Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 126 of 126
Found at i:39275545 original size:20 final size:20
Alignment explanation
Indices: 39275520--39275586 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
39275510 TTCATGTGGT
39275520 TCAGCTCACTT-GAGCTCAAG
1 TCAGCTCA-TTCGAGCTCAAG
*
39275540 TCAGCTCATTCGAGTTCAAG
1 TCAGCTCATTCGAGCTCAAG
*
39275560 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATTCGAGCTCAAG
39275580 TCAGCTC
1 TCAGCTC
39275587 GTTATTTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 2 0.05
20 41 0.95
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (20 bp):
TCAGCTCATTCGAGCTCAAG
Found at i:39275715 original size:28 final size:28
Alignment explanation
Indices: 39275673--39275746 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
39275663 GTTTTTAATT
*
39275673 TGTTTTA-ATTATTACATAG-CATAAATG
1 TGTTTTATTTTATTACAT-GTCATAAATG
* *
39275700 TGTTTTATTTTATTACATGTTATTAATG
1 TGTTTTATTTTATTACATGTCATAAATG
* *
39275728 TGTCTAATTTTATTACATG
1 TGTTTTATTTTATTACATG
39275747 CTTTAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.53
Consensus pattern (28 bp):
TGTTTTATTTTATTACATGTCATAAATG
Found at i:39275759 original size:28 final size:28
Alignment explanation
Indices: 39275706--39275762 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
39275696 AATGTGTTTT
* *
39275706 ATTTTATTACATGTTATTAATGTGTCTA
1 ATTTTATTACATGCTATTAATATGTCTA
39275734 ATTTTATTACATGCT-TTAATAATGTCTA
1 ATTTTATTACATGCTATTAAT-ATGTCTA
39275762 A
1 A
39275763 GTCCAGCCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (28 bp):
ATTTTATTACATGCTATTAATATGTCTA
Found at i:39276897 original size:10 final size:10
Alignment explanation
Indices: 39276882--39276907 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
39276872 CATAAAAGAC
39276882 CTTGGCCGAA
1 CTTGGCCGAA
39276892 CTTGGCCGAA
1 CTTGGCCGAA
39276902 CTTGGC
1 CTTGGC
39276908 ATTCCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (10 bp):
CTTGGCCGAA
Found at i:39278719 original size:15 final size:16
Alignment explanation
Indices: 39278699--39278730 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
39278689 AGAAAATGAA
39278699 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
39278714 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
39278730 A
1 A
39278731 GCGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:39283470 original size:22 final size:22
Alignment explanation
Indices: 39283419--39283484 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
39283409 GGTATTTGGG
* *
39283419 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
39283440 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
39283462 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
39283485 TCAAAAGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:39292874 original size:23 final size:22
Alignment explanation
Indices: 39292823--39292874 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
39292813 CCTCGTCTTT
*
39292823 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
39292845 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
39292868 TTCTTTT
1 TTCTTTT
39292875 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:39295174 original size:81 final size:81
Alignment explanation
Indices: 39295039--39295199 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
39295029 TCTTGCCATC
39295039 GATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAGTCTTTCGGGATTTCAAG
1 GATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAGTCTTTCGGGATTTCAAG
39295104 GATCTTTAGGACTTAA
66 GATCTTTAGGACTTAA
*
39295120 GATATTCTTTGGAGGGGAGATTAGGGCCGTTTGAAGAGATTTGTGAAGTCTTTCGGGATTTCAAG
1 GATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAGTCTTTCGGGATTTCAAG
39295185 GATCTTTAGGACTTA
66 GATCTTTAGGACTTA
39295200 TCTTTTATTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.10, G:0.30, T:0.35
Consensus pattern (81 bp):
GATATTCTTTGGAGGGGAGATTAGAGCCGTTTGAAGAGATTTGTGAAGTCTTTCGGGATTTCAAG
GATCTTTAGGACTTAA
Found at i:39298798 original size:54 final size:54
Alignment explanation
Indices: 39298727--39298829 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
39298717 GGATCACGAG
* *
39298727 CCCAAATTCTTGAAGGCGAGTCCCAATAACCAAATTCCAGCCCAATCAAGAAAC
1 CCCAAATTATTGAAGGCGAGGCCCAATAACCAAATTCCAGCCCAATCAAGAAAC
* *
39298781 CCCAAATTATTGTAGGCGAGGCCTAATAACCAAATTCCAGCCCAATCAA
1 CCCAAATTATTGAAGGCGAGGCCCAATAACCAAATTCCAGCCCAATCAA
39298830 AAAATTCCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.18
Consensus pattern (54 bp):
CCCAAATTATTGAAGGCGAGGCCCAATAACCAAATTCCAGCCCAATCAAGAAAC
Found at i:39301174 original size:37 final size:37
Alignment explanation
Indices: 39301124--39301202 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
39301114 TTATTACGAA
* * *
39301124 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39301161 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39301198 GTCTT
1 GTCTT
39301203 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39301498 original size:49 final size:47
Alignment explanation
Indices: 39301320--39301756 Score: 658
Period size: 47 Copynumber: 9.2 Consensus size: 47
39301310 CCCTTCGGGA
* * * * * *
39301320 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39301367 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** * *
39301414 CTTATCACGCATATACACTTTCACATTCATCACATCGACCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39301461 CTTATCACATATATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39301510 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39301557 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39301606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39301653 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39301701 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39301748 CTTATCACA
1 CTTATCACA
39301757 ATTTAGAATT
Statistics
Matches: 355, Mismatches: 30, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
47 224 0.63
48 45 0.13
49 86 0.24
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39301515 original size:96 final size:96
Alignment explanation
Indices: 39301320--39301756 Score: 657
Period size: 96 Copynumber: 4.6 Consensus size: 96
39301310 CCCTTCGGGA
** * * * * * * *
39301320 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
39301383 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
* * *
39301414 CTTATCACGCATATACACTTTCACATTCATCACATCGACCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
39301479 ACTTTCACATTCATTACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
*
39301510 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
39301575 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
39301606 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--ATATATA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATATA
39301669 CACTTTCACATTCATCACATCGGCCATTAAGC
65 CACTTTCACATTCATCACATCGGCCATTAAGC
*
39301701 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
39301757 ATTTAGAATT
Statistics
Matches: 313, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
94 47 0.15
95 88 0.28
96 174 0.56
97 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:39301544 original size:143 final size:143
Alignment explanation
Indices: 39301320--39301756 Score: 675
Period size: 143 Copynumber: 3.1 Consensus size: 143
39301310 CCCTTCGGGA
* * * * * *
39301320 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
**
39301383 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
* *
39301448 TCGACCATTAAGC
131 TCGGCCATTAGGC
* * * * *
39301461 CTTATCACATATATATACACTTTCACATTCATTACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
39301526 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
39301591 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
39301606 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATA
39301669 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
39301734 ATCGGCCATTAGGC
130 ATCGGCCATTAGGC
39301748 CTTATCACA
1 CTTATCACA
39301757 ATTTAGAATT
Statistics
Matches: 268, Mismatches: 22, Indels: 10
0.89 0.07 0.03
Matches are distributed among these distances:
141 10 0.04
142 48 0.18
143 119 0.44
144 48 0.18
145 43 0.16
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:39307103 original size:19 final size:20
Alignment explanation
Indices: 39307079--39307129 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
39307069 ATGAGCTAGA
39307079 GAGCT-AATACGAGCTC-AAT
1 GAGCTAAAT-CGAGCTCGAAT
*
39307098 GAGCTAAATTGAGCTCGAAT
1 GAGCTAAATCGAGCTCGAAT
*
39307118 GAGCTGAATCGA
1 GAGCTAAATCGA
39307130 AAATGTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (20 bp):
GAGCTAAATCGAGCTCGAAT
Found at i:39308873 original size:20 final size:20
Alignment explanation
Indices: 39308809--39308890 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
39308799 TCAAATTCTT
* *
39308809 TTTTCTTTTTCTCAC-TCTC
1 TTTTCTTTTTCTCTCATTTC
* * *
39308828 ATTTTCTTTTTCTTTTATTTAT
1 -TTTTCTTTTTCTCTCATTT-C
39308850 TTTTCTTTTTCTCTCATTTC
1 TTTTCTTTTTCTCTCATTTC
39308870 TTTT-TTTCTTCTCTCAATTTC
1 TTTTCTTT-TTCTCTC-ATTTC
39308891 ATTCAAGATT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
19 3 0.06
20 23 0.46
21 24 0.48
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCTTTTTCTCTCATTTC
Found at i:39311703 original size:20 final size:19
Alignment explanation
Indices: 39311672--39311709 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
39311662 GAGCTAATAC
39311672 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
39311691 GAGCTCTAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
39311710 CGAAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:39318022 original size:275 final size:275
Alignment explanation
Indices: 39317531--39318080 Score: 1082
Period size: 275 Copynumber: 2.0 Consensus size: 275
39317521 AACAATCTTT
39317531 CGATTGTGGGAGCCATCTTCAACCTTCTTCTTGCCATCGATATTCTTTGGAGGGGAGATTAGAGC
1 CGATTGTGGGAGCCATCTTCAACCTTCTTCTTGCCATCGATATTCTTTGGAGGGGAGATTAGAGC
39317596 CGTTTGAAGAGATTTGTGAGATCTTTCGGGATTTCAAGGATCTTTAGGACTTATCTTTTATTCTT
66 CGTTTGAAGAGATTTGTGAGATCTTTCGGGATTTCAAGGATCTTTAGGACTTATCTTTTATTCTT
39317661 GCTGTTCAATTTCTTTTCTTTATTTCTGCTGATGTCGAATCTATATCTAATTTCTTTGCTATTTT
131 GCTGTTCAATTTCTTTTCTTTATTTCTGCTGATGTCGAATCTATATCTAATTTCTTTGCTATTTT
39317726 TGTTTGTGTTTCAGCCTTGATTCAAACTCCAAGAACTCTTCATTTAATCGGTTCTTTTATTGGTA
196 TGTTTGTGTTTCAGCCTTGATTCAAACTCCAAGAACTCTTCATTTAATCGGTTCTTTTATTGGTA
39317791 GCATCTAATAGATTC
261 GCATCTAATAGATTC
*
39317806 CGATTGTGGGAGCCATCTTCAATCTTCTTCTTGCCATCGATATTCTTTGGAGGGGAGATTAGAGC
1 CGATTGTGGGAGCCATCTTCAACCTTCTTCTTGCCATCGATATTCTTTGGAGGGGAGATTAGAGC
39317871 CGTTTGAAGAGATTTGTGAGATCTTTCGGGATTTCAAGGATCTTTAGGACTTATCTTTTATTCTT
66 CGTTTGAAGAGATTTGTGAGATCTTTCGGGATTTCAAGGATCTTTAGGACTTATCTTTTATTCTT
39317936 GCTGTTCAATTTCTTTTCTTTATTTCTGCTGATGTCGAATCTATATCTAATTTCTTTGCTATTTT
131 GCTGTTCAATTTCTTTTCTTTATTTCTGCTGATGTCGAATCTATATCTAATTTCTTTGCTATTTT
39318001 TGTTTGTGTTTCAGCCTTGATTCAAACTCCAAGAACTCTTCATTTAATCGGTTCTTTTATTGGTA
196 TGTTTGTGTTTCAGCCTTGATTCAAACTCCAAGAACTCTTCATTTAATCGGTTCTTTTATTGGTA
*
39318066 GCATCTAATCGATTC
261 GCATCTAATAGATTC
39318081 AAAATTCCCC
Statistics
Matches: 273, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 273 1.00
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (275 bp):
CGATTGTGGGAGCCATCTTCAACCTTCTTCTTGCCATCGATATTCTTTGGAGGGGAGATTAGAGC
CGTTTGAAGAGATTTGTGAGATCTTTCGGGATTTCAAGGATCTTTAGGACTTATCTTTTATTCTT
GCTGTTCAATTTCTTTTCTTTATTTCTGCTGATGTCGAATCTATATCTAATTTCTTTGCTATTTT
TGTTTGTGTTTCAGCCTTGATTCAAACTCCAAGAACTCTTCATTTAATCGGTTCTTTTATTGGTA
GCATCTAATAGATTC
Found at i:39324717 original size:11 final size:10
Alignment explanation
Indices: 39324701--39324747 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
39324691 GACCGTATAA
39324701 AATTTTTTTT
1 AATTTTTTTT
39324711 CAA-TTTTTTT
1 -AATTTTTTTT
*
39324721 GATTTTTTTT
1 AATTTTTTTT
*
39324731 TATTTTTTTT
1 AATTTTTTTT
39324741 -ATTTTTT
1 AATTTTTT
39324748 ACAATACCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 8 0.24
10 23 0.70
11 2 0.06
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:39324728 original size:19 final size:19
Alignment explanation
Indices: 39324704--39324752 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
39324694 CGTATAAAAT
39324704 TTTTTTTCAATTTTTTTGA
1 TTTTTTTCAATTTTTTTGA
** *
39324723 TTTTTTTTTATTTTTTTTA
1 TTTTTTTCAATTTTTTTGA
*
39324742 TTTTTTACAAT
1 TTTTTTTCAAT
39324753 ACCATAATAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTTTTCAATTTTTTTGA
Found at i:39324736 original size:8 final size:9
Alignment explanation
Indices: 39324702--39324747 Score: 56
Period size: 9 Copynumber: 4.8 Consensus size: 9
39324692 ACCGTATAAA
39324702 ATTTTTTTT
1 ATTTTTTTT
*
39324711 CAATTTTTTTG
1 --ATTTTTTTT
39324722 ATTTTTTTTT
1 A-TTTTTTTT
39324732 ATTTTTTTT
1 ATTTTTTTT
39324741 ATTTTTT
1 ATTTTTT
39324748 ACAATACCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 16 0.50
10 8 0.25
11 8 0.25
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:39326556 original size:22 final size:22
Alignment explanation
Indices: 39326528--39326571 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39326518 TTTTGAACCA
*
39326528 TTACCATTTTGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
39326550 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
39326572 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:39328676 original size:15 final size:17
Alignment explanation
Indices: 39328649--39328683 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
39328639 TGAACATGCT
39328649 AATTAACATTATAAC-A
1 AATTAACATTATAACTA
39328665 AATTAA-ATTATAACTA
1 AATTAACATTATAACTA
39328681 AAT
1 AAT
39328684 AAGACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTAACATTATAACTA
Found at i:39329766 original size:12 final size:12
Alignment explanation
Indices: 39329728--39329830 Score: 76
Period size: 12 Copynumber: 8.9 Consensus size: 12
39329718 GTGCGAGCGA
*
39329728 GAAAAAGAAATC
1 GAAAAAGAAATT
*
39329740 G--AAAGAAA-A
1 GAAAAAGAAATT
*
39329749 GAAAAAGAGATT
1 GAAAAAGAAATT
39329761 GAAAAAGAAATT
1 GAAAAAGAAATT
39329773 GAAAAAG-AA--
1 GAAAAAGAAATT
39329782 GAAAAAGAAATATT
1 GAAAAAG-AA-ATT
39329796 GGAAAAAGAAATT
1 -GAAAAAGAAATT
* **
39329809 GAAAGAGAGCTT
1 GAAAAAGAAATT
39329821 G-AAAAGAAAT
1 GAAAAAGAAAT
39329831 CGAGTGGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
9 8 0.11
10 7 0.10
11 15 0.21
12 30 0.42
13 3 0.04
14 2 0.03
15 7 0.10
ACGTcount: A:0.64, C:0.02, G:0.21, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:39329770 original size:33 final size:36
Alignment explanation
Indices: 39329728--39329814 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 36
39329718 GTGCGAGCGA
*
39329728 GAAAAAGAAATCGAAAGAA-AAGAAAAAG-AGATT-
1 GAAAAAGAAATTGAAAGAAGAAGAAAAAGAAGATTG
*
39329761 GAAAAAGAAATTGAAA-AAGAAGAAAAAGAAATATTG
1 GAAAAAGAAATTGAAAGAAGAAGAAAAAG-AAGATTG
39329797 GAAAAAGAAATTGAAAGA
1 GAAAAAGAAATTGAAAGA
39329815 GAGCTTGAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 2 0.04
33 24 0.51
35 4 0.09
36 16 0.34
37 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.21, T:0.11
Consensus pattern (36 bp):
GAAAAAGAAATTGAAAGAAGAAGAAAAAGAAGATTG
Found at i:39334416 original size:21 final size:21
Alignment explanation
Indices: 39334390--39334452 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
39334380 TTGGTATTTG
39334390 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
39334411 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
39334432 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
39334453 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:39344753 original size:30 final size:29
Alignment explanation
Indices: 39344690--39344754 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
39344680 TTTAACTTGA
*
39344690 TTTTTTTTGCTCACCTTTTTTTTCTTTTCT
1 TTTTTTTTGCTCA-CTTTTTTTTCCTTTCT
39344720 TTTTTTTTGCTCGA-TTTCTTTTTCACTTT-T
1 TTTTTTTTGCTC-ACTTT-TTTTTC-CTTTCT
39344750 TTTTT
1 TTTTT
39344755 GCATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
29 3 0.10
30 24 0.77
31 4 0.13
ACGTcount: A:0.05, C:0.17, G:0.05, T:0.74
Consensus pattern (29 bp):
TTTTTTTTGCTCACTTTTTTTTCCTTTCT
Found at i:39344760 original size:24 final size:24
Alignment explanation
Indices: 39344718--39344788 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 24
39344708 TTTTTCTTTT
39344718 CTTTTTTTTTGCTCGATTTCTTTT-TCA
1 CTTTTTTTTTG--C-ATTT-TTTTATCA
39344745 CTTTTTTTTTGCATTTTTTTAATCA
1 CTTTTTTTTTGCATTTTTTT-ATCA
*
39344770 ATTTTTTTTTG-ATTTTTTT
1 CTTTTTTTTTGCATTTTTTT
39344789 GTTACTCCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 4 0.10
24 12 0.29
25 14 0.34
27 11 0.27
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (24 bp):
CTTTTTTTTTGCATTTTTTTATCA
Found at i:39349620 original size:62 final size:62
Alignment explanation
Indices: 39349523--39349646 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
39349513 CAGATTTGTT
* *
39349523 GAGAGCAGAATTTTCTTTGAGTTTTCTCCAAGATTTCTCTCTTGAGTTTTCTTTAGAAGTTG
1 GAGAGCAGAATTTTCTTTGAGCTTTCTCCAAGATTTATCTCTTGAGTTTTCTTTAGAAGTTG
39349585 GAGAGCAGAATTTTCTTTGAGCTTTCTCCAAGATTTATCTCTTGAGTTTTCTTTAGAAGTTG
1 GAGAGCAGAATTTTCTTTGAGCTTTCTCCAAGATTTATCTCTTGAGTTTTCTTTAGAAGTTG
39349647 TTTTAACAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (62 bp):
GAGAGCAGAATTTTCTTTGAGCTTTCTCCAAGATTTATCTCTTGAGTTTTCTTTAGAAGTTG
Found at i:39361290 original size:37 final size:37
Alignment explanation
Indices: 39361229--39361307 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39361219 TTATTACGAA
* * * *
39361229 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
39361266 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
39361303 GTCTT
1 GTCTT
39361308 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:39361502 original size:49 final size:48
Alignment explanation
Indices: 39361425--39361582 Score: 273
Period size: 49 Copynumber: 3.2 Consensus size: 48
39361415 GCCCTTCGGG
39361425 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
39361475 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA-AC
*
39361524 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-AC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
39361571 ACTTTCACATTC
1 ACTTTCACATTC
39361583 TCAAAGTAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
47 14 0.13
49 88 0.83
50 4 0.04
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAAC
Found at i:39366158 original size:21 final size:21
Alignment explanation
Indices: 39366113--39366175 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
39366103 TTTGAACCAT
* *
39366113 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
39366135 TACCATTTCGTACCAATTCCA
1 TACCATTTCGTACCAATTCCA
* *
39366156 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACCAATTCC
39366176 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 24 0.65
22 13 0.35
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:39371722 original size:100 final size:99
Alignment explanation
Indices: 39371597--39371779 Score: 323
Period size: 100 Copynumber: 1.8 Consensus size: 99
39371587 GAAGCTATCT
*
39371597 GGTACGCAAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCT-GTTACATGTAGTAGCC
1 GGTACGCAAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAG-TACACGTAGTAGCC
*
39371661 TGCACTTAGTACTACACACGTGATCACAGTTTTTG
65 TGCACTTAATACTACACACGTGATCACAGTTTTTG
39371696 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACGTAGTAGCC
1 GGTACGCA-AGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACGTAGTAGCC
39371761 TGCACTTAATACTACACAC
65 TGCACTTAATACTACACAC
39371780 ATGACCTCAC
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
99 8 0.10
100 71 0.89
101 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
GGTACGCAAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACGTAGTAGCCT
GCACTTAATACTACACACGTGATCACAGTTTTTG
Found at i:39371727 original size:51 final size:48
Alignment explanation
Indices: 39371594--39371879 Score: 243
Period size: 51 Copynumber: 5.8 Consensus size: 48
39371584 GCCGAAGCTA
* * *
39371594 TCTGGTACGCA-AGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-ACAG
* ** *
39371642 TCTGTTACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
* * * *
39371690 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 --TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-ACAG
* * * *
39371742 TCTAGTACACGTAGTAGCCTGCACTTAATACTACACACATGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CA-CAG
** * * * *
39371792 TCTAATACACGTAGTAGCCTACAATTAGTACTACACACGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
* * *
39371840 TTTTCGGGTACGCATAGTAGCTTGCACTTAGTACTACACA
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
39371880 TGCGACCTCA
Statistics
Matches: 189, Mismatches: 37, Indels: 21
0.77 0.15 0.09
Matches are distributed among these distances:
47 2 0.01
48 13 0.07
49 61 0.32
50 43 0.23
51 66 0.35
52 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
Found at i:39371804 original size:50 final size:49
Alignment explanation
Indices: 39371605--39371829 Score: 202
Period size: 49 Copynumber: 4.5 Consensus size: 49
39371595 CTGGTACGCA
** ** *
39371605 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGTTACATGT
1 AGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACGT
** * * ** * *
39371654 AGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTTGGGTACGCAT
1 AGTAGCCTGCACTTAGTACTACACACACGACCAACAG--TCT-AATACACGT
** *
39371705 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACGT
* * *
39371754 AGTAGCCTGCACTTAATACTACACACATGACCTCACCA-TCTAATACACGT
1 AGTAGCCTGCACTTAGTACTACACACACGA-C-CAACAGTCTAATACACGT
* *
39371804 AGTAGCCTACAATTAGTACTACACAC
1 AGTAGCCTGCACTTAGTACTACACAC
39371830 GTGATCACAG
Statistics
Matches: 146, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
48 4 0.03
49 61 0.42
50 39 0.27
51 38 0.26
52 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCTAATACACGT
Found at i:39374226 original size:14 final size:14
Alignment explanation
Indices: 39374207--39374233 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39374197 ATCTTTGCAA
39374207 GTGAAAAAAAATTC
1 GTGAAAAAAAATTC
39374221 GTGAAAAAAAATT
1 GTGAAAAAAAATT
39374234 GTTTAAGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.22
Consensus pattern (14 bp):
GTGAAAAAAAATTC
Found at i:39375119 original size:20 final size:19
Alignment explanation
Indices: 39375094--39375142 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
39375084 AAGAAGCGAG
* *
39375094 AAAAAGAAATTGAGAGAAGA
1 AAAAAGAAATGGA-AGAAAA
*
39375114 AAAAAGACATGGAAGAAAA
1 AAAAAGAAATGGAAGAAAA
39375133 AGAAAAGAAA
1 A-AAAAGAAA
39375143 ATAAAAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.06
Consensus pattern (19 bp):
AAAAAGAAATGGAAGAAAA
Found at i:39376950 original size:42 final size:42
Alignment explanation
Indices: 39376900--39377075 Score: 169
Period size: 42 Copynumber: 4.0 Consensus size: 42
39376890 CTTCATTTTC
** * *
39376900 TCGATGCCATAGTTCAACTATGGTCTTAGACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
39376943 T-GATGCCATAGCCCAGCTATGATCTTACACATATTCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
39376984 TCGATGCCATGGCCCAACTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT---AT-TCACATA
* *
39377033 TCGATGCCATAGCCCAGCTATGGCCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
39377074 TC
1 TC
39377076 TCACTGATGT
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 11 0.10
42 59 0.53
43 2 0.02
45 2 0.02
47 1 0.01
48 2 0.02
49 35 0.31
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:39377137 original size:47 final size:46
Alignment explanation
Indices: 39376985--39377226 Score: 182
Period size: 47 Copynumber: 5.0 Consensus size: 46
39376975 ATTCACATAT
* * * *
39376985 CGATGCCATGGCCCA-ACTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGA-TATGGTCTTATACG-AAGCACATATCAC--AC
* * * * *
39377034 CGATGCCATAGCCCAGCTATGGCCTTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * * * *
39377080 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
* *
39377127 CGATGCCATATCCCAAATATGGTCTTATACGGAAGCACATAATCACATCTGTC
1 CGATGCCATAGCCCAGATATGGTCTTATAC-GAAGCACAT-ATCACA-----C
*
39377180 CGATGCCATAGCCCA-ACTATGGTCTTATACGGAAATCACATATCACA
1 CGATGCCATAGCCCAGA-TATGGTCTTATAC-G-AAGCACATATCACA
39377227 TGTTGCCATG
Statistics
Matches: 160, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
46 25 0.16
47 46 0.29
48 18 0.11
49 27 0.17
52 1 0.01
53 36 0.22
54 7 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:39377195 original size:53 final size:53
Alignment explanation
Indices: 39377126--39377227 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 53
39377116 ATATATCACA
*
39377126 CCGATGCCATATCCCAAATATGGTCTTATACGG-AAGCACATAATCACATCTGT
1 CCGATGCCATAGCCCAAATATGGTCTTATACGGAAAGCACAT-ATCACATCTGT
* *
39377179 CCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACAT
1 CCGATGCCATAGCCCAAATATGGTCTTATACGGAAAGCACATATCACAT
39377228 GTTGCCATGG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 38 0.84
54 7 0.16
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (53 bp):
CCGATGCCATAGCCCAAATATGGTCTTATACGGAAAGCACATATCACATCTGT
Found at i:39382452 original size:23 final size:22
Alignment explanation
Indices: 39382400--39382452 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
39382390 TCCATGTCTT
*
39382400 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
39382422 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
39382445 TTTCTTTT
1 TTTCTTTT
39382453 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:39382477 original size:18 final size:18
Alignment explanation
Indices: 39382436--39382477 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
39382426 TTTTCTCTTC
*
39382436 TTTCT-TCAATTTCTTTT
1 TTTCTCTCAATCTCTTTT
**
39382453 TCACTCTCAATCTCTTTT
1 TTTCTCTCAATCTCTTTT
39382471 TTTCTCT
1 TTTCTCT
39382478 TTTTCATTCT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCTCTCAATCTCTTTT
Found at i:39382489 original size:12 final size:11
Alignment explanation
Indices: 39382463--39382496 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
39382453 TCACTCTCAA
39382463 TCTCTTTTT-T
1 TCTCTTTTTCT
39382473 TCTCTTTTTCAT
1 TCTCTTTTTC-T
39382485 TCTCTTTTTCT
1 TCTCTTTTTCT
39382496 T
1 T
39382497 TTTCCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 2 0.09
12 11 0.50
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTCTTTTTCT
Done.