Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 225 of 425
Found at i:68242525 original size:10 final size:10
Alignment explanation
Indices: 68242496--68242537 Score: 66
Period size: 10 Copynumber: 4.0 Consensus size: 10
68242486 ATTTAATTAA
68242496 AAAATTAATT
1 AAAATTAATT
68242506 AATTAATTAATT
1 AA--AATTAATT
68242518 AAAATTAATT
1 AAAATTAATT
68242528 AAAATTAATT
1 AAAATTAATT
68242538 TAATAAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 20 0.67
12 10 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AAAATTAATT
Found at i:68242533 original size:24 final size:22
Alignment explanation
Indices: 68242480--68242537 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
68242470 TTGGGTTGAG
*
68242480 AAAATTATTTAATTAAAAAATT
1 AAAATTAATTAATTAAAAAATT
68242502 AATTAATTAATTAATTAAAATTAATT
1 AA--AATTAATTAATTAAAA--AATT
68242528 AAAATTAATT
1 AAAATTAATT
68242538 TAATAAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 2 0.06
24 23 0.74
26 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATTAATTAATTAAAAAATT
Found at i:68255574 original size:22 final size:22
Alignment explanation
Indices: 68255532--68255576 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
68255522 CTCTGGAGGT
68255532 ACCATGGATGTTAGCATTCTCC
1 ACCATGGATGTTAGCATTCTCC
68255554 ACCAGTGGTATGTT-GCATCTCTC
1 ACCA-TGG-ATGTTAGCAT-TCTC
68255577 AATAAGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 7 0.35
24 9 0.45
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (22 bp):
ACCATGGATGTTAGCATTCTCC
Found at i:68255760 original size:37 final size:37
Alignment explanation
Indices: 68255702--68255777 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
68255692 CCCTAAATTC
68255702 CTCAACACCTTGATTTCGAATTTTATCGACTGGTGTT
1 CTCAACACCTTGATTTCGAATTTTATCGACTGGTGTT
* *
68255739 CTCAGCACCTTGATTTTGAATTTTATCGACTGGTGTT
1 CTCAACACCTTGATTTCGAATTTTATCGACTGGTGTT
68255776 CT
1 CT
68255778 AGAGAATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (37 bp):
CTCAACACCTTGATTTCGAATTTTATCGACTGGTGTT
Found at i:68257595 original size:40 final size:40
Alignment explanation
Indices: 68257461--68257612 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
68257451 GTAACCACAT
* * * **
68257461 GCACGAATGCCCTCGGGTCTTAGCCCGGATAGAA-CGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACCA
* * * *
68257501 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * **
68257541 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
68257581 GCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
68257613 CATTCAATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:68270531 original size:39 final size:40
Alignment explanation
Indices: 68270473--68270557 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 40
68270463 CGGAATACAA
*
68270473 CCGGATATAACCACATGCACGAATGCCCTC-GGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
* * *
68270512 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
68270552 CCGGAT
1 CCGGAT
68270558 GTAGTCACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.63
40 15 0.37
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (40 bp):
CCGGATAGAACCACATGCACGAATGCCCTCGGGTCTTAGC
Found at i:68270622 original size:40 final size:40
Alignment explanation
Indices: 68270473--68270639 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
68270463 CGGAATACAA
* * *
68270473 CCGGATATAACCA-CATGCACGAATGCCCTC-GGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
68270512 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
68270552 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
68270592 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
68270632 CCGGATAT
1 CCGGATAT
68270640 CATTCAATTG
Statistics
Matches: 103, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
38 1 0.01
39 23 0.22
40 78 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68271900 original size:18 final size:18
Alignment explanation
Indices: 68271879--68271914 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68271869 CTTTTCTTCC
* *
68271879 TTCTTTTTTTTTTTTTCT
1 TTCTTTGTTTTTGTTTCT
68271897 TTCTTTGTTTTTGTTTCT
1 TTCTTTGTTTTTGTTTCT
68271915 CTCATGTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (18 bp):
TTCTTTGTTTTTGTTTCT
Found at i:68278665 original size:40 final size:40
Alignment explanation
Indices: 68278515--68278682 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
68278505 CGGAATACAA
* * *
68278515 CCGGATATAACCA-CATGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** *
68278555 CCGGATAGAA-CGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
68278595 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
** * * *
68278635 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
68278675 CCGGATAT
1 CCGGATAT
68278683 CATTCAATTG
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68284572 original size:22 final size:23
Alignment explanation
Indices: 68284538--68284583 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
68284528 ATAGAGCTGA
68284538 AACTTCCTTGAAGGTTCT-CAGC
1 AACTTCCTTGAAGGTTCTCCAGC
68284560 AACTT-CTTGGAAGGTTCTCCAGC
1 AACTTCCTT-GAAGGTTCTCCAGC
68284583 A
1 A
68284584 TTGGTGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.64
23 5 0.23
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (23 bp):
AACTTCCTTGAAGGTTCTCCAGC
Found at i:68288654 original size:46 final size:44
Alignment explanation
Indices: 68288604--68288723 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 44
68288594 GATGAGTGCT
68288604 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT--ACC
* * * **
68288650 AGTGTAAGACATGTTTGGGACATGCATTGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTACC
68288694 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
68288724 AGTATAGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
44 10 0.16
45 15 0.23
46 39 0.61
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTACC
Found at i:68291483 original size:16 final size:16
Alignment explanation
Indices: 68291462--68291497 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
68291452 CCTAGCCAAA
68291462 ATTTTGACTTTTCGGC
1 ATTTTGACTTTTCGGC
*
68291478 ATTTTGGCTTTTCGGC
1 ATTTTGACTTTTCGGC
68291494 ATTT
1 ATTT
68291498 CGGCTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.53
Consensus pattern (16 bp):
ATTTTGACTTTTCGGC
Found at i:68291502 original size:16 final size:16
Alignment explanation
Indices: 68291469--68291505 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
68291459 AAAATTTTGA
*
68291469 CTTTTCGGCATTTTGG
1 CTTTTCGGCATTTCGG
68291485 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGG
68291501 CTTTT
1 CTTTT
68291506 GCCGATCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGG
Found at i:68292081 original size:11 final size:11
Alignment explanation
Indices: 68292065--68292092 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
68292055 AAATTAAAGC
68292065 AGAAGGGTAGA
1 AGAAGGGTAGA
68292076 AGAAGGGTAGA
1 AGAAGGGTAGA
68292087 AGAAGG
1 AGAAGG
68292093 AATTGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.46, T:0.07
Consensus pattern (11 bp):
AGAAGGGTAGA
Found at i:68297001 original size:40 final size:39
Alignment explanation
Indices: 68296956--68297085 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
68296946 CGGAATACAA
68296956 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* **
68296996 CCGGATAGAATGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
68297036 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
68297076 CCGGATATAA
1 CCGGATATAA
68297086 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:68301798 original size:46 final size:44
Alignment explanation
Indices: 68301731--68301850 Score: 161
Period size: 46 Copynumber: 2.6 Consensus size: 44
68301721 TGCGTGAGCT
68301731 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT--GCC
* * *
68301777 AGTGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCC
68301821 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
68301851 AGCACAGATA
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 11 0.16
45 15 0.22
46 41 0.61
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCC
Found at i:68302447 original size:20 final size:21
Alignment explanation
Indices: 68302408--68302447 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68302398 GAATTAATGG
68302408 CTACACGGGCATGTTGCCCTT
1 CTACACGGGCATGTTGCCCTT
*
68302429 CTACACGGGCGTG-TGCCCT
1 CTACACGGGCATGTTGCCCT
68302448 GTTCTAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
CTACACGGGCATGTTGCCCTT
Found at i:68303910 original size:22 final size:22
Alignment explanation
Indices: 68303882--68303940 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
68303872 ACACTTCCTT
68303882 GAAGGTTCTCAACAAATTCTTG
1 GAAGGTTCTCAACAAATTCTTG
* *
68303904 GAAGGTTCTCCACAACTTCTTG
1 GAAGGTTCTCAACAAATTCTTG
68303926 GAAGGTTCTCCAACA
1 GAAGGTTCT-CAACA
68303941 TTGATGATGC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (22 bp):
GAAGGTTCTCAACAAATTCTTG
Found at i:68307177 original size:49 final size:49
Alignment explanation
Indices: 68307111--68307331 Score: 219
Period size: 49 Copynumber: 4.7 Consensus size: 49
68307101 AGGCTATCTA
* *
68307111 GTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* * *
68307160 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC---TA----
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* * * * *
68307202 --AC-CATCGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG
* **
68307250 GTACGCATAGTAGCCTGCACTTAACACTACACATGCGACCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
* *
68307299 GTACACGTAGTAGCCTGTACTTAGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
68307332 CGTGACCTCA
Statistics
Matches: 140, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
39 31 0.22
40 3 0.02
44 2 0.01
46 2 0.01
49 69 0.49
50 5 0.04
51 28 0.20
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG
Found at i:68311686 original size:9 final size:9
Alignment explanation
Indices: 68311674--68311869 Score: 73
Period size: 10 Copynumber: 20.8 Consensus size: 9
68311664 TTTTATGATT
68311674 TTTTTATAA
1 TTTTTATAA
68311683 TTTTTATAA
1 TTTTTATAA
*
68311692 GTTTATATCAA
1 -TTTTTAT-AA
*
68311703 TTTTAAT-A
1 TTTTTATAA
68311711 TTTTTATAA
1 TTTTTATAA
*
68311720 TTTTTTAAGAA
1 -TTTTT-ATAA
* *
68311731 TTTTAATACG
1 TTTTTATA-A
68311741 TTTTT-TAA
1 TTTTTATAA
*
68311749 TTTTAAATAA
1 TTTT-TATAA
*
68311759 GTTTTATTAA
1 TTTTTA-TAA
68311769 -TTTTATACA
1 TTTTTATA-A
68311778 TTTTTCATAA
1 TTTTT-ATAA
* *
68311788 TTAATTCT-A
1 TT-TTTATAA
*
68311797 TTTGATT-TGA
1 TTT--TTATAA
68311807 TTTTTGAT-A
1 TTTTT-ATAA
68311816 TTTTTATAA
1 TTTTTATAA
*
68311825 GTTTTAATAA
1 -TTTTTATAA
68311835 -TTTTATAAA
1 TTTTTAT-AA
*
68311844 TTTATATCAA
1 TTTTTAT-AA
* *
68311854 TTTTAATAT
1 TTTTTATAA
68311863 TTTTTAT
1 TTTTTAT
68311870 TCTTTGATTA
Statistics
Matches: 141, Mismatches: 24, Indels: 44
0.67 0.11 0.21
Matches are distributed among these distances:
8 22 0.16
9 41 0.29
10 68 0.48
11 10 0.07
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:68311732 original size:28 final size:28
Alignment explanation
Indices: 68311682--68311781 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
68311672 TTTTTTTATA
* *
68311682 ATTTTTATAAGTTTATATCAATTTTAAT
1 ATTTTTATAATTTTATAACAATTTTAAT
* *
68311710 ATTTTTATAATTTTTTAAGAATTTTAAT
1 ATTTTTATAATTTTATAACAATTTTAAT
* *
68311738 ACGTTTTT-TAATTTTA-AATAAGTTTTATT
1 A--TTTTTATAATTTTATAACAA-TTTTAAT
*
68311767 AATTTTATACATTTT
1 ATTTTTATA-ATTTT
68311782 TCATAATTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
27 4 0.07
28 31 0.53
29 19 0.32
30 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (28 bp):
ATTTTTATAATTTTATAACAATTTTAAT
Found at i:68311733 original size:20 final size:19
Alignment explanation
Indices: 68311674--68311735 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
68311664 TTTTATGATT
68311674 TTTTTATAATTTTTATAAG-
1 TTTTTATAATTTTT-TAAGA
* *
68311693 TTTATATCAA--TTTTAATA
1 TTTTTAT-AATTTTTTAAGA
68311711 TTTTTATAATTTTTTAAGA
1 TTTTTATAATTTTTTAAGA
*
68311730 ATTTTA
1 TTTTTA
68311736 ATACGTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 18 0.53
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTTTAAGA
Found at i:68311752 original size:18 final size:18
Alignment explanation
Indices: 68311729--68311782 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
68311719 ATTTTTTAAG
68311729 AATTTTAATACGTTTTTT
1 AATTTTAATACGTTTTTT
*
68311747 AATTTTAAATAAGTTTTATT
1 AATTTT-AATACGTTTT-TT
*
68311767 AATTTT-ATACATTTTT
1 AATTTTAATACGTTTTT
68311783 CATAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 1 0.03
18 13 0.42
19 9 0.29
20 8 0.26
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (18 bp):
AATTTTAATACGTTTTTT
Found at i:68311757 original size:19 final size:20
Alignment explanation
Indices: 68311729--68311773 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
68311719 ATTTTTTAAG
*
68311729 AATTTT-AATACGTTTT-TT
1 AATTTTAAATAAGTTTTATT
68311747 AATTTTAAATAAGTTTTATT
1 AATTTTAAATAAGTTTTATT
68311767 AATTTTA
1 AATTTTA
68311774 TACATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTAAATAAGTTTTATT
Found at i:68311918 original size:21 final size:20
Alignment explanation
Indices: 68311892--68311932 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
68311882 TTTCTTTCTA
*
68311892 TTTTTTTATAATTTTTATGAG
1 TTTTTTAATAA-TTTTATGAG
*
68311913 TTTTTTAATCATTTTATGAG
1 TTTTTTAATAATTTTATGAG
68311933 AAAAATAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (20 bp):
TTTTTTAATAATTTTATGAG
Found at i:68312849 original size:3 final size:3
Alignment explanation
Indices: 68312841--68312867 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
68312831 GACCTTTGTT
68312841 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
68312868 ATGCTGCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:68318003 original size:43 final size:43
Alignment explanation
Indices: 68317953--68318090 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
68317943 TCCCAGATGT
* * *
68317953 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
* * *
68317996 GGTCTTACACG-AAATCAAATAT-GATG-CTAATTTCCCAGACAT
1 GGTCTTACACGTAATTC-AATATCGATGCCT-ATGTCCCAGACAC
* *
68318038 GGTCTTACACGTAAATCTCAA-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAATATCGATGCCTATGTCCCAGACAC
*
68318082 AGTCTTACA
1 GGTCTTACA
68318091 TGATATTTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.03
42 29 0.38
43 17 0.22
44 25 0.32
45 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTATGTCCCAGACAC
Found at i:68324740 original size:25 final size:25
Alignment explanation
Indices: 68324703--68324781 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
68324693 GACACACCAT
*
68324703 AGCTCGTATGAGCTTATTGATTTTC
1 AGCTCGTATGAGCTTATCGATTTTC
*
68324728 AGCTCGTGA-GAGCTTATCGATTCTC
1 AGCTCGT-ATGAGCTTATCGATTTTC
* * * *
68324753 AACTCGTATGAGCTGACCGATTTAC
1 AGCTCGTATGAGCTTATCGATTTTC
68324778 AGCT
1 AGCT
68324782 TGTGAGAGCG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (25 bp):
AGCTCGTATGAGCTTATCGATTTTC
Found at i:68324799 original size:50 final size:50
Alignment explanation
Indices: 68324700--68324813 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
68324690 GCAGACACAC
* * ** * * *
68324700 CATAGCTCGTATGAGCTTATTGATTTTCAGCTCGTGAGAGCTTATCGATT
1 CATAACTCGTATGAGCTGACCGATTTACAGCTCGTGAGAGCGTACCGATT
* *
68324750 C-TCAACTCGTATGAGCTGACCGATTTACAGCTTGTGAGAGCGTGCCGATT
1 CAT-AACTCGTATGAGCTGACCGATTTACAGCTCGTGAGAGCGTACCGATT
*
68324800 CATAGCTCGTATGA
1 CATAACTCGTATGA
68324814 TCATACATGT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.02
50 50 0.96
51 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
CATAACTCGTATGAGCTGACCGATTTACAGCTCGTGAGAGCGTACCGATT
Found at i:68329040 original size:43 final size:43
Alignment explanation
Indices: 68328992--68329088 Score: 176
Period size: 43 Copynumber: 2.3 Consensus size: 43
68328982 CTACAGGGGT
*
68328992 CACACGGCCGTATGGCCGTGCCATGTGACTTACACGACTGAGA
1 CACACGCCCGTATGGCCGTGCCATGTGACTTACACGACTGAGA
*
68329035 CACACGCCCGTATGGCCGTGCCGTGTGACTTACACGACTGAGA
1 CACACGCCCGTATGGCCGTGCCATGTGACTTACACGACTGAGA
68329078 CACACGCCCGT
1 CACACGCCCGT
68329089 GTCTCAGGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.18
Consensus pattern (43 bp):
CACACGCCCGTATGGCCGTGCCATGTGACTTACACGACTGAGA
Found at i:68329303 original size:28 final size:28
Alignment explanation
Indices: 68329272--68329333 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
68329262 CGCATGGCCG
68329272 TGTGTCACACACAGCAGAGACA-CACGCC
1 TGTGTCACACACAGCAGAGA-AGCACGCC
*
68329300 TGTGTCACACACAGCTGAGAAGCACGCC
1 TGTGTCACACACAGCAGAGAAGCACGCC
68329328 TGTGTC
1 TGTGTC
68329334 TTAGGCCGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.16
Consensus pattern (28 bp):
TGTGTCACACACAGCAGAGAAGCACGCC
Found at i:68330692 original size:38 final size:38
Alignment explanation
Indices: 68330648--68330773 Score: 162
Period size: 38 Copynumber: 3.3 Consensus size: 38
68330638 AATATAATAC
* *
68330648 ACCGGCACGAAGACTGCTAGGCACAGAGCCCGAATATT
1 ACCGGCACAAAGACTGCTAGGCACAGAGCCCGAATATA
* * *
68330686 ATCGGCACAAAGCCTGCTAGGCACAGATCCCGAATATA
1 ACCGGCACAAAGACTGCTAGGCACAGAGCCCGAATATA
* * * *
68330724 ACCGACACAAAGTCTGCTAGGCACAGAGCCCAAATATC
1 ACCGGCACAAAGACTGCTAGGCACAGAGCCCGAATATA
*
68330762 ACTGGCACAAAG
1 ACCGGCACAAAG
68330774 CCCGATTATC
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.13
Consensus pattern (38 bp):
ACCGGCACAAAGACTGCTAGGCACAGAGCCCGAATATA
Found at i:68330783 original size:22 final size:22
Alignment explanation
Indices: 68330743--68330794 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
68330733 AAGTCTGCTA
*
68330743 GGCACAGAGCCCAAATATCA-C
1 GGCACAAAGCCCAAATATCATC
* *
68330764 TGGCACAAAGCCCGATTATCATC
1 -GGCACAAAGCCCAAATATCATC
68330787 GGCACAAA
1 GGCACAAA
68330795 ACCTGCTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.37, C:0.31, G:0.19, T:0.13
Consensus pattern (22 bp):
GGCACAAAGCCCAAATATCATC
Found at i:68335805 original size:15 final size:14
Alignment explanation
Indices: 68335762--68335813 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
68335752 CTATTTTTCA
68335762 TTGTTATTTTG-TGT
1 TTGTT-TTTTGTTGT
*
68335776 TGGTTTGTTTGTTGT
1 TTGTTT-TTTGTTGT
68335791 TTGTTTTTTGTTTGT
1 TTGTTTTTTG-TTGT
*
68335806 GTGTTTTT
1 TTGTTTTT
68335814 CTTATGTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.03
14 12 0.38
15 19 0.59
ACGTcount: A:0.02, C:0.00, G:0.25, T:0.73
Consensus pattern (14 bp):
TTGTTTTTTGTTGT
Found at i:68336798 original size:21 final size:20
Alignment explanation
Indices: 68336769--68336808 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
68336759 TGCAAGGCTC
68336769 ACACACCCGCGTGGTCTAGGG
1 ACACACCCGCGTGGT-TAGGG
* *
68336790 ACACGCCCGTGTGGTTAGG
1 ACACACCCGCGTGGTTAGG
68336809 CCGTGTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (20 bp):
ACACACCCGCGTGGTTAGGG
Found at i:68338639 original size:21 final size:21
Alignment explanation
Indices: 68338615--68338661 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
68338605 TAAAAGTTGC
* *
68338615 TTTTCTATGAATAAATTT-TCA
1 TTTTCTA-CAATAAATTTCTAA
68338636 TTTTCTACAATAAATTTCTAA
1 TTTTCTACAATAAATTTCTAA
68338657 TTTTC
1 TTTTC
68338662 AGCATATTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTCTACAATAAATTTCTAA
Found at i:68339175 original size:5 final size:5
Alignment explanation
Indices: 68339165--68339191 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
68339155 AATGCCAACC
68339165 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
68339192 TATTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:68339203 original size:5 final size:6
Alignment explanation
Indices: 68339191--68339217 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
68339181 TAAAATAAAA
68339191 TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTA
68339218 ACTCGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTATTT
Found at i:68339759 original size:24 final size:24
Alignment explanation
Indices: 68339727--68339784 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
68339717 CCACATTGTT
68339727 GGAGAAATAAGGAAA-GTGAGAGAA
1 GGAGAAATAA-GAAATGTGAGAGAA
*
68339751 GGAGAAATAAGAAATGTTAGAGAA
1 GGAGAAATAAGAAATGTGAGAGAA
*
68339775 TGAGAAATAA
1 GGAGAAATAA
68339785 TGTGGTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.55, C:0.00, G:0.31, T:0.14
Consensus pattern (24 bp):
GGAGAAATAAGAAATGTGAGAGAA
Found at i:68343033 original size:44 final size:43
Alignment explanation
Indices: 68342905--68343043 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 43
68342895 GTCCCGGATG
** * *
68342905 TGGTCTTACATGT-AATTCAATATCGATGCCTCTGTCCCAGATA
1 TGGTCTTACACATAAATTCAA-ATCGATGCCTATGTCCCAGACA
* *
68342948 AGGTCTTACACA-AAA-TCAAATACGATGCCAATGTCCCAGACA
1 TGGTCTTACACATAAATTCAAAT-CGATGCCTATGTCCCAGACA
* *
68342990 TGGTCTTACACATAAATCTCAAATCGAGGCCTGTGTCCCAGACA
1 TGGTCTTACACATAAAT-TCAAATCGATGCCTATGTCCCAGACA
*
68343034 CGGTCTTACA
1 TGGTCTTACA
68343044 TGATATTTCA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.03
42 32 0.40
43 14 0.17
44 26 0.32
45 6 0.08
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACATAAATTCAAATCGATGCCTATGTCCCAGACA
Found at i:68349087 original size:10 final size:10
Alignment explanation
Indices: 68349074--68349109 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
68349064 TAAGCTCGGT
68349074 TGAGCTCAAA
1 TGAGCTCAAA
*
68349084 TGAGCTGAAA
1 TGAGCTCAAA
*
68349094 CGAGCTCAAA
1 TGAGCTCAAA
68349104 TGAGCT
1 TGAGCT
68349110 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:68349118 original size:20 final size:20
Alignment explanation
Indices: 68349072--68349119 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
68349062 AGTAAGCTCG
68349072 GTTGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
***
68349092 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
68349112 GTTGAGCT
1 GTTGAGCT
68349120 GGACAGAGCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:68352318 original size:49 final size:49
Alignment explanation
Indices: 68352263--68352819 Score: 954
Period size: 49 Copynumber: 11.4 Consensus size: 49
68352253 TATTAAAATT
*
68352263 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68352312 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
** *
68352361 TGTGAAAGTGTGCATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68352410 TGTGAAAGTGTATGTATATGTGATAAGGCGTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68352459 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68352508 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68352557 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68352606 TGTGAAAGTGTGTA-ATATGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68352654 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68352703 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68352752 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
68352801 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
68352820 ATGTGGTAAA
Statistics
Matches: 479, Mismatches: 28, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 0.10
49 432 0.90
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:68352381 original size:27 final size:26
Alignment explanation
Indices: 68352351--68352531 Score: 66
Period size: 27 Copynumber: 7.3 Consensus size: 26
68352341 CTAATGGCCG
68352351 ATGTGATGAATGTGAAAGTGTGCATAT
1 ATGTGATGAATGTGAAAGTGTGC-TAT
* *** *
68352378 ATGTGAT-AAGGCCTAA-TG-GCCA-
1 ATGTGATGAATGTGAAAGTGTGCTAT
68352400 ATGTGATGAATGTGAAAGTGTATG-TAT
1 ATGTGATGAATGTGAAAGTG--TGCTAT
* * * **
68352427 ATGTGAT-AAGGCGTAA-TG-GC-CG
1 ATGTGATGAATGTGAAAGTGTGCTAT
*
68352449 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTG-CTAT
* *** *
68352476 ATGTGAT-AAGGCCTAA-TG-GCCA-
1 ATGTGATGAATGTGAAAGTGTGCTAT
68352498 ATGTGATGAATGTGAAAGTGTATG-TAT
1 ATGTGATGAATGTGAAAGTG--TGCTAT
68352525 ATGTGAT
1 ATGTGAT
68352532 AAGGCCTAAT
Statistics
Matches: 104, Mismatches: 32, Indels: 36
0.60 0.19 0.21
Matches are distributed among these distances:
22 22 0.21
23 18 0.17
24 9 0.09
25 7 0.07
26 18 0.17
27 30 0.29
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (26 bp):
ATGTGATGAATGTGAAAGTGTGCTAT
Found at i:68354870 original size:40 final size:40
Alignment explanation
Indices: 68354815--68355206 Score: 712
Period size: 40 Copynumber: 9.8 Consensus size: 40
68354805 GAGAATTGAG
*
68354815 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
68354855 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
68354895 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
68354935 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
68354975 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
68355015 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
68355055 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
68355095 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
68355135 AGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
68355175 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
68355207 ATCATGCTGG
Statistics
Matches: 346, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 346 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:68359070 original size:49 final size:49
Alignment explanation
Indices: 68359015--68359572 Score: 972
Period size: 49 Copynumber: 11.4 Consensus size: 49
68359005 TATTAAAATT
*
68359015 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68359064 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
** *
68359113 TGTGAAAGTGTGCATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68359162 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68359211 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68359260 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68359309 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68359358 TGTGAAAGTGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68359407 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
68359456 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
68359505 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
68359554 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATATATAT
68359573 ATGTGGTAAA
Statistics
Matches: 483, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 483 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:68365916 original size:24 final size:24
Alignment explanation
Indices: 68365884--68366064 Score: 276
Period size: 24 Copynumber: 7.6 Consensus size: 24
68365874 TATCTCAAAT
*
68365884 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
68365908 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
68365932 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
68365956 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
68365980 GCACTATGTGTGTGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
68366004 GCACTATGTGTGC--TTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
68366026 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
68366050 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
68366065 ACATAATAAG
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
22 20 0.14
24 127 0.86
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:68368830 original size:24 final size:24
Alignment explanation
Indices: 68368798--68369004 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
68368788 TATCTCAAAT
*
68368798 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
68368822 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
68368846 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
68368870 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
68368894 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
68368918 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
68368942 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
68368966 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
68368990 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
68369005 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:68376568 original size:24 final size:24
Alignment explanation
Indices: 68376536--68376716 Score: 285
Period size: 24 Copynumber: 7.6 Consensus size: 24
68376526 TATCTCAAAT
*
68376536 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
68376560 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
68376584 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
68376608 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
68376632 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
68376656 GCACTATGTGTGC--TTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
68376678 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
68376702 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
68376717 ACATAATAAG
Statistics
Matches: 149, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
22 20 0.13
24 129 0.87
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:68380966 original size:17 final size:18
Alignment explanation
Indices: 68380927--68380968 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
68380917 ATCTATATGT
* *
68380927 ATTCAAAATTAACCCTTTC
1 ATTCAAAA-TAACCATTTA
68380946 ATTCAAAA-AACCATTTA
1 ATTCAAAATAACCATTTA
68380963 ATTCAA
1 ATTCAA
68380969 TCCATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTCAAAATAACCATTTA
Found at i:68388629 original size:20 final size:20
Alignment explanation
Indices: 68388599--68388649 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
68388589 GATCTATATG
68388599 TATTC-AAAATTAACTCTTT
1 TATTCAAAAATTAACTCTTT
68388618 TATTCAAAAATTAACTCTTT
1 TATTCAAAAATTAACTCTTT
68388638 TATTCAACAAAT
1 TATTCAA-AAAT
68388650 CATTTAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.17
20 21 0.70
21 4 0.13
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTCAAAAATTAACTCTTT
Found at i:68394158 original size:53 final size:54
Alignment explanation
Indices: 68394077--68394281 Score: 178
Period size: 53 Copynumber: 3.8 Consensus size: 54
68394067 TTTCCTTTTT
* * * *
68394077 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * * *
68394130 GAACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * * * * * * *
68394184 GTAACACATCAATGCCATGTCTTGACATGGTCTTGCATGATTTCCTTGCTTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
* * ** * * *
68394239 GAACTTATCAATTTCATGCCTTGGCATGGTCTTAAATGATATC
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
68394282 CTTATCTTAC
Statistics
Matches: 120, Mismatches: 30, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 44 0.37
54 34 0.28
55 42 0.35
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCATTGCCTTATA
Found at i:68394278 original size:54 final size:54
Alignment explanation
Indices: 68394091--68394284 Score: 194
Period size: 55 Copynumber: 3.6 Consensus size: 54
68394081 TTACCATTGC
* * * * * *
68394091 CATGTCTTGACATGGTCTTACGTGGTATCATTGCCTTAT-GAACTCACCAATGT
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGT
** * *
68394144 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACACATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGT
* * * * * * *
68394199 CATGTCTTGACATGGTCTTGCATGATTTCCTTGCTTTATAGAACTTATCAATTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGT
*
68394253 CATGCCTTGGCATGGTCTTAAATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
68394285 ATCTTACCAA
Statistics
Matches: 113, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.01
53 32 0.28
54 37 0.33
55 41 0.36
56 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGT
Found at i:68394337 original size:47 final size:47
Alignment explanation
Indices: 68394263--68394384 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
68394253 CATGCCTTGG
* * *
68394263 CATGGTCTTAAATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
68394310 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
68394357 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
68394385 GTGACAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:68394572 original size:44 final size:44
Alignment explanation
Indices: 68394523--68394607 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
68394513 ATCCTTAACC
* *
68394523 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCT
* *
68394567 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
68394608 GAGATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCT
Found at i:68398666 original size:42 final size:42
Alignment explanation
Indices: 68398551--68398702 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
68398541 TACCATACCA
* * *
68398551 ATGCCATATCCCAAATATGGTCTTACATG-GGATCTCGTATCG
1 ATGCCATATCCCAAATATGGTCTTACACGAAG-TCTCATATCG
* * * **
68398593 ATGCTAATAGCCTAGCTATGGTCTT-CTACGAAGTCTCATATCG
1 ATGC-CATATCCCAAATATGGTCTTAC-ACGAAGTCTCATATCG
* *
68398636 ATGCCATTTCCCAAATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
* *
68398678 ATGCCATATCCCAGATGTGGTCTTA
1 ATGCCATATCCCAAATATGGTCTTA
68398703 GACATAGTCT
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 56 0.64
43 31 0.35
44 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACACGAAGTCTCATATCG
Found at i:68402158 original size:45 final size:45
Alignment explanation
Indices: 68402093--68402222 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
68402083 TGTACAGTAA
*
68402093 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGTCGGTGAAATAC
1 TATTCGGGCCTTTGAACCTAGCAGGCTACAATGTCGGTGAAATAC
* *
68402138 TATTCGGGCCTTTGAACCTAGCAGGCTACAATGCCGGTGAAATGC
1 TATTCGGGCCTTTGAACCTAGCAGGCTACAATGTCGGTGAAATAC
* * *
68402183 TATTCGGG-CTTTCAAGCCTAGCAGGCGA-AATGTCGATGAA
1 TATTCGGGCCTTTGAA-CCTAGCAGGCTACAATGTCGGTGAA
68402223 TGAACTCGAG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
44 16 0.21
45 61 0.79
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAACCTAGCAGGCTACAATGTCGGTGAAATAC
Found at i:68408223 original size:2 final size:2
Alignment explanation
Indices: 68408216--68408247 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
68408206 TTTAGATTTC
68408216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68408248 TGTTCTCGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68410597 original size:47 final size:47
Alignment explanation
Indices: 68410526--68410741 Score: 214
Period size: 46 Copynumber: 4.6 Consensus size: 47
68410516 TGAGATGTCA
* *
68410526 ATGCCATGTCCCAAACACAGTCTTACACTGGCTTACATCTC-AAGTCG
1 ATGCCATGTCCCAAACA-TGTCTTACACTGGCTTACATCTCGAAGCCG
* *
68410573 AAGCCATGTCCCAGAA-ATGGTCTTACACTGG-TTATCATCTCGTAGCCG
1 ATGCCATGTCCCA-AACAT-GTCTTACACTGGCTTA-CATCTCGAAGCCG
* *
68410621 ATG-CATGTCCCAAACATGTCTTACACTGGCTTATATCTCGAGGCCG
1 ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAAGCCG
* * *
68410667 ATG-CATGTCCCAGACATGTCTTACACTAGC--AC-TCGTCTAAATGCCG
1 ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATC-TC-GAA-GCCG
*
68410713 ATGCCATGTCCCAAATATGGTCTTACACT
1 ATGCCATGTCCCAAACAT-GTCTTACACT
68410742 AGCTCTCACA
Statistics
Matches: 143, Mismatches: 15, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 1 0.01
46 62 0.43
47 57 0.40
48 18 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAAGCCG
Found at i:68410721 original size:93 final size:94
Alignment explanation
Indices: 68410526--68410741 Score: 244
Period size: 93 Copynumber: 2.3 Consensus size: 94
68410516 TGAGATGTCA
* *
68410526 ATGCCATGTCCCAAACACAGTCTTACACTGGCTTACATCTCAAGTCGAAGCCATGTCCCAGAAAT
1 ATGCCATGTCCCAAACA-TGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGAAAT
* * **
68410591 GGTCTTACACTGGTTATCATCTCGTAGCCG
65 GGTCTTACACTAGTCATCATCTAATAGCCG
* * * *
68410621 ATG-CATGTCCCAAACATGTCTTACACTGGCTTATATCTCGAGGCCGATG-CATGTCCCAGACAT
1 ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTC-AAGCCGAAGCCATGTCCCAGAAAT
*
68410684 -GTCTTACACTAG-CACTCGTCTAA-ATGCCG
65 GGTCTTACACTAGTCA-TCATCTAATA-GCCG
*
68410713 ATGCCATGTCCCAAATATGGTCTTACACT
1 ATGCCATGTCCCAAACAT-GTCTTACACT
68410742 AGCTCTCACA
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
91 2 0.02
92 23 0.22
93 47 0.45
94 29 0.28
95 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (94 bp):
ATGCCATGTCCCAAACATGTCTTACACTGGCTTACATCTCAAGCCGAAGCCATGTCCCAGAAATG
GTCTTACACTAGTCATCATCTAATAGCCG
Found at i:68412165 original size:4 final size:4
Alignment explanation
Indices: 68412156--68412251 Score: 192
Period size: 4 Copynumber: 24.0 Consensus size: 4
68412146 GAAAACTTAA
68412156 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
68412204 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
68412252 AGAAATATTT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 92 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:68417528 original size:2 final size:2
Alignment explanation
Indices: 68417521--68417556 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
68417511 TTCAGATTTC
* *
68417521 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68417557 CTTTTGTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68427965 original size:35 final size:35
Alignment explanation
Indices: 68427926--68427993 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
68427916 AACATACACC
68427926 TCTCACATTCTCTCTCATCATTCTAATTTGGGGAT
1 TCTCACATTCTCTCTCATCATTCTAATTTGGGGAT
68427961 TCTCACATTCTCTCTCATCATTCTAATTTGGGG
1 TCTCACATTCTCTCTCATCATTCTAATTTGGGG
68427994 GATTGATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (35 bp):
TCTCACATTCTCTCTCATCATTCTAATTTGGGGAT
Found at i:68428295 original size:12 final size:12
Alignment explanation
Indices: 68428278--68428304 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
68428268 GATGGTTGAT
68428278 GTATATATTTTA
1 GTATATATTTTA
68428290 GTATATATTTTA
1 GTATATATTTTA
68428302 GTA
1 GTA
68428305 ATAAAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (12 bp):
GTATATATTTTA
Found at i:68437540 original size:28 final size:29
Alignment explanation
Indices: 68437486--68437542 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
68437476 CACTTTGTGC
* * *
68437486 TATTTTGGTGTGTTTTGGATGGATTATAT
1 TATTTTGATGTGCTTGGGATGGATTATAT
68437515 TATTTTGATGTGCTTGGGA-GGATTATAT
1 TATTTTGATGTGCTTGGGATGGATTATAT
68437543 GATACTGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.19, C:0.02, G:0.28, T:0.51
Consensus pattern (29 bp):
TATTTTGATGTGCTTGGGATGGATTATAT
Found at i:68437562 original size:28 final size:28
Alignment explanation
Indices: 68437494--68437566 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
68437484 GCTATTTTGG
* * *
68437494 TGTGTTTTGGATGGATTATATTATTTTGA
1 TGTGTTTTGGA-GGATTATATGATCTGGA
* *
68437523 TGTGCTTGGGAGGATTATATGATACTGGA
1 TGTGTTTTGGAGGATTATATGAT-CTGGA
68437552 -GTGTTTTGGAGGATT
1 TGTGTTTTGGAGGATT
68437567 GTACTGGTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 24 0.67
29 12 0.33
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.45
Consensus pattern (28 bp):
TGTGTTTTGGAGGATTATATGATCTGGA
Found at i:68437804 original size:23 final size:23
Alignment explanation
Indices: 68437774--68437860 Score: 94
Period size: 21 Copynumber: 4.0 Consensus size: 23
68437764 GCTTTACTGA
*
68437774 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
68437797 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
* *
68437818 GCAGGCACCTCATGTGTCG--TT
1 TCAGGCACCTTATGTGTCGTATT
68437839 TCAGGCA-CTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
68437861 CTGATCAGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 10 0.19
21 22 0.42
22 2 0.04
23 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:68445904 original size:9 final size:11
Alignment explanation
Indices: 68445877--68445906 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
68445867 TTTCACATTT
68445877 TAATTTTTATA
1 TAATTTTTATA
68445888 TAATTTTTATA
1 TAATTTTTATA
68445899 -AATTTTTA
1 TAATTTTTA
68445907 GGGATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:68445980 original size:29 final size:30
Alignment explanation
Indices: 68445947--68446003 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
68445937 TGGTTTAATC
68445947 TGCAATTGTATACATG-AACTTTGATTTTG
1 TGCAATTGTATACATGAAACTTTGATTTTG
* * *
68445976 TGCAATTTTATATATGAAATTTTGATTT
1 TGCAATTGTATACATGAAACTTTGATTT
68446004 GATTCAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (30 bp):
TGCAATTGTATACATGAAACTTTGATTTTG
Found at i:68446228 original size:31 final size:29
Alignment explanation
Indices: 68446153--68446230 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
68446143 TTTGAATCAC
* *
68446153 AATTAGAGTTTCATGTGTATAATTGCACCA
1 AATTA-AGATTCATGTATATAATTGCACCA
*
68446183 AATTAA-ATTCCATGTATATAATTGCACATTA
1 AATTAAGATT-CATGTATATAATTGCAC--CA
68446214 AATTAAGATTCATGTAT
1 AATTAAGATTCATGTAT
68446231 GATTTGAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 2 0.05
29 17 0.41
30 5 0.12
31 14 0.34
32 3 0.07
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (29 bp):
AATTAAGATTCATGTATATAATTGCACCA
Found at i:68446425 original size:20 final size:19
Alignment explanation
Indices: 68446378--68446448 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
68446368 TAAATGCACA
* *
68446378 TTATTATTATTATTTTATT
1 TTATTATTTTTATATTATT
*
68446397 TTTTATATTTTTATATTATT
1 TTAT-TATTTTTATATTATT
68446417 TTGATTATTTTTCTATATATATT
1 TT-ATTA-TTTT-TATAT-TATT
*
68446440 TTATAATTT
1 TTATTATTT
68446449 CTAATAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 3 0.07
20 17 0.40
21 8 0.19
22 8 0.19
23 6 0.14
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (19 bp):
TTATTATTTTTATATTATT
Found at i:68446444 original size:9 final size:8
Alignment explanation
Indices: 68446377--68446427 Score: 50
Period size: 9 Copynumber: 6.0 Consensus size: 8
68446367 CTAAATGCAC
68446377 ATTATTATT
1 ATTATT-TT
68446386 ATTATTTT
1 ATTATTTT
68446394 ATT-TTTT
1 ATTATTTT
*
68446401 ATATTTTTAT
1 AT-TATTT-T
68446411 ATTATTTT
1 ATTATTTT
68446419 GATTATTTT
1 -ATTATTTT
68446428 TCTATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
7 6 0.16
8 7 0.19
9 21 0.57
10 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTATTTT
Found at i:68446448 original size:22 final size:19
Alignment explanation
Indices: 68446393--68446472 Score: 58
Period size: 20 Copynumber: 4.1 Consensus size: 19
68446383 ATTATTATTT
68446393 TATT-TTTTATA-TTTTTA
1 TATTATTTTATATTTTTTA
68446410 TATTATTTTGATTATTTTTCTA
1 TATTATTTT-A-TATTTTT-TA
* *
68446432 TATATATTTTATAATTTCTA
1 TAT-TATTTTATATTTTTTA
*
68446452 -ATAATTATTACTATTTTTTA
1 TATTATT-TTA-TATTTTTTA
68446472 T
1 T
68446473 GAATTTTGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
17 4 0.08
18 7 0.14
19 6 0.12
20 11 0.22
21 9 0.18
22 6 0.12
23 6 0.12
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (19 bp):
TATTATTTTATATTTTTTA
Found at i:68447286 original size:12 final size:12
Alignment explanation
Indices: 68447269--68447293 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68447259 GTTTAAACTT
68447269 TATAATTTAAAA
1 TATAATTTAAAA
68447281 TATAATTTAAAA
1 TATAATTTAAAA
68447293 T
1 T
68447294 TTTTTATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATTTAAAA
Found at i:68453266 original size:3 final size:3
Alignment explanation
Indices: 68453258--68453289 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
68453248 TGGCAGACAA
68453258 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
68453290 GGTTAAATCG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:68454859 original size:15 final size:16
Alignment explanation
Indices: 68454836--68454873 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
68454826 TAAGGAAAAT
*
68454836 TTTTAAATTTAGTT-A
1 TTTTAAATTAAGTTAA
*
68454851 TTTTCAATTAAGTTAA
1 TTTTAAATTAAGTTAA
68454867 TTTTAAA
1 TTTTAAA
68454874 GTTTTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (16 bp):
TTTTAAATTAAGTTAA
Found at i:68467281 original size:17 final size:15
Alignment explanation
Indices: 68467234--68467295 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
68467224 AGAAAACCCA
* *
68467234 ATAAAGAAGTCCGAG
1 ATAAAGAAATCCAAG
*
68467249 ACAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
68467264 ATAAAGAAACTCCCAAG
1 ATAAAGAAA-T-CCAAG
**
68467281 ATTTAGAAATCCAAG
1 ATAAAGAAATCCAAG
68467296 TTACAATACC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
15 25 0.64
16 2 0.05
17 12 0.31
ACGTcount: A:0.52, C:0.18, G:0.16, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:68470360 original size:47 final size:46
Alignment explanation
Indices: 68470262--68470519 Score: 179
Period size: 46 Copynumber: 5.5 Consensus size: 46
68470252 GGTAAGGTGC
* * *
68470262 CATGTCCCAGACACGGTCTTACACT-AGCTCAT-GTCTC-AAGTCGAATC
1 CATGTCCCAGACA-TGTCTTACACTGA-CT-ATCGTCTCGAAGCCG-ATG
* * *
68470309 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCGTCTCGAAGCCGATG
* * *
68470356 CATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CGTCTCGAAGCCGATG
** * **
68470402 TTTTTCCCAGACATGTCTTACACCAAC-ACTCGTCTC-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTA-TCGTCTCGAA-GCCGATG
* * * * **
68470448 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACTATCGT-CTCGAAGCCGATG
*
68470496 CATGCCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
68470520 AGCTCACACA
Statistics
Matches: 168, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
45 2 0.01
46 70 0.42
47 69 0.41
48 26 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCGTCTCGAAGCCGATG
Found at i:68470921 original size:30 final size:30
Alignment explanation
Indices: 68470881--68470938 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
68470871 AATTCATATC
* *
68470881 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGAAAAATGACCATTTTACCCCTAGAT
*
68470911 TTTGGAAAAATGGCCATTTTACCCCTAG
1 TTTGGAAAAATGACCATTTTACCCCTAG
68470939 GTCTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (30 bp):
TTTGGAAAAATGACCATTTTACCCCTAGAT
Found at i:68478110 original size:47 final size:44
Alignment explanation
Indices: 68478043--68478169 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 44
68478033 ACGTCTCGAG
* *
68478043 GCCGATGCATGTCCTAGACATGTCTTACATTAGCACTCGTGTCAA-T
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTC--GT-AAGT
* * **
68478089 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGTTCTCGTAATGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTAA-GT
68478136 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
68478170 TCATACAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
45 13 0.19
46 22 0.32
47 20 0.29
48 13 0.19
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTAAGT
Found at i:68485319 original size:80 final size:80
Alignment explanation
Indices: 68485235--68485383 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
68485225 TATGGTAACC
* * * *
68485235 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
68485299 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
68485315 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
68485380 CCGG
66 CCGG
68485384 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:68485325 original size:40 final size:38
Alignment explanation
Indices: 68485276--68485383 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
68485266 ATCACGATTT
*
68485276 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
68485316 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
68485356 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
68485384 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:68493438 original size:80 final size:80
Alignment explanation
Indices: 68493354--68493502 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
68493344 TATGGTAACC
* * * *
68493354 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
68493418 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
68493434 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
68493499 CCGG
66 CCGG
68493503 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:68493444 original size:40 final size:38
Alignment explanation
Indices: 68493395--68493502 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
68493385 ATCACGATTT
*
68493395 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
68493435 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
68493475 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
68493503 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:68496904 original size:27 final size:27
Alignment explanation
Indices: 68496868--68496927 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
68496858 TAGATCAAGA
*
68496868 AAAAGGAGGAACGAACCTTGACCCGAG
1 AAAAGAAGGAACGAACCTTGACCCGAG
68496895 AAAAGAAGGAACGAACCTTGACCCGAG
1 AAAAGAAGGAACGAACCTTGACCCGAG
68496922 AAAAGA
1 AAAAGA
68496928 CAAGGTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.20, G:0.27, T:0.07
Consensus pattern (27 bp):
AAAAGAAGGAACGAACCTTGACCCGAG
Found at i:68500409 original size:48 final size:49
Alignment explanation
Indices: 68500292--68500563 Score: 223
Period size: 50 Copynumber: 5.6 Consensus size: 49
68500282 GTAAAATCCT
* ** * * *
68500292 GATGCCATGTTCTGGACATGGTCTTACACTGGCTCTCA-CACATCAGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAC-T-GGTGCC
* * * * * * *
68500342 AATGCCATGTTCCAAACATGGTCTTGCACTAGCTCGCAT-ATTGAG-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACTG-GTGCC
* * * *
68500390 GATGTCATGTCCCAGACATGATCTTACACTAGCTCTCATAAACTGGTACT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AACTGGTGCC
* * * * * * **
68500440 GATGCCATGTCCTAAACATGGTCTTACA-TTG-ACACATACCAAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACTGGTGCC
68500486 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AACTGGTGCC
*
68500536 GATGCCGTGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
68500564 TTGACACATA
Statistics
Matches: 173, Mismatches: 40, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
46 27 0.16
47 5 0.03
48 42 0.24
49 8 0.05
50 91 0.53
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACTGGTGCC
Found at i:68500581 original size:96 final size:96
Alignment explanation
Indices: 68500292--68500581 Score: 330
Period size: 96 Copynumber: 3.0 Consensus size: 96
68500282 GTAAAATCCT
* ** * * * * * *
68500292 GATGCCATGTTCTGGACATGGTCTTACACTGGCTCTCACACA-TCAGTGCCAATGCCATGTTCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACT-GGTGCCGATGCCATGTCCCA
* * * * * *
68500356 AACATGGTCTTGCACTAGCTCGCATATTGAGGCT
65 AACATGGTCTTACA-TTG-ACACATATCGAGGCC
* * * * *
68500390 GATGTCATGTCCCAGACATGATCTTACACTAGCTCTCATAAACTGGTACTGATGCCATGTCCTAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCATGTCCCAA
* *
68500455 ACATGGTCTTACATTGACACATACCAAGGCC
66 ACATGGTCTTACATTGACACATATCGAGGCC
* *
68500486 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCGTGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCATGTCCCAA
68500551 ACATGGTCTTACATTGACACATATCGAGGCC
66 ACATGGTCTTACATTGACACATATCGAGGCC
68500582 TATTGTACTC
Statistics
Matches: 160, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
96 96 0.60
97 2 0.01
98 61 0.38
99 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAACTGGTGCCGATGCCATGTCCCAA
ACATGGTCTTACATTGACACATATCGAGGCC
Found at i:68509500 original size:23 final size:23
Alignment explanation
Indices: 68509472--68509522 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
68509462 CATAATCATG
68509472 TTACTTATTATTTGCATGTGAAC
1 TTACTTATTATTTGCATGTGAAC
*
68509495 TTACTTATTATTTGTATGTGAAC
1 TTACTTATTATTTGCATGTGAAC
68509518 TTACT
1 TTACT
68509523 AAGCATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (23 bp):
TTACTTATTATTTGCATGTGAAC
Found at i:68509530 original size:23 final size:23
Alignment explanation
Indices: 68509481--68509530 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
68509471 GTTACTTATT
* **
68509481 ATTTGCATGTGAACTTACTTATT
1 ATTTGCATGTGAACTTACTAAGC
*
68509504 ATTTGTATGTGAACTTACTAAGC
1 ATTTGCATGTGAACTTACTAAGC
68509527 ATTT
1 ATTT
68509531 ATGCTTACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (23 bp):
ATTTGCATGTGAACTTACTAAGC
Found at i:68529123 original size:48 final size:46
Alignment explanation
Indices: 68528964--68529131 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 46
68528954 GGTGGTATGT
* * *
68528964 AAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCAACATCATG-AG-
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-AC-TGA-GAAGA
* * * * *
68529011 -TGCCAGTGTAAGACATGTCTGAGACATGCATCGGCATTGAGACGA
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACTGAGAAGA
* * *
68529056 AGGCTAGTGCAAGACATGTCTGGGACATGCATCGGC-CTGAGGATATA
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACTGA-GA-AGA
*
68529103 CAAGCTAGTGTAAGACATGTCCGGGACAT
1 -AAGCTAGTGTAAGACATGTCTGGGACAT
68529132 AGCGTCAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 65 0.66
47 1 0.01
48 25 0.25
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACTGAGAAGA
Found at i:68529255 original size:49 final size:49
Alignment explanation
Indices: 68529152--68529324 Score: 149
Period size: 49 Copynumber: 3.6 Consensus size: 49
68529142 TGTTGTGTGT
* *
68529152 CAGTGTAAGACCTATCTAGGACATGGCATCGACACTGATAGATAAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATAAGAGC
* * *
68529201 CAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAA-AGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATAGAT-AAGAGC
* * * ** * * *
68529250 TAGTGTAAGACCTGTTTGGGACACT-GTATCGACTTTAAT-G-TGATAGC
1 CAGTGTAAGACCTGTCTGGGACA-TGGCATCGACACTGATAGATAAGAGC
*
68529297 CAGTGTAAGACTATGTCTGGGACATGGC
1 CAGTGTAAGAC-CTGTCTGGGACATGGC
68529325 GTTGGTATTT
Statistics
Matches: 99, Mismatches: 18, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
46 1 0.01
47 14 0.14
48 13 0.13
49 67 0.68
50 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATAAGAGC
Found at i:68530338 original size:28 final size:28
Alignment explanation
Indices: 68530298--68530355 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
68530288 TGAAACTTAT
68530298 CAACTTCATGCCATAATTATCGTTAACA
1 CAACTTCATGCCATAATTATCGTTAACA
68530326 CAACTTCATGCCATAATTATCGTTAACA
1 CAACTTCATGCCATAATTATCGTTAACA
68530354 CA
1 CA
68530356 TTCTTACACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (28 bp):
CAACTTCATGCCATAATTATCGTTAACA
Found at i:68541378 original size:50 final size:49
Alignment explanation
Indices: 68541306--68541629 Score: 261
Period size: 50 Copynumber: 6.7 Consensus size: 49
68541296 GGTAAAATGT
* * *
68541306 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATACATCGGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATCGGTGC
* ** * **
68541356 CGATTCCATGTCCCAGACATGGTCTTACACTAACACAT-ATAA-CAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATCGGTGC
* * * *
68541404 TGATGCCATGTTCCA-AGCATGGTCTTACACTGGCTCGCAT-ATTGAG-GC
1 CGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATAATCG-GTGC
* * * * * * *
68541452 CGATGCCATGTCCTAGGCATAGTCTTACACTAGCTCTTATAAACCGGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATCGGTGC
* * * *
68541502 CAATGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT-ATCGAG-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCG-GTGC
* * * * *
68541548 CAATGCCATGTACCAGACATGGCCTTACACCGGCTCTCATAAACCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATCGGTGC
68541598 CGATGCCATGTCCCAGACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
68541630 ACACTTATCG
Statistics
Matches: 208, Mismatches: 51, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
46 31 0.15
47 4 0.02
48 73 0.35
49 4 0.02
50 95 0.46
51 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGGTGC
Found at i:68541541 original size:96 final size:96
Alignment explanation
Indices: 68541406--68541647 Score: 299
Period size: 96 Copynumber: 2.5 Consensus size: 96
68541396 AACAATGCTG
* * * * *
68541406 ATGCCATGTTCCA-AGCATGGTCTTACACTGGCTCGCATATTGAGGCCGATGCCATGT-CCTAGG
1 ATGCCATGTCCCAGA-CATGGTCTTACACT-G-ACACATATCGAGGCCGATGCCATGTACC-AGA
* * *
68541469 CATAGTCTTACACTAGCTCTTATAAACCGGTACCA
62 CATAGCCTTACACCAGCTCTCATAAACCGGTACCA
* * *
68541504 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGTCAATGCCATGTACCAGACATG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCCGATGCCATGTACCAGACATA
* * *
68541569 GCCTTACACCGGCTCTCATAAACCGGTGCCG
66 GCCTTACACCAGCTCTCATAAACCGGTACCA
*
68541600 ATGCCATGTCCCAGACATGGTCTTACACTGACACTTATCGAGGCCGAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCCGAT
68541648 TGTACTCGAC
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
96 95 0.76
97 3 0.02
98 26 0.21
99 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGAGGCCGATGCCATGTACCAGACATA
GCCTTACACCAGCTCTCATAAACCGGTACCA
Found at i:68541637 original size:146 final size:145
Alignment explanation
Indices: 68541306--68541637 Score: 350
Period size: 146 Copynumber: 2.3 Consensus size: 145
68541296 GGTAAAATGT
* * * * * * ** * *
68541306 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATACATCGGTGTCGATTCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAAACCGGTACCAATGCCATGTCCCA
* * * * *
68541371 GACATGGTCTTACACTAACACATATAACAATGCTGATGCCATGTTCCAAGCATGGTCTTACACTG
66 GACATGGTCTTACACTAACACATAT-ACAAGGCTAATGCCATGTACCAAGCATGGCCTTACACCG
**
68541436 GCTCGCATATTGAGGC
130 GCTCGCATACCGAGGC
* * *
68541452 CGATGCCATGTCCTAGGCATAGTCTTACACT-AGCTCTTATAAACCGGTACCAATGCCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTTATAAACCGGTACCAATGCCATGTCCC
* *
68541516 AGACATGGTCTTACACTGACACATAT-CGAGG-TCAATGCCATGTACC-AGACATGGCCTTACAC
65 AGACATGGTCTTACACTAACACATATACAAGGCT-AATGCCATGTACCAAG-CATGGCCTTACAC
*
68541578 CGGCTCTCATAAACCG-GTGC
128 CGGCTCGCAT--ACCGAG-GC
*
68541598 CGATGCCATGTCCCAGACATGGTCTTACACTGACACTTAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTAT
68541638 CGAGGCCGAT
Statistics
Matches: 152, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
143 3 0.02
144 34 0.22
145 1 0.01
146 113 0.74
147 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAAACCGGTACCAATGCCATGTCCCA
GACATGGTCTTACACTAACACATATACAAGGCTAATGCCATGTACCAAGCATGGCCTTACACCGG
CTCGCATACCGAGGC
Found at i:68544358 original size:17 final size:16
Alignment explanation
Indices: 68544319--68544354 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
68544309 GCCAAGTTGG
68544319 AAGT-AAAAAGAACTA
1 AAGTGAAAAAGAACTA
*
68544334 AAGTGAAAAAGAATTA
1 AAGTGAAAAAGAACTA
68544350 AAGTG
1 AAGTG
68544355 GAAAGTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.61, C:0.03, G:0.19, T:0.17
Consensus pattern (16 bp):
AAGTGAAAAAGAACTA
Found at i:68546361 original size:26 final size:26
Alignment explanation
Indices: 68546331--68546411 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
68546321 CAAGAGTTTC
68546331 AATTAACATATGATGTATGCAAGAAA
1 AATTAACATATGATGTATGCAAGAAA
* ***
68546357 AATTAA-AT-TAAT-TA-G-AGAGTTTC
1 AATTAACATATGATGTATGCA-AG-AAA
68546380 AATTAACATATGATGTATGCAAGAAA
1 AATTAACATATGATGTATGCAAGAAA
68546406 AATTAA
1 AATTAA
68546412 ATTAATTAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
21 1 0.03
22 3 0.08
23 8 0.20
24 5 0.12
25 5 0.12
26 14 0.35
27 3 0.08
28 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (26 bp):
AATTAACATATGATGTATGCAAGAAA
Found at i:68546379 original size:49 final size:49
Alignment explanation
Indices: 68546323--68546421 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
68546313 AATCAATCCA
68546323 AGAGTTTCAATTAACATATGATGTATGCAAGAAAAATTAAATTAATTAG
1 AGAGTTTCAATTAACATATGATGTATGCAAGAAAAATTAAATTAATTAG
68546372 AGAGTTTCAATTAACATATGATGTATGCAAGAAAAATTAAATTAATTAG
1 AGAGTTTCAATTAACATATGATGTATGCAAGAAAAATTAAATTAATTAG
68546421 A
1 A
68546422 TTTAAACATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.32
Consensus pattern (49 bp):
AGAGTTTCAATTAACATATGATGTATGCAAGAAAAATTAAATTAATTAG
Found at i:68551642 original size:30 final size:32
Alignment explanation
Indices: 68551576--68551644 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
68551566 AATTATACAA
* *
68551576 TAAATATTTTATTATTTTTTATAATAAAGTAT
1 TAAATATTTTAATATTTTTTATAATAAAGTAG
* * *
68551608 TAAAT-TTTTAAT-TTTTTTATTATGAAGTTG
1 TAAATATTTTAATATTTTTTATAATAAAGTAG
68551638 TAAATAT
1 TAAATAT
68551645 AACTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 19 0.61
31 7 0.23
32 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (32 bp):
TAAATATTTTAATATTTTTTATAATAAAGTAG
Found at i:68568649 original size:40 final size:39
Alignment explanation
Indices: 68568583--68568728 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 39
68568573 AAATTGAATG
* *
68568583 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* * * **
68568622 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAGATT
* *
68568662 ATATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGTTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GAGATT
*
68568700 CTATCCGGGCTAAGACCCGAAGGC-ATTTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTTG
68568729 TGCACGTGTT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
37 1 0.01
38 31 0.35
39 16 0.18
40 41 0.46
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAGATT
Found at i:68568714 original size:38 final size:38
Alignment explanation
Indices: 68568621--68568746 Score: 148
Period size: 38 Copynumber: 3.2 Consensus size: 38
68568611 TGCTGGAAAT
* *
68568621 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-GC
*
68568661 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-T
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGC
* *
68568699 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGC
68568738 TATATCCGG
1 TATATCCGG
68568747 TTATATTCCG
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
37 1 0.01
38 31 0.40
39 14 0.18
40 31 0.40
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (38 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGC
Found at i:68576588 original size:121 final size:121
Alignment explanation
Indices: 68576373--68576590 Score: 271
Period size: 121 Copynumber: 1.8 Consensus size: 121
68576363 ATTATGTGAG
** * * * **
68576373 ATGAAATATGGATGTGTATGATTATTGATTATGTGTGTATGAGTATTTGAATTCTACCCGGGCTA
1 ATGAAATATGGATGTCAATGATTATTGATTATGTGTGCATGAGAAATTGAATGATACCCGGGCTA
* * **
68576438 AGTCCCGAAGGCGAATATGCTTGTGATTATATTGCGTTTGAGCCTTAGTAACGAAA
66 AGTCCCGAAGACGAATATGCTGGAAATTATATTGCGTTTGAGCCTTAGTAACGAAA
* *
68576494 ATGAAATATGTATGTCCAATGATTATTGATGTATGTGT-CATGAGAAATTGAATGATATCCGGGC
1 ATGAAATATGGATGT-CAATGATTATTGAT-TATGTGTGCATGAGAAATTGAATGATACCCGGGC
68576558 TAAG-CCCGAAGAC-AATTATGCTGGAAATTATAT
64 TAAGTCCCGAAGACGAA-TATGCTGGAAATTATAT
68576591 CCGGGTTAAG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
120 2 0.02
121 36 0.44
122 36 0.44
123 7 0.09
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (121 bp):
ATGAAATATGGATGTCAATGATTATTGATTATGTGTGCATGAGAAATTGAATGATACCCGGGCTA
AGTCCCGAAGACGAATATGCTGGAAATTATATTGCGTTTGAGCCTTAGTAACGAAA
Found at i:68576670 original size:40 final size:40
Alignment explanation
Indices: 68576548--68576674 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
68576538 AAATTGAATG
* * *
68576548 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT--AATGGTT
* * *
68576587 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
*
68576627 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-ATGGTT
68576667 ATATCCGG
1 ATATCCGG
68576675 TTATATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 14 0.19
40 59 0.80
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAATGGTT
Found at i:68583877 original size:39 final size:40
Alignment explanation
Indices: 68583704--68583894 Score: 251
Period size: 40 Copynumber: 4.8 Consensus size: 40
68583694 GGATATAGCT
* * * *
68583704 ACTCGCTCAAATGCCTTCGGGACATCGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
68583744 ACTCGCACAATTGCCTTCGGGACTTAGCTCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
68583784 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
68583824 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
68583863 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
68583895 TTATCATCCA
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 33 0.24
40 100 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:68595614 original size:26 final size:26
Alignment explanation
Indices: 68595578--68595660 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
68595568 CATTAGGCCC
* *
68595578 ATTGGCGACCCCAGTTTGCCAAGCCG
1 ATTGGCGACCCCAGTTTGCCAAACCT
* *
68595604 ATTGGCGA-CCCGGTTTACCAAACCT
1 ATTGGCGACCCCAGTTTGCCAAACCT
* * *
68595629 ACTAGCGACCCCAATTTGCCAAACCT
1 ATTGGCGACCCCAGTTTGCCAAACCT
68595655 ATTGGC
1 ATTGGC
68595661 AAACACCAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 19 0.42
26 26 0.58
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (26 bp):
ATTGGCGACCCCAGTTTGCCAAACCT
Found at i:68595716 original size:27 final size:27
Alignment explanation
Indices: 68595618--68595720 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 27
68595608 GCGACCCGGT
* * *
68595618 TTACCAAACCTACTAGC-GACCCCAAT
1 TTACCAAACCTACTAGCATACACCAAC
* * * *
68595644 TTGCCAAACCTATTGGCAAACACCAAC
1 TTACCAAACCTACTAGCATACACCAAC
* * * * *
68595671 TCATCAGACCTTCTGGCATACACCAAC
1 TTACCAAACCTACTAGCATACACCAAC
*
68595698 TTACCAGACCTACTAGCATACAC
1 TTACCAAACCTACTAGCATACAC
68595721 TAGCTAGCCA
Statistics
Matches: 59, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
26 14 0.24
27 45 0.76
ACGTcount: A:0.34, C:0.36, G:0.10, T:0.20
Consensus pattern (27 bp):
TTACCAAACCTACTAGCATACACCAAC
Found at i:68600893 original size:18 final size:19
Alignment explanation
Indices: 68600870--68600905 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
68600860 AACTTGGCAC
*
68600870 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
68600888 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
68600906 CTAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:68607419 original size:68 final size:68
Alignment explanation
Indices: 68607329--68607486 Score: 298
Period size: 68 Copynumber: 2.3 Consensus size: 68
68607319 TTCACTTGGA
* *
68607329 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
68607394 CGT
66 CGT
68607397 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
68607462 CGT
66 CGT
68607465 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
68607487 TATATAGTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:68609290 original size:20 final size:20
Alignment explanation
Indices: 68609265--68609314 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
68609255 TAAATTCACC
68609265 CCTCTCCCCACAACCTTTCA
1 CCTCTCCCCACAACCTTTCA
*
68609285 CCTCTCCCGACAACCTTTCA
1 CCTCTCCCCACAACCTTTCA
68609305 CCTCTCCCCA
1 CCTCTCCCCA
68609315 GAGTCGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.56, G:0.02, T:0.24
Consensus pattern (20 bp):
CCTCTCCCCACAACCTTTCA
Found at i:68611302 original size:3 final size:3
Alignment explanation
Indices: 68611284--68611353 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
68611274 TTGATTTCAT
68611284 TTA TT- TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68611330 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
68611354 ATTTTATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 61 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:68611369 original size:6 final size:6
Alignment explanation
Indices: 68611283--68611373 Score: 51
Period size: 6 Copynumber: 15.2 Consensus size: 6
68611273 TTTGATTTCA
* * * * *
68611283 TTTA-T TTTATTT TATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 TTTATT TTTA-TT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * * *
68611332 ATTATT ATTATT ATTATT ATTAAT TTTATT TTT-CT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
68611374 ATTTTTGAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
5 8 0.11
6 61 0.80
7 4 0.05
8 3 0.04
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTATT
Found at i:68613334 original size:40 final size:40
Alignment explanation
Indices: 68613207--68613336 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
68613197 ATGCTGGAAA
* * * *
68613207 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
68613247 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* *
68613287 TTCTATCCAGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
68613327 TTATATCCGG
1 TTATATCCGG
68613337 TTATATTCCG
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:68622963 original size:28 final size:28
Alignment explanation
Indices: 68622894--68622994 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
68622884 GACAAGATTG
* * * *
68622894 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
68622924 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
68622952 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
68622981 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
68622995 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:68630129 original size:40 final size:40
Alignment explanation
Indices: 68630084--68630290 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 40
68630074 CGGAATATAA
*
68630084 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-TCGCACAAATGCCTTCGGGTCTTAGC
* *
68630124 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
68630164 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAGC
*** * * *
68630204 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAGC
** * * *
68630244 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATAACTC-GCACAAATGCCTTCGGGTCTTAGC
68630283 CCGGATAT
1 CCGGATAT
68630291 CATTCAATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.10
40 132 0.90
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:68631940 original size:21 final size:21
Alignment explanation
Indices: 68631916--68631959 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
68631906 GACTCGGTTT
68631916 CGTGGTCCCGAAACCACTCTC
1 CGTGGTCCCGAAACCACTCTC
68631937 CGTGGTCCCGAAACCACTCTC
1 CGTGGTCCCGAAACCACTCTC
68631958 CG
1 CG
68631960 ACTAAGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.20, T:0.18
Consensus pattern (21 bp):
CGTGGTCCCGAAACCACTCTC
Found at i:68632380 original size:44 final size:45
Alignment explanation
Indices: 68632325--68632684 Score: 372
Period size: 44 Copynumber: 8.1 Consensus size: 45
68632315 TATAATTAAA
* * * *
68632325 TTACA-AACTTACATGATTTACATAATTTACATAACATACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
* * * * *
68632369 TTA-ACAACTTACATGACTCACATAACTTATATAATTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
* * * *
68632413 TCACATAACATACATAACTTA-ACAACTTACATAATTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
* * * * *
68632457 TCACATAACATACAAAACTTA-ACAACTTACATAACTTACATAAT
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
* * *
68632501 TTACATAACTCACATAACATACATAACAACTTACATAACTCACATAAC
1 TTACATAACTTACATAACTTACAT---AACTTACATAACTTACATAAC
* * *
68632549 TTACATAATTTACATAACTCACATAACTTACATAACTTA-ACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
* * * * *
68632593 TTACATAACTCACATAACTTACGTAATTTACATAAATCACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
* *
68632638 TTACATAACTTA-ACAACTTACATAACTCACATAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
68632682 TTA
1 TTA
68632685 ACTAATACAT
Statistics
Matches: 264, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.00
44 181 0.69
45 43 0.16
48 39 0.15
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.31
Consensus pattern (45 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTTACATAAC
Found at i:68632406 original size:62 final size:62
Alignment explanation
Indices: 68632342--68632684 Score: 377
Period size: 62 Copynumber: 5.5 Consensus size: 62
68632332 CTTACATGAT
* * * * * * *
68632342 TTACATAATTTACATAACATACATAACTTA-ACAACTTACATGACTCACATAACTTATATAAT
1 TTACATAACTCACATAACTTACATAACTTACACAACTTACATAACTTACATAACTTA-ACAAC
* * * *
68632404 TTACATAACTCACATAACATACATAACTTA-ACAACTTACATAATTTACATAACTCACATAAC
1 TTACATAACTCACATAACTTACATAACTTACACAACTTACATAACTTACATAACTTA-ACAAC
* * * * * * *
68632466 ATACAAAACTTA-ACAACTTACATAACTTACATAATTTACATAACTCACATAACATACATAACAA
1 TTACATAACTCACATAACTTACATAACTTACACAACTTACATAACTTACATAAC-T---TAACAA
68632530 C
62 C
* * *
68632531 TTACATAACTCACATAACTTACATAATTTACATAACTCACATAACTTACATAACTTAACAAC
1 TTACATAACTCACATAACTTACATAACTTACACAACTTACATAACTTACATAACTTAACAAC
* * * * *
68632593 TTACATAACTCACATAACTTACGTAATTTACATAAATCACATAACTTACATAACTTAACAAC
1 TTACATAACTCACATAACTTACATAACTTACACAACTTACATAACTTACATAACTTAACAAC
68632655 TTACATAACTCACATAACTTACATAACTTA
1 TTACATAACTCACATAACTTACATAACTTA
68632685 ACTAATACAT
Statistics
Matches: 244, Mismatches: 31, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
61 15 0.06
62 177 0.73
63 1 0.00
65 14 0.06
66 37 0.15
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (62 bp):
TTACATAACTCACATAACTTACATAACTTACACAACTTACATAACTTACATAACTTAACAAC
Found at i:68632409 original size:53 final size:54
Alignment explanation
Indices: 68632325--68632681 Score: 379
Period size: 53 Copynumber: 6.7 Consensus size: 54
68632315 TATAATTAAA
* * *
68632325 TTACA-AACTTACATGATTTACATAATTTACATAACATACATAACTTA-ACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACATACATAACTTACACAAC
* * * * * *
68632377 TTACATGACTCACATAACTTATATAATTTACATAAC-TCACATAACATACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACAT-ACATAACTTACACAAC
* * * *
68632431 TTA-ACAACTTACATAATTTACATAACTCACATAACATACAAAACTTA-ACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACATACATAACTTACACAAC
* * *
68632483 TTACATAACTTACATAATTTACATAACTCACATAACATACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACATACAT---AACTTACACAAC
* * * *
68632540 TCACATAACTTACATAATTTACATAACTCACATAACTTACATAACTTA-ACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACATACATAACTTACACAAC
* * * *
68632593 TTACATAACTCACATAACTTACGTAATTTACATAA-ATCACATAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACAT-ACATAACTTACACAAC
* *
68632647 TTA-ACAACTTACATAACTCACATAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC
68632682 TTAACTAATA
Statistics
Matches: 257, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
52 14 0.05
53 172 0.67
54 21 0.08
56 6 0.02
57 44 0.17
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (54 bp):
TTACATAACTTACATAACTTACATAACTTACATAACATACATAACTTACACAAC
Found at i:68632536 original size:21 final size:21
Alignment explanation
Indices: 68632507--68632548 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68632497 TAATTTACAT
68632507 AACTCACATAACAT-ACATAAC
1 AACTCACATAAC-TCACATAAC
*
68632528 AACTTACATAACTCACATAAC
1 AACTCACATAACTCACATAAC
68632549 TTACATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (21 bp):
AACTCACATAACTCACATAAC
Found at i:68632681 original size:9 final size:9
Alignment explanation
Indices: 68632325--68632684 Score: 372
Period size: 9 Copynumber: 40.3 Consensus size: 9
68632315 TATAATTAAA
68632325 TTACA-AAC
1 TTACATAAC
* *
68632333 TTACATGAT
1 TTACATAAC
*
68632342 TTACATAAT
1 TTACATAAC
68632351 TTACATAAC
1 TTACATAAC
*
68632360 ATACATAAC
1 TTACATAAC
*
68632369 TTA-ACAAC
1 TTACATAAC
*
68632377 TTACATGAC
1 TTACATAAC
*
68632386 TCACATAAC
1 TTACATAAC
* *
68632395 TTATATAAT
1 TTACATAAC
68632404 TTACATAAC
1 TTACATAAC
*
68632413 TCACATAAC
1 TTACATAAC
*
68632422 ATACATAAC
1 TTACATAAC
*
68632431 TTA-ACAAC
1 TTACATAAC
*
68632439 TTACATAAT
1 TTACATAAC
68632448 TTACATAAC
1 TTACATAAC
*
68632457 TCACATAAC
1 TTACATAAC
* *
68632466 ATACAAAAC
1 TTACATAAC
*
68632475 TTA-ACAAC
1 TTACATAAC
68632483 TTACATAAC
1 TTACATAAC
*
68632492 TTACATAAT
1 TTACATAAC
68632501 TTACATAAC
1 TTACATAAC
*
68632510 TCACATAAC
1 TTACATAAC
*
68632519 ATACATAACAAC
1 TTACAT---AAC
68632531 TTACATAAC
1 TTACATAAC
*
68632540 TCACATAAC
1 TTACATAAC
*
68632549 TTACATAAT
1 TTACATAAC
68632558 TTACATAAC
1 TTACATAAC
*
68632567 TCACATAAC
1 TTACATAAC
68632576 TTACATAAC
1 TTACATAAC
*
68632585 TTA-ACAAC
1 TTACATAAC
68632593 TTACATAAC
1 TTACATAAC
*
68632602 TCACATAAC
1 TTACATAAC
* *
68632611 TTACGTAAT
1 TTACATAAC
*
68632620 TTACATAAA
1 TTACATAAC
*
68632629 TCACATAAC
1 TTACATAAC
68632638 TTACATAAC
1 TTACATAAC
*
68632647 TTA-ACAAC
1 TTACATAAC
68632655 TTACATAAC
1 TTACATAAC
*
68632664 TCACATAAC
1 TTACATAAC
68632673 TTACATAAC
1 TTACATAAC
68632682 TTA
1 TTA
68632685 ACTAATACAT
Statistics
Matches: 285, Mismatches: 58, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
8 40 0.14
9 237 0.83
12 8 0.03
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Done.