, T:0.15
Consensus pattern (24 bp):
TATGCAAAAAGAAAAAAAAAATGG
Found at i:38849806 original size:43 final size:43
Alignment explanation
Indices: 38849758--38850028 Score: 398
Period size: 43 Copynumber: 6.3 Consensus size: 43
38849748 GCGCGGCAAA
*
38849758 AAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
38849801 AAACGCCGTTAAAGACCAAGACTTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
*
38849844 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTGTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
38849887 AAACGCTGCTGAAGACCATGACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* *
38849930 AAACGCCGCTGAAGACCATGACCTTTAGCGGCGCTTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
* * * **
38849973 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
38850016 AAACGCCGCTAAA
1 AAACGCCGCTAAA
38850029 AGTACAATTC
Statistics
Matches: 205, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:38853053 original size:24 final size:24
Alignment explanation
Indices: 38853021--38853080 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
38853011 CGTTGAAGGC
38853021 AGAAATAGATAACTTAAACAAATT
1 AGAAATAGATAACTTAAACAAATT
* *
38853045 AGAAATAGATAAATTAAACAACTT
1 AGAAATAGATAACTTAAACAAATT
38853069 AG-AATAGATAAC
1 AGAAATAGATAAC
38853081 AGTAGTCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 9 0.27
24 24 0.73
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.23
Consensus pattern (24 bp):
AGAAATAGATAACTTAAACAAATT
Found at i:38854278 original size:21 final size:22
Alignment explanation
Indices: 38854253--38854294 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38854243 GGTTTCGAGG
38854253 GGGAAA-TTAGGGATTTTAGGA
1 GGGAAAGTTAGGGATTTTAGGA
*
38854274 GGGAAAGTTGGGGATTTTAGG
1 GGGAAAGTTAGGGATTTTAGG
38854295 GGAGGGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.43, T:0.29
Consensus pattern (22 bp):
GGGAAAGTTAGGGATTTTAGGA
Found at i:38854400 original size:75 final size:76
Alignment explanation
Indices: 38854318--38854598 Score: 442
Period size: 76 Copynumber: 3.7 Consensus size: 76
38854308 TAAAAATGGC
* * *
38854318 GCTATTTTTT-TA-TAAAATTATTTTTTGTGACATTTTTTTATAAAAACGCCGCTAAATGTTTTA
1 GCTATTTTTTAAAGTAAAATTATTTTTTGTGAC-GTTTTTTATAAAAACGCCGCTAAATGTTTTG
38854381 CTATATAAAATG
65 CTATATAAAATG
* * *
38854393 GCTATTTTTTAAAATAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAATGTCTTGC
1 GCTATTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTATAAAAACGCCGCTAAATGTTTTGC
38854458 TATATAAAATG
66 TATATAAAATG
* * * *
38854469 ACTA-TTTTTAAAGTAAAATTATTTTTTCTGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGC
1 GCTATTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTATAAAAACGCCGCTAAATGTTTTGC
38854533 TATATAAAATG
66 TATATAAAATG
38854544 GCTATTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTATAAAAACGCCGCTA
1 GCTATTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTATAAAAACGCCGCTA
38854599 TTGCTTACCT
Statistics
Matches: 189, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
75 80 0.42
76 91 0.48
77 18 0.10
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (76 bp):
GCTATTTTTTAAAGTAAAATTATTTTTTGTGACGTTTTTTATAAAAACGCCGCTAAATGTTTTGC
TATATAAAATG
Found at i:38854705 original size:115 final size:115
Alignment explanation
Indices: 38854503--38854709 Score: 396
Period size: 115 Copynumber: 1.8 Consensus size: 115
38854493 TTTCTGGCAT
*
38854503 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
38854568 TTTTGTGACGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCAGCG
66 TTTTGTGACGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCAGCG
38854618 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
*
38854683 TTTTGTGGCGTTTTTTATAAAAACGCC
66 TTTTGTGACGTTTTTTATAAAAACGCC
38854710 ACTAAATGTT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 90 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (115 bp):
TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
TTTTGTGACGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCAGCG
Found at i:38854706 original size:76 final size:76
Alignment explanation
Indices: 38854618--38854787 Score: 288
Period size: 76 Copynumber: 2.2 Consensus size: 76
38854608 TTTTGCAGCG
38854618 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
38854683 TTTTGTGGCGT
66 TTTTGTGGCGT
* * *
38854694 TTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAATTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
38854759 TTTTGTGGCGT
66 TTTTGTGGCGT
*
38854770 TTTTCT-TTAAAACGCCGC
1 TTTT-TATAAAAACGCCGC
38854788 AAAAAATTAT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 87 0.99
77 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (76 bp):
TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
TTTTGTGGCGT
Found at i:38854755 original size:191 final size:190
Alignment explanation
Indices: 38854428--38854787 Score: 632
Period size: 191 Copynumber: 1.9 Consensus size: 190
38854418 TTTGTGGCGT
38854428 TTTTTATAAAAACGCCGCTAAATGTCTTGCTATATAAAATGACTATTTTTAAAGTAAAATTATTT
1 TTTTTATAAAAACGCCGCTAAATGTCTTGCTATATAAAATGACTATTTTTAAAGTAAAATTATTT
*
38854493 TTTCTGGCATTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAG
66 TTTCTGGCATTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAG
38854558 TAAAATTATTTTTTGTGACGTTTTT-TATAAAAACGCCGCTATTGCTTACCTTTTGCAGCG
131 TAAAATTATTTTTTGTGACGTTTTTCT-TAAAAACGCCGCTATTGCTTACCTTTTGCAGCG
*
38854618 TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGACTATTTTTTAAAGTAAAATTATT
1 TTTTTATAAAAACGCCGCTAAATGTCTTGCTATATAAAATGACTA-TTTTTAAAGTAAAATTATT
* *
38854683 TTTTGTGGCGTTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
65 TTTTCTGGCATTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
* * *
38854748 TTAAAATTATTTTTTGTGGCGTTTTTCTTTAAAACGCCGC
130 GTAAAATTATTTTTTGTGACGTTTTTCTTAAAAACGCCGC
38854788 AAAAAATTAT
Statistics
Matches: 161, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
190 44 0.27
191 116 0.72
192 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (190 bp):
TTTTTATAAAAACGCCGCTAAATGTCTTGCTATATAAAATGACTATTTTTAAAGTAAAATTATTT
TTTCTGGCATTTTTTATAAAAACGCCACTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAG
TAAAATTATTTTTTGTGACGTTTTTCTTAAAAACGCCGCTATTGCTTACCTTTTGCAGCG
Found at i:38855852 original size:89 final size:89
Alignment explanation
Indices: 38855690--38855853 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
38855680 TGAACCTTAT
* *
38855690 TTAATATAAAAAATAAAAAACACTAATTAATCTAAATCATAAACCCTAACCCGACCCTGAATCCC
1 TTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGACCCTGAATCCA
*
38855755 TAACCCCTAACCCTTAAACATTAC
66 TAAACCCTAACCCTTAAACATTAC
* * ** * * * *
38855779 TTAATATATAAATTAAAATGCACTAATTAATCTAAACCCTAAACCCTAACCTGA-CATCGAATCT
1 TTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGACCCT-GAATCC
38855843 ATAAACCCTAA
65 ATAAACCCTAA
38855854 ATTCTTAACT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
88 2 0.03
89 61 0.97
ACGTcount: A:0.46, C:0.26, G:0.03, T:0.26
Consensus pattern (89 bp):
TTAATATAAAAAATAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGACCCTGAATCCA
TAAACCCTAACCCTTAAACATTAC
Found at i:38856409 original size:41 final size:41
Alignment explanation
Indices: 38856325--38856524 Score: 258
Period size: 41 Copynumber: 4.9 Consensus size: 41
38856315 AAATGTTTTT
* ** ** *
38856325 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAAGCACTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* *
38856366 GCGGTGCTTTTATT-AAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTT-TTAAAAACGCCGCTAAAGATCTGAGCATTA
*
38856407 GCGGCACTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
* * * *
38856448 GTGACGCTTTTTCAAAAACGCCGCTAAAGATATGAGCATTA
1 GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
38856489 GCGGCGCTTTTTTTAAAAACGCCGCTAAAGATCTGA
1 GCGGCGC-TTTTTTAAAAACGCCGCTAAAGATCTGA
38856525 AAGGTAGAAA
Statistics
Matches: 136, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
40 2 0.01
41 107 0.79
42 27 0.20
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTTAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:38858546 original size:48 final size:48
Alignment explanation
Indices: 38858494--38858685 Score: 348
Period size: 48 Copynumber: 4.0 Consensus size: 48
38858484 TAGCCTGCTT
*
38858494 CAGCACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
*
38858542 CAGCACACCAATTTTGACCAACTTCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
*
38858590 CAGCACCCCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
*
38858638 CAGCACACCAATTTTGACCAAAGTCTTTTGCATTTTGACCAGGTCCAA
1 CAGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
38858686 AATAATTTTG
Statistics
Matches: 138, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 138 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.31
Consensus pattern (48 bp):
CAGCACACCAATTTTGACCAAATTCTTTTGCATTTTGACCAGGTCCAA
Found at i:38865320 original size:29 final size:30
Alignment explanation
Indices: 38865265--38865330 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
38865255 TGATCCTAGA
* *
38865265 TTAATATATAAGAGTGAGATTGCAACT-TG
1 TTAATGTATAAGAGTAAGATTGCAACTCTG
* * *
38865294 TTAATGTATAGGAGTAAGGTTGTAACTCTG
1 TTAATGTATAAGAGTAAGATTGCAACTCTG
*
38865324 TGAATGT
1 TTAATGT
38865331 GTTAAACTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (30 bp):
TTAATGTATAAGAGTAAGATTGCAACTCTG
Found at i:38869689 original size:28 final size:30
Alignment explanation
Indices: 38869645--38869709 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
38869635 GGTTACTATC
38869645 ATTT-TAAAAAATATAT-ATAAA-ATATAA
1 ATTTATAAAAAATATATAATAAATATATAA
* *
38869672 ATTTATAAAAAGTATATAATAAATATATAT
1 ATTTATAAAAAATATATAATAAATATATAA
*
38869702 ATATATAA
1 ATTTATAA
38869710 GTTTACAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 4 0.12
28 11 0.34
29 5 0.16
30 12 0.38
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
ATTTATAAAAAATATATAATAAATATATAA
Found at i:38888353 original size:45 final size:45
Alignment explanation
Indices: 38888276--38888379 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
38888266 TAATCAGTAA
* *
38888276 CGGTAGCAGTAATCAGTAACAGTATTCAACACACAAAGTG-CTGAAT
1 CGGTAACAGTAA-CTGTAACAGTATTCAACACACAAAGTGTC-GAAT
* * *
38888322 CTGTAATAGTAACTGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CGGTAACAGTAACTGTAACAGTATTCAACACACAAAGTGTCGAAT
38888367 CGGTAACAGTAAC
1 CGGTAACAGTAAC
38888380 AGTAGTCGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 40 0.80
46 10 0.20
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (45 bp):
CGGTAACAGTAACTGTAACAGTATTCAACACACAAAGTGTCGAAT
Found at i:38888637 original size:40 final size:40
Alignment explanation
Indices: 38888593--38888669 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
38888583 TTTAGTAATC
* *
38888593 TCACAGTTCAATGCAGTACACATAACAATATTCAGTAACT
1 TCACAATTCAATGCAGTACACAAAACAATATTCAGTAACT
* *
38888633 TCACAATTCAATTCAGTACTCAAAACAATATTCAGTA
1 TCACAATTCAATGCAGTACACAAAACAATATTCAGTA
38888670 TTCCATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (40 bp):
TCACAATTCAATGCAGTACACAAAACAATATTCAGTAACT
Found at i:38889355 original size:35 final size:35
Alignment explanation
Indices: 38889310--38889391 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
38889300 ATTTATTTAA
* *
38889310 TAATATAATAT-CATTATAATTTAATTATCATAAAT
1 TAATATAATATAAATTAT-ATTTAAATATCATAAAT
*
38889345 TAATATAATATAAATTATATTTAAATATCATTAAT
1 TAATATAATATAAATTATATTTAAATATCATAAAT
38889380 T-ATATAAT-TAAA
1 TAATATAATATAAA
38889392 ACAAATAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 4 0.09
34 7 0.16
35 27 0.63
36 5 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (35 bp):
TAATATAATATAAATTATATTTAAATATCATAAAT
Found at i:38893971 original size:17 final size:17
Alignment explanation
Indices: 38893951--38893992 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
38893941 AGATAAATTC
38893951 AAAAAATTAAAAAATAT
1 AAAAAATTAAAAAATAT
*
38893968 AAAAAATTATAAAATAT
1 AAAAAATTAAAAAATAT
38893985 ATAAAAAT
1 A-AAAAAT
38893993 GCCAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.74
18 6 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATTAAAAAATAT
Found at i:38893978 original size:10 final size:9
Alignment explanation
Indices: 38893951--38893991 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
38893941 AGATAAATTC
38893951 AAAAAAT-T
1 AAAAAATAT
38893959 AAAAAATAT
1 AAAAAATAT
38893968 AAAAAATTAT
1 AAAAAA-TAT
*
38893978 AAAATATAT
1 AAAAAATAT
38893987 AAAAA
1 AAAAA
38893992 TGCCAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAAATAT
Found at i:38893992 original size:10 final size:8
Alignment explanation
Indices: 38893945--38893992 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 8
38893935 AAATATAGAT
38893945 AAATTCAAA
1 AAATT-AAA
38893954 AAATTAAA
1 AAATTAAA
38893962 AAATATAAA
1 AAAT-TAAA
*
38893971 AAATTATA
1 AAATTAAA
38893979 AAATATATAA
1 AAAT-TA-AA
38893989 AAAT
1 AAAT
38893993 GCCAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 14 0.41
9 15 0.44
10 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATTAAA
Found at i:38906052 original size:76 final size:78
Alignment explanation
Indices: 38905919--38906075 Score: 257
Period size: 77 Copynumber: 2.0 Consensus size: 78
38905909 TCAGACTAAA
* * *
38905919 AATTATAATGAATAGTACTTTTAAGTATTAATGTGAATAAATTAATATAACTGAAAGGG-AAATC
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATAACTGAAAGGGAAAATC
38905983 ATGAATTAAACTT
66 ATGAATTAAACTT
38905996 AATTATAATGAATAATACTTCTAAGT-TTAAAGTGAATAAATTAATAT-ACTTGAAAGGGAAAAT
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATAAC-TGAAAGGGAAAAT
38906059 CATGAATTAAACTT
65 CATGAATTAAACTT
38906073 AAT
1 AAT
38906076 CAATTTTAGT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 2 0.03
76 28 0.37
77 45 0.60
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.34
Consensus pattern (78 bp):
AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATATAACTGAAAGGGAAAATC
ATGAATTAAACTT
Found at i:38911189 original size:23 final size:23
Alignment explanation
Indices: 38911146--38911190 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
38911136 ACACATATTA
*
38911146 CACCATTTCATATACATCCATTT
1 CACCATTTCAAATACATCCATTT
*
38911169 CACC-TTTCAAATCCATGCCATT
1 CACCATTTCAAATACAT-CCATT
38911191 CTTACATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.29, C:0.33, G:0.02, T:0.36
Consensus pattern (23 bp):
CACCATTTCAAATACATCCATTT
Found at i:38912378 original size:20 final size:19
Alignment explanation
Indices: 38912330--38912379 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
38912320 TAATAGAAAT
* *
38912330 TTATCCGTATCAATAGTAA
1 TTATCCATATCAACAGTAA
*
38912349 CTTATACATATCAACAGTAA
1 -TTATCCATATCAACAGTAA
38912369 TTCATCCATAT
1 TT-ATCCATAT
38912380 AATTACATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (19 bp):
TTATCCATATCAACAGTAA
Found at i:38913339 original size:27 final size:29
Alignment explanation
Indices: 38913308--38913362 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
38913298 TTAGAACTTA
38913308 TCTTTT-AATT-T-CTTGCTGTCAATTTTT
1 TCTTTTAAATTCTGCTTG-TGTCAATTTTT
38913335 TCTTTTAAATTCTGCTTGTGTCAATTTT
1 TCTTTTAAATTCTGCTTGTGTCAATTTT
38913363 ATTTAATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.24
28 4 0.16
29 11 0.44
30 4 0.16
ACGTcount: A:0.16, C:0.15, G:0.09, T:0.60
Consensus pattern (29 bp):
TCTTTTAAATTCTGCTTGTGTCAATTTTT
Found at i:38917740 original size:21 final size:21
Alignment explanation
Indices: 38917716--38917765 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
38917706 TGCTCATCAA
38917716 ACTTATTTATCAAATATATAT
1 ACTTATTTATCAAATATATAT
*
38917737 ACTTGATCT-TCAAATATATAT
1 ACTT-ATTTATCAAATATATAT
38917758 A-TTATTTA
1 ACTTATTTA
38917766 CATATCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 17 0.68
22 3 0.12
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
ACTTATTTATCAAATATATAT
Found at i:38917941 original size:41 final size:41
Alignment explanation
Indices: 38917891--38917970 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
38917881 CCGAATAATT
* * *
38917891 TCACTGGCATTAAGCCTGCTAGACAATGAGTCTGAATTATA
1 TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTATA
*
38917932 TCACCGGCATCAAGTCTGCTAGACAATAAGTCTGAATTA
1 TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTA
38917971 CATTCGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACAATAAGTCTGAATTATA
Found at i:38920465 original size:285 final size:285
Alignment explanation
Indices: 38919955--38920525 Score: 1124
Period size: 285 Copynumber: 2.0 Consensus size: 285
38919945 TCTTCCATGG
* *
38919955 TGAGACTTTCAAAAGCACTTTGTCTCTGATCTGAAATTCTATATCCTTTCTTTTCAAATTCGCAT
1 TGAGACTTTCAAAAACACTTTGTCTCCGATCTGAAATTCTATATCCTTTCTTTTCAAATTCGCAT
38920020 AGGATTTTTGACGATCCGATGATGATTTCAGACTGTCCCGAATCACTTTCACTTTCTGTTCAGTC
66 AGGATTTTTGACGATCCGATGATGATTTCAGACTGTCCCGAATCACTTTCACTTTCTGTTCAGTC
38920085 TCTTTGATCAAATCAACCCCGTGTATCTTATTTTCACTGAGCTCGGTCCAATATAATGGTGTACG
131 TCTTTGATCAAATCAACCCCGTGTATCTTATTTTCACTGAGCTCGGTCCAATATAATGGTGTACG
38920150 ACATTTACGACCGTATAAAGCCTCGTAAGGTGTCATTTTGATACTAGATTGAAAGCTGTTATTAT
196 ACATTTACGACCGTATAAAGCCTCGTAAGGTGTCATTTTGATACTAGATTGAAAGCTGTTATTAT
38920215 ATGCAAATTCAATCAAAGGTAAGTA
261 ATGCAAATTCAATCAAAGGTAAGTA
38920240 TGAGACTTTCAAAAACACTTTGTCTCCGATCTGAAATTCTATATCCTTTCTTTTCAAATTCGCAT
1 TGAGACTTTCAAAAACACTTTGTCTCCGATCTGAAATTCTATATCCTTTCTTTTCAAATTCGCAT
38920305 AGGATTTTTGACGATCCGATGATGATTTCAGACTGTCCCGAATCACTTTCACTTTCTGTTCAGTC
66 AGGATTTTTGACGATCCGATGATGATTTCAGACTGTCCCGAATCACTTTCACTTTCTGTTCAGTC
38920370 TCTTTGATCAAATCAACCCCGTGTATCTTATTTTCACTGAGCTCGGTCCAATATAATGGTGTACG
131 TCTTTGATCAAATCAACCCCGTGTATCTTATTTTCACTGAGCTCGGTCCAATATAATGGTGTACG
38920435 ACATTTACGACCGTATAAAGCCTCGTAAGGTGTCATTTTGATACTAGATTGAAAGCTGTTATTAT
196 ACATTTACGACCGTATAAAGCCTCGTAAGGTGTCATTTTGATACTAGATTGAAAGCTGTTATTAT
38920500 ATGCAAATTCAATCAAAGGTAAGTA
261 ATGCAAATTCAATCAAAGGTAAGTA
38920525 T
1 T
38920526 CGTTCCCACG
Statistics
Matches: 284, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 284 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (285 bp):
TGAGACTTTCAAAAACACTTTGTCTCCGATCTGAAATTCTATATCCTTTCTTTTCAAATTCGCAT
AGGATTTTTGACGATCCGATGATGATTTCAGACTGTCCCGAATCACTTTCACTTTCTGTTCAGTC
TCTTTGATCAAATCAACCCCGTGTATCTTATTTTCACTGAGCTCGGTCCAATATAATGGTGTACG
ACATTTACGACCGTATAAAGCCTCGTAAGGTGTCATTTTGATACTAGATTGAAAGCTGTTATTAT
ATGCAAATTCAATCAAAGGTAAGTA
Found at i:38926146 original size:29 final size:29
Alignment explanation
Indices: 38926091--38926146 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
38926081 TTTAAAATTA
* *
38926091 AAAAAATAAAGAAATTAAATTTCAAAAAC
1 AAAAAATAAAGAAACTAAATTGCAAAAAC
*
38926120 AAAAAATATAA-AAACTAAATTGGAAAA
1 AAAAAATA-AAGAAACTAAATTGCAAAA
38926147 TATCTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (29 bp):
AAAAAATAAAGAAACTAAATTGCAAAAAC
Found at i:38927207 original size:3 final size:3
Alignment explanation
Indices: 38927199--38927227 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38927189 AAAGCTAGGT
38927199 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38927228 TTTTGCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38931994 original size:28 final size:30
Alignment explanation
Indices: 38931939--38932006 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
38931929 TTTAAAAATC
* *
38931939 CCTTATTTGAACACTTTCAAAAGGGTTTGG
1 CCTTATTTGAACACTTTCAAAAAGGTTTAG
**
38931969 CCTTATTTGTCCA-TTT-AAAAAGGTTTAG
1 CCTTATTTGAACACTTTCAAAAAGGTTTAG
*
38931997 CCTCATTTGA
1 CCTTATTTGA
38932007 GCATTTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 18 0.56
29 3 0.09
30 11 0.34
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (30 bp):
CCTTATTTGAACACTTTCAAAAAGGTTTAG
Found at i:38938359 original size:22 final size:22
Alignment explanation
Indices: 38938327--38938382 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
38938317 GAAGTTGTCT
* *
38938327 TGTCTCAAGACAAATGAG-TGTA
1 TGTCTCGAGACAAAGGAGCT-TA
*
38938349 TGTCTCGAGACAAAGGGGCTTA
1 TGTCTCGAGACAAAGGAGCTTA
38938371 TGTCTCGAGACA
1 TGTCTCGAGACA
38938383 TGACCCTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (22 bp):
TGTCTCGAGACAAAGGAGCTTA
Found at i:38947079 original size:27 final size:27
Alignment explanation
Indices: 38947020--38947079 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
38947010 CAATTTTCAA
38947020 TTTA-AAAAATAAAAAATATAACTAAT
1 TTTATAAAAATAAAAAATATAACTAAT
*
38947046 TTT-TAAAAATGAAAATAA-ATAA-TATT
1 TTTATAAAAAT-AAAA-AATATAACTAAT
38947072 TTTATAAA
1 TTTATAAA
38947080 CCAAATTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 15 0.52
27 12 0.41
28 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
TTTATAAAAATAAAAAATATAACTAAT
Found at i:38952712 original size:3 final size:3
Alignment explanation
Indices: 38952697--38952738 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
38952687 AATAGTAAGG
*
38952697 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38952739 CTAAACAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38954591 original size:131 final size:132
Alignment explanation
Indices: 38954450--38954844 Score: 489
Period size: 131 Copynumber: 3.0 Consensus size: 132
38954440 GATAGGATAG
*
38954450 TGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
1 TGTCTGCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
38954515 TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
66 TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
38954580 CC
131 CC
* ** *** * *
38954582 TG-GTGCGATCTGCTCTACTGTAA-CTTCAGGGAGATAAGATC-CTTTATTTTAATCCGCTCCAC
1 TGTCTGCGATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCAC
* ** * * * *
38954644 TGTAACTTCAGGGAGATAAGATCCT-TTA-T-TTTAATCCGCTCCACTGTAA-CTTCAGGGAGAT
64 TGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTAGTCTGTTCCACTGTAATC-TCAGGGAAAT
* **
38954705 AGGATAG
127 AAGA-CC
*
38954712 TGTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
1 TGTCTGCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
* * *
38954777 TGACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCTACTGTAATCTCAGGGGAATAAGA
66 TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
38954842 CC
131 CC
38954844 T
1 T
38954845 TTTATAATGA
Statistics
Matches: 210, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
128 1 0.00
129 29 0.14
130 7 0.03
131 137 0.65
132 8 0.04
133 27 0.13
134 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (132 bp):
TGTCTGCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTG
TAACCTCAGGGAGATAAGATCTGAAATTCTTTAGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
CC
Found at i:38954726 original size:218 final size:218
Alignment explanation
Indices: 38954329--38954754 Score: 597
Period size: 218 Copynumber: 2.0 Consensus size: 218
38954319 TGTTGTGTTC
* *
38954329 AGTCTATTCCACTGCATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACCTCAGA
1 AGTCTATTCCACTGAATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
* * *
38954394 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGA
66 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCAA
* * *
38954459 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
131 TCCGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCACTGTAACCTCAG
38954524 GGAGATAAGATCTGAAATTCTTT
196 GGAGATAAGATCTGAAATTCTTT
* * * *
38954547 AGTCTGTTCCACTGTAATC-TCAGGGAAATAAGACCTGGTGCGATCTGCTCTACTGTAACTTCAG
1 AGTCTATTCCACTG-AATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAG
* * * * *
38954611 GGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTT
65 AGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATACTGT-CTTC
* * * * * *
38954676 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCGCTGTAATCT
129 AATCCGCTCCACTGTAATC-TCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCACTGTAACCT
38954739 CAGGGAGATAAGATCT
193 CAGGGAGATAAGATCT
38954755 CTGGCTTCAA
Statistics
Matches: 182, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
218 149 0.82
219 33 0.18
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (218 bp):
AGTCTATTCCACTGAATCTTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTCAA
TCCGCTCCACTGTAATCTCAGGGAGATAAGATCACTGGCTTCAATCTGCTCCACTGTAACCTCAG
GGAGATAAGATCTGAAATTCTTT
Found at i:38954798 original size:44 final size:44
Alignment explanation
Indices: 38954381--38954798 Score: 314
Period size: 44 Copynumber: 9.6 Consensus size: 44
38954371 ATCTACTCTG
* *** * *
38954381 CTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* * ** * * *
38954425 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
38954468 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
* * * * *
38954512 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTAGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCA
* * * * *
38954558 CTGTAATCTCAGGGAAATAAGA-C-CTGG-TGCGATCTGCTCTA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
* *** * *
38954599 CTGTAACTTCAGGGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* *** * *
38954643 CTGTAACTTCAGGGAGATAAGATC-CTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCA
* * ** * * *
38954687 CTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
38954730 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
*
38954774 CTGTGACCTCAGGGAGATAAGATCT
1 CTGTAACCTCAGGGAGATAAGATCT
38954799 GAAATTCTTT
Statistics
Matches: 299, Mismatches: 64, Indels: 22
0.78 0.17 0.06
Matches are distributed among these distances:
41 28 0.09
42 2 0.01
43 63 0.21
44 172 0.58
45 1 0.00
46 32 0.11
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
Found at i:38956869 original size:34 final size:34
Alignment explanation
Indices: 38956819--38956891 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
38956809 AAACACTATC
*
38956819 AACACAATTGGCGCTTAGTTGTACAAGAGCCTTG
1 AACACAATTGGCGCTTAGGTGTACAAGAGCCTTG
* * * *
38956853 GACACTATTGGTGCTTAGGTGTGCAAGAGCCTTG
1 AACACAATTGGCGCTTAGGTGTACAAGAGCCTTG
38956887 AACAC
1 AACAC
38956892 CATCAACATC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
AACACAATTGGCGCTTAGGTGTACAAGAGCCTTG
Found at i:38967336 original size:19 final size:20
Alignment explanation
Indices: 38967299--38967338 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
38967289 TATGCATGGT
* *
38967299 AAATAATAAAAAGTCAACAA
1 AAATAATAAAAAATAAACAA
38967319 AAATAA-AAAAAATAAACAA
1 AAATAATAAAAAATAAACAA
38967338 A
1 A
38967339 TAAGAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (20 bp):
AAATAATAAAAAATAAACAA
Found at i:38969595 original size:262 final size:262
Alignment explanation
Indices: 38969185--38970482 Score: 2350
Period size: 262 Copynumber: 4.9 Consensus size: 262
38969175 TTAAGTCTAC
* * * * * * * *
38969185 TCCACTGTAATATCAGGGAGATAAGACCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGGG
1 TCCACTGTAATCTCAGGGAGATAAGACCTGAT-G--T-GATCTTCTCTACTGTAACTTCAGAGAG
** *
38969249 ATAAGAT-CTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCCGATGCGATC
62 ATAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATC
38969313 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
127 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGG
*
38969378 AGATAGGATTATATCTTCGATCTACTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCG
192 AGATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCG
38969443 GTCTGT
257 GTCTGT
38969449 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
38969514 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
66 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
38969579 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
131 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
38969644 AGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCT
196 AGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCT
38969709 GT
261 GT
38969711 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
38969776 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
66 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
38969841 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTCAGGGAGA
131 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC-TTCAGGGAGA
38969906 TAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTC
195 TAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTC
38969971 TGT
260 TGT
38969974 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
38970039 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
66 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
38970104 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
131 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
38970169 AGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCT
196 AGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCT
38970234 GT
261 GT
38970236 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
38970301 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
66 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
* *
38970366 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAA-TCTCAAGGAGA
131 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGA
* * * *
38970430 TAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
195 TAGGATTA-TATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTG
38970483 ATGTGATCTT
Statistics
Matches: 1011, Mismatches: 18, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
261 29 0.03
262 650 0.64
263 302 0.30
264 29 0.03
265 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (262 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT
AGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCT
GT
Found at i:38970096 original size:525 final size:525
Alignment explanation
Indices: 38969185--38970482 Score: 2352
Period size: 525 Copynumber: 2.5 Consensus size: 525
38969175 TTAAGTCTAC
* * * * * * * *
38969185 TCCACTGTAATATCAGGGAGATAAGACCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGGG
1 TCCACTGTAATCTCAGGGAGATAAGACCTGAT-G--T-GATCTTCTCTACTGTAACTTCAGAGAG
** *
38969249 ATAAGAT-CTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCCGATGCGATC
62 ATAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATC
38969313 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAC-TTCAGG
127 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTCAGG
*
38969377 GAGATAGGATTATATCTTCGATCTACTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTC
192 GAGATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTC
38969442 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGA
257 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGA
38969507 GAGATAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG
322 GAGATAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCG
38969572 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
387 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
38969637 GGGAGATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCT
452 GGGAGATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCT
38969702 TCGGTCTGT
517 TCGGTCTGT
38969711 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
38969776 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
66 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
38969841 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTCAGGGAGA
131 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTCAGGGAGA
38969906 TAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTC
196 TAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTC
38969971 TGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGA
261 TGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGA
38970036 TAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCT
326 TAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCT
38970101 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGA
391 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGA
38970166 GATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGG
456 GATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGG
38970231 TCTGT
521 TCTGT
38970236 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
38970301 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
66 GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
* * *
38970366 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAA-TCTCAAGGAGA
131 CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTCAGGGAGA
* * * *
38970430 TAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
196 TAGGATTA-TATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTG
38970483 ATGTGATCTT
Statistics
Matches: 749, Mismatches: 19, Indels: 9
0.96 0.02 0.01
Matches are distributed among these distances:
523 28 0.04
524 130 0.17
525 561 0.75
526 29 0.04
527 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (525 bp):
TCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAA
GATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACT
CTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTTCAGGGAGA
TAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTC
TGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGA
TAAGATCCTTTAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGA
GATAGGATTATATCTTCGATCTGCTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGG
TCTGT
Found at i:38970450 original size:88 final size:89
Alignment explanation
Indices: 38969179--38970480 Score: 998
Period size: 88 Copynumber: 14.9 Consensus size: 89
38969169 TTAGGTTTAA
* * * ** * * *
38969179 GTCTACTCCACTGTAATATCAGGGAGATAAGACCTCTG-GCTTCAATCTGCTCCACTGTAACCTC
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGA-C-CTGATCTTTGATCTACTCTACTGTAACTTC
* * **
38969243 AGGGGGATAAGAT-CTGCAATTCTTCG
64 AGAGAGATAAGATCCT-TTATTCTTCG
* * * *
38969269 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCCGATGC---GATCTACTCTACTGTAACTTCA
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAT-CTTTGATCTACTCTACTGTAACTTCA
*
38969331 GAGAGATAAGATCCTTTATT-TT-A
65 GAGAGATAAGATCCTTTATTCTTCG
* * * * * * ** *
38969354 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TTATATCTTCGATCTACTCCGCTGTAACCTC
1 GTCTGCTCCACTGTAATC-TCAGGGAGATAAGACCT-GATCTTTGATCTACTCTACTGTAACTTC
* **
38969417 A-AGGAGACAAGAT-CTGCAATTCTTCG
64 AGA-GAGATAAGATCCT-TTATTCTTCG
* * *
38969443 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA--TGTGATCTTCTCTACTGTAACTTCAG
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATCTTTGATCTACTCTACTGTAACTTCAG
38969506 AGAGATAAGATCCTTTAATTCTTCG
66 AGAGATAAGATCCTTT-ATTCTTCG
* * *
38969531 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC---GATCTACTCTACTGTAACTTCA
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAT-CTTTGATCTACTCTACTGTAACTTCA
*
38969593 GAGAGATAAGATCCTTTATT-TT-A
65 GAGAGATAAGATCCTTTATTCTTCG
* * * * * * * ** *
38969616 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTC
1 GTCTGCTCCACTGTAATC-TCAGGGAGATAAGACCT-GATCTTTGATCTACTCTACTGTAACTTC
* **
38969679 A-AGGAGACAAGAT-CTGCAATTCTTCG
64 AGA-GAGATAAGATCCT-TTATTCTTCG
* * *
38969705 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA--TGTGATCTTCTCTACTGTAACTTCAG
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATCTTTGATCTACTCTACTGTAACTTCAG
38969768 AGAGATAAGATCCTTTAATTCTTCG
66 AGAGATAAGATCCTTT-ATTCTTCG
* * *
38969793 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC---GATCTACTCTACTGTAACTTCA
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAT-CTTTGATCTACTCTACTGTAACTTCA
*
38969855 GAGAGATAAGATCCTTTATT-TT-A
65 GAGAGATAAGATCCTTTATTCTTCG
* * * * * * * * ** *
38969878 ATCCGCTCCACTGTAACTTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTC
1 GTCTGCTCCACTGTAA-TCTCAGGGAGATAAGACCT-GATCTTTGATCTACTCTACTGTAACTTC
* **
38969942 A-AGGAGACAAGAT-CTGCAATTCTTCG
64 AGA-GAGATAAGATCCT-TTATTCTTCG
* * *
38969968 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA--TGTGATCTTCTCTACTGTAACTTCAG
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATCTTTGATCTACTCTACTGTAACTTCAG
38970031 AGAGATAAGATCCTTTAATTCTTCG
66 AGAGATAAGATCCTTT-ATTCTTCG
* * *
38970056 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC---GATCTACTCTACTGTAACTTCA
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAT-CTTTGATCTACTCTACTGTAACTTCA
*
38970118 GAGAGATAAGATCCTTTATT-TT-A
65 GAGAGATAAGATCCTTTATTCTTCG
* * * * * * * ** *
38970141 ATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TTATATCTTCGATCTGCTCCGCTGTAACCTC
1 GTCTGCTCCACTGTAATC-TCAGGGAGATAAGACCT-GATCTTTGATCTACTCTACTGTAACTTC
* **
38970204 A-AGGAGACAAGAT-CTGCAATTCTTCG
64 AGA-GAGATAAGATCCT-TTATTCTTCG
* * *
38970230 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGA--TGTGATCTTCTCTACTGTAACTTCAG
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATCTTTGATCTACTCTACTGTAACTTCAG
38970293 AGAGATAAGATCCTTTAATTCTTCG
66 AGAGATAAGATCCTTT-ATTCTTCG
* * *
38970318 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGC---GATCTACTCTACTGTAACTTCA
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGAT-CTTTGATCTACTCTACTGTAACTTCA
*
38970380 GAGAGATAAGATCCTTTATT-TT-A
65 GAGAGATAAGATCCTTTATTCTTCG
* * * * * * * **
38970403 ATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACT-ATCTTTGATCTGCTCCGCTGTAA-TCT
1 GTCTGCTCCACTGTAATCTCAGGGAGATAAGA--CCTGATCTTTGATCTACTCTACTGTAACT-T
*
38970466 CAGGGAGATAAGATC
63 CAGAGAGATAAGATC
38970481 TGATGTGATC
Statistics
Matches: 962, Mismatches: 174, Indels: 154
0.75 0.13 0.12
Matches are distributed among these distances:
84 8 0.01
85 121 0.13
86 35 0.04
87 252 0.26
88 397 0.41
89 99 0.10
90 50 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (89 bp):
GTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATCTTTGATCTACTCTACTGTAACTTCAG
AGAGATAAGATCCTTTATTCTTCG
Found at i:38970597 original size:44 final size:41
Alignment explanation
Indices: 38969184--38970605 Score: 347
Period size: 41 Copynumber: 32.7 Consensus size: 41
38969174 TTTAAGTCTA
* * **
38969184 CTCCACTGTAATATCAGGGAGATAAGACCTCTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA--TCT-ACTTTGATCTG
* * * * *
38969228 CTCCACTGTAACCTCAGGGGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---A--CTTTGATCTG
* * * * ** *
38969274 CTCCACTGTAACCTCAGAGAGATAAGACCCGA-TGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGA-TCTACTTTGATCTG
* * * * *
38969315 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--TACTTTGATCTG
* * * *
38969359 CTCCACTGTAA-CTTCAGGGAGATAGGATTATATCTTCGATCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGA-TCTA-CTTTGATCTG
* * * * * *
38969402 CTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---A--CTTTGATCTG
* * * *
38969448 TTCCACTGTAATCTCAGGGAGATAAGACCTGA-TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38969489 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATTCTTCGGTCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--T-A--CTTTGATCTG
* * * ** *
38969536 CTCCACTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38969577 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--TACTTTGATCTG
* * *
38969621 CTCCACTGTAA-CTTCAGGGAGATAGGATTATATCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGA-TCTA-CTTTGATCTG
* * * * * *
38969664 CTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---A--CTTTGATCTG
* * * *
38969710 TTCCACTGTAATCTCAGGGAGATAAGACCTGA-TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38969751 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATTCTTCGGTCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--T-A--CTTTGATCTG
* * * ** *
38969798 CTCCACTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38969839 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--TACTTTGATCTG
* * * *
38969883 CTCCACTGTAACTTTCAGGGAGATAGGATTATATCTTCGATCTG
1 CTCCACTGTAA-TCTCAGGGAGATAAGA-TCTA-CTTTGATCTG
* * * * * *
38969927 CTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---A--CTTTGATCTG
* * * *
38969973 TTCCACTGTAATCTCAGGGAGATAAGACCTGA-TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38970014 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATTCTTCGGTCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--T-A--CTTTGATCTG
* * * ** *
38970061 CTCCACTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38970102 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--TACTTTGATCTG
* * *
38970146 CTCCACTGTAA-CTTCAGGGAGATAGGATTATATCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGA-TCTA-CTTTGATCTG
* * * * * *
38970189 CTCCGCTGTAACCTCAAGGAGACAAGATCTGCAATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCT---A--CTTTGATCTG
* * * *
38970235 TTCCACTGTAATCTCAGGGAGATAAGACCTGA-TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38970276 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATTCTTCGGTCTA
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--T-A--CTTTGATCTG
* * * ** *
38970323 CTCCACTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * * *
38970364 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-C--TACTTTGATCTG
* * *
38970408 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA-T-CTA-CTTTGATCTG
* * *
38970452 CTCCGCTGTAATCTCAGGGAGATAAGATCTGA-TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT-ACTTTGATCTG
* * * *
38970493 CTCTACTGTAA-CTTCAGAGAGATAAGATC--CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTACTTTGATCTG
* * *
38970532 CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGA-T-CTA-CTTTGATCTG
*
38970576 CTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTCCACTGTAATCTCAGGGAGATAAGATCT
38970606 CTGGCTTCAA
Statistics
Matches: 1031, Mismatches: 244, Indels: 208
0.70 0.16 0.14
Matches are distributed among these distances:
39 25 0.02
40 12 0.01
41 296 0.29
42 29 0.03
43 103 0.10
44 251 0.24
45 22 0.02
46 172 0.17
47 117 0.11
48 4 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (41 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTACTTTGATCTG
Found at i:38970619 original size:44 final size:41
Alignment explanation
Indices: 38970400--38970624 Score: 143
Period size: 44 Copynumber: 5.3 Consensus size: 41
38970390 ATCCTTTATT
* * * * *
38970400 TTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATC
1 TTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CT-GC
* * *
38970443 TTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-TCTGA
1 -TTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTGC
* * * * *
38970484 TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATCCT--
1 T-TAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTCTGC
* * * * *
38970524 TTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATC
1 TTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-CT-GC
* *
38970567 TTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGC
1 -TTAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TCT-GC
38970611 TTCAATCTGCTCCA
1 TT-AATCTGCTCCA
38970625 ATGCAACCGA
Statistics
Matches: 138, Mismatches: 32, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
39 25 0.18
40 6 0.04
41 28 0.20
42 4 0.03
43 3 0.02
44 71 0.51
45 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (41 bp):
TTAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTCTGC
Found at i:38970669 original size:86 final size:85
Alignment explanation
Indices: 38970565--38970875 Score: 308
Period size: 86 Copynumber: 3.6 Consensus size: 85
38970555 AGGATTACTA
* * ** *
38970565 TCTTTGATCTGCTCCGCTG-TAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCAATGC
1 TCTTTGATCTGCTTCGCTGTTAAT-TCAGGAAGGCAAGATCTCTGTCTTCAA-CTGCTCCAATGC
38970629 AACCGATGGAGGCAAGGCTTTG
64 AACCGATGGAGGCAAGGCTTTG
* *
38970651 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTACT-TCTTTAACTAGCTCCAATGC
1 TCTTTGATCTGCTTCGCTGTTAATTCAGGAAGGCAAGATCT-CTGTCTTCAACT-GCTCCAATGC
* * *
38970715 GATCGATGGATGCAAGGCTTTG
64 AACCGATGGAGGCAAGGCTTTG
* * *
38970737 T-TTTCGATCTGCTTCGCTGTTAATGT-AGGAAGGCAAGATCTTTTGTCTTCAACCAGCT-CTAT
1 TCTTT-GATCTGCTTCGCTGTTAAT-TCAGGAAGGCAAGATC-TCTGTCTTCAA-CTGCTCCAAT
* ** *
38970799 CACAACCGAAAGAGGCAAGGTTTGTG
62 -GCAACCGATGGAGGCAAGGCTT-TG
* * *
38970825 TCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCCTTTGTCTTCA
1 TCTTTGATCTGCTTCGCTGTTAATTCAGGAAGGCAAGAT-CTCTGTCTTCA
38970876 TTGATCTGTC
Statistics
Matches: 188, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
85 5 0.03
86 103 0.55
87 31 0.16
88 46 0.24
89 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (85 bp):
TCTTTGATCTGCTTCGCTGTTAATTCAGGAAGGCAAGATCTCTGTCTTCAACTGCTCCAATGCAA
CCGATGGAGGCAAGGCTTTG
Found at i:38970847 original size:88 final size:88
Alignment explanation
Indices: 38970610--38970875 Score: 317
Period size: 86 Copynumber: 3.1 Consensus size: 88
38970600 AGATCTCTGG
* * * * *
38970610 CTTCAATCTGCTCCAATGCAACCGATGGAGGCAAGGCTT-TGTCTTTGATCTGCTTCGCTGTTAA
1 CTTCAACCAGCTCCAATACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAA
**
38970674 TGCAGGAAGGCAAGATCTACT-T
66 TGCAGGAAGGCAAGATCTTTTGT
* * * * * *
38970696 CTTTAACTAGCTCCAATGCGATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTA
1 CTTCAACCAGCTCCAATACAACCGATGGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTTA
*
38970759 ATGTAGGAAGGCAAGATCTTTTGT
65 ATGCAGGAAGGCAAGATCTTTTGT
* **
38970783 CTTCAACCAGCT-CTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTA
1 CTTCAACCAGCTCCAAT-ACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTA
*
38970847 ATGCAGGAAGGCAAGATCCTTTGT
65 ATGCAGGAAGGCAAGATCTTTTGT
38970871 CTTCA
1 CTTCA
38970876 TTGATCTGTC
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
86 75 0.50
87 28 0.19
88 48 0.32
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (88 bp):
CTTCAACCAGCTCCAATACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAA
TGCAGGAAGGCAAGATCTTTTGT
Found at i:38970874 original size:45 final size:45
Alignment explanation
Indices: 38970732--38970874 Score: 105
Period size: 44 Copynumber: 3.2 Consensus size: 45
38970722 GGATGCAAGG
* *
38970732 CTTTGTTTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATC
1 CTTTGTCTTCGATCTGCTTCGCTGTTAATGAAGGAAGGCAAGATC
* * * * ** *** * * *
38970777 TTTTGTCTTCAACCAGC-TCTATCACAACCGAAAG-AGGCAAGGT-
1 CTTTGTCTTCGATCTGCTTCGCTGTTAA-TGAAGGAAGGCAAGATC
*
38970820 -TTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
1 CTT-TGTCTTCGATCTGCTTCGCTGTTAATGAAGGAAGGCAAGATC
38970865 CTTTGTCTTC
1 CTTTGTCTTC
38970875 ATTGATCTGT
Statistics
Matches: 66, Mismatches: 26, Indels: 12
0.63 0.25 0.12
Matches are distributed among these distances:
42 2 0.03
43 14 0.21
44 26 0.39
45 22 0.33
46 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (45 bp):
CTTTGTCTTCGATCTGCTTCGCTGTTAATGAAGGAAGGCAAGATC
Found at i:38972120 original size:1 final size:1
Alignment explanation
Indices: 38972114--38972140 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
38972104 CTCCCCAAAG
38972114 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
38972141 AGGAAGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:38982927 original size:17 final size:17
Alignment explanation
Indices: 38982896--38982929 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
38982886 CATGGTAAAT
* *
38982896 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
38982913 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
38982930 TAAGAATAAG
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:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:38987522 original size:13 final size:13
Alignment explanation
Indices: 38987501--38987540 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
38987491 AGTTCTTCAT
38987501 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
38987514 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
38987527 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
38987540 T
1 T
38987541 TTGGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:38992418 original size:22 final size:21
Alignment explanation
Indices: 38992384--38992424 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38992374 TATTTTGAGA
38992384 ATATTTAAAATATTTAAAATTT
1 ATATTTAAAATA-TTAAAATTT
* *
38992406 ATATTTCATATATTAAAAT
1 ATATTTAAAATATTAAAAT
38992425 ATTAACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTTAAAATATTAAAATTT
Found at i:38992508 original size:19 final size:22
Alignment explanation
Indices: 38992484--38992526 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
38992474 CTAATTTAAA
38992484 TATTA-TTTA-AACA-TATATT
1 TATTATTTTATAACACTATATT
38992503 TATTATTTTATAACACTATATT
1 TATTATTTTATAACACTATATT
38992525 TA
1 TA
38992527 AAATAGACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 4 0.19
22 8 0.38
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATTTTATAACACTATATT
Found at i:39001892 original size:23 final size:22
Alignment explanation
Indices: 39001825--39001898 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 22
39001815 CTTGATCAGT
* *
39001825 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
39001846 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
39001866 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
39001888 TATACGACACA
1 -ATACGACACA
39001899 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.19
21 28 0.60
23 10 0.21
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:39001906 original size:23 final size:23
Alignment explanation
Indices: 39001824--39001911 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 23
39001814 ACTTGATCAG
*
39001824 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
*
39001846 -A-ACGACACACGAGGTGCCTG-
1 TATACGACACACGAAGTGCCTGA
*
39001866 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
39001888 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
39001911 T
1 T
39001912 CGGCAAAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.16
21 28 0.49
23 20 0.35
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:39001907 original size:44 final size:41
Alignment explanation
Indices: 39001825--39001911 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
39001815 CTTGATCAGT
* * *
39001825 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
39001866 ATACGACACACGAGGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTGA-A-ACGACACACAAAGTGCCTG
39001910 AT
1 AT
39001912 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.26
42 9 0.24
43 1 0.03
44 18 0.47
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:39003082 original size:3 final size:3
Alignment explanation
Indices: 39003074--39003108 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
39003064 TATTCCTAGT
*
39003074 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
39003109 TATTTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:39003262 original size:14 final size:14
Alignment explanation
Indices: 39003239--39003281 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
39003229 TATTTAAAAT
39003239 ATAATAATTTAATA
1 ATAATAATTTAATA
*
39003253 ATACTAATTTAATA
1 ATAATAATTTAATA
39003267 ATAATAATTTAATA
1 ATAATAATTTAATA
39003281 A
1 A
39003282 CATTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATAATTTAATA
Found at i:39017063 original size:26 final size:26
Alignment explanation
Indices: 39017033--39017087 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
39017023 GTATTCAAGA
**
39017033 GATGAAAAAGGCTTGATTGAAA-ACTT
1 GATGAAAAACACTTGA-TGAAAGACTT
39017059 GATGAAAAACACTTGATGAAAGACTT
1 GATGAAAAACACTTGATGAAAGACTT
39017085 GAT
1 GAT
39017088 TAATGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (26 bp):
GATGAAAAACACTTGATGAAAGACTT
Found at i:39027905 original size:24 final size:24
Alignment explanation
Indices: 39027835--39027910 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
39027825 ACAAAAAAAA
39027835 TTGACATTTGTATGGTTATATAAC
1 TTGACATTTGTATGGTTATATAAC
* * * *
39027859 TTGAGA-CT-TAT-G-TA-AAAAA
1 TTGACATTTGTATGGTTATATAAC
39027878 TTGACATTTGTATGGTTATATAAC
1 TTGACATTTGTATGGTTATATAAC
*
39027902 TTGAGATTT
1 TTGACATTT
39027911 AGAGCGTTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
19 8 0.21
20 3 0.08
21 4 0.11
22 4 0.11
23 3 0.08
24 16 0.42
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (24 bp):
TTGACATTTGTATGGTTATATAAC
Found at i:39035549 original size:24 final size:24
Alignment explanation
Indices: 39035515--39035566 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
39035505 TTTTTAGAAG
* **
39035515 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
39035539 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
39035563 ATTT
1 ATTT
39035567 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:39039892 original size:27 final size:27
Alignment explanation
Indices: 39039838--39039892 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
39039828 GAAGACATGA
*
39039838 CGCTTTCAAATGAGAATACTCTAACAT
1 CGCTTTCAAATGAGAATACTCCAACAT
* *
39039865 CGCTTTCAAATGAGAATATTCCACCAT
1 CGCTTTCAAATGAGAATACTCCAACAT
39039892 C
1 C
39039893 CTAGCTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (27 bp):
CGCTTTCAAATGAGAATACTCCAACAT
Found at i:39040201 original size:3 final size:3
Alignment explanation
Indices: 39040193--39040217 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
39040183 TTTAATCTTC
39040193 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
39040218 TATTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:39043416 original size:20 final size:20
Alignment explanation
Indices: 39043378--39043416 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39043368 GCCCAATTAG
*
39043378 ATATAAAAATGAATTTAAAA
1 ATATAAAAATGAATGTAAAA
* *
39043398 ATATAAAACTTAATGTAAA
1 ATATAAAAATGAATGTAAA
39043417 TATTTTCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
ATATAAAAATGAATGTAAAA
Found at i:39045012 original size:25 final size:23
Alignment explanation
Indices: 39044972--39045019 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
39044962 CCCGCAAACC
39044972 AAAAATAAACTCAATTTTATAAAT
1 AAAAATAAACTCAATTTTA-AAAT
39044996 AAAAATAAAGC-CAAATTTTAAAAT
1 AAAAATAAA-CTC-AATTTTAAAAT
39045020 GTCCACAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAATAAACTCAATTTTAAAAT
Found at i:39054715 original size:43 final size:43
Alignment explanation
Indices: 39054653--39054777 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
39054643 CGTACAATGC
* *
39054653 CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATG-
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGATGT
* * **
39054695 CCACTGTCCTAGACAG-GGTCTTACACGTAAACACAGGTCGATGT
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATATCGATGT
*
39054739 CAACGTCCCAGACGTGGTCTTACACGAAAACACATATCG
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
39054778 GAATCCTATG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 4 0.06
43 60 0.88
44 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACGTAAACACATATCGATGT
Found at i:39059137 original size:15 final size:15
Alignment explanation
Indices: 39059117--39059146 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39059107 TAATCTCTTG
39059117 TTCTCCGTAAATACT
1 TTCTCCGTAAATACT
39059132 TTCTCCGTAAATACT
1 TTCTCCGTAAATACT
39059147 CAAGTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
TTCTCCGTAAATACT
Found at i:39060440 original size:163 final size:163
Alignment explanation
Indices: 39060170--39060497 Score: 647
Period size: 163 Copynumber: 2.0 Consensus size: 163
39060160 CTTCATCCTC
39060170 TAAGCTTCTTTTCAAAGACATACATTGTACCCTTTCAACCAAAAAACTCTTTAGCAACAACAATT
1 TAAGCTTCTTTTCAAAGACATACATTGTACCCTTTCAACCAAAAAACTCTTTAGCAACAACAATT
39060235 TATTTATCCCTATGCACATTTGTTTCCACACTCACCTTCTCACATTTCTCACCTTTATCAGAAGA
66 TATTTATCCCTATGCACATTTGTTTCCACACTCACCTTCTCACATTTCTCACCTTTATCAGAAGA
39060300 AAGCTCAACAAAATAAGGACTTCATCCAACTCT
131 AAGCTCAACAAAATAAGGACTTCATCCAACTCT
39060333 TAAGCTTCTTTTCAAAGACATACATTGTACCCTTTCAACCAAAAAACTCTTTAGCAACAACAATT
1 TAAGCTTCTTTTCAAAGACATACATTGTACCCTTTCAACCAAAAAACTCTTTAGCAACAACAATT
*
39060398 TATTTATCCCTATGCACATTTGTTTCCACACTCTCCTTCTCACATTTCTCACCTTTATCAGAAGA
66 TATTTATCCCTATGCACATTTGTTTCCACACTCACCTTCTCACATTTCTCACCTTTATCAGAAGA
39060463 AAGCTCAACAAAATAAGGACTTCATCCAACTCT
131 AAGCTCAACAAAATAAGGACTTCATCCAACTCT
39060496 TA
1 TA
39060498 CTACCTTTCC
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
163 164 1.00
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (163 bp):
TAAGCTTCTTTTCAAAGACATACATTGTACCCTTTCAACCAAAAAACTCTTTAGCAACAACAATT
TATTTATCCCTATGCACATTTGTTTCCACACTCACCTTCTCACATTTCTCACCTTTATCAGAAGA
AAGCTCAACAAAATAAGGACTTCATCCAACTCT
Found at i:39067916 original size:20 final size:22
Alignment explanation
Indices: 39067886--39067929 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
39067876 AGAAAAAGAG
39067886 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
39067907 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
39067928 AA
1 AA
39067930 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:39070836 original size:67 final size:67
Alignment explanation
Indices: 39070728--39071000 Score: 331
Period size: 67 Copynumber: 4.0 Consensus size: 67
39070718 GTCCAAAAAG
* * *
39070728 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAGAGATTCCCTGCA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
39070792 ACA
65 ACA
*
39070795 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAAAGATTCCCTGCA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
39070859 ACA
65 ACA
* * *
39070862 AAATAATGTGTGAACA-GAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATAAT-CGTGAACAGGAAAGATTCCCTG
*
39070926 CAA-G
63 CAACA
* * * *
39070930 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAAGA-AATAAT-CGTGAACAGGAAAGATTCCCTGC
*
39070994 AAGA
64 AACA
39070998 AAA
1 AAA
39071001 GACAAGTGAA
Statistics
Matches: 185, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
66 24 0.13
67 129 0.70
68 9 0.05
69 23 0.12
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:39070900 original size:101 final size:102
Alignment explanation
Indices: 39070738--39071000 Score: 417
Period size: 101 Copynumber: 2.6 Consensus size: 102
39070728 AAATAATACA
* * *
39070738 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
39070800 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
39070837 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACA-GAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
39070901 ATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * *
39070938 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
39071001 GACAAGTGAA
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
99 22 0.15
100 5 0.03
101 98 0.65
102 26 0.17
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:39072186 original size:24 final size:25
Alignment explanation
Indices: 39072154--39072202 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
39072144 ATAGTAAAAA
39072154 TATAATTTTAT-TATTTAAATAATC
1 TATAATTTTATATATTTAAATAATC
* *
39072178 TATATTTTTATAATTTTTAAATAAT
1 TATAATTTTAT-ATATTTAAATAAT
39072203 TAAATTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TATAATTTTATATATTTAAATAATC
Found at i:39072217 original size:30 final size:31
Alignment explanation
Indices: 39072181--39072249 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
39072171 AATAATCTAT
* *
39072181 ATTTTTATAATTTTTAAATA-ATTAAATTAA
1 ATTTTTATAATTTTTAAAAATATTAAAATAA
*
39072211 ATTTTTATCATTTTTAAAAATATTAAAATAA
1 ATTTTTATAATTTTTAAAAATATTAAAATAA
*
39072242 AATTTTAT
1 ATTTTTAT
39072250 CTTTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAAATATTAAAATAA
Found at i:39072248 original size:31 final size:30
Alignment explanation
Indices: 39072183--39072250 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
39072173 TAATCTATAT
* * * *
39072183 TTTTATAATTTTTAAATAATTAAATTAAAT
1 TTTTATCATTTTTAAAAAATTAAAATAAAA
39072213 TTTTATCATTTTTAAAAATATTAAAATAAAA
1 TTTTATCATTTTTAAAAA-ATTAAAATAAAA
39072244 TTTTATC
1 TTTTATC
39072251 TTTAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTTATCATTTTTAAAAAATTAAAATAAAA
Found at i:39072549 original size:19 final size:20
Alignment explanation
Indices: 39072508--39072552 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
39072498 AAAAAACCTT
*
39072508 TTTTAAAATTTAATTTATTA
1 TTTTAAAATTTAATTTATCA
39072528 TTTTAAAA-TTAATTT-TACA
1 TTTTAAAATTTAATTTAT-CA
39072547 TTTTAA
1 TTTTAA
39072553 TGGAAAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.61
20 8 0.35
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAAAATTTAATTTATCA
Found at i:39074192 original size:3 final size:3
Alignment explanation
Indices: 39074184--39074216 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
39074174 ATTATTTAGC
39074184 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
39074217 GTTTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:39074523 original size:24 final size:24
Alignment explanation
Indices: 39074494--39074540 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
39074484 ACGCCTTTAT
*
39074494 TATATACTTACATCTATAAATATA
1 TATATACTTACATATATAAATATA
39074518 TATATACTTACATATATAAATAT
1 TATATACTTACATATATAAATAT
39074541 GCTTTCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (24 bp):
TATATACTTACATATATAAATATA
Found at i:39074702 original size:21 final size:21
Alignment explanation
Indices: 39074678--39074717 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39074668 ATACATATTT
* *
39074678 ATATATTCTTTATATTTTAAA
1 ATATATTATATATATTTTAAA
39074699 ATATATTATATATATTTTA
1 ATATATTATATATATTTTA
39074718 TAATTCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATATTATATATATTTTAAA
Found at i:39099229 original size:17 final size:17
Alignment explanation
Indices: 39099203--39099236 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
39099193 ATAATAAGAC
39099203 TAAAAGATTTTTAAATA
1 TAAAAGATTTTTAAATA
* *
39099220 TAAAATATTTTTTAATA
1 TAAAAGATTTTTAAATA
39099237 AATTTCACAA
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAAAGATTTTTAAATA
Found at i:39099865 original size:8 final size:8
Alignment explanation
Indices: 39099852--39099948 Score: 52
Period size: 8 Copynumber: 12.8 Consensus size: 8
39099842 CCAATTATTC
39099852 TTATAATT
1 TTATAATT
39099860 TTATAA-T
1 TTATAATT
39099867 TTA-AATT
1 TTATAATT
39099874 TT-T-ATT
1 TTATAATT
39099880 TT-T-A-T
1 TTATAATT
39099885 TT-TAATT
1 TTATAATT
*
39099892 TTAAAATT
1 TTATAATT
*
39099900 TTAAAATGT
1 TTATAAT-T
39099909 TT-TAATTGT
1 TTATAA-T-T
39099918 TTATATATT
1 TTATA-ATT
*
39099927 TTCA-ATTT
1 TT-ATAATT
39099935 TTATAATT
1 TTATAATT
39099943 TTATAA
1 TTATAA
39099949 ACTTATGTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
5 4 0.05
6 10 0.14
7 11 0.15
8 32 0.43
9 12 0.16
10 4 0.05
11 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (8 bp):
TTATAATT
Found at i:39099937 original size:17 final size:16
Alignment explanation
Indices: 39099908--39099945 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
39099898 TTTTAAAATG
39099908 TTTTAATTGTTTATATA
1 TTTTAATTGTTTATA-A
39099925 TTTTCAATT-TTTATAA
1 TTTT-AATTGTTTATAA
39099941 TTTTA
1 TTTTA
39099946 TAAACTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 5 0.25
17 10 0.50
18 4 0.20
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTTAATTGTTTATAA
Found at i:39126745 original size:16 final size:17
Alignment explanation
Indices: 39126711--39126748 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
39126701 CAGAGATCCA
*
39126711 TATTTATATTATAAATT
1 TATTTATATAATAAATT
*
39126728 TATTTA-ATAATAATTT
1 TATTTATATAATAAATT
39126744 TATTT
1 TATTT
39126749 TTAATTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTATATAATAAATT
Found at i:39128293 original size:15 final size:16
Alignment explanation
Indices: 39128273--39128302 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39128263 ACATTATTGC
39128273 AATT-AAATGTAGTTT
1 AATTAAAATGTAGTTT
39128288 AATTAAAATGTAGTT
1 AATTAAAATGTAGTT
39128303 CACTTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
AATTAAAATGTAGTTT
Found at i:39128958 original size:12 final size:12
Alignment explanation
Indices: 39128941--39128968 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
39128931 ACAAACCAAA
39128941 TTTTATTTTATT
1 TTTTATTTTATT
39128953 TTTTATTTTATT
1 TTTTATTTTATT
39128965 TTTT
1 TTTT
39128969 TACCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:39130189 original size:7 final size:7
Alignment explanation
Indices: 39130177--39130203 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
39130167 CAAGTTTCTA
39130177 TTAAAAT
1 TTAAAAT
39130184 TTAAAAT
1 TTAAAAT
39130191 TTAAAAT
1 TTAAAAT
39130198 TTAAAA
1 TTAAAA
39130204 ACATTGGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:39134869 original size:24 final size:25
Alignment explanation
Indices: 39134838--39134891 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
39134828 GGAATCTCCT
39134838 TTTA-CAAAGTAAAATAGTAC-AAC
1 TTTATCAAAGTAAAATAGTACAAAC
39134861 TTTATCAAAGTAAAATAGTACAAAC
1 TTTATCAAAGTAAAATAGTACAAAC
39134886 TTTATC
1 TTTATC
39134892 TACTTTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 9 0.31
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (25 bp):
TTTATCAAAGTAAAATAGTACAAAC
Found at i:39139197 original size:18 final size:17
Alignment explanation
Indices: 39139170--39139204 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39139160 GCGTCTTCTT
39139170 GTTTCTTTTTCTCTTTC
1 GTTTCTTTTTCTCTTTC
*
39139187 GTTTCTCTTTTTTCTTTC
1 GTTTCT-TTTTCTCTTTC
39139205 TCCTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.00, C:0.23, G:0.06, T:0.71
Consensus pattern (17 bp):
GTTTCTTTTTCTCTTTC
Found at i:39145779 original size:12 final size:12
Alignment explanation
Indices: 39145762--39145788 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39145752 TTCGTGTAAA
39145762 AATGATGAATTC
1 AATGATGAATTC
39145774 AATGATGAATTC
1 AATGATGAATTC
39145786 AAT
1 AAT
39145789 TTGAGCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (12 bp):
AATGATGAATTC
Found at i:39150166 original size:13 final size:14
Alignment explanation
Indices: 39150146--39150179 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
39150136 CATTATAAAG
39150146 CCAG-TTTATATTA
1 CCAGATTTATATTA
39150159 CCA-ATTTATATTA
1 CCAGATTTATATTA
39150172 CCAGATTT
1 CCAGATTT
39150180 CACCAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (14 bp):
CCAGATTTATATTA
Found at i:39151780 original size:14 final size:14
Alignment explanation
Indices: 39151761--39151788 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39151751 TTGAGAATAG
39151761 CGAGTTCAATATTA
1 CGAGTTCAATATTA
39151775 CGAGTTCAATATTA
1 CGAGTTCAATATTA
39151789 TCCCATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
CGAGTTCAATATTA
Found at i:39161932 original size:20 final size:21
Alignment explanation
Indices: 39161894--39161934 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
39161884 TTACAATTAA
*
39161894 CTTTATGAGTTTTAACATTGG
1 CTTTATGAGTTATAACATTGG
*
39161915 CTTTAT-AGTTATAGCATTGG
1 CTTTATGAGTTATAACATTGG
39161935 ATAAGAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (21 bp):
CTTTATGAGTTATAACATTGG
Found at i:39166256 original size:29 final size:30
Alignment explanation
Indices: 39166217--39166294 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
39166207 TTGGTCAAAT
* *
39166217 TTAAATTTCATGTATAAAATTACGTA-AAA
1 TTAAAATTCATGTATAAAATTACATATAAA
* *
39166246 TTAAAATTCATATATACAATTACATATTAAA
1 TTAAAATTCATGTATAAAATTACATA-TAAA
* *
39166277 TTAGAATTTATGTATAAA
1 TTAAAATTCATGTATAAA
39166295 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 22 0.56
31 17 0.44
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (30 bp):
TTAAAATTCATGTATAAAATTACATATAAA
Found at i:39174035 original size:5 final size:5
Alignment explanation
Indices: 39174018--39174047 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
39174008 TTTCAGTTAG
*
39174018 TTATT TTACT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
39174048 GAATTTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:39178251 original size:15 final size:14
Alignment explanation
Indices: 39178216--39178254 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
39178206 TTTTTAAATT
39178216 TAAAT-TTAAT-TA
1 TAAATATTAATATA
39178228 TAAATATTAATATA
1 TAAATATTAATATA
39178242 TAATATATTAATA
1 TAA-ATATTAATA
39178255 ATTTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 5 0.21
14 5 0.21
15 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAAATATTAATATA
Found at i:39180964 original size:22 final size:22
Alignment explanation
Indices: 39180908--39180964 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
39180898 AGTTTAAAAT
39180908 AAAATATATAAAAGAAAGTCTTA
1 AAAATATA-AAAAGAAAGTCTTA
*
39180931 AATAATA-AAAAAGACAGT-TTA
1 AA-AATATAAAAAGAAAGTCTTA
39180952 AAAATATACAAAA
1 AAAATATA-AAAA
39180965 ATAGTGTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATATAAAAAGAAAGTCTTA
Found at i:39181707 original size:13 final size:14
Alignment explanation
Indices: 39181689--39181717 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39181679 GGGTTTGCAA
39181689 AAATAAAAA-ATAG
1 AAATAAAAAGATAG
39181702 AAATAAAAAGATAG
1 AAATAAAAAGATAG
39181716 AA
1 AA
39181718 CAAATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AAATAAAAAGATAG
Found at i:39182600 original size:44 final size:44
Alignment explanation
Indices: 39182551--39183188 Score: 646
Period size: 44 Copynumber: 14.5 Consensus size: 44
39182541 TCCACTTCCT
* *
39182551 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
39182595 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-C
* * * *
39182640 ACCAGTATGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
39182682 TATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * *
39182727 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
39182772 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
39182814 TACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
39182859 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
39182904 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTCAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
39182947 GCCAATACATG-AGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * *
39182991 ACCAATATGGGAAGACAAGATCTG-AATCTTCGATCTTCTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
39183034 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* *
39183079 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
39183121 TACCAATATAGGAAGATAGGACCTGCTATCCTCGATCTACTTCAT
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
39183166 GCCAATACATGAAGACAAGATCT
1 ACCAATATAGGAAGACAAGATCT
39183189 ACTTTAATGA
Statistics
Matches: 476, Mismatches: 101, Indels: 34
0.78 0.17 0.06
Matches are distributed among these distances:
42 16 0.03
43 104 0.22
44 256 0.54
45 100 0.21
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:39182781 original size:132 final size:132
Alignment explanation
Indices: 39182540--39183163 Score: 763
Period size: 132 Copynumber: 4.7 Consensus size: 132
39182530 CTGTTTTTCA
**
39182540 ATCCACTTCCTACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
* * *
39182605 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
39182670 GG
131 CG
* *
39182672 ATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
*
39182737 GAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
39182802 CG
131 CG
*
39182804 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
39182869 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
39182934 CG
131 CG
* * * * * * * * * * **
39182936 ATCTACTTCATGCCAATACATG-AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATG
1 ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATACA
* ** * * * *** *
39183000 GGAAGACAAGATCTG-AATCTTCGATCTTCTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
65 TGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC
39183063 TTCG
129 TTCG
* * * * * * * *
39183067 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
1 ATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATAC
* * * * * *
39183130 AGGAAGATAGGACCTGCTATCCTCGATCTACTTC
64 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
39183164 ATGCCAATAC
Statistics
Matches: 435, Mismatches: 51, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
130 23 0.05
131 75 0.17
132 324 0.74
133 13 0.03
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
ATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CG
Found at i:39195586 original size:22 final size:22
Alignment explanation
Indices: 39195531--39195586 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
39195521 AGTTTAAAAT
39195531 AAAATATATAAAAGAAAGTCTTA
1 AAAATATA-AAAAGAAAGTCTTA
* *
39195554 AATA-ATAAAAAGACAGT-TTA
1 AAAATATAAAAAGAAAGTCTTA
39195574 AAAATATACAAAA
1 AAAATATA-AAAA
39195587 ATAGTGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 12 0.43
22 7 0.25
23 3 0.11
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATATAAAAAGAAAGTCTTA
Found at i:39196329 original size:13 final size:14
Alignment explanation
Indices: 39196311--39196339 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39196301 GGGTTTGCAA
39196311 AAATAAAAA-ATAG
1 AAATAAAAAGATAG
39196324 AAATAAAAAGATAG
1 AAATAAAAAGATAG
39196338 AA
1 AA
39196340 CAAATGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AAATAAAAAGATAG
Found at i:39198974 original size:27 final size:27
Alignment explanation
Indices: 39198938--39199009 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
39198928 CACTTGACTG
* * *
39198938 TGTCATTTCATAGTTCATTTCGCAGTT
1 TGTCACTTCACAGTTCATTTCGCAGCT
*
39198965 TGTCACTTCACGGTTCATTTCGCAGCT
1 TGTCACTTCACAGTTCATTTCGCAGCT
* *
39198992 TGTCACTTTACGGTTCAT
1 TGTCACTTCACAGTTCAT
39199010 CATGTGTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (27 bp):
TGTCACTTCACAGTTCATTTCGCAGCT
Found at i:39212123 original size:17 final size:17
Alignment explanation
Indices: 39212073--39212123 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
39212063 GTTAATGTAA
39212073 TTAATATAAATTATTATT
1 TTAATATAAATT-TTATT
39212091 TTAATA-AAA--TTA--
1 TTAATATAAATTTTATT
39212103 TTAATATAAATTTTATT
1 TTAATATAAATTTTATT
39212120 TTAA
1 TTAA
39212124 AAATAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
12 6 0.21
13 3 0.11
14 3 0.11
15 3 0.11
17 7 0.25
18 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATAAATTTTATT
Found at i:39212181 original size:21 final size:20
Alignment explanation
Indices: 39212139--39212208 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 20
39212129 AAATTTAAAA
*
39212139 TTAATAATACTTTTAA-ATT
1 TTAATAATATTTTTAATATT
39212158 TTAAGTAATATTTTTAATATT
1 TTAA-TAATATTTTTAATATT
* * *
39212179 TTATTGAACATTGTTAATATT
1 TTAAT-AATATTTTTAATATT
39212200 TTAATAATA
1 TTAATAATA
39212209 AATATATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 4 0.10
20 15 0.36
21 23 0.55
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (20 bp):
TTAATAATATTTTTAATATT
Found at i:39212978 original size:23 final size:25
Alignment explanation
Indices: 39212931--39212978 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
39212921 TGTGATGTAT
* *
39212931 TTAATTATATAAAATTAACTTTAAA
1 TTAATTATATAAAATGAACTATAAA
39212956 TTAATTATA-AAAATGAA-TATAAA
1 TTAATTATATAAAATGAACTATAAA
39212979 ATCCTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAATTATATAAAATGAACTATAAA
Found at i:39213252 original size:23 final size:22
Alignment explanation
Indices: 39213204--39213253 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
39213194 AAATCATATG
* * * *
39213204 TTTTTTTATATATTTTTTTTAT
1 TTTTTTTATAAATTATTTGTAA
39213226 TTTTTTTATTAAATTATTTGTAA
1 TTTTTTTA-TAAATTATTTGTAA
39213249 TTTTT
1 TTTTT
39213254 ATGATTGGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTTATAAATTATTTGTAA
Found at i:39214326 original size:17 final size:15
Alignment explanation
Indices: 39214288--39214327 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
39214278 AAATTAATTC
39214288 TTTTTTTAATATATA
1 TTTTTTTAATATATA
*
39214303 TTCTTTTAATATATTA
1 TTTTTTTAATATA-TA
39214319 TTATTTTTA
1 TT-TTTTTA
39214328 TAAGACACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 4 0.19
17 5 0.24
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTTAATATATA
Found at i:39220736 original size:2 final size:2
Alignment explanation
Indices: 39220729--39220762 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
39220719 TATCTTAGTC
39220729 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
39220763 TTAAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39230085 original size:19 final size:19
Alignment explanation
Indices: 39230064--39230099 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39230054 GAATTGGAAT
*
39230064 TTTTTAA-AATTTTTTAAA
1 TTTTTAATAATGTTTTAAA
39230082 TTTTTAATAATGTTTTAA
1 TTTTTAATAATGTTTTAA
39230100 TTGGACCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTAATAATGTTTTAAA
Found at i:39230251 original size:19 final size:19
Alignment explanation
Indices: 39230227--39230339 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
39230217 AATTTTTGAG
39230227 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
39230246 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
39230265 GATATATGCAATCTTATATAT
1 G--ATATGCAATCTTAGATAT
*
39230286 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
** *
39230305 GATATATAATCTTGGATAT
1 GATATGCAATCTTAGATAT
39230324 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
39230340 ATATATGATT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 62 0.79
21 16 0.21
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39230272 original size:40 final size:40
Alignment explanation
Indices: 39230228--39230334 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
39230218 ATTTTTGAGG
*
39230228 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
* **
39230268 ATATGCAATCTTATATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
*
39230308 ATAT--AATCTTGGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
39230335 TTAGAATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 21 0.34
40 40 0.66
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
Found at i:39230323 original size:59 final size:58
Alignment explanation
Indices: 39230227--39230365 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 58
39230217 AATTTTTGAG
* *
39230227 GATATGCAATCTTAGATATGATATGCAATCCAAGATATGATATATGCAATCTT-ATATAT
1 GATATGCAATCTTAGAGATGATATACAATCCAAGATATG--ATATGCAATCTTAATATAT
* ***
39230286 GATATGCAATCTTAGAGATGATATATAATCTTGGATATGATATGCAATCTTAGAATATAT
1 GATATGCAATCTTAGAGATGATATACAATCCAAGATATGATATGCAATCTT--AATATAT
* *
39230346 GATTTTGTAATCTTAGAGAT
1 GA-TATGCAATCTTAGAGAT
39230366 TTAATTTGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
57 12 0.18
59 33 0.49
60 8 0.12
61 15 0.22
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (58 bp):
GATATGCAATCTTAGAGATGATATACAATCCAAGATATGATATGCAATCTTAATATAT
Found at i:39231776 original size:98 final size:98
Alignment explanation
Indices: 39231643--39231839 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
39231633 TTAAAAATAA
* *
39231643 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
39231708 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
39231741 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
39231806 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
39231839 T
1 T
39231840 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:39235958 original size:13 final size:14
Alignment explanation
Indices: 39235935--39235964 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
39235925 AAAAAAGAGG
39235935 AAAAAGAAAAAG-A
1 AAAAAGAAAAAGTA
39235948 AAAAAGAAAAAGTA
1 AAAAAGAAAAAGTA
39235962 AAA
1 AAA
39235965 GGAGAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAAAGTA
Done.