Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 124 of 161
Found at i:39298745 original size:535 final size:535
Alignment explanation
Indices: 39297735--39298809 Score: 1920
Period size: 535 Copynumber: 2.0 Consensus size: 535
39297725 GGGCTGGAGG
39297735 TGAGTATGCCCTGAATCGTGGATTTTCTTTGTCATCTAAACCCTCTTCAACATCTTCAGGTTCGG
1 TGAGTATGCCCTGAATCGTGGATTTTCTTTGTCATCTAAACCCTCTTCAACATCTTCAGGTTCGG
39297800 TTGGAATAGACTTCGGTTCAAAAAATAATGCAACTTCTGCACCATCAGGCCTGGGCTCTCGAGGT
66 TTGGAATAGACTTCGGTTCAAAAAATAATGCAACTTCTGCACCATCAGGCCTGGGCTCTCGAGGT
* *
39297865 AGATCCACATTGAAGTCATCTTCTAACCTACCATCATCTGCAATGTACGAGGTCCCCTTCCCGGT
131 AGATCCACATCGAAGTCATCTTCTAACATACCATCATCTGCAATGTACGAGGTCCCCTTCCCGGT
* * *
39297930 GGATGTCGTAGGGAGTACATCATCCTTTCTTCTAGGCGTTTTATAACGTCCCCAATTGAATGTAG
196 GGACGTCGTAGGGAGTACATCATCCCTTCTTCTAGGCATTTTATAACGTCCCCAATTGAATGTAG
* *
39297995 ATTGCCAACCACTAGAAGTTGATGTCGTTCCCCAGTACGTATTTTCAGCGTCAAACATCGACCCA
261 ATTGCCAACCACTAGAAGTTGATGCCGTTCCCCAGTACGTATTTTCAGCATCAAACATCGACCCA
* *
39298060 CCGAGGTACATGTCCCATCCACCGACAGAGTGTCTTGCAGGGGATGTGCATTCCATACCGCTACC
326 CCAAGGTACATGTCCCATCCACCGACAGAGTGTCCTGCAGGGGATGTGCATTCCATACCGCTACC
39298125 AAACATGGGCTGTTCTGTGTTTTATAACCCACTAACCGAATGTCGGGCAGGGGTTGTGTATACCT
391 AAACATGGGCTGTTCTGTGTTTTATAACCCACTAACCGAATGTCGGGCAGGGGTTGTGTATACCT
* *
39298190 CTCGAACCACAGTCGCAAGTAAATTATTTGGCGATGTAAATTGTACATATAACTCAATATAGGGT
456 CTCGAACCACAGTCGCAAGTAAATCATTTGGCGATATAAATTGTACATATAACTCAATATAGGGT
39298255 GCTCCACTAGCGAGA
521 GCTCCACTAGCGAGA
*
39298270 TGAGTATGCCCTGAATCGTGGATTTTCTTTGTCATCTAAACCTTCTTCAACATCTTCAGGTTCGG
1 TGAGTATGCCCTGAATCGTGGATTTTCTTTGTCATCTAAACCCTCTTCAACATCTTCAGGTTCGG
* * *
39298335 TTGGAATAGGCTTCGGTTCAAAAAATAATGCAACTTCTGTACCATCGGGCCTGGGCTCTCGAGGT
66 TTGGAATAGACTTCGGTTCAAAAAATAATGCAACTTCTGCACCATCAGGCCTGGGCTCTCGAGGT
* *
39298400 AGATCCACATCGAAGTCATCTTCTAACATACCATTATCTGTAATGTACGAGGTCCCC-TCACCGG
131 AGATCCACATCGAAGTCATCTTCTAACATACCATCATCTGCAATGTACGAGGTCCCCTTC-CCGG
*
39298464 TGGACGTCGTAGGGAGTACATTATCCCTTCTTCTAGGCATTTTATAACGTCCCCAATTGAATGTA
195 TGGACGTCGTAGGGAGTACATCATCCCTTCTTCTAGGCATTTTATAACGTCCCCAATTGAATGTA
39298529 GATTGCCAACCACTAGAAGTTGATGCCGTTCCCCAGTACGTA-TTTCTAGCATCAAACATCGACC
260 GATTGCCAACCACTAGAAGTTGATGCCGTTCCCCAGTACGTATTTTC-AGCATCAAACATCGACC
*
39298593 CACCAAGGTACATGTCCCATCCACCGACAGAGTGTCCTGCAGGGGATGTGCATTCCATACTGCTA
324 CACCAAGGTACATGTCCCATCCACCGACAGAGTGTCCTGCAGGGGATGTGCATTCCATACCGCTA
39298658 CCAAACATGGGCTGTTCTGTGTTTTATAACCCACTAACCGAATGTCGGGCAGGGGTTGTGTATAC
389 CCAAACATGGGCTGTTCTGTGTTTTATAACCCACTAACCGAATGTCGGGCAGGGGTTGTGTATAC
* * *
39298723 CTCTCGAACCGCAGTTGCAAGTACATCATTTGGCGATATAAATTGTACATATAACTCAATATAGG
454 CTCTCGAACCACAGTCGCAAGTAAATCATTTGGCGATATAAATTGTACATATAACTCAATATAGG
39298788 GTGCTCCACTAGCGAGA
519 GTGCTCCACTAGCGAGA
39298805 TGAGT
1 TGAGT
39298810 CTACACCATT
Statistics
Matches: 516, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
534 6 0.01
535 510 0.99
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (535 bp):
TGAGTATGCCCTGAATCGTGGATTTTCTTTGTCATCTAAACCCTCTTCAACATCTTCAGGTTCGG
TTGGAATAGACTTCGGTTCAAAAAATAATGCAACTTCTGCACCATCAGGCCTGGGCTCTCGAGGT
AGATCCACATCGAAGTCATCTTCTAACATACCATCATCTGCAATGTACGAGGTCCCCTTCCCGGT
GGACGTCGTAGGGAGTACATCATCCCTTCTTCTAGGCATTTTATAACGTCCCCAATTGAATGTAG
ATTGCCAACCACTAGAAGTTGATGCCGTTCCCCAGTACGTATTTTCAGCATCAAACATCGACCCA
CCAAGGTACATGTCCCATCCACCGACAGAGTGTCCTGCAGGGGATGTGCATTCCATACCGCTACC
AAACATGGGCTGTTCTGTGTTTTATAACCCACTAACCGAATGTCGGGCAGGGGTTGTGTATACCT
CTCGAACCACAGTCGCAAGTAAATCATTTGGCGATATAAATTGTACATATAACTCAATATAGGGT
GCTCCACTAGCGAGA
Found at i:39299651 original size:16 final size:15
Alignment explanation
Indices: 39299626--39299655 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
39299616 TTATTTCTCT
39299626 AAAACCCAAAACCTA
1 AAAACCCAAAACCTA
39299641 AAAACCCCAAAACCT
1 AAAA-CCCAAAACCT
39299656 TAACCCTAAC
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:0.57, C:0.37, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAACCCAAAACCTA
Found at i:39301555 original size:15 final size:15
Alignment explanation
Indices: 39301530--39301588 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
39301520 TTAATTCAGT
* *
39301530 ACTTAAATTTTTAAT
1 ACTTAATTTTTTAAC
* * *
39301545 AATTAATTTTTCAGC
1 ACTTAATTTTTTAAC
39301560 ACTTAATTTTTTCAAC
1 ACTTAATTTTTT-AAC
39301576 ACTTAATTTTTTA
1 ACTTAATTTTTTA
39301589 GTTTATCAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
15 21 0.60
16 14 0.40
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.53
Consensus pattern (15 bp):
ACTTAATTTTTTAAC
Found at i:39301564 original size:30 final size:31
Alignment explanation
Indices: 39301524--39301586 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
39301514 ATAATTTTAA
* *
39301524 TTCAGTACTTAAATTTTT-AATAATTAATTT
1 TTCAGCACTTAAATTTTTCAACAATTAATTT
* *
39301554 TTCAGCACTTAATTTTTTCAACACTTAATTT
1 TTCAGCACTTAAATTTTTCAACAATTAATTT
39301585 TT
1 TT
39301587 TAGTTTATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.52
Consensus pattern (31 bp):
TTCAGCACTTAAATTTTTCAACAATTAATTT
Found at i:39301572 original size:16 final size:16
Alignment explanation
Indices: 39301547--39301587 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
39301537 TTTTTAATAA
*
39301547 TTAA-TTTTTCAGCAC
1 TTAATTTTTTCAACAC
39301562 TTAATTTTTTCAACAC
1 TTAATTTTTTCAACAC
39301578 TTAATTTTTT
1 TTAATTTTTT
39301588 AGTTTATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (16 bp):
TTAATTTTTTCAACAC
Found at i:39302407 original size:24 final size:24
Alignment explanation
Indices: 39302380--39302425 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
39302370 CTAATTACAT
* *
39302380 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
39302404 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
39302426 ATTTCATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:39302636 original size:13 final size:13
Alignment explanation
Indices: 39302620--39302685 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
39302610 TTTAAACCAA
39302620 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
39302633 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
* *
39302646 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
39302659 ACTTTTCAAAATC
1 ACTTTTCAAAAGC
*
39302672 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
39302685 A
1 A
39302686 TTACCAAACT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:39305066 original size:102 final size:102
Alignment explanation
Indices: 39304881--39305079 Score: 362
Period size: 102 Copynumber: 2.0 Consensus size: 102
39304871 CTTGATGCTG
*
39304881 TTATTGCTCAATTTGAGGGCCAAAAGTTCTCTGATCCTTGGCATTTATGTTACTTGGATTTGGGT
1 TTATTGCTCAATTTGAGGGCCAAAAGTACTCTGATCCTTGGCATTTATGTTACTTGGATTTGGGT
39304946 GGAATGTCAAAAAAAGGACATTTTCAAGAAAATGTTA
66 GGAATGTCAAAAAAAGGACATTTTCAAGAAAATGTTA
*
39304983 TTATTGCTCAATTTGAGGGCCAAAAGTACTCTGATCCTTGGTATTTATGTTACTTGGATTTGGGT
1 TTATTGCTCAATTTGAGGGCCAAAAGTACTCTGATCCTTGGCATTTATGTTACTTGGATTTGGGT
* *
39305048 GGAATGTCGAAAAGAGGACATTTTCAAGAAAA
66 GGAATGTCAAAAAAAGGACATTTTCAAGAAAA
39305080 ATAAAGAGAC
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (102 bp):
TTATTGCTCAATTTGAGGGCCAAAAGTACTCTGATCCTTGGCATTTATGTTACTTGGATTTGGGT
GGAATGTCAAAAAAAGGACATTTTCAAGAAAATGTTA
Found at i:39311952 original size:41 final size:42
Alignment explanation
Indices: 39311890--39312016 Score: 161
Period size: 43 Copynumber: 3.0 Consensus size: 42
39311880 TAACCGTTAC
39311890 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
* *
39311932 ACGG-GGAATCAGCACATAGCAACC-CCTT-TCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTAT-A-A-TCAATGAT
* *
39311974 ATGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGAT
39312017 GCGGATTCAC
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 20 0.28
42 14 0.19
43 26 0.36
44 2 0.03
45 3 0.04
46 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
Found at i:39311987 original size:43 final size:41
Alignment explanation
Indices: 39311890--39312005 Score: 155
Period size: 41 Copynumber: 2.8 Consensus size: 41
39311880 TAACCGTTAC
*
39311890 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTT-TAATCAAGGAT
*
39311932 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-A-A-TCAAGGAT
*
39311974 ATGGTGGAATCAGCACTTAGCAACCACCTTTA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTA
39312006 TATTCAATGA
Statistics
Matches: 65, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
39 1 0.02
40 5 0.08
41 20 0.31
42 14 0.22
43 20 0.31
44 5 0.08
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTAATCAAGGAT
Found at i:39312104 original size:51 final size:51
Alignment explanation
Indices: 39312028--39312319 Score: 267
Period size: 51 Copynumber: 5.8 Consensus size: 51
39312018 CGGATTCACA
* * *
39312028 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
39312079 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
*** * *
39312130 TAGTAGCCTGCACATAGTACTACACATACGACCTATC-GT-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* * * * *
39312180 TAGTAGCCTACATATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* * * * *
39312231 TAGTAGCTTGCACATAGTACTACACATGCGGCCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
* *
39312281 TAGTACCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
39312320 TTCACTTTCA
Statistics
Matches: 188, Mismatches: 40, Indels: 27
0.74 0.16 0.11
Matches are distributed among these distances:
49 4 0.02
50 75 0.40
51 106 0.56
52 2 0.01
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:39312205 original size:101 final size:101
Alignment explanation
Indices: 39312026--39312311 Score: 448
Period size: 101 Copynumber: 2.8 Consensus size: 101
39312016 TGCGGATTCA
* * * *
39312026 CATAGTAGCATGCACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTGC
1 CATAGTAGCATGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
39312090 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
64 ACATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * *
39312128 CATAGTAGCCTGCACATAGTACTACACATACGACCTATCGTTCTGGTACACGTAGTAGCCTACAT
1 CATAGTAGCATGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
39312193 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * *
39312229 CATAGTAGCTTGCACATAGTACTACACATGCGGCCTATCATTCTGGTACACGTAGTACCCTACAC
1 CATAGTAGCATGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
39312294 ATAGTACTACACACGTGA
66 ATAGTACTACACACGTGA
39312312 CCATCACTTT
Statistics
Matches: 169, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
101 133 0.79
102 33 0.20
103 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCTATCATTCTGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:39315616 original size:36 final size:36
Alignment explanation
Indices: 39315575--39315981 Score: 248
Period size: 36 Copynumber: 10.9 Consensus size: 36
39315565 AACAGTTTCC
*
39315575 TGATTTACTATTGCGACTGTCATTTTTACAGTTCGC
1 TGATTTACTATTGCGACTGTCATTTTTACAGTTCGT
* * * *
39315611 AGATTTACTATTCGAGACTGTCATTTTTAC-GGTCTAT
1 TGATTTACTATT-GCGACTGTCATTTTTACAGTTC-GT
* * * * *
39315648 TGATTTAGTATCGCGACCT-TTAGTTTTCTAACAGTTTGC
1 TGATTTACTATTGCGA-CTGTCA-TTTT-T-ACAGTTCGT
* * *
39315687 TGATTTACTATTTCGACTGTCATTTTTACGGTACGT
1 TGATTTACTATTGCGACTGTCATTTTTACAGTTCGT
* * * ***
39315723 GGATTTACTATCGCGACTGTCATTTTTACAATTAAC
1 TGATTTACTATTGCGACTGTCATTTTTACAGTTCGT
* * * *
39315759 TGATTTACTATTGCAACTTTCATTTTTACGGTACGT
1 TGATTTACTATTGCGACTGTCATTTTTACAGTTCGT
* *
39315795 GGATATACTATTGCGACCT-TCATTTTTCTAACAGTTCGT
1 TGATTTACTATTGCGA-CTGTCA-TTTT-T-ACAGTTCGT
* * *
39315834 TGATTTACTATTGCGACTGTTATTTTTACGGTCCGT
1 TGATTTACTATTGCGACTGTCATTTTTACAGTTCGT
* * * *
39315870 TGATTTATTATCGCCACCT-TACCTTTGATTTTCTAACAGTTCGC
1 TGATTTACTATTGCGA-CTGT--C----ATTTT-T-ACAGTTCGT
* * * *
39315914 TAATTTACTATCGCGACTATCATTTTTACAGTTTGCT
1 TGATTTACTATTGCGACTGTCATTTTTACAGTTCG-T
** *
39315951 T-ATTTACTATTGTAACTATCATTTTTACAGT
1 TGATTTACTATTGCGACTGTCATTTTTACAGT
39315982 CCGCTAATTT
Statistics
Matches: 281, Mismatches: 66, Indels: 48
0.71 0.17 0.12
Matches are distributed among these distances:
36 148 0.53
37 43 0.15
38 19 0.07
39 40 0.14
40 2 0.01
42 6 0.02
43 3 0.01
44 20 0.07
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.45
Consensus pattern (36 bp):
TGATTTACTATTGCGACTGTCATTTTTACAGTTCGT
Found at i:39315717 original size:75 final size:76
Alignment explanation
Indices: 39315576--39315942 Score: 333
Period size: 75 Copynumber: 4.9 Consensus size: 76
39315566 ACAGTTTCCT
* * * *
39315576 GATTTACTATTGCGA-CTGTCA-TTTT-T-ACAGTTCGCAGATTTACTATTCGAGACTGTCATTT
1 GATTTACTATCGCGACCTCTCAGTTTTCTAACAGTTCGCTGATTTACTATT-GCGACTGTCATTT
* *
39315637 TTACGGT-CTATT
65 TTACGGTAC-GTG
* * * *
39315649 GATTTAGTATCGCGACCT-TTAGTTTTCTAACAGTTTGCTGATTTACTATTTCGACTGTCATTTT
1 GATTTACTATCGCGACCTCTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTT
39315713 TACGGTACGTG
66 TACGGTACGTG
* * ** * *
39315724 GATTTACTATCGCGA-CTGTCA-TTTT-T-ACAATTAACTGATTTACTATTGCAACTTTCATTTT
1 GATTTACTATCGCGACCTCTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTT
39315785 TACGGTACGTG
66 TACGGTACGTG
* * * * *
39315796 GATATACTATTGCGACCT-TCATTTTTCTAACAGTTCGTTGATTTACTATTGCGACTGTTATTTT
1 GATTTACTATCGCGACCTCTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTT
* *
39315860 TACGGTCCGTT
66 TACGGTACGTG
* * ** * * *
39315871 GATTTATTATCGCCACCTTACCTTTGATTTTCTAACAGTTCGCTAATTTACTATCGCGACTATCA
1 GATTTACTATCGCGACC-T--CTCAG-TTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCA
39315936 TTTTTAC
62 TTTTTAC
39315943 AGTTTGCTTA
Statistics
Matches: 239, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
72 56 0.23
73 22 0.09
74 13 0.05
75 86 0.36
76 21 0.09
79 1 0.00
80 40 0.17
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (76 bp):
GATTTACTATCGCGACCTCTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTT
TACGGTACGTG
Found at i:39315843 original size:147 final size:148
Alignment explanation
Indices: 39315576--39315883 Score: 397
Period size: 147 Copynumber: 2.1 Consensus size: 148
39315566 ACAGTTTCCT
* * **
39315576 GATTTACTATTGCGACTGTCATTTTTACAGTTCGCAGATTTACTATTCGAGACTGTCATTTTTAC
1 GATTTACTATCGCGACTGTCATTTTTACAATTAACAGATTTACTATTCGAGACTGTCATTTTTAC
* * * * * *
39315641 GGTCTATTGATTTAGTATCGCGACCTTTAGTTTTCTAACAGTTTGCTGATTTACTATTTCGACTG
66 GGTCTATGGATATACTATCGCGACCTTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGACTG
39315706 TCATTTTTACGGTACGTG
131 TCATTTTTACGGTACGTG
* *
39315724 GATTTACTATCGCGACTGTCATTTTTACAATTAACTGATTTACTATT-GCA-ACTTTCATTTTTA
1 GATTTACTATCGCGACTGTCATTTTTACAATTAACAGATTTACTATTCG-AGACTGTCATTTTTA
* * * *
39315787 CGGTAC-GTGGATATACTATTGCGACCTTCATTTTTCTAACAGTTCGTTGATTTACTATTGCGAC
65 CGGT-CTATGGATATACTATCGCGACCTTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGAC
* * *
39315851 TGTTATTTTTACGGTCCGTT
129 TGTCATTTTTACGGTACGTG
*
39315871 GATTTATTATCGC
1 GATTTACTATCGC
39315884 CACCTTACCT
Statistics
Matches: 138, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
147 94 0.68
148 44 0.32
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (148 bp):
GATTTACTATCGCGACTGTCATTTTTACAATTAACAGATTTACTATTCGAGACTGTCATTTTTAC
GGTCTATGGATATACTATCGCGACCTTCAGTTTTCTAACAGTTCGCTGATTTACTATTGCGACTG
TCATTTTTACGGTACGTG
Found at i:39316034 original size:75 final size:75
Alignment explanation
Indices: 39315941--39316111 Score: 198
Period size: 75 Copynumber: 2.3 Consensus size: 75
39315931 TATCATTTTT
* * * * * * *
39315941 ACAGTTTGCTTATTTACTATTGTAACTATCATTTTTACAGTCCGCTAATTTTTGATCATGACCTT
1 ACAGTTCGCTAATTTACTATCGTAACTATCATTTTTACAATCCACTAATTTTTGATCACGACATT
*
39316006 CGATTTCCTA
66 CAATTTCCTA
* * * *
39316016 ACAGTTCGCTAATTTACTATCGTGACTATCATTTTTACAATTCACTAATTTTTTATCGCGACATT
1 ACAGTTCGCTAATTTACTATCGTAACTATCATTTTTACAATCCACTAATTTTTGATCACGACATT
*
39316081 CAATTTTCTA
66 CAATTTCCTA
* * *
39316091 GCAGTTCACTGATTTACTATC
1 ACAGTTCGCTAATTTACTATC
39316112 ACGTCTGTCA
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 80 1.00
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (75 bp):
ACAGTTCGCTAATTTACTATCGTAACTATCATTTTTACAATCCACTAATTTTTGATCACGACATT
CAATTTCCTA
Found at i:39316073 original size:36 final size:36
Alignment explanation
Indices: 39315905--39316111 Score: 168
Period size: 36 Copynumber: 5.6 Consensus size: 36
39315895 TGATTTTCTA
*
39315905 ACAGTTCGCTAATTTACTATCGCGACTATCATTTTT
1 ACAGTTCGCTAATTTACTATCGTGACTATCATTTTT
* * * *
39315941 ACAGTTTGCTTATTTACTATTGTAACTATCATTTTT
1 ACAGTTCGCTAATTTACTATCGTGACTATCATTTTT
* * * *
39315977 ACAGTCCGCTAATTT-TTGATCATGACCT-TCGATTTCCTA
1 ACAGTTCGCTAATTTACT-ATCGTGA-CTATC-ATTT--TT
39316016 ACAGTTCGCTAATTTACTATCGTGACTATCATTTTT
1 ACAGTTCGCTAATTTACTATCGTGACTATCATTTTT
* * ** *
39316052 ACAATTCACTAATTTTTTATCGCGAC-ATTCAATTTTCT
1 ACAGTTCGCTAATTTACTATCGTGACTA-TC-ATTTT-T
* *
39316090 AGCAGTTCACTGATTTACTATC
1 A-CAGTTCGCTAATTTACTATC
39316112 ACGTCTGTCA
Statistics
Matches: 134, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
35 2 0.01
36 73 0.54
37 11 0.08
38 8 0.06
39 39 0.29
40 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (36 bp):
ACAGTTCGCTAATTTACTATCGTGACTATCATTTTT
Found at i:39316123 original size:75 final size:75
Alignment explanation
Indices: 39315965--39316128 Score: 184
Period size: 75 Copynumber: 2.2 Consensus size: 75
39315955 TACTATTGTA
* * * * * *
39315965 ACTATCATTTTTACAGTCCGCTAATTTTTGATCATGACCTTCGATTTCCTAACAGTTCGCTAATT
1 ACTATCATTTTTACAATCCACTAATTTTTGATCACGACATTCAATTTCCTAACAGTTCACTAATT
**
39316030 TACTATCGTG
66 TACTATCACG
* * * * * *
39316040 ACTATCATTTTTACAATTCACTAATTTTTTATCGCGACATTCAATTTTCTAGCAGTTCACTGATT
1 ACTATCATTTTTACAATCCACTAATTTTTGATCACGACATTCAATTTCCTAACAGTTCACTAATT
39316105 TACTATCACG
66 TACTATCACG
* *
39316115 TCTGTCATTTTTAC
1 ACTATCATTTTTAC
39316129 TGTGTAACAC
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (75 bp):
ACTATCATTTTTACAATCCACTAATTTTTGATCACGACATTCAATTTCCTAACAGTTCACTAATT
TACTATCACG
Found at i:39316572 original size:56 final size:56
Alignment explanation
Indices: 39316504--39316609 Score: 149
Period size: 56 Copynumber: 1.9 Consensus size: 56
39316494 TATAAGCTCT
* ** * * *
39316504 CTGACTTGGGTCACACGGCCAAGTCATACGCCCGTGTGATAGGCCGTGTGGGTATA
1 CTGACTTAGGTCACACGGCCAAACCACACGCCCATGTGATAGGCCATGTGGGTATA
*
39316560 CTGACTTAGGTCACACGGCCAAACCACACGCCCATGTGCTAGGCCATGTG
1 CTGACTTAGGTCACACGGCCAAACCACACGCCCATGTGATAGGCCATGTG
39316610 AGCAATTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 43 1.00
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.21
Consensus pattern (56 bp):
CTGACTTAGGTCACACGGCCAAACCACACGCCCATGTGATAGGCCATGTGGGTATA
Found at i:39328844 original size:5 final size:5
Alignment explanation
Indices: 39328825--39328890 Score: 77
Period size: 5 Copynumber: 13.6 Consensus size: 5
39328815 TTAGTTTATT
39328825 TAATA T-ATAA TAATA TAATA TAATA TAAT- TAATA TAATA TAATA T-ATAA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAAT-A
*
39328874 TAAAA TAATA T-ATA TAA
1 TAATA TAATA TAATA TAA
39328891 AACATAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
4 12 0.23
5 38 0.72
6 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:39328876 original size:29 final size:30
Alignment explanation
Indices: 39328824--39328890 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
39328814 TTTAGTTTAT
*
39328824 TTAATAT-ATAATAATATAATATAATATAA
1 TTAATATAATAATAATATAATATAAAATAA
39328853 TTAATATAAT-ATAATAT-ATAATAAAATAA
1 TTAATATAATAATAATATAAT-ATAAAATAA
39328882 -TATATATAA
1 TTA-ATATAA
39328891 AACATAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 4 0.12
29 28 0.82
30 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TTAATATAATAATAATATAATATAAAATAA
Found at i:39328888 original size:24 final size:24
Alignment explanation
Indices: 39328831--39328891 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
39328821 TATTTAATAT
39328831 ATAATA-ATAT-AATATAATATAA
1 ATAATATATATAAATATAATATAA
*
39328853 TTAATATAATATAATATATAATA-AA
1 ATAATAT-ATATAA-ATATAATATAA
39328878 ATAATATATATAAA
1 ATAATATATATAAA
39328892 ACATAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
22 5 0.15
23 1 0.03
24 10 0.30
25 9 0.27
26 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATATATATAAATATAATATAA
Found at i:39329217 original size:50 final size:50
Alignment explanation
Indices: 39329135--39329241 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
39329125 TCATTACAGT
* * * *
39329135 TCTCATATCGGTGCCCATGCCATGTTCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTGCCAACGCCATGTTCCAGACATGGTCTTACAGGAGACC
* *
39329185 TCTCATCTCGGTGCCAACGCCATG-TCCGAGACATGGTCTTACATGAGACC
1 TCTCATATCGGTGCCAACGCCATGTTCC-AGACATGGTCTTACAGGAGACC
39329235 TCTCATA
1 TCTCATA
39329242 ACCTCAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
49 3 0.06
50 46 0.94
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTTCCAGACATGGTCTTACAGGAGACC
Found at i:39332441 original size:25 final size:25
Alignment explanation
Indices: 39332369--39332433 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
39332359 TTTCAAAACA
*
39332369 TATAATGGGAAGCTCATATGAGCTG
1 TATAACGGGAAGCTCATATGAGCTG
39332394 TATAACGGGAAGCTCATATGAGCTG
1 TATAACGGGAAGCTCATATGAGCTG
39332419 TATAACGGGAAGCTC
1 TATAACGGGAAGCTC
39332434 TTGCGAGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (25 bp):
TATAACGGGAAGCTCATATGAGCTG
Found at i:39334134 original size:36 final size:36
Alignment explanation
Indices: 39334027--39334529 Score: 273
Period size: 36 Copynumber: 13.5 Consensus size: 36
39334017 TGATTTTCTA
** * *
39334027 ACAGTTCATTGATTTCCTATTGCGACTGTCATTTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* * * * * *
39334063 ACAGTTCGCTAATTTATTATCGTGATTTTCTTTTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* * *
39334099 ACAATTCGCTGATTTACTCTCGCGATTGTCATTTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
** * *
39334135 ATGGTCCGCTGATTTACTATTGCGACCT-TCAGTTTTCT
1 ACAGTTCGCTGATTTACTATCGCGA-CTGTCA-TTTT-T
* * * *
39334173 AACATTTCGTTGATTTACTATTGCAACTGTCATTTTT
1 -ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* ** *
39334210 ACAGTTCGCTAATTTACTATCATGACTTTCA-TTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* * * *
39334245 ACAATTCGTTGATTTAATATCGAGACTGTCATTTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* *
39334281 A-TGGTCTGCTGATTTACTATCGCGACCT-TCAGTTTTCT
1 ACAGTTC-GCTGATTTACTATCGCGA-CTGTCA-TTTT-T
* * * * *
39334319 AACAATTTACGACCTGTTAATTTTCGATTGCGACCT-TCAGGTTTCT
1 -AC-AGTT-CG--CTG---ATTTACTATCGCGA-CTGTCA--TTTTT
* * *
39334365 ATTAGTTCGTTGATTTACTATCGCAACTGTCATTTTT
1 A-CAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* * * *
39334402 AC-GGTCTGCTGATTTACTATTGTGACCT-TCGGTTTTTT
1 ACAGTTC-GCTGATTTACTATCGCGA-CTGTC--ATTTTT
* *
39334440 AGCAGTTCGCTAATTTACTATCTCGACTGTCATTTTT
1 A-CAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* * * *
39334477 ACAGTTCGCTAATTTAGTATCACAACTGTCATTTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
* *
39334513 TCAGTTTGCTGATTTAC
1 ACAGTTCGCTGATTTAC
39334530 AAATTTTTTC
Statistics
Matches: 352, Mismatches: 86, Indels: 58
0.71 0.17 0.12
Matches are distributed among these distances:
35 33 0.09
36 184 0.52
37 25 0.07
38 18 0.05
39 53 0.15
40 3 0.01
41 2 0.01
42 3 0.01
43 3 0.01
44 2 0.01
45 4 0.01
46 18 0.05
47 4 0.01
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (36 bp):
ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTT
Found at i:39334260 original size:35 final size:35
Alignment explanation
Indices: 39334178--39334279 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 35
39334168 TTTCTAACAT
*
39334178 TTCGTTGATTTACTAT--TGCAACTGTCATTTTTACAG
1 TTCGTTGATTTACTATCATG--ACTGTCA-TTTTACAA
* * *
39334214 TTCGCTAATTTACTATCATGACTTTCATTTTACAA
1 TTCGTTGATTTACTATCATGACTGTCATTTTACAA
*
39334249 TTCGTTGATTTAATATCGA-GACTGTCATTTT
1 TTCGTTGATTTACTATC-ATGACTGTCATTTT
39334280 TATGGTCTGC
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
35 32 0.58
36 21 0.38
38 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.47
Consensus pattern (35 bp):
TTCGTTGATTTACTATCATGACTGTCATTTTACAA
Found at i:39334310 original size:146 final size:147
Alignment explanation
Indices: 39333987--39334322 Score: 487
Period size: 147 Copynumber: 2.3 Consensus size: 147
39333977 AGCTGTTACA
* * * * *
39333987 TATGGTCCGTTGATTTCCTATTGCGACCTT-TGATTTTCTAACAGTTCATTGATTTCCTATTGCG
1 TATGGTCCGCTGATTTACTATTGCGACCTTCAG-TTTTCTAACAGTTCATTGATTTACTATTGCA
* * * * *
39334051 ACTGTCATTTTTACAGTTCGCTAATTTATTATCGTGATTTTCTTTTTTACAATTCGCTGATTTAC
65 ACTGTCATTTTTACAGTTCGCTAATTTACTATCATGACTTTCTATTTTACAATTCGCTGATTTAA
* * *
39334116 TCTCGCGATTGTCATTTT
130 TATCGAGACTGTCATTTT
* *
39334134 TATGGTCCGCTGATTTACTATTGCGACCTTCAGTTTTCTAACATTTCGTTGATTTACTATTGCAA
1 TATGGTCCGCTGATTTACTATTGCGACCTTCAGTTTTCTAACAGTTCATTGATTTACTATTGCAA
*
39334199 CTGTCATTTTTACAGTTCGCTAATTTACTATCATGACTTTC-ATTTTACAATTCGTTGATTTAAT
66 CTGTCATTTTTACAGTTCGCTAATTTACTATCATGACTTTCTATTTTACAATTCGCTGATTTAAT
39334263 ATCGAGACTGTCATTTT
131 ATCGAGACTGTCATTTT
* *
39334280 TATGGTCTGCTGATTTACTATCGCGACCTTCAGTTTTCTAACA
1 TATGGTCCGCTGATTTACTATTGCGACCTTCAGTTTTCTAACA
39334323 ATTTACGACC
Statistics
Matches: 170, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
146 75 0.44
147 94 0.55
148 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (147 bp):
TATGGTCCGCTGATTTACTATTGCGACCTTCAGTTTTCTAACAGTTCATTGATTTACTATTGCAA
CTGTCATTTTTACAGTTCGCTAATTTACTATCATGACTTTCTATTTTACAATTCGCTGATTTAAT
ATCGAGACTGTCATTTT
Found at i:39334937 original size:89 final size:88
Alignment explanation
Indices: 39334756--39335008 Score: 294
Period size: 89 Copynumber: 2.8 Consensus size: 88
39334746 TTAAGGGTGT
* * *
39334756 AAAAAG-CCCTTAAAATTTTTCAGAAAAAGAAATTAAGCCCCTACTTTTTTTTGTACTCATTTGG
1 AAAAAGACCCTTAAACTTTTTCA-AAAAAGAAATTAAGCCCCTACTTTTTTTTGCACTCAATTGG
* * *
39334820 GTACTTGAACTTTCACAATGCATC
65 GTACTTGAACTTTCAAAATGAATA
* * * *
39334844 AAAAAGACCCTCAAACTTTTTCAAAAAGAGCAATTAAGCCCTTACTCTTTTTTTGCACTTAATTG
1 AAAAAGACCCTTAAACTTTTTCAAAAA-AGAAATTAAGCCCCTACT-TTTTTTTGCACTCAATTG
*
39334909 AGTACTTGAACTTTCAAAATGAATA
64 GGTACTTGAACTTTCAAAATGAATA
* * * * *
39334934 AAAAAGACTCTTTAACTTTTT-AAAAAAGGAAGTAAGCCCCTGCTTTTTTTGTTGCACTCAATTG
1 AAAAAGACCCTTAAACTTTTTCAAAAAAGAAATTAAGCCCCTAC-TTTTTT-TTGCACTCAATTG
*
39334998 GGTATTTGAAC
64 GGTACTTGAAC
39335009 CACCCCTAAA
Statistics
Matches: 139, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
88 28 0.20
89 57 0.41
90 54 0.39
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (88 bp):
AAAAAGACCCTTAAACTTTTTCAAAAAAGAAATTAAGCCCCTACTTTTTTTTGCACTCAATTGGG
TACTTGAACTTTCAAAATGAATA
Found at i:39335538 original size:9 final size:9
Alignment explanation
Indices: 39335525--39335567 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
39335515 TATTTTTCTT
39335525 AATTTTATA
1 AATTTTATA
* *
39335534 TATTTTTTA
1 AATTTTATA
*
39335543 AATTTAATA
1 AATTTTATA
*
39335552 ACTTTTATA
1 AATTTTATA
39335561 AATTTTA
1 AATTTTA
39335568 ATGATTTATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTTTATA
Found at i:39335981 original size:12 final size:11
Alignment explanation
Indices: 39335961--39335998 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 11
39335951 ACATGTTGAA
39335961 TTTTAATTAAT
1 TTTTAATTAAT
39335972 TTTATAATTAAT
1 TTT-TAATTAAT
39335984 TTTT-ATTAAT
1 TTTTAATTAAT
39335994 TTTTA
1 TTTTA
39335999 TTATTTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.40
11 4 0.16
12 11 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTAATTAAT
Found at i:39336004 original size:9 final size:10
Alignment explanation
Indices: 39335959--39336005 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
39335949 TAACATGTTG
*
39335959 AATTTTAATT
1 AATTTTTATT
39335969 AATTTTATAATT
1 AATTTT-T-ATT
39335981 AATTTTTATT
1 AATTTTTATT
39335991 AATTTTTATT
1 AATTTTTATT
39336001 -ATTTT
1 AATTTT
39336006 CGACAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.15
10 19 0.56
11 1 0.03
12 9 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTTTTATT
Found at i:39336592 original size:25 final size:25
Alignment explanation
Indices: 39336547--39336597 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
39336537 ACTCTTCTCA
* *
39336547 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTATTC
*
39336572 TCTCTTCATTTCCCT-TCCATTATTC
1 TCTCTTCACTTCCCTCT-CATTATTC
39336597 T
1 T
39336598 TCATTCCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTATTC
Found at i:39342666 original size:29 final size:29
Alignment explanation
Indices: 39342634--39342775 Score: 126
Period size: 29 Copynumber: 4.8 Consensus size: 29
39342624 GTGATAGCTT
*
39342634 CAACTATCGATTATGAAAAGGGATGGTGA
1 CAACCATCGATTATGAAAAGGGATGGTGA
* * *
39342663 CAACCATCAACTATGAAAAGGAATGGTGA
1 CAACCATCGATTATGAAAAGGGATGGTGA
* * * *
39342692 CGACCATCAAATTATGAAAAGGGATAGCT-T
1 CAACCATC-GATTATGAAAAGGGAT-GGTGA
* *
39342722 CGAA-TATCGATTATGAAACGGGATGGTGA
1 C-AACCATCGATTATGAAAAGGGATGGTGA
**
39342751 TGACCATCGAATTATGAAAAGGGAT
1 CAACCATCG-ATTATGAAAAGGGAT
39342776 AGCTTCGGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
28 3 0.03
29 50 0.57
30 32 0.36
31 3 0.03
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (29 bp):
CAACCATCGATTATGAAAAGGGATGGTGA
Found at i:39342712 original size:59 final size:59
Alignment explanation
Indices: 39342643--39342779 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 59
39342633 TCAACTATCG
*
39342643 ATTATGAAAAGGGAT-GGTGAC-AACCATCAACTATGAAAAGGAATGGTGACGACCATCAA
1 ATTATGAAAAGGGATAGCT-ACGAA-CATCAACTATGAAAAGGAATGGTGACGACCATCAA
* * * * * * * *
39342702 ATTATGAAAAGGGATAGCTTCGAATATCGATTATGAAACGGGATGGTGATGACCATCGA
1 ATTATGAAAAGGGATAGCTACGAACATCAACTATGAAAAGGAATGGTGACGACCATCAA
39342761 ATTATGAAAAGGGATAGCT
1 ATTATGAAAAGGGATAGCT
39342780 TCGGCTATCG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 63 0.94
60 4 0.06
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (59 bp):
ATTATGAAAAGGGATAGCTACGAACATCAACTATGAAAAGGAATGGTGACGACCATCAA
Found at i:39342780 original size:59 final size:59
Alignment explanation
Indices: 39342674--39342818 Score: 227
Period size: 59 Copynumber: 2.5 Consensus size: 59
39342664 AACCATCAAC
* * *
39342674 TATGAAAAGGAATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGAATATCGAT
1 TATGAAACGGGATGGTGATGACCATCAAATTATGAAAAGGGATAGCTTCGAATATCGAT
* **
39342733 TATGAAACGGGATGGTGATGACCATCGAATTATGAAAAGGGATAGCTTCGGCTATCGAT
1 TATGAAACGGGATGGTGATGACCATCAAATTATGAAAAGGGATAGCTTCGAATATCGAT
*
39342792 TATGAAACGAGATGGTGATGACCATCA
1 TATGAAACGGGATGGTGATGACCATCA
39342819 TGATTCCACT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (59 bp):
TATGAAACGGGATGGTGATGACCATCAAATTATGAAAAGGGATAGCTTCGAATATCGAT
Found at i:39349696 original size:40 final size:40
Alignment explanation
Indices: 39349652--39349736 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
39349642 CGGTTGGATA
* * * *
39349652 AAAAACGCTACTATAGATTGAGCATTAGTGGCGCCTTTTG
1 AAAAACGCCACTATAAATCGAGCATTAGTAGCGCCTTTTG
* *
39349692 AAAAACGCCGCTATAAATCGAGCATTAGTAGCGCTTTTTG
1 AAAAACGCCACTATAAATCGAGCATTAGTAGCGCCTTTTG
39349732 AAAAA
1 AAAAA
39349737 TGACGCTCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (40 bp):
AAAAACGCCACTATAAATCGAGCATTAGTAGCGCCTTTTG
Found at i:39349831 original size:40 final size:40
Alignment explanation
Indices: 39349752--39349853 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
39349742 CTCCACTAGT
* *
39349752 GGCGCCTTTTGAAAAACGCCGCTATAGGTCAACCATTAGC
1 GGCGCTTTTTGAAAAACGCCGCTATAGATCAACCATTAGC
** * *
39349792 GGCGCTTTTTGAAAAACGCCGCTATAGATTGAGCTTTAGC
1 GGCGCTTTTTGAAAAACGCCGCTATAGATCAACCATTAGC
* * *
39349832 GGCACTTTATCAAAAACGCCGC
1 GGCGCTTTTTGAAAAACGCCGC
39349854 AAAAAATATT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
GGCGCTTTTTGAAAAACGCCGCTATAGATCAACCATTAGC
Found at i:39350231 original size:51 final size:51
Alignment explanation
Indices: 39350176--39350291 Score: 214
Period size: 51 Copynumber: 2.3 Consensus size: 51
39350166 TAGGGTATAT
*
39350176 GGTTTAGGGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATTATG
1 GGTTTAGGGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATCATG
*
39350227 GGTTTAGGATTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATCATG
1 GGTTTAGGGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATCATG
39350278 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
39350292 ATGGTTTATG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.44
Consensus pattern (51 bp):
GGTTTAGGGTTTAAGATTTAAGAGTTACTATTTTAAGGTTTATGGATCATG
Found at i:39350312 original size:31 final size:30
Alignment explanation
Indices: 39350263--39350348 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 30
39350253 ACTATTTTAA
*
39350263 GGTTTATGGATCATGGGTTTAGGGTTTAAAT
1 GGTTTATGGATCAAGGG-TTAGGGTTTAAAT
* * *
39350294 GGTTTATGGTTGAAGGGTTGGGGTTT-AA-
1 GGTTTATGGATCAAGGGTTAGGGTTTAAAT
* *
39350322 GGTTTA-GGAGTTAGGGGTTAGGGTTTA
1 GGTTTATGGA-TCAAGGGTTAGGGTTTA
39350349 TATTTTATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.04
28 19 0.42
29 2 0.04
30 8 0.18
31 14 0.31
ACGTcount: A:0.20, C:0.01, G:0.40, T:0.40
Consensus pattern (30 bp):
GGTTTATGGATCAAGGGTTAGGGTTTAAAT
Found at i:39352303 original size:43 final size:43
Alignment explanation
Indices: 39352255--39352562 Score: 316
Period size: 43 Copynumber: 7.2 Consensus size: 43
39352245 AAATATTTTT
* *
39352255 TAAAGGTCATATTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * *
39352298 TAAAGGTCATGGTCTGTAGCGGCGTTTTTGGG-AAAGCGCCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * *
39352340 TAAAGGTCTTGTTCTTTAGCGGCATTTGTGAGAAAAGCGCTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
39352383 TAAAGGTCATGTTCTGTAGCGGCGCTTGCGGAAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
39352426 TAAAGGTCTTGTT-TTATAGCGGCGTTTGTGGGAAAAACGCCAC
1 TAAAGGTCATGTTCTT-TAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
39352469 TAAATGTCTTGTTCTATAGCGGCGTTTGT-GAAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
39352511 TAAAAGTCATGTTATATAGCGGCGTTTATAGGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
39352554 TAAAAGTCA
1 TAAAGGTCA
39352563 ATAACTTTGC
Statistics
Matches: 217, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
42 70 0.32
43 146 0.67
44 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:39352399 original size:85 final size:86
Alignment explanation
Indices: 39352255--39352562 Score: 334
Period size: 85 Copynumber: 3.6 Consensus size: 86
39352245 AAATATTTTT
* * * *
39352255 TAAAGGTCATATTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTGTAGCGG
** * *
39352320 CGTTTTTGG-GAAAGCGCCGG
66 CGTTTGCGGAAAAAGCGCCGC
* * *
39352340 TAAAGGTCTTGTTCTTTAGCGGCATTTGTGAGAAAAGCGCTGCTAAAGGTCATGTTCTGTAGCGG
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTGTAGCGG
* *
39352405 CGCTTGCGGAAAAAGTGCCGC
66 CGTTTGCGGAAAAAGCGCCGC
* * * * *
39352426 TAAAGGTCTTGTT-TTATAGCGGCGTTTGTGGGAAAAACGCCACTAAATGTCTTGTTCTATAGCG
1 TAAAGGTCTTGTTCTT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTGTAGCG
* *
39352490 GCGTTTG-TGAAAAAGTGCCGC
65 GCGTTTGCGGAAAAAGCGCCGC
* * * * * * * *
39352511 TAAAAGTCATGTTATATAGCGGCGTTTATAGGAAAAGCGTCGCTAAAAGTCA
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
39352563 ATAACTTTGC
Statistics
Matches: 187, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
85 119 0.64
86 68 0.36
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (86 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTGTAGCGG
CGTTTGCGGAAAAAGCGCCGC
Found at i:39352504 original size:128 final size:128
Alignment explanation
Indices: 39352255--39352534 Score: 337
Period size: 128 Copynumber: 2.2 Consensus size: 128
39352245 AAATATTTTT
* * * * * * *
39352255 TAAAGGTCATATTCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGCTTGCGGAAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
* * ** * *
39352320 CGTTTTTGGGAAAGCGCCGGTAAAGGTCTTGTTCTTTAGCGGCATTTGTGAGAAAAGCGCTGC
66 CGTTTGTGGGAAAACGCCACTAAAGGTCTTGTTCTATAGCGGCATTTGTGAGAAAAGCGCCGC
* * * * *
39352383 TAAAGGTCATGTTCTGTAGCGGCGCTTGCGGAAAAAGTGCCGCTAAAGGTCTTGTTTTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGCTTGCGGAAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
* * *
39352448 CGTTTGTGGGAAAAACGCCACTAAATGTCTTGTTCTATAGCGGCGTTTGTGA-AAAAGTGCCGC
66 CGTTTGTGGG-AAAACGCCACTAAAGGTCTTGTTCTATAGCGGCATTTGTGAGAAAAGCGCCGC
* *
39352511 TAAAAGTCATGTTATATAGCGGCG
1 TAAAGGTCATGTTCTATAGCGGCG
39352535 TTTATAGGAA
Statistics
Matches: 128, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
128 93 0.73
129 35 0.27
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (128 bp):
TAAAGGTCATGTTCTATAGCGGCGCTTGCGGAAAAAGCGCCGCTAAAGGTCATGGTCTATAGCGG
CGTTTGTGGGAAAACGCCACTAAAGGTCTTGTTCTATAGCGGCATTTGTGAGAAAAGCGCCGC
Found at i:39356617 original size:21 final size:21
Alignment explanation
Indices: 39356576--39356618 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
39356566 TTAAATCATG
*
39356576 AGATCTATTAAAATTTCAATT
1 AGATCTATTAAAATCTCAATT
39356597 AGATCTATTAAAA-CTCGAATT
1 AGATCTATTAAAATCTC-AATT
39356618 A
1 A
39356619 AAACATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
AGATCTATTAAAATCTCAATT
Found at i:39356985 original size:16 final size:16
Alignment explanation
Indices: 39356961--39356994 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39356951 TCTCTCCCTT
* *
39356961 TTTCTATTAAATCTCA
1 TTTCAATTAAAACTCA
39356977 TTTCAATTAAAACTCA
1 TTTCAATTAAAACTCA
39356993 TT
1 TT
39356995 ATTTTCACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTCAATTAAAACTCA
Found at i:39359752 original size:34 final size:32
Alignment explanation
Indices: 39359712--39359820 Score: 121
Period size: 34 Copynumber: 3.3 Consensus size: 32
39359702 ACAAAATATA
*
39359712 AAAATAAAATATTTAAAATGTTTTAATATGATTT
1 AAAATAAAATATTT-AAAT-TTTTAATATAATTT
**
39359746 AAAATAAAATATTT-AATTTCAAAATATAATTT
1 AAAATAAAATATTTAAATTT-TTAATATAATTT
*
39359778 AAAATAAAATATTTTAAACATTTTAATATAATTT
1 AAAATAAAATA-TTTAAA-TTTTTAATATAATTT
*
39359812 AATATAAAA
1 AAAATAAAA
39359821 ATAATTATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
31 2 0.03
32 23 0.36
33 3 0.05
34 34 0.53
35 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
AAAATAAAATATTTAAATTTTTAATATAATTT
Found at i:39359756 original size:17 final size:16
Alignment explanation
Indices: 39359736--39359795 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
39359726 AAAATGTTTT
39359736 AATATGATTTAAAAT-A
1 AATAT-ATTTAAAATAA
**
39359752 AA-ATATTTAATTTCAA
1 AATATATTTAAAAT-AA
39359768 AATATAATTTAAAATAA
1 AATAT-ATTTAAAATAA
39359785 AATAT-TTTAAA
1 AATATATTTAAA
39359796 CATTTTAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
14 7 0.19
15 8 0.22
16 5 0.14
17 9 0.25
18 7 0.19
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
AATATATTTAAAATAA
Found at i:39359834 original size:39 final size:39
Alignment explanation
Indices: 39359768--39359873 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 39
39359758 TTAATTTCAA
* * *
39359768 AATATAATTTAAAAT-AAAAT-A-T-T-TTAAACATTTT
1 AATATAATTTAATATAAAAATAATTATATTAAAAATATT
39359802 AATATAATTTAATATAAAAATAATTATATTAAAAATATT
1 AATATAATTTAATATAAAAATAATTATATTAAAAATATT
* * *
39359841 -AT-TAATTTATATTTAATAATACTTATATTAAAA
1 AATATAATTTA-ATATAAAAATAATTATATTAAAA
39359874 TATGATTACA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 14 0.23
35 5 0.08
36 1 0.02
37 8 0.13
38 23 0.38
39 9 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (39 bp):
AATATAATTTAATATAAAAATAATTATATTAAAAATATT
Found at i:39359892 original size:38 final size:38
Alignment explanation
Indices: 39359806--39359881 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 38
39359796 CATTTTAATA
* * *
39359806 TAATTTA-ATATAAAAATAATTATATTAAAAATATTAT
1 TAATTTATATTTAATAATAATTATATTAAAAATATGAT
*
39359843 TAATTTATATTTAATAATACTTATATT-AAAATATGAT
1 TAATTTATATTTAATAATAATTATATTAAAAATATGAT
39359880 TA
1 TA
39359882 CATTATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 18 0.53
38 16 0.47
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (38 bp):
TAATTTATATTTAATAATAATTATATTAAAAATATGAT
Found at i:39366166 original size:17 final size:16
Alignment explanation
Indices: 39366141--39366172 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
39366131 TGGGTTGAGA
39366141 AAATTATTTAATTAAG
1 AAATTATTTAATTAAG
39366157 AAATTAATTTAATTAA
1 AAATT-ATTTAATTAA
39366173 TTTGATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATTATTTAATTAAG
Found at i:39372128 original size:16 final size:16
Alignment explanation
Indices: 39372107--39372142 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
39372097 TTTGGTTCGC
39372107 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
39372123 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
39372139 TGTA
1 TGTA
39372143 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:39372207 original size:44 final size:45
Alignment explanation
Indices: 39372123--39372213 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
39372113 GGATTAGAGG
* * *
39372123 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
39372168 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
39372212 TG
1 TG
39372214 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:39372399 original size:18 final size:17
Alignment explanation
Indices: 39372378--39372412 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39372368 TTATTATTAA
*
39372378 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
39372396 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
39372413 TCTTATAATT
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:39380670 original size:3 final size:3
Alignment explanation
Indices: 39380662--39380689 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
39380652 TAGGAAAAAG
39380662 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
39380690 ACATACCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:39383617 original size:3 final size:3
Alignment explanation
Indices: 39383609--39383643 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
39383599 GTAGGGAAGC
39383609 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
39383644 TCATCCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:39388342 original size:3 final size:3
Alignment explanation
Indices: 39388334--39388365 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
39388324 GTAGGAAAGC
39388334 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
39388366 CCACTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:39388867 original size:51 final size:51
Alignment explanation
Indices: 39388789--39388893 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
39388779 CTTTTTACTA
* **
39388789 ATATATAATTTATTAGTGAAAGCGTACATAAAAAAAATTGATACAAATTTG
1 ATATATAATTTATTAGTGAAAGAGTACATAAAAAAAATACATACAAATTTG
* * *
39388840 ATATATAATTTATTAGTGAAAGAGTACATATAAAGAGTACATACAAATTTG
1 ATATATAATTTATTAGTGAAAGAGTACATAAAAAAAATACATACAAATTTG
39388891 ATA
1 ATA
39388894 CTAATATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (51 bp):
ATATATAATTTATTAGTGAAAGAGTACATAAAAAAAATACATACAAATTTG
Found at i:39388876 original size:13 final size:13
Alignment explanation
Indices: 39388858--39388882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39388848 TTTATTAGTG
39388858 AAAGAGTACATAT
1 AAAGAGTACATAT
39388871 AAAGAGTACATA
1 AAAGAGTACATA
39388883 CAAATTTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.20
Consensus pattern (13 bp):
AAAGAGTACATAT
Found at i:39389331 original size:6 final size:6
Alignment explanation
Indices: 39389320--39389345 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
39389310 ACGAAACTAT
39389320 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
39389346 GTTCAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:39392807 original size:91 final size:91
Alignment explanation
Indices: 39392660--39392867 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
39392650 TTGATTTTAG
* *
39392660 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
39392725 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
39392752 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
39392817 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
39392843 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
39392868 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:39392836 original size:26 final size:28
Alignment explanation
Indices: 39392782--39392842 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
39392772 TATTATCAAG
* *
39392782 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
39392810 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
39392836 AATTATA
1 AATTATA
39392843 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:39392842 original size:44 final size:43
Alignment explanation
Indices: 39392700--39392842 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
39392690 GAATTTTATG
* *
39392700 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
39392744 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
39392791 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
39392835 AAATTATA
1 AAATTATA
39392843 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:39392960 original size:59 final size:58
Alignment explanation
Indices: 39392894--39393202 Score: 188
Period size: 59 Copynumber: 5.2 Consensus size: 58
39392884 ATTTTATTAA
*
39392894 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGT
* * **
39392953 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-TA-ATTTTATTA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
39393013 A
58 T
* * * *
39393014 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
* * ** * *
39393073 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTA-TT-AA-GA-ATTTTATTA-
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
39393133 A
58 T
* * * *
39393134 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
39393193 ATCATATATT
1 ATCATATATT
39393203 ATGATTTGAG
Statistics
Matches: 184, Mismatches: 38, Indels: 56
0.66 0.14 0.20
Matches are distributed among these distances:
54 19 0.10
55 8 0.04
56 6 0.03
57 6 0.03
58 7 0.04
59 42 0.23
60 16 0.09
61 31 0.17
62 7 0.04
63 8 0.04
64 4 0.02
65 10 0.05
66 20 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGT
Found at i:39393016 original size:130 final size:120
Alignment explanation
Indices: 39392883--39393295 Score: 747
Period size: 120 Copynumber: 3.4 Consensus size: 120
39392873 AATTATTTTA
* * * * *
39392883 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
* *
39392947 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAT
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
39393003 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
39393068 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
39393123 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
39393188 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
39393243 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
39393296 TAAATATGAT
Statistics
Matches: 285, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 283 0.99
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:39393023 original size:61 final size:61
Alignment explanation
Indices: 39392956--39393263 Score: 248
Period size: 61 Copynumber: 5.1 Consensus size: 61
39392946 TTATAGTATC
39392956 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
* * * * * * *
39393017 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTAT-ATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAATAATTTTATTA-AAT
*
39393075 C
61 T
* *
39393076 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
* * * * * * *
39393137 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTAT-ATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAATAATTTTATTA-AAT
*
39393195 C
61 T
* *
39393196 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
39393257 ATATATT
1 ATATATT
39393264 TTAATTATAA
Statistics
Matches: 185, Mismatches: 38, Indels: 48
0.68 0.14 0.18
Matches are distributed among these distances:
57 22 0.12
58 15 0.08
59 36 0.19
60 33 0.18
61 43 0.23
62 14 0.08
63 22 0.12
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAATAATTTTATTAAATT
Found at i:39393037 original size:18 final size:18
Alignment explanation
Indices: 39392991--39393038 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
39392981 TATAAGAATA
*
39392991 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
39393007 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
39393024 TTAATTATAATATAT
1 TTAATTATAATATAT
39393039 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:39393043 original size:15 final size:15
Alignment explanation
Indices: 39393008--39393059 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
39392998 TTAATAATTT
*
39393008 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39393022 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39393036 TATTTAATAATAAT-
1 TATTTAATTATAATA
39393050 TATGTTAATT
1 TAT-TTAATT
39393060 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39393163 original size:15 final size:15
Alignment explanation
Indices: 39393128--39393179 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
39393118 TTAAGAATTT
*
39393128 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39393142 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39393156 TATTTAATAATAAT-
1 TATTTAATTATAATA
39393170 TATGTTAATT
1 TAT-TTAATT
39393180 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39393278 original size:16 final size:16
Alignment explanation
Indices: 39393257--39393298 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
39393247 TTATTAAATT
*
39393257 ATATATTTTAATTATA
1 ATATATTTTAATAATA
39393273 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
39393288 AT-TATGTTTAA
1 ATATAT-TTTAA
39393299 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:39393283 original size:15 final size:15
Alignment explanation
Indices: 39393248--39393289 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
39393238 TTAAGAATTT
*
39393248 TATTAAATTAT-ATA
1 TATTTAATTATAATA
39393262 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
39393276 TATTTAATAATAAT
1 TATTTAATTATAAT
39393290 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:39398824 original size:21 final size:23
Alignment explanation
Indices: 39398798--39398843 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
39398788 CATCATCATT
*
39398798 TATATAA-AATA-AATTCAAATA
1 TATATAATAATAGAATTAAAATA
*
39398819 TATATAATTATAGAATTAAAATA
1 TATATAATAATAGAATTAAAATA
39398842 TA
1 TA
39398844 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 3 0.14
23 11 0.52
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATAATAATAGAATTAAAATA
Found at i:39398856 original size:21 final size:21
Alignment explanation
Indices: 39398808--39398862 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
39398798 TATATAAAAT
* *
39398808 AAATTCAAATATATATAATTATA
1 AAATT-AAA-ATATAAAATTAAA
*
39398831 GAATTAAAATATAAAATTAAA
1 AAATTAAAATATAAAATTAAA
39398852 AAATTATAAAT
1 AAATTA-AAAT
39398863 TTATGTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 16 0.59
22 7 0.26
23 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTAAAATATAAAATTAAA
Found at i:39398982 original size:20 final size:19
Alignment explanation
Indices: 39398941--39398979 Score: 55
Period size: 17 Copynumber: 2.1 Consensus size: 19
39398931 CCTTTATTTA
39398941 TTTTTAATTTTTTAATTTTC
1 TTTTTAATTTTTT-ATTTTC
39398961 TTTTTAA--TTTTATTTTC
1 TTTTTAATTTTTTATTTTC
39398978 TT
1 TT
39398980 CTTCATCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
20 7 0.37
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTAATTTTTTATTTTC
Found at i:39399395 original size:169 final size:169
Alignment explanation
Indices: 39399114--39399452 Score: 570
Period size: 169 Copynumber: 2.0 Consensus size: 169
39399104 GTTCATGGAA
* *
39399114 TTGACGTTCTAGGTAGGCTCCATGCATGTCGACATGTATGTTACCCTAAACTCAACACATGTTCA
1 TTGACGTTCTAGGTAGGCTCCATGCATGTCAACACGTATGTTACCCTAAACTCAACACATGTTCA
*
39399179 CTAGTCCAGGTGCTCATCAGTTCATTCGTTTGACCTCGTACCCTATGCTCGTGGACATCCAGGGA
66 CTAGTCCAGGTGCTCATCAGTTCATTCGTTTGACCTCGTACCCTATGCTCGTGGACATCCAAGGA
*
39399244 TGTGCGAACTGGGCTCGCGAGCCCCCTAATTACTCCACC
131 TGTGCGAACTGGGCTCGCGAGCCCCCTAATGACTCCACC
*
39399283 TTGACGTTCTAGGTAGGCTCCATGCATGTCAACACGTATGTTACCCTAAACTCAACACGTGTTCA
1 TTGACGTTCTAGGTAGGCTCCATGCATGTCAACACGTATGTTACCCTAAACTCAACACATGTTCA
* * * * *
39399348 CTGGTCCAGGTGCTCATCGGTTTATTCGTTTGACCTTGTATCCTATGCTCGTGGACATCCAAGGA
66 CTAGTCCAGGTGCTCATCAGTTCATTCGTTTGACCTCGTACCCTATGCTCGTGGACATCCAAGGA
* *
39399413 TGTGTGAACTGGGCTCGCGATCCCCCTAATGACTCCACC
131 TGTGCGAACTGGGCTCGCGAGCCCCCTAATGACTCCACC
39399452 T
1 T
39399453 GGTGGGGTCC
Statistics
Matches: 158, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 158 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (169 bp):
TTGACGTTCTAGGTAGGCTCCATGCATGTCAACACGTATGTTACCCTAAACTCAACACATGTTCA
CTAGTCCAGGTGCTCATCAGTTCATTCGTTTGACCTCGTACCCTATGCTCGTGGACATCCAAGGA
TGTGCGAACTGGGCTCGCGAGCCCCCTAATGACTCCACC
Found at i:39408517 original size:14 final size:15
Alignment explanation
Indices: 39408498--39408526 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39408488 GTTTCCATTT
39408498 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
39408512 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
39408527 CTCTAACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:39415616 original size:18 final size:18
Alignment explanation
Indices: 39415584--39415627 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
39415574 TGGCTCGATT
* * *
39415584 TCAGGGTCGGTCTCTGGC
1 TCAGGCTCGGGCTCTAGC
*
39415602 TCGGGCTCGGGCTCTAGC
1 TCAGGCTCGGGCTCTAGC
39415620 TCAGGCTC
1 TCAGGCTC
39415628 TAGCTCGTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.32, G:0.36, T:0.25
Consensus pattern (18 bp):
TCAGGCTCGGGCTCTAGC
Found at i:39416267 original size:14 final size:14
Alignment explanation
Indices: 39416248--39416275 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39416238 CAAATTACAT
39416248 GTTAGAATAGTATC
1 GTTAGAATAGTATC
39416262 GTTAGAATAGTATC
1 GTTAGAATAGTATC
39416276 ATTGGAAAAA
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:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:39417775 original size:27 final size:27
Alignment explanation
Indices: 39417737--39417808 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
39417727 TTTATCTCAT
*
39417737 AAATTCCAACTCAATGGTTCTATTCAC
1 AAATTCCAACTCAATGGTTCCATTCAC
39417764 AAATTCCAACTCAATGGTTCCATTCAC
1 AAATTCCAACTCAATGGTTCCATTCAC
*
39417791 AAATTCCATCTCAATGGT
1 AAATTCCAACTCAATGGT
39417809 CTCATTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTCCAACTCAATGGTTCCATTCAC
Found at i:39417891 original size:16 final size:16
Alignment explanation
Indices: 39417870--39417991 Score: 63
Period size: 16 Copynumber: 7.4 Consensus size: 16
39417860 AAAATATGCC
39417870 AAATAAATTACATAAA
1 AAATAAATTACATAAA
39417886 AAATAAATCTA-AT-AA
1 AAATAAAT-TACATAAA
** * *
39417901 ACCTAAAATACATATGAC
1 AAATAAATTACATA--AA
*
39417919 AAATAAATTATATAAA
1 AAATAAATTACATAAA
39417935 AAATAAATCTA-AT-AA
1 AAATAAAT-TACATAAA
** ** *
39417950 ACCTAAAACACATAGGAC
1 AAATAAATTACATA--AA
39417968 AAATAAATTACATAAAA
1 AAATAAATTACAT-AAA
39417985 AAATAAA
1 AAATAAA
39417992 ATATTCTTTC
Statistics
Matches: 76, Mismatches: 19, Indels: 21
0.66 0.16 0.18
Matches are distributed among these distances:
14 3 0.04
15 18 0.24
16 21 0.28
17 12 0.16
18 21 0.28
19 1 0.01
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:39417916 original size:49 final size:49
Alignment explanation
Indices: 39417863--39417991 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 49
39417853 AATAATAAAA
* *
39417863 ATATGCCAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAATAC
1 ATATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
*
39417912 ATATGACAAATAAATTATATAAAAAATAAATCTAATAAACCTAAAACAC
1 ATATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
*
39417961 ATAGGACAAATAAATTACATAAAAAAATAAA
1 ATATGACAAATAAATTACAT-AAAAAATAAA
39417992 ATATTCTTTC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 64 0.86
50 10 0.14
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (49 bp):
ATATGACAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
Found at i:39418300 original size:29 final size:30
Alignment explanation
Indices: 39418267--39418324 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
39418257 ACCTCTAGAT
*
39418267 TAATTTTTT-TCAAA-CCTTAAACACAACTC
1 TAATTTTTTCTCAAATCC-CAAACACAACTC
39418296 TAATTTTTTCTCAAATCCCAAACACAACT
1 TAATTTTTTCTCAAATCCCAAACACAACT
39418325 TCTTCTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 9 0.35
30 15 0.58
31 2 0.08
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (30 bp):
TAATTTTTTCTCAAATCCCAAACACAACTC
Found at i:39418971 original size:20 final size:21
Alignment explanation
Indices: 39418935--39418990 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
39418925 AAGGCAGCAA
39418935 AAAAATT--TAAAAATTATTT
1 AAAAATTAATAAAAATTATTT
* *
39418954 -TAAATTAATAAAATTTATTT
1 AAAAATTAATAAAAATTATTT
39418974 AAAAAATTAATAAAAAT
1 -AAAAATTAATAAAAAT
39418991 ATTACAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.17
20 11 0.38
22 13 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAAATTAATAAAAATTATTT
Found at i:39418999 original size:22 final size:22
Alignment explanation
Indices: 39418955--39419000 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
39418945 AAATTATTTT
* *
39418955 AAATTAATAAAATTTATTTAAA
1 AAATTAATAAAATATATTCAAA
39418977 AAATTAATAAAA-ATATTACAAA
1 AAATTAATAAAATATATT-CAAA
39418999 AA
1 AA
39419001 TAATATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTAATAAAATATATTCAAA
Found at i:39419752 original size:26 final size:26
Alignment explanation
Indices: 39419723--39419775 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
39419713 AAATTATTAA
39419723 TAATGTTAAATATATTTTATTAATTT
1 TAATGTTAAATATATTTTATTAATTT
* *
39419749 TAATTTTAAATATATTTTTTTAATTT
1 TAATGTTAAATATATTTTATTAATTT
39419775 T
1 T
39419776 TGAAGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TAATGTTAAATATATTTTATTAATTT
Found at i:39429753 original size:68 final size:68
Alignment explanation
Indices: 39429624--39429772 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 68
39429614 ATAACAGATA
* *
39429624 TATGGTCTTAAACATGTAATCCCCATGTTTAATGGCCTAAAGGAATCCATGTGTTGTCATAGCTG
1 TATGGTCTTACACATGTAATCCCCATGTTTAATGGCCTAAAGGAATCCATGTGTTGCCATAGCTG
39429689 AGC
66 AGC
* * * *** * *
39429692 TATGGTCTTACACATGTAATCCCTATTTTTAATGTCCTGGCGGACTCTAT-TAGTTGCCATAGCT
1 TATGGTCTTACACATGTAATCCCCATGTTTAATGGCCTAAAGGAATCCATGT-GTTGCCATAGCT
39429756 GAGC
65 GAGC
* *
39429760 TATGATCTCACAC
1 TATGGTCTTACAC
39429773 CTTAACCTCT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 1 0.01
68 67 0.99
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (68 bp):
TATGGTCTTACACATGTAATCCCCATGTTTAATGGCCTAAAGGAATCCATGTGTTGCCATAGCTG
AGC
Found at i:39436069 original size:16 final size:16
Alignment explanation
Indices: 39436048--39436082 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
39436038 AAAAGAAAAG
39436048 AGAATTGAGAGGAAGA
1 AGAATTGAGAGGAAGA
39436064 AGAATTGAGAGGAAGA
1 AGAATTGAGAGGAAGA
39436080 AGA
1 AGA
39436083 TGAAGAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.37, T:0.11
Consensus pattern (16 bp):
AGAATTGAGAGGAAGA
Found at i:39442704 original size:34 final size:31
Alignment explanation
Indices: 39442650--39442765 Score: 108
Period size: 34 Copynumber: 3.6 Consensus size: 31
39442640 AATGGTATGC
39442650 ATATATATACAATATATATGCGTGGGTTTTGTT
1 ATATATATA-AA-ATATATGCGTGGGTTTTGTT
* *
39442683 ATATATATGTATAAATATATGCATGGGTTATGTT
1 ATATATA--TA-AAATATATGCGTGGGTTTTGTT
* * * * *
39442717 GTATATATAATATATATGTGTGAGTTTTGAT
1 ATATATATAAAATATATGCGTGGGTTTTGTT
*
39442748 -TATATATAATATATATGC
1 ATATATATAAAATATATGC
39442766 ATATATGGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
30 17 0.24
31 16 0.23
32 2 0.03
33 7 0.10
34 24 0.34
35 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (31 bp):
ATATATATAAAATATATGCGTGGGTTTTGTT
Found at i:39442726 original size:30 final size:30
Alignment explanation
Indices: 39442692--39442767 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
39442682 TATATATATG
* *
39442692 TATAA-ATATATGCATGGGTTATGTTGTATA
1 TATAATATATATGCATGAGTTATGAT-TATA
** *
39442722 TATAATATATATGTGTGAGTTTTGATTATA
1 TATAATATATATGCATGAGTTATGATTATA
39442752 TATAATATATATGCAT
1 TATAATATATATGCAT
39442768 ATATGGGTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 23 0.61
31 15 0.39
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (30 bp):
TATAATATATATGCATGAGTTATGATTATA
Found at i:39442774 original size:65 final size:63
Alignment explanation
Indices: 39442653--39442798 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 63
39442643 GGTATGCATA
* * * * *
39442653 TATATACAATATATATGCGTGGGTTTTGTTATATATATGTATAAATATATGCATGGGT-TATGTT
1 TATATATAATATATATGTGTGAGTTTTGTTATATATATATATAAATATAT-CATGGGTCT-TATT
*
39442717 GTATATATAATATATATGTGTGAGTTTTGATTATATATA-ATATATATGCATAT-ATGGGTCTTA
1 -TATATATAATATATATGTGTGAGTTTTG-TTATATATATATATAAAT--ATATCATGGGTCTTA
39442780 TT
62 TT
39442782 T-TATATAATATATATGT
1 TATATATAATATATATGT
39442799 ATATGAGTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
63 16 0.23
64 1 0.01
65 40 0.56
66 10 0.14
67 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (63 bp):
TATATATAATATATATGTGTGAGTTTTGTTATATATATATATAAATATATCATGGGTCTTATT
Found at i:39443081 original size:18 final size:18
Alignment explanation
Indices: 39443026--39443082 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
39443016 GTGTTATATT
* *
39443026 GTGAACCATGTTAACTTG
1 GTGAACTATGTTAATTTG
* * *
39443044 GTGAATTAT-ATGATTATG
1 GTGAACTATGTTAATT-TG
39443062 GTGAACTATGTTAATTTG
1 GTGAACTATGTTAATTTG
39443080 GTG
1 GTG
39443083 TTCTGTATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 3 0.10
18 22 0.76
19 4 0.14
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (18 bp):
GTGAACTATGTTAATTTG
Found at i:39461158 original size:9 final size:9
Alignment explanation
Indices: 39461144--39461171 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
39461134 TGGTTATGAT
39461144 ATTTCTTTG
1 ATTTCTTTG
39461153 ATTTCTTTG
1 ATTTCTTTG
39461162 ATTTCTTTG
1 ATTTCTTTG
39461171 A
1 A
39461172 AACCGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.64
Consensus pattern (9 bp):
ATTTCTTTG
Found at i:39463728 original size:24 final size:25
Alignment explanation
Indices: 39463701--39463778 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 25
39463691 ACATTCAAGC
39463701 GAGCC-TTATCGGGAAGCTCATAAA
1 GAGCCATTATCGGGAAGCTCATAAA
* * *
39463725 GAGCCAATTAACGGGAATCTCACAAA
1 GAGCC-ATTATCGGGAAGCTCATAAA
* * *
39463751 GAGCCATAATCGAGAAGCTTAT-AA
1 GAGCCATTATCGGGAAGCTCATAAA
39463775 GAGC
1 GAGC
39463779 TATGGTGTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 11 0.26
25 11 0.26
26 21 0.49
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
GAGCCATTATCGGGAAGCTCATAAA
Found at i:39468314 original size:32 final size:31
Alignment explanation
Indices: 39468278--39468344 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
39468268 TATAAAAATT
*
39468278 AAATTGATTTCTGTTTTATA-TTAATTTATTTA
1 AAATTGATTTAT-TTTTATATTTAATTT-TTTA
* *
39468310 AAATTTATTTATTTTTATATTTAATTTTTTG
1 AAATTGATTTATTTTTATATTTAATTTTTTA
39468341 AAAT
1 AAAT
39468345 ATTTTATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (31 bp):
AAATTGATTTATTTTTATATTTAATTTTTTA
Found at i:39469582 original size:14 final size:14
Alignment explanation
Indices: 39469522--39469587 Score: 50
Period size: 15 Copynumber: 4.8 Consensus size: 14
39469512 TGACTTAAAT
39469522 TTAAATTTTAAAAAA
1 TTAAA-TTTAAAAAA
39469537 -TAAA---AAAAAA
1 TTAAATTTAAAAAA
*
39469547 TTAAACTTTTAAAAA
1 TTAAA-TTTAAAAAA
* *
39469562 TAAAAATATAAAAAA
1 T-TAAATTTAAAAAA
39469577 TTAAATTTAAA
1 TTAAATTTAAA
39469588 TTTAAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
10 6 0.15
11 4 0.10
14 12 0.31
15 14 0.36
16 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
TTAAATTTAAAAAA
Found at i:39471439 original size:18 final size:18
Alignment explanation
Indices: 39471416--39471452 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39471406 AACACCCTTT
39471416 GCCCAAGCCAATTGTTGA
1 GCCCAAGCCAATTGTTGA
39471434 GCCCAAGCCAATTGTTGA
1 GCCCAAGCCAATTGTTGA
39471452 G
1 G
39471453 TCCGAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (18 bp):
GCCCAAGCCAATTGTTGA
Found at i:39472978 original size:21 final size:22
Alignment explanation
Indices: 39472954--39472994 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
39472944 AAACACTCAT
39472954 TTTCCTTTTT-CAATTGAACAA
1 TTTCCTTTTTCCAATTGAACAA
*
39472975 TTTCCTTTTTCCATTTGAAC
1 TTTCCTTTTTCCAATTGAAC
39472995 CCTAATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTCCTTTTTCCAATTGAACAA
Found at i:39474816 original size:3 final size:3
Alignment explanation
Indices: 39474756--39474833 Score: 52
Period size: 3 Copynumber: 25.3 Consensus size: 3
39474746 ATAGTAATCT
* * * *
39474756 ATA ATA CTA AGA ATA ATA GTA A-A ATA TATT ATA ATGA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA ATA
* *
39474801 ACA ATA GGGTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA A
39474834 CAAACAGGAC
Statistics
Matches: 57, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
2 4 0.07
3 47 0.82
4 4 0.07
5 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:39476192 original size:89 final size:89
Alignment explanation
Indices: 39476029--39476193 Score: 201
Period size: 89 Copynumber: 1.9 Consensus size: 89
39476019 TTCCTTCAAC
** * * * *
39476029 CTACTCCACTGCAACTTCAGGGAAGTAGGACTATTGGCTTTAATCTGCTCCACTGCAACTTTAGG
1 CTACTCCACTGCAACTTCAGGGAAGTAGGACTATTAACTTCAATCTGCTCCACTACAACTTCAAG
*
39476094 GAGGCAAGATTCGCCATCCTCAGT
66 GAGACAAGATTCGCCATCCTCAGT
*
39476118 CTACTCTACTGCAACTTCAGGG-AGATAGGACT-TGTAACTTCAATCTGC-CTCACTACAACTTC
1 CTACTCCACTGCAACTTCAGGGAAG-TAGGACTAT-TAACTTCAATCTGCTC-CACTACAACTTC
*
39476180 AAGGAGATAAGATT
63 AAGGAGACAAGATT
39476194 GATATCTTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
88 4 0.06
89 60 0.94
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (89 bp):
CTACTCCACTGCAACTTCAGGGAAGTAGGACTATTAACTTCAATCTGCTCCACTACAACTTCAAG
GAGACAAGATTCGCCATCCTCAGT
Found at i:39476775 original size:132 final size:132
Alignment explanation
Indices: 39476346--39476776 Score: 616
Period size: 132 Copynumber: 3.3 Consensus size: 132
39476336 GATTAGCTGC
* *
39476346 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAATCTGCTACTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTAATCTACTACTG
* * *
39476411 CTCAAGAAGA-AGGGATTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAAATAGGATTTGC
66 CTCAAGGAGATA-GGATTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGATAAGATTTGC
***
39476475 TGC
130 CAT
* * * * * *
39476478 CTTCGATTTGCTCCACTACTGCTTAGGGAGATAGGATCTATAATCTTCAACCTACTCTACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTAATCTACTACTG
* * *
39476543 CTCAAGGAGATAGGACTGGTGGCTTAAATTTGCTTCCCTACTACCTTGAGAAGATAAGATTTTCC
66 CTCAAGGAGATAGGATTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGATAAGATTTGCC
39476608 AT
131 AT
* *
39476610 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCGTT-AACCTATTCTTCTACT
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATC-TTCAACCTAATCTACTACT
* * *
39476674 GCTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCCTACTACATTGGGAAGATAAG-TTTCG
65 GCTCAAGGAGATAGGATTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGATAAGATTT-G
39476738 CCAT
129 CCAT
39476742 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAG
39476777 GCTTGTGACT
Statistics
Matches: 268, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 262 0.98
133 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTAATCTACTACTG
CTCAAGGAGATAGGATTGGTGGCTTAAATTTGCTTCCCTACTACCTTGGGAAGATAAGATTTGCC
AT
Found at i:39476882 original size:89 final size:89
Alignment explanation
Indices: 39476763--39477012 Score: 340
Period size: 89 Copynumber: 2.8 Consensus size: 89
39476753 TCCACTACTG
* * * * * * *
39476763 CTTAGGGAGACAAGGCTTGTGACTTT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATTTTC
1 CTTAGGGAGGCAAGGCTAGTG-TTTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTAC
*
39476827 TATCTTTAGTTTGCTCCGCTGCAAA
65 TATCTTTAGTCTGCTCCGCTGCAAA
* *
39476852 CTTAGGGAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAGTACAGGAAGGCAATATCTACT
1 CTTAGGGAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTACT
39476917 ATCTTTAGTCTGCTCCGCTGCAAA
66 ATCTTTAGTCTGCTCCGCTGCAAA
* * * * * *
39476941 CTCAGGGAGGTAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATATAGGAAGGTAAGATCTGCT
1 CTTAGGGAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTACT
39477006 ATCTTTA
66 ATCTTTA
39477013 ATCTACTTCG
Statistics
Matches: 142, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 3 0.02
89 139 0.98
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (89 bp):
CTTAGGGAGGCAAGGCTAGTGTTTTCGATCTGCTTCGCTGCCAATACAGGAAGGCAAGATCTACT
ATCTTTAGTCTGCTCCGCTGCAAA
Found at i:39477252 original size:45 final size:45
Alignment explanation
Indices: 39476962--39477244 Score: 368
Period size: 45 Copynumber: 6.3 Consensus size: 45
39476952 AAGGCTAGTG
* * * **
39476962 TCTTCGATCTGCTTCGCTGCCAATATAGGAAGGTAAGATCTGCTA
1 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
39477007 TCTTTAATCTACTTCGCCGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * **
39477052 TCTTCAATCTACTTTGCTGCCAATACAGGAAGAGAAGATCTTTTA
1 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
** *
39477097 TCTTCGGTCTACTTCGGTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
39477142 TCTTCAATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGTTA
1 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
** * *
39477187 TCTTTGATCTACTTCACTGCTAATACAGGAAGACAAGATCTGCTA
1 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
39477232 TCTTCAACCTACT
1 TCTTCAATCTACT
39477245 CCACTGCTGC
Statistics
Matches: 204, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 204 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:39479525 original size:17 final size:18
Alignment explanation
Indices: 39479500--39479544 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
39479490 TGCCTTGGCC
*
39479500 TTTCCTTTTTC-TTTTCT
1 TTTCATTTTTCATTTTCT
39479517 TTTCATTTTTCATTTTCT
1 TTTCATTTTTCATTTTCT
39479535 TTT-ATTTTTC
1 TTTCATTTTTC
39479545 CATCATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCATTTTTCATTTTCT
Found at i:39484681 original size:9 final size:9
Alignment explanation
Indices: 39484667--39484702 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
39484657 TACATAAGAT
39484667 TTTATAAAA
1 TTTATAAAA
39484676 TTTATAAAA
1 TTTATAAAA
*
39484685 TATATAAAA
1 TTTATAAAA
*
39484694 ATTATAAAA
1 TTTATAAAA
39484703 AGAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TTTATAAAA
Found at i:39488741 original size:107 final size:107
Alignment explanation
Indices: 39488551--39488768 Score: 382
Period size: 107 Copynumber: 2.0 Consensus size: 107
39488541 AACAGCCCAT
* * *
39488551 TTCAAACTTTCATCGGCTTTGTCTTCATAATCAAATGATGAGATTGAGTACATGTCACATGTTCC
1 TTCAAACTTTCATCGGCTTTGTCTCCACAATCAAATGATAAGATTGAGTACATGTCACATGTTCC
*
39488616 ATAATCTAGTGCAGTGGGATCTCTCATGTATGCTATGGTTTG
66 ATAATCTAGTGCAATGGGATCTCTCATGTATGCTATGGTTTG
*
39488658 TTCAAACTTTCATCGGCTTTGTCTCCACAATCAGATGATAAGATTGAGTACATGTCACATGTTCC
1 TTCAAACTTTCATCGGCTTTGTCTCCACAATCAAATGATAAGATTGAGTACATGTCACATGTTCC
*
39488723 ATACTCTAGTGCAATGGGATCTCTCATGTATGCTATGGTTTG
66 ATAATCTAGTGCAATGGGATCTCTCATGTATGCTATGGTTTG
39488765 TTCA
1 TTCA
39488769 CGTCCAGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (107 bp):
TTCAAACTTTCATCGGCTTTGTCTCCACAATCAAATGATAAGATTGAGTACATGTCACATGTTCC
ATAATCTAGTGCAATGGGATCTCTCATGTATGCTATGGTTTG
Found at i:39496753 original size:43 final size:43
Alignment explanation
Indices: 39496665--39496983 Score: 325
Period size: 43 Copynumber: 7.3 Consensus size: 43
39496655 GCGCCGGAAA
* *
39496665 AAACGCCGCTAAAGACCACGTCACTAACTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAG--AC---CTTTAGCGACGCTTTTCCCAC
* * * *
39496713 AAACGCCGCTAAAGACCAGGACCTTTAGCGGCACTTTTCCCAT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
* * * *
39496756 AAACGCCGCTAAAGACCAACACATATAGTGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
*
39496799 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGATTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
** * * ** *
39496842 AAGTGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTCAT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
* * * *
39496885 AAATGCCGCTAAAGACCCAGACCTATAGCGACGTTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
* * ****
39496928 AAACGCCGCTATAG-CTCAAGACCTTTAGCGATGCTTTGATTAC
1 AAACGCCGCTAAAGAC-CAAGACCTTTAGCGACGCTTTTCCCAC
39496971 AAACGCCGCTAAA
1 AAACGCCGCTAAA
39496984 AGTACTATTA
Statistics
Matches: 226, Mismatches: 44, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
42 1 0.00
43 204 0.90
46 2 0.01
48 19 0.08
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
Found at i:39496856 original size:129 final size:129
Alignment explanation
Indices: 39496665--39496958 Score: 392
Period size: 129 Copynumber: 2.2 Consensus size: 129
39496655 GCGCCGGAAA
* * *
39496665 AAACGCCGCTAAAGACCACGTCACTAACTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACC
1 AAACGCCGCTAAAGACCAAG--AC---CTTTAGCGACGATTTTCCCACAAACGCCGCTAAAGACC
*
39496730 AGGACCTTTAGCGGCACTTTTCCCATAAACGCCGCTAAAGACCAACACATATAGTGACGCTTTTC
61 AGGACCTTTAGCGGCACTTTTCCCATAAACGCCGCTAAAGACCAACACATATAGCGACGCTTTTC
39496795 CCAC
126 CCAC
**
39496799 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGATTTTCCCACAAGTGCCGCTAAAGACCAGGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGATTTTCCCACAAACGCCGCTAAAGACCAGGAC
* ** * * * * *
39496864 CTTTAGCGGCGCTTTTTTCATAAATGCCGCTAAAGACCCAGACCTATAGCGACGTTTTTCCCAC
66 CTTTAGCGGCACTTTTCCCATAAACGCCGCTAAAGACCAACACATATAGCGACGCTTTTCCCAC
*
39496928 AAACGCCGCTATAG-CTCAAGACCTTTAGCGA
1 AAACGCCGCTAAAGAC-CAAGACCTTTAGCGA
39496959 TGCTTTGATT
Statistics
Matches: 144, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
128 1 0.01
129 122 0.85
132 2 0.01
134 19 0.13
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (129 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGACGATTTTCCCACAAACGCCGCTAAAGACCAGGAC
CTTTAGCGGCACTTTTCCCATAAACGCCGCTAAAGACCAACACATATAGCGACGCTTTTCCCAC
Found at i:39497246 original size:15 final size:15
Alignment explanation
Indices: 39497226--39497256 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39497216 AGGGATATGG
39497226 ATCATCTTCATCTTC
1 ATCATCTTCATCTTC
*
39497241 ATCATCTTCTTCTTC
1 ATCATCTTCATCTTC
39497256 A
1 A
39497257 CTTTCAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATCTTCATCTTC
Found at i:39502480 original size:74 final size:76
Alignment explanation
Indices: 39502352--39502494 Score: 245
Period size: 74 Copynumber: 1.9 Consensus size: 76
39502342 CCCCTAACTA
39502352 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACAAATTAATCTAAACCCTAAACCCT
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACAAATTAATCTAAACCCTAAACCCT
39502417 AACCCAAATTC
66 AACCCAAATTC
* * *
39502428 CTAACCCCTAAACCTTATTT-A-ATATAAATTAAAATACACTAATTAATCTAAACCTTAAACCCT
1 CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACAAATTAATCTAAACCCTAAACCCT
39502491 AACC
66 AACC
39502495 TAACATCGAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 43 0.67
75 1 0.02
76 20 0.31
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (76 bp):
CTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACAAATTAATCTAAACCCTAAACCCT
AACCCAAATTC
Found at i:39502549 original size:7 final size:7
Alignment explanation
Indices: 39502537--39502568 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
39502527 CTCTTAATCT
39502537 CTAACCC
1 CTAACCC
39502544 CTAACCC
1 CTAACCC
39502551 CTAACCC
1 CTAACCC
39502558 CTAACCC
1 CTAACCC
39502565 CTAA
1 CTAA
39502569 ATCACAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAACCC
Found at i:39502687 original size:14 final size:14
Alignment explanation
Indices: 39502668--39502704 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
39502658 ATCCTAAATT
*
39502668 AACCATATACCTTA
1 AACCATATACCCTA
39502682 AACCATATACCCTA
1 AACCATATACCCTA
*
39502696 AACAATATA
1 AACCATATA
39502705 TATTAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCATATACCCTA
Found at i:39503021 original size:41 final size:41
Alignment explanation
Indices: 39502962--39503157 Score: 213
Period size: 41 Copynumber: 4.8 Consensus size: 41
39502952 AAATATTTTT
*
39502962 GCGGCGC-TTTTCTAAAAACGCCGCTAAAAGCCTAAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAAGCCTGAGCATTA
* *
39503003 GTGGCGCTTTTTCAAAAACGCCGCTAAAAGCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* *
39503044 GCGGCG-TTTTTGAAAAAGCGCCGCT-AAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAA-CGCCGCTAAAAG-CCTGAGCATTA
* * *
39503085 GCGGCGCTTTTTCAAAAACGCCACT-AAAGATCTGAGCATCA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CCTGAGCATTA
** * *
39503126 GCGATGCTTTTTAAAAAACACCGCT-AAAGCCT
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCT
39503158 CGAAAGGTCA
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
40 16 0.12
41 104 0.77
42 15 0.11
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:39503265 original size:39 final size:40
Alignment explanation
Indices: 39503222--39503328 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
39503212 AAAAAATGCT
* *
39503222 GCTAATGCTC-ATTTTTAACGGCGCTTTTCTG-AAAGCGCC
1 GCTAATGCTCGATTTTTAGCGGCG-TTTTATGTAAAGCGCC
*
39503261 GCTAATGCTCGATCTTTAGCGGCGTTTTATGTAAAGCGCC
1 GCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGCGCC
39503301 GCTAATGCTCGATTTTTAGCGGCGTTTT
1 GCTAATGCTCGATTTTTAGCGGCGTTTT
39503329 TTGTCCAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.26
40 46 0.74
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (40 bp):
GCTAATGCTCGATTTTTAGCGGCGTTTTATGTAAAGCGCC
Found at i:39506509 original size:17 final size:16
Alignment explanation
Indices: 39506476--39506515 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
39506466 ATTCGCATTC
*
39506476 GTATATATTTAAATAT
1 GTATATATGTAAATAT
39506492 GTATATATGTACAATAT
1 GTATATATGTA-AATAT
39506509 GTATATA
1 GTATATA
39506516 AAATAATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (16 bp):
GTATATATGTAAATAT
Found at i:39508527 original size:94 final size:94
Alignment explanation
Indices: 39508417--39508599 Score: 366
Period size: 94 Copynumber: 1.9 Consensus size: 94
39508407 TCAGTTTGGG
39508417 CCTTAACCCATTTAGATACAGTCTCAGAAATACATTAGGGCCTTGGCCCATATCAGATACAGAAT
1 CCTTAACCCATTTAGATACAGTCTCAGAAATACATTAGGGCCTTGGCCCATATCAGATACAGAAT
39508482 GCAGATACAACAAATTAGAATCCTACCCA
66 GCAGATACAACAAATTAGAATCCTACCCA
39508511 CCTTAACCCATTTAGATACAGTCTCAGAAATACATTAGGGCCTTGGCCCATATCAGATACAGAAT
1 CCTTAACCCATTTAGATACAGTCTCAGAAATACATTAGGGCCTTGGCCCATATCAGATACAGAAT
39508576 GCAGATACAACAAATTAGAATCCT
66 GCAGATACAACAAATTAGAATCCT
39508600 CCCCCCCAGC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (94 bp):
CCTTAACCCATTTAGATACAGTCTCAGAAATACATTAGGGCCTTGGCCCATATCAGATACAGAAT
GCAGATACAACAAATTAGAATCCTACCCA
Found at i:39509758 original size:20 final size:20
Alignment explanation
Indices: 39509735--39509772 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39509725 ATTTAGCTAT
*
39509735 TTTTATTTTTATTTTAATAG
1 TTTTATTTTTAATTTAATAG
*
39509755 TTTTGTTTTTAATTTAAT
1 TTTTATTTTTAATTTAAT
39509773 TTGTACAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTATTTTTAATTTAATAG
Found at i:39512356 original size:41 final size:40
Alignment explanation
Indices: 39512291--39512474 Score: 156
Period size: 40 Copynumber: 4.5 Consensus size: 40
39512281 CAATGTTTCA
* * *
39512291 CACACTAAATGCCATCGCATAGCCGAAGCTATTATCACCCCG
1 CACACTAAGTGCCAT-ACATAGCCGAAGCTATT-TCACCTCG
* * * * *
39512333 CACACTAAGTGTCTTACATAGCCGAAGTTATCTCAGTCTCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTCA-CCTCG
* * *
39512374 CACACTAAGTGCCATATATAGCTGAAGCTATTTC-CAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTCAC-CTCG
* * * *
39512414 CACACTAAGTGCCATAAATAGCCGAAACTATCTCGA-ATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATTTC-ACCTCG
* *
39512454 CACACTAAGTGCTAAACATAG
1 CACACTAAGTGCCATACATAG
39512475 TTGATTAATT
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
40 58 0.50
41 45 0.39
42 12 0.10
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATTTCACCTCG
Found at i:39515700 original size:26 final size:28
Alignment explanation
Indices: 39515660--39515725 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 28
39515650 TCCCTTTCCT
*
39515660 TTTTAGTATTTTTATTAT-TT-GTTTTA
1 TTTTAGTATTATTATTATGTTAGTTTTA
*
39515686 TTTTAGTATTATTATTATGTTATTTTTA
1 TTTTAGTATTATTATTATGTTAGTTTTA
39515714 TTTT--TATTATTA
1 TTTTAGTATTATTA
39515726 CTACTATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 25 0.69
27 2 0.06
28 9 0.25
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (28 bp):
TTTTAGTATTATTATTATGTTAGTTTTA
Found at i:39516457 original size:116 final size:116
Alignment explanation
Indices: 39516251--39516483 Score: 394
Period size: 116 Copynumber: 2.0 Consensus size: 116
39516241 CTATCACTCG
39516251 GCATTTTACTATTGCAGGCTTTGGTGTCACTCTCAACCTATATTCTAATGATTTTTTAGCCATGA
1 GCATTTTACTATTGCAGGCTTTGGTGTCACTCTCAACCTATATTCTAATGATTTTTTAGCCATGA
* *
39516316 CCGAGTTCTTCCTCCTCTTACGACACATCCATCACTCGACCTCTTTCTATT
66 CCAAGTTCTTCCTCCTCCTACGACACATCCATCACTCGACCTCTTTCTATT
* * * *
39516367 GCATTTTACTATTGCAGGCTTTGGTGTCACTCTCAGCTTATATTCTGATGATTTTTTAGCCTTGA
1 GCATTTTACTATTGCAGGCTTTGGTGTCACTCTCAACCTATATTCTAATGATTTTTTAGCCATGA
* *
39516432 CCAAGTTCTTCTTCCTCCTATGACACATCCATCACTCGACCTCTTTCTATT
66 CCAAGTTCTTCCTCCTCCTACGACACATCCATCACTCGACCTCTTTCTATT
39516483 G
1 G
39516484 GTCGGACATA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (116 bp):
GCATTTTACTATTGCAGGCTTTGGTGTCACTCTCAACCTATATTCTAATGATTTTTTAGCCATGA
CCAAGTTCTTCCTCCTCCTACGACACATCCATCACTCGACCTCTTTCTATT
Found at i:39517776 original size:14 final size:15
Alignment explanation
Indices: 39517757--39517785 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39517747 CAAGTATGAT
39517757 AAATTATT-TTTTAG
1 AAATTATTGTTTTAG
39517771 AAATTATTGTTTTAG
1 AAATTATTGTTTTAG
39517786 GTTGTCTCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
AAATTATTGTTTTAG
Found at i:39518081 original size:71 final size:71
Alignment explanation
Indices: 39517961--39518109 Score: 262
Period size: 71 Copynumber: 2.1 Consensus size: 71
39517951 GCTTCAGTTA
*
39517961 TACATGTCGAGACCACATTATAGATTTGATATGCTGAGATGATAGAGACACCCCTTAACCTGTAA
1 TACATGTCGAGACCACATTATAGATTTGATATGCTGAGATGATACAGACACCCCTTAACCTGTAA
39518026 AAAGCT
66 AAAGCT
* *
39518032 TACATGTCGAGACCACATTATTGATTTGATATGCTGAGATGATACAGACACCCCTTAACCTGTAG
1 TACATGTCGAGACCACATTATAGATTTGATATGCTGAGATGATACAGACACCCCTTAACCTGTAA
39518097 AAAGCT
66 AAAGCT
*
39518103 TATATGT
1 TACATGT
39518110 TTTAGTATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (71 bp):
TACATGTCGAGACCACATTATAGATTTGATATGCTGAGATGATACAGACACCCCTTAACCTGTAA
AAAGCT
Found at i:39520826 original size:40 final size:40
Alignment explanation
Indices: 39520634--39520819 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
39520624 TTGAATGATG
* * * * *
39520634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
39520674 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39520714 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39520754 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
39520795 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
39520820 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Done.