Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 141 of 433
Found at i:43421597 original size:19 final size:18
Alignment explanation
Indices: 43421541--43421597 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
43421531 TAACTACATA
*
43421541 AATAATGAAATAAAATGAC
1 AATAA-GAAATAAAATAAC
*
43421560 AATAATATAATAAATATAAC
1 AATAAGA-AATAAA-ATAAC
43421580 AATAAGAAATAATAATAA
1 AATAAGAAATAA-AATAA
43421598 TTCAATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.03
19 20 0.62
20 11 0.34
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (18 bp):
AATAAGAAATAAAATAAC
Found at i:43421647 original size:3 final size:3
Alignment explanation
Indices: 43421560--43421636 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
43421550 ATAAAATGAC
* *
43421560 AAT AAT -AT AAT AA- ATAT AAC AAT AAGA AAT AAT AAT AATT CAATT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AA-T AAT AAT AAT AA-T -AA-T
* *
43421605 AAT AAT ACT ATAT AAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT A
43421637 CTGAAATAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
2 3 0.05
3 44 0.75
4 8 0.14
5 4 0.07
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43421650 original size:28 final size:28
Alignment explanation
Indices: 43421560--43421650 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 28
43421550 ATAAAATGAC
* *
43421560 AATAATATAATAAATATAACAATA-AGA
1 AATAATATAATAAATATAATAATACTGA
*
43421587 AATAATAATAATTCAAT-TAATAATACT-A
1 AATAAT-ATAA-TAAATATAATAATACTGA
*
43421615 TAT-A-ATAAT-AATGATAATAATACTGA
1 AATAATATAATAAAT-ATAATAATACTGA
43421641 AATAATATAA
1 AATAATATAA
43421651 AAAGGTATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
23 3 0.06
24 1 0.02
25 14 0.27
26 3 0.06
27 8 0.16
28 18 0.35
29 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
AATAATATAATAAATATAATAATACTGA
Found at i:43422797 original size:14 final size:14
Alignment explanation
Indices: 43422780--43422813 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
43422770 TTTTCTCTAC
43422780 TTCTCTGCCTCTGT
1 TTCTCTGCCTCTGT
**
43422794 TTCTCTGTTTCTGT
1 TTCTCTGCCTCTGT
43422808 TTCTCT
1 TTCTCT
43422814 ATTTTTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.12, T:0.59
Consensus pattern (14 bp):
TTCTCTGCCTCTGT
Found at i:43423489 original size:94 final size:94
Alignment explanation
Indices: 43423349--43423950 Score: 722
Period size: 94 Copynumber: 6.4 Consensus size: 94
43423339 GTGTCATAGT
* * * * * * *
43423349 TTCATCTTGCTCCATTGCAATTTCTAGGTGATAAGATTTACTATTGTAGTTTCATTCCAACCCAC
1 TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
** *
43423414 TCCAACTTCAGGGGTATAGGATTTGTAGC
66 TGTAACTTCAGGGGTATAGAATTTGTAGC
* *
43423443 TTCATCTTGCTTCACTACAATTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
1 TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
* *
43423508 TGTAACTTTAGGGGTATAGGATTTGTAGC
66 TGTAACTTCAGGGGTATAGAATTTGTAGC
** ** * * * **
43423537 TTCATCTTGCTCCACTACAACTTCGGGGAGATAAGATTTGCTATGGTAGCTTCATTTTAACCCAC
1 TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
43423602 TGTAACTTCAGGGGTATAGAATTTGTAGC
66 TGTAACTTCAGGGGTATAGAATTTGTAGC
* * * * **
43423631 TTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTCACTATGGTAGCTTCATTCCAACCGGC
1 TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
** * * * *
43423696 TACAACTTCAAGGGTATAAAATTTATGGC
66 TGTAACTTCAGGGGTATAGAATTTGTAGC
* * ** * *
43423725 TTCATCTTGCTCCACCACATCTTCAAGGAGATAAGATTTTCCATTATAGTTTCATTCCAACCCAT
1 TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
* *
43423790 TGTAACTTCAGAGGTATAGAATTTATAGC
66 TGTAACTTCAGGGGTATAGAATTTGTAGC
* * * *
43423819 TTCATCTTGCTTCA-TGCAACTTCAGGGAGATAAGATTCACCATTATAGTTTCATTCCAACCCAC
1 TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
* * *
43423883 TGTAACTTCAAGGATATAGGATTTGTAGC
66 TGTAACTTCAGGGGTATAGAATTTGTAGC
*
43423912 TTCATCTTGCTTCACTGA-AACTTCAAGGAGATAAGATTC
1 TTCATCTTGCTCCACT-ACAACTTCAAGGAGATAAGATTC
43423951 GCTATGGTAG
Statistics
Matches: 435, Mismatches: 71, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
93 81 0.19
94 354 0.81
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (94 bp):
TTCATCTTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTGTAGTTTCATTCCAACCCAC
TGTAACTTCAGGGGTATAGAATTTGTAGC
Found at i:43423654 original size:44 final size:44
Alignment explanation
Indices: 43423410--43423655 Score: 140
Period size: 44 Copynumber: 5.3 Consensus size: 44
43423400 TCATTCCAAC
* *
43423410 CCACTCCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCT
* * * * * * ***
43423454 TCACTACAATTTCAAGGAG-ATAAGATTCACCATTGTAGTTTCATTCCAAC-
1 CCACTGCAACTTC-AGGGGTAT-AGA---A--TTTGTAGCTTCA-TCTTGCT
* * *
43423504 CCACTGTAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCT
* * * * *
43423548 CCACTACAACTTC-GGGGAGATAAGATTTGCTATGGTAGCTTCATTTTAAC-
1 CCACTGCAACTTCAGGGG-TAT-AGA-AT--T-T-GTAGCTTCATCTT-GCT
*
43423598 CCACTGTAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCT
43423642 CCACTGCAACTTCA
1 CCACTGCAACTTCA
43423656 AGGAGATAAG
Statistics
Matches: 145, Mismatches: 37, Indels: 40
0.65 0.17 0.18
Matches are distributed among these distances:
43 8 0.06
44 59 0.41
45 9 0.06
46 3 0.02
48 3 0.02
49 10 0.07
50 45 0.31
51 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCT
Found at i:43424136 original size:50 final size:50
Alignment explanation
Indices: 43424042--43424137 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
43424032 AAGACAAGAT
* * * * **
43424042 TTGTAGTTTTATCTTGCTCCACTGTATCTTCATGGAGATGAGATTTACTA
1 TTGTACTTTTATCTTGATCCACTGCATCTTCAGGGAGACAAGATTTACTA
*
43424092 TTGTACTTTTGATC-TGATCCACTGCATCTTCAGGGATACAAGATTT
1 TTGTACTTTT-ATCTTGATCCACTGCATCTTCAGGGAGACAAGATTT
43424138 GAGGTTGTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 35 0.92
51 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (50 bp):
TTGTACTTTTATCTTGATCCACTGCATCTTCAGGGAGACAAGATTTACTA
Found at i:43426909 original size:2 final size:2
Alignment explanation
Indices: 43426902--43426931 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43426892 GCTCTTGCAC
43426902 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
43426932 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43427784 original size:40 final size:40
Alignment explanation
Indices: 43427640--43427784 Score: 182
Period size: 40 Copynumber: 3.6 Consensus size: 40
43427630 TACTCGAATG
* *
43427640 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AGCGACT
* * * * *
43427681 ACATCCGGACTAAGATCCAAAGGTATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
43427721 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
43427761 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
43427785 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
40 61 0.70
41 26 0.30
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:43438966 original size:23 final size:23
Alignment explanation
Indices: 43438936--43438992 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
43438926 GGTAGGGGAC
* *
43438936 ACGGGCGTGTGCATTGCCTCCAT
1 ACGGGCGTGTACATTGACTCCAT
43438959 ACGGGCGTGTACATTGACTCCAT
1 ACGGGCGTGTACATTGACTCCAT
*
43438982 ACGGGTGTGTA
1 ACGGGCGTGTA
43438993 AGGCTTAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.32, T:0.26
Consensus pattern (23 bp):
ACGGGCGTGTACATTGACTCCAT
Found at i:43440478 original size:46 final size:46
Alignment explanation
Indices: 43440411--43440588 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
43440401 TGTAACCAGC
*
43440411 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * * * *
43440457 CCATAAGTGAACTCAGACTCAACTCAACGAGTTTGGATGCCTAGTTAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGATG-TTCG-CAT
* * * * * **
43440505 ATC-TCA-CGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCAT
1 -CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGATGTTCGCAT
* *
43440550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGATG
43440589 CCCAAATATC
Statistics
Matches: 100, Mismatches: 27, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 64 0.64
47 26 0.26
48 4 0.04
49 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:43440531 original size:93 final size:93
Alignment explanation
Indices: 43440418--43440590 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
43440408 AGCCCATAAG
* * ***
43440418 CGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
43440483 ACGAGTTTGGATGCCTAGTTATATCTCA
66 ACGAGCTCGGATGCCTAGTTATATCTCA
* *
43440511 CGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
43440576 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
43440591 CAAATATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTATATCTCA
Found at i:43448648 original size:2 final size:2
Alignment explanation
Indices: 43448641--43448674 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
43448631 GCTTCGCCAC
43448641 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43448675 CTGTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43450054 original size:46 final size:46
Alignment explanation
Indices: 43449987--43450164 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43449977 TGTAACCAGC
* *
43449987 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * * *
43450033 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG-TTCG-CAT
* * * **
43450081 ATC-TCA-TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 -CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGTTCGCAT
*
43450126 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATG
43450165 CCCAAATATA
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 68 0.63
47 30 0.28
48 4 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:43450103 original size:93 final size:93
Alignment explanation
Indices: 43449994--43450166 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
43449984 AGCCCATAAG
***
43449994 TGAACTCAAACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
43450059 ACGAGTTCGGATGCCTAGTTATATCTCA
66 ACGAGCTCGGATGCCTAGTTATATCTCA
** *
43450087 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
43450152 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
43450167 CAAATATACT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
TGAACTCAAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTATATCTCA
Found at i:43458009 original size:2 final size:2
Alignment explanation
Indices: 43458002--43458035 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
43457992 AGTATAGTTG
* *
43458002 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43458036 TCGGCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:43458710 original size:29 final size:29
Alignment explanation
Indices: 43458675--43458748 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43458665 GTTGTGAGAT
* *
43458675 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43458704 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43458733 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43458749 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43466102 original size:2 final size:2
Alignment explanation
Indices: 43466095--43466128 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
43466085 AGTATAGTTG
*
43466095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43466129 TCGGCCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43466795 original size:29 final size:29
Alignment explanation
Indices: 43466753--43466826 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43466743 GTTGTGAGAT
* *
43466753 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43466782 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43466811 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43466827 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43476026 original size:40 final size:40
Alignment explanation
Indices: 43475952--43476093 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
43475942 CCGCACCAAG
* * * * * *
43475952 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
43475992 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
43476032 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
43476072 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
43476094 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:43479037 original size:15 final size:15
Alignment explanation
Indices: 43479017--43479064 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
43479007 TTAATATTTG
*
43479017 AAAATAATAAATAAT
1 AAAATAATAAATAAA
43479032 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
43479048 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
43479063 AA
1 AA
43479065 TTGGGTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 7 0.23
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:43482759 original size:20 final size:20
Alignment explanation
Indices: 43482721--43482768 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
43482711 TAAATTCTAA
**
43482721 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
43482741 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
43482761 AAA-ATAAA
1 AAAGATAAA
43482769 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:43482779 original size:19 final size:18
Alignment explanation
Indices: 43482755--43482798 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
43482745 ATAAATAGAG
43482755 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
43482775 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
43482792 ATAATTA
1 ATAATTA
43482799 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:43491723 original size:14 final size:14
Alignment explanation
Indices: 43491706--43491732 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43491696 TCTCTGCCTC
43491706 TGTTTCTCTATTTA
1 TGTTTCTCTATTTA
43491720 TGTTTCTCTATTT
1 TGTTTCTCTATTT
43491733 TTTGCAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.15, G:0.07, T:0.67
Consensus pattern (14 bp):
TGTTTCTCTATTTA
Found at i:43496314 original size:19 final size:20
Alignment explanation
Indices: 43496290--43496330 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
43496280 TTAATAAAAT
43496290 AATTATTATCATATTTA-AA
1 AATTATTATCATATTTATAA
* *
43496309 AATTATTTTTATATTTATAA
1 AATTATTATCATATTTATAA
43496329 AA
1 AA
43496331 AATGATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTATTATCATATTTATAA
Found at i:43502371 original size:91 final size:91
Alignment explanation
Indices: 43502216--43502398 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
43502206 TGAGAAACAG
43502216 AAAGATAAATATGGTGAAACTACCTAAATTACCTTACTAAAGTAAACATTCAACAATAAAATTAC
1 AAAGATAAATATGGTGAAACTACCTAAATTACCTTACTAAAGTAAACATTCAACAATAAAATTAC
43502281 AGTATTTTCCATCAAAATAATGAAAA
66 AGTATTTTCCATCAAAATAATGAAAA
43502307 AAAGATAAATATGGTGAAACTACCTAAATTACCTTACTAAAGTAAACATTCAACAATAAAATTAC
1 AAAGATAAATATGGTGAAACTACCTAAATTACCTTACTAAAGTAAACATTCAACAATAAAATTAC
43502372 AGTATTTTCCATCAAAATAATGAAAA
66 AGTATTTTCCATCAAAATAATGAAAA
43502398 A
1 A
43502399 GATAACCCCT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (91 bp):
AAAGATAAATATGGTGAAACTACCTAAATTACCTTACTAAAGTAAACATTCAACAATAAAATTAC
AGTATTTTCCATCAAAATAATGAAAA
Found at i:43503356 original size:28 final size:28
Alignment explanation
Indices: 43503299--43503366 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
43503289 TTTCTGTCAT
* *
43503299 TATTTTATAAAAAATCGTATTAAAAAATA
1 TATTTT-TAAAAAATCATAATAAAAAATA
* *
43503328 TATTTTTAAAAAATCATAATACAATATA
1 TATTTTTAAAAAATCATAATAAAAAATA
*
43503356 TATATTTAAAA
1 TATTTTTAAAA
43503367 TTGGTAATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (28 bp):
TATTTTTAAAAAATCATAATAAAAAATA
Found at i:43506675 original size:34 final size:34
Alignment explanation
Indices: 43506610--43506676 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
43506600 AAGCATGCCT
* * * **
43506610 TTTGCTACTGAATCAATCTATTATAGGCATAATA
1 TTTGCCACCGAATCAAACTATTATAAACATAATA
*
43506644 TTTGCCACCGAATCAAACTTTTATAAACATAAT
1 TTTGCCACCGAATCAAACTATTATAAACATAAT
43506677 GGTTCTATTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (34 bp):
TTTGCCACCGAATCAAACTATTATAAACATAATA
Found at i:43511423 original size:29 final size:28
Alignment explanation
Indices: 43511389--43511491 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
43511379 TACTCAATCA
*
43511389 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
43511418 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
43511447 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
43511476 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43511492 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:43518327 original size:29 final size:28
Alignment explanation
Indices: 43518293--43518395 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
43518283 TACTCAATCA
*
43518293 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
43518322 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* * *
43518351 CGCACACTTAATGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
43518380 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43518396 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:43521865 original size:29 final size:28
Alignment explanation
Indices: 43521831--43521933 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
43521821 TACTCAATCA
*
43521831 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
43521860 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
43521889 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
43521918 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43521934 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:43528108 original size:28 final size:29
Alignment explanation
Indices: 43528039--43528110 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
43528029 TACTCAATCA
* *
43528039 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATATGATCCAAGAC
*
43528068 CGCACACATAGTGCCATAT-AGTCCAA-AC
1 CGCACACTTAGTGCCATATGA-TCCAAGAC
*
43528096 TGCACACTTAGTGCC
1 CGCACACTTAGTGCC
43528111 GGACATTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.41
29 22 0.59
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATGATCCAAGAC
Found at i:43541547 original size:17 final size:17
Alignment explanation
Indices: 43541525--43541559 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43541515 ATTTCAATAC
43541525 ATGGATTCAATTAACTG
1 ATGGATTCAATTAACTG
*
43541542 ATGGATTCAATTAGCTG
1 ATGGATTCAATTAACTG
43541559 A
1 A
43541560 CTTTATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (17 bp):
ATGGATTCAATTAACTG
Found at i:43543449 original size:18 final size:17
Alignment explanation
Indices: 43543428--43543477 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
43543418 AAATAAAAAC
43543428 ATAAGAATATTTAATTAA
1 ATAA-AATATTTAATTAA
43543446 ATAAAA-ATTT--TTAAA
1 ATAAAATATTTAATT-AA
43543461 ATAAAAATATTTAATTA
1 AT-AAAATATTTAATTA
43543478 TGTACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 2 0.07
15 4 0.15
16 8 0.30
17 6 0.22
18 5 0.19
19 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAAATATTTAATTAA
Found at i:43543464 original size:15 final size:15
Alignment explanation
Indices: 43543444--43543474 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43543434 ATATTTAATT
*
43543444 AAATAAAAATTTTTA
1 AAATAAAAATATTTA
43543459 AAATAAAAATATTTA
1 AAATAAAAATATTTA
43543474 A
1 A
43543475 TTATGTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATAAAAATATTTA
Found at i:43548774 original size:23 final size:23
Alignment explanation
Indices: 43548744--43548789 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43548734 GAGGGTAATT
43548744 CTAGGCCTTTGGCAAATTTGTCA
1 CTAGGCCTTTGGCAAATTTGTCA
43548767 CTAGGCCTTTGGCAAATTTGTCA
1 CTAGGCCTTTGGCAAATTTGTCA
43548790 GACTCTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (23 bp):
CTAGGCCTTTGGCAAATTTGTCA
Found at i:43555546 original size:8 final size:8
Alignment explanation
Indices: 43555533--43555558 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
43555523 TTTTTGCCCC
43555533 TTAACATT
1 TTAACATT
43555541 TTAACATT
1 TTAACATT
43555549 TTAACATT
1 TTAACATT
43555557 TT
1 TT
43555559 TATAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAACATT
Found at i:43556328 original size:21 final size:21
Alignment explanation
Indices: 43556302--43556345 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43556292 GACCTTTAAA
43556302 TAATAGTAAAATAAATATTTC
1 TAATAGTAAAATAAATATTTC
43556323 TAATAGTAAAATAAATATTTC
1 TAATAGTAAAATAAATATTTC
43556344 TA
1 TA
43556346 CTTTGAATTT
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:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (21 bp):
TAATAGTAAAATAAATATTTC
Found at i:43557027 original size:152 final size:152
Alignment explanation
Indices: 43556746--43557053 Score: 492
Period size: 152 Copynumber: 2.0 Consensus size: 152
43556736 ATGCCACTGG
* *
43556746 CCCTATTCTTTCAATAATCTCACACGACTAATGAACCGTGAACTCAACTTACCTTTGCGGCCAAA
1 CCCTATTCTTTCAATAATCTCACACAACTAATGAACCGCGAACTCAACTTACCTTTGCGGCCAAA
*
43556811 TCTAAGTATTTTTCTTCCATGGTAATTTCTGTCGATCCGAAGCTGCTTTCAAACAATCACGAATT
66 TCTAAGTATTTTTCTTCCATGGTAATTTCTATCGATCCGAAGCTGCTTTCAAACAATCACGAATT
**
43556876 ACTTTCACCATTTCTTTGAAAT
131 ACTTTCACCATTTCTTCAAAAT
* * * *
43556898 CCCTATTCTTTCAATAATCTCATACAACCTAATGAACCGCGGACTCAACTTGCCTTTGCGGTCAA
1 CCCTATTCTTTCAATAATCTCACACAA-CTAATGAACCGCGAACTCAACTTACCTTTGCGGCCAA
* *
43556963 ATCTAAGTA-TTTTCTTCCATGGTGATTTCTATCGATCCGAAGCTGCTTTCAAACAATCATGAAT
65 ATCTAAGTATTTTTCTTCCATGGTAATTTCTATCGATCCGAAGCTGCTTTCAAACAATCACGAAT
*
43557027 TACTTTCACCTTTTCTTCAAAAT
130 TACTTTCACCATTTCTTCAAAAT
43557050 CCCT
1 CCCT
43557054 GACCAAATCA
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
152 101 0.71
153 42 0.29
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (152 bp):
CCCTATTCTTTCAATAATCTCACACAACTAATGAACCGCGAACTCAACTTACCTTTGCGGCCAAA
TCTAAGTATTTTTCTTCCATGGTAATTTCTATCGATCCGAAGCTGCTTTCAAACAATCACGAATT
ACTTTCACCATTTCTTCAAAAT
Found at i:43565162 original size:130 final size:130
Alignment explanation
Indices: 43564929--43565189 Score: 450
Period size: 130 Copynumber: 2.0 Consensus size: 130
43564919 GGTAGCCTGG
*
43564929 AATGAAGAAGGAGATATCAAAATATGTTTCGAGTTGTTTGACATGCCAATGAATGAAGGCAGAGC
1 AATGAAGAAGGAGATATCAAAATATGTTTCGAGTTGTTTGACATGCCAATGAATGAAGGCAAAGC
* **
43564994 ATCAAGTTCCCTCAGGGAAGCTATATCCTTTAAAGACTCCAAAGTGGAAGTAGGACAAGATAACC
66 ATCAAGTTCCCTCAGGAAAGCTATATCCTTTAAAGACTCCAAAGCAGAAGTAGGACAAGATAACC
* * *
43565059 AATGAAGAAGGAGATATCAAAATATGTTTTGAGTTGTTTGACATGCCAGTGAGTGAAGGCAAAGC
1 AATGAAGAAGGAGATATCAAAATATGTTTCGAGTTGTTTGACATGCCAATGAATGAAGGCAAAGC
*
43565124 ATCAAGTTCCCTCAGGAAAGCTATATCCTTTAAAGACTCCAAAGCAGAAGTAGGACAAGATCACC
66 ATCAAGTTCCCTCAGGAAAGCTATATCCTTTAAAGACTCCAAAGCAGAAGTAGGACAAGATAACC
43565189 A
1 A
43565190 TAGACTTTAT
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (130 bp):
AATGAAGAAGGAGATATCAAAATATGTTTCGAGTTGTTTGACATGCCAATGAATGAAGGCAAAGC
ATCAAGTTCCCTCAGGAAAGCTATATCCTTTAAAGACTCCAAAGCAGAAGTAGGACAAGATAACC
Found at i:43570711 original size:29 final size:30
Alignment explanation
Indices: 43570678--43570734 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43570668 AAATCGATTT
* *
43570678 TCAAA-CCTAGGGGTAAAATGGTCATTTTG
1 TCAAAGCCTAGGAGCAAAATGGTCATTTTG
*
43570707 TCAAAGTCTAGGAGCAAAATGGTCATTT
1 TCAAAGCCTAGGAGCAAAATGGTCATTT
43570735 CACCGAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (30 bp):
TCAAAGCCTAGGAGCAAAATGGTCATTTTG
Found at i:43571155 original size:47 final size:43
Alignment explanation
Indices: 43571081--43571208 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 43
43571071 TCACTTGTGT
* *
43571081 GAGCTACTGTAATACATGTCTGTGACATGCATCTGCCACATT-ATGA-
1 GAGCTAGTGTAAGACATGTCTG-GACATGCATC-G--ACATTGA-GAC
43571127 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCT-GGACAT-GCATCGACATTGAGAC
43571173 GAGTGCTAGTGTAAGACATGTCTGGGACATGCATCG
1 GA--GCTAGTGTAAGACATGTCT-GGACATGCATCG
43571209 GCTACGAGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
45 7 0.10
46 21 0.29
47 26 0.36
48 18 0.25
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (43 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGACATTGAGAC
Found at i:43578252 original size:29 final size:30
Alignment explanation
Indices: 43578219--43578275 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43578209 AAATCAATTT
* *
43578219 TCAAA-CCTAGGGGTAAAATGGTTATTTGG
1 TCAAAGCCTAGGGGCAAAATGGTCATTTGG
*
43578248 TCAAAGTCTAGGGGCAAAATGGTCATTT
1 TCAAAGCCTAGGGGCAAAATGGTCATTT
43578276 CACCAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (30 bp):
TCAAAGCCTAGGGGCAAAATGGTCATTTGG
Found at i:43578771 original size:46 final size:46
Alignment explanation
Indices: 43578635--43578790 Score: 133
Period size: 46 Copynumber: 3.3 Consensus size: 46
43578625 CTAATGTAGG
*
43578635 ACATGTCTGGGACATGCATTAGCCACATT---ATGAGAGCCAGTGTAAGA
1 ACATGTCTGGGACATGCA-T--CGACATTGAGATGAGAGCCAGTGTAA-A
* * * *
43578682 CCATGTCTAGGACATGGCATCGACATTGAGATGAGTGCTAGTGTAAA
1 ACATGTCTGGGACAT-GCATCGACATTGAGATGAGAGCCAGTGTAAA
* *
43578729 ACATGTCTGGGACATGCTTCGAC-TTCGAGATGTA-AGCCAGTGTAAG
1 ACATGTCTGGGACATGCATCGACATT-GAGATG-AGAGCCAGTGTAAA
* *
43578775 ACATGTTTGTGACATG
1 ACATGTCTGGGACATG
43578791 TGTAGGCTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
45 8 0.09
46 36 0.40
47 29 0.32
48 17 0.19
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (46 bp):
ACATGTCTGGGACATGCATCGACATTGAGATGAGAGCCAGTGTAAA
Found at i:43582186 original size:27 final size:27
Alignment explanation
Indices: 43582155--43582213 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
43582145 AGGCACCTTT
43582155 GGCTTCAGGCGTCATGCCCCTATTATC
1 GGCTTCAGGCGTCATGCCCCTATTATC
43582182 GGCTTCAGGCGTCATGCCCCTATTATC
1 GGCTTCAGGCGTCATGCCCCTATTATC
43582209 GGCTT
1 GGCTT
43582214 GTAAAGTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.14, C:0.32, G:0.24, T:0.31
Consensus pattern (27 bp):
GGCTTCAGGCGTCATGCCCCTATTATC
Found at i:43583888 original size:17 final size:15
Alignment explanation
Indices: 43583866--43583904 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43583856 ATAATATAAT
43583866 ATTAAAATAAAAAATTA
1 ATTAAAAT--AAAATTA
*
43583883 ATTAAAATAGAATTA
1 ATTAAAATAAAATTA
43583898 ATTAAAA
1 ATTAAAA
43583905 ATATTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
17 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAAATTA
Found at i:43584111 original size:14 final size:14
Alignment explanation
Indices: 43584092--43584122 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
43584082 ATCAAATAGC
43584092 AACATGACATGACA
1 AACATGACATGACA
43584106 AACATGACATGACA
1 AACATGACATGACA
43584120 AAC
1 AAC
43584123 TTTTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.23, G:0.13, T:0.13
Consensus pattern (14 bp):
AACATGACATGACA
Found at i:43588902 original size:18 final size:18
Alignment explanation
Indices: 43588879--43588914 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
43588869 CAAGTTAAAC
43588879 TAATCGAGTTATTCGAGT
1 TAATCGAGTTATTCGAGT
*
43588897 TAATCGAGTTATTTGAGT
1 TAATCGAGTTATTCGAGT
43588915 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (18 bp):
TAATCGAGTTATTCGAGT
Found at i:43589084 original size:30 final size:31
Alignment explanation
Indices: 43589049--43589131 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 31
43589039 CAAATCTTTT
*
43589049 TACTTTTCCCTCAAAACTTTTACTCCTTCC-C
1 TACTTTTCCCTCAAAACTTTTACT-CTCCCGC
* *
43589080 -AC-TTTCCCTCCAGACTTTTACTCTCCCGTC
1 TACTTTTCCCTCAAAACTTTTACTCTCCCG-C
43589110 TACTTTT-CCTCAAAA-TTTTACT
1 TACTTTTCCCTCAAAACTTTTACT
43589132 TCCAAAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 4 0.09
29 18 0.42
30 10 0.23
31 8 0.19
32 3 0.07
ACGTcount: A:0.19, C:0.36, G:0.02, T:0.42
Consensus pattern (31 bp):
TACTTTTCCCTCAAAACTTTTACTCTCCCGC
Found at i:43592972 original size:30 final size:31
Alignment explanation
Indices: 43592938--43592996 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
43592928 TTAATATTTT
43592938 AAATATT-TTTA-ATAAAAAATAAAAATTAAA
1 AAATATTATTTATA-AAAAAATAAAAATTAAA
*
43592968 AAATATTATTTTTAAAAAAATAAAAATTA
1 AAATATTATTTATAAAAAAATAAAAATTA
43592997 TAATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 18 0.69
32 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
AAATATTATTTATAAAAAAATAAAAATTAAA
Found at i:43593012 original size:23 final size:24
Alignment explanation
Indices: 43592956--43593014 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
43592946 TTAATAAAAA
*
43592956 ATAAAAATTAAAAAATATTATTTTT
1 ATAAAAA-TAAAAAATATAATTTTT
* *
43592981 AAAAAAATAAAAATTATAATTTTT
1 ATAAAAATAAAAAATATAATTTTT
43593005 -TAAAAATAAA
1 ATAAAAATAAA
43593015 GATATGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.30
24 15 0.50
25 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAAAATAAAAAATATAATTTTT
Found at i:43593061 original size:11 final size:11
Alignment explanation
Indices: 43593047--43593072 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43593037 TTTAAAATTA
43593047 AAAATATAAAT
1 AAAATATAAAT
43593058 AAAATATAAAT
1 AAAATATAAAT
43593069 AAAA
1 AAAA
43593073 ATTTCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:43594256 original size:7 final size:7
Alignment explanation
Indices: 43594244--43594268 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43594234 GTATAGATAC
43594244 TAAATTT
1 TAAATTT
43594251 TAAATTT
1 TAAATTT
43594258 TAAATTT
1 TAAATTT
43594265 TAAA
1 TAAA
43594269 AGAGTACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:43605066 original size:19 final size:19
Alignment explanation
Indices: 43605042--43605078 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43605032 ATTTATGTTT
43605042 TAGATACAGCACCTTTTAA
1 TAGATACAGCACCTTTTAA
*
43605061 TAGATATAGCACCTTTTA
1 TAGATACAGCACCTTTTA
43605079 TATTAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TAGATACAGCACCTTTTAA
Found at i:43606236 original size:18 final size:18
Alignment explanation
Indices: 43606213--43606278 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
43606203 AAAATGTGAG
*
43606213 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
43606231 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
43606249 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
43606267 AAATGATGTTCA
1 AAATGATGTTCA
43606279 AATTGATGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:43606828 original size:72 final size:72
Alignment explanation
Indices: 43606706--43606939 Score: 346
Period size: 72 Copynumber: 3.2 Consensus size: 72
43606696 AAATGCTAAA
* *
43606706 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAACTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
43606771 GTGTAAT
66 GTGTAAT
* *
43606778 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
43606843 GTGTAAT
66 GTGTAAT
* * * *
43606850 ATACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGGATATTGAATTTATGTTCTACTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGT-TTTTGGATATTGAATTTATGTTCTACTTATTTA
* *
43606915 TACT-AAAT
65 T-GTGTAAT
43606923 -TAGTTTTATCAATAGTT
1 CTAGTTTTATCAATAGTT
43606940 ATTAATATAT
Statistics
Matches: 146, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
72 110 0.75
73 35 0.24
74 1 0.01
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:43609008 original size:13 final size:13
Alignment explanation
Indices: 43608987--43609063 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 13
43608977 ACACCTAAAA
43608987 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
43609000 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
43609013 TTTTCCACAGCAA
1 TTTTCAAAAGCAC
* *
43609026 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
43609039 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
43609052 TTTTCAAAAGCA
1 TTTTCAAAAGCA
43609064 TTGCCAAACA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 54 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:43613587 original size:40 final size:39
Alignment explanation
Indices: 43613422--43613605 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
43613412 GAAATTGATG
* * *
43613422 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
43613462 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
43613502 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
43613542 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
43613581 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43613606 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:43613630 original size:80 final size:81
Alignment explanation
Indices: 43613462--43613650 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
43613452 GCTGGAAATT
* * * *
43613462 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
43613527 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
43613543 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
43613606 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
43613622 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43613651 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:43622437 original size:17 final size:18
Alignment explanation
Indices: 43622377--43622426 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
43622367 TAATGGGCTT
43622377 ACATGCCCGTGTGGGTCC
1 ACATGCCCGTGTGGGTCC
43622395 ACATGCCCGTGTGGGTCC
1 ACATGCCCGTGTGGGTCC
43622413 ACATGCCCGTGTGG
1 ACATGCCCGTGTGG
43622427 CCCACACGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.12, C:0.32, G:0.34, T:0.22
Consensus pattern (18 bp):
ACATGCCCGTGTGGGTCC
Found at i:43623656 original size:22 final size:21
Alignment explanation
Indices: 43623630--43623685 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
43623620 ATATCAAAAC
43623630 AATAACAACAAAAT-AGTAGCA
1 AATAACAACAAAATGA-TAGCA
* *
43623651 ATATAATAGCAAAATGATAGCA
1 A-ATAACAACAAAATGATAGCA
*
43623673 AAAAACAACAAAA
1 AATAACAACAAAA
43623686 CAACAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 10 0.36
22 17 0.61
23 1 0.04
ACGTcount: A:0.64, C:0.12, G:0.09, T:0.14
Consensus pattern (21 bp):
AATAACAACAAAATGATAGCA
Found at i:43625189 original size:23 final size:23
Alignment explanation
Indices: 43625154--43625208 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
43625144 TAAAAATTAA
*
43625154 AAAATATATAATTTTTTAAAAAAT
1 AAAA-ATATAATTTGTTAAAAAAT
*
43625178 AAAAATATAATTTGTTAAAACAT
1 AAAAATATAATTTGTTAAAAAAT
43625201 AAAAATAT
1 AAAAATAT
43625209 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAATATAATTTGTTAAAAAAT
Found at i:43628894 original size:16 final size:16
Alignment explanation
Indices: 43628873--43628906 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43628863 CTATGCATGC
* *
43628873 AAAATATAAAAGATAT
1 AAAATAAAAAAGACAT
43628889 AAAATAAAAAAGACAT
1 AAAATAAAAAAGACAT
43628905 AA
1 AA
43628907 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAAGACAT
Found at i:43634257 original size:2 final size:2
Alignment explanation
Indices: 43634250--43634277 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43634240 GCCACCGGTA
43634250 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
43634278 TCATGATCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43639321 original size:68 final size:64
Alignment explanation
Indices: 43639174--43639330 Score: 174
Period size: 68 Copynumber: 2.4 Consensus size: 64
43639164 TTCACCTGGA
* * *
43639174 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTGCACATAGT
1 ACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGC
* * *
43639238 ATCACCCATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-
1 ACCACACATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATGATGTGCACA
43639301 TCAGC
61 T-AGC
* *
43639306 ACCATACATGTGACCTAGCTACATA
1 ACCACACATGCGACCTAGCTACATA
43639331 CCATCTGTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
64 22 0.28
65 2 0.03
66 1 0.01
67 2 0.03
68 50 0.64
69 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (64 bp):
ACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGC
Found at i:43641617 original size:39 final size:39
Alignment explanation
Indices: 43641542--43641697 Score: 208
Period size: 39 Copynumber: 4.0 Consensus size: 39
43641532 GATGTGTATG
*
43641542 AATGTGCGAATTGTGATATCC-GGCTAAGCCTGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43641580 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43641619 ATTGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
43641658 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCAAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
43641698 TTTGTGCGGG
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
38 21 0.20
39 75 0.71
40 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:43641672 original size:78 final size:79
Alignment explanation
Indices: 43641555--43641737 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 79
43641545 GTGCGAATTG
* * *
43641555 TGATATCC-GGCTAAGCCTGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCGAATGTGCGAATTGTGATATCCGGGCTAAGTCCCAAAGGC
43641618 AATTGTGCGAGATA
66 AATTGTGCGAGATA
* * *
43641632 TGATATCCGGGCTAAGCCCGAAGGCGATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCAAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCGAATGTGCGAATTGTGATATCCGGGCTAAGTCCCAAAGGC
* * *
43641697 ATTTGTGCGGGTTA
66 AATTGTGCGAGATA
* * *
43641711 TCATAACCGGGCTATGTCCCGAAGGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCG
43641738 TTTGAACGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 8 0.09
78 41 0.45
79 32 0.35
80 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCGAATGTGCGAATTGTGATATCCGGGCTAAGTCCCAAAGGC
AATTGTGCGAGATA
Found at i:43641721 original size:40 final size:39
Alignment explanation
Indices: 43641544--43641741 Score: 202
Period size: 39 Copynumber: 5.1 Consensus size: 39
43641534 TGTGTATGAA
* * * **
43641544 TGTGCGAATTGTGATATCC-GGCTAAGCCTGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
* * *
43641582 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
*
43641621 TGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGA-T
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC-ATT
* * *
43641660 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCAAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCATT
* * * * *
43641700 TGTGCGGGTTATCATAACCGGGCTATGTCCCGAAGGCGTT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCATT
43641740 TG
1 TG
43641742 AACGAGTAGC
Statistics
Matches: 139, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 19 0.14
39 76 0.55
40 44 0.32
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCATT
Found at i:43641763 original size:79 final size:78
Alignment explanation
Indices: 43641592--43641764 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 78
43641582 TGTGCGAATT
* * * *
43641592 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGTTAAGCCCAAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGC
** *
43641657 GATTGTGCGAGTT
66 GATTGAACGAGTA
* * * *
43641670 GTGATATCCGGGTTAAGTCCCAAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGTTAAG-CCCAAAGGCAATTGTGCGAGATATCATAACCGGGCTAAG-CCCGAAG
*
43641735 GCGTTTGAACGAGTA
64 GCGATTGAACGAGTA
43641750 GCT-ATATCC-GGTTAA
1 G-TGATATCCGGGTTAA
43641765 ACTCCGAAGG
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
78 16 0.20
79 38 0.47
80 25 0.31
81 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (78 bp):
GTGATATCCGGGTTAAGCCCAAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGC
GATTGAACGAGTA
Found at i:43647532 original size:9 final size:9
Alignment explanation
Indices: 43647515--43647569 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
43647505 AATGTGTATG
*
43647515 TATTATATA
1 TATTTTATA
43647524 TATTTTATA
1 TATTTTATA
*
43647533 CATTTTATA
1 TATTTTATA
43647542 TATATTATATA
1 TAT-TT-TATA
43647553 TATATTTATTA
1 TAT-TTTA-TA
43647564 TATTTT
1 TATTTT
43647570 TATGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
9 18 0.45
10 7 0.17
11 15 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:43647543 original size:11 final size:11
Alignment explanation
Indices: 43647517--43647614 Score: 69
Period size: 11 Copynumber: 8.5 Consensus size: 11
43647507 TGTGTATGTA
43647517 TTATATATA-T
1 TTATATATATT
*
43647527 TT-TATACATT
1 TTATATATATT
43647537 TTATATATATT
1 TTATATATATT
*
43647548 ATATATATA-T
1 TTATATATATT
43647558 TTAT-TATATTT
1 TTATATATA-TT
43647569 TTATGTATATATTT
1 TTA--TATATA-TT
43647583 TTAATATCATATT
1 TT-ATAT-ATATT
*
43647596 ATTCATATATTTT
1 -TT-ATATATATT
43647609 TTATAT
1 TTATAT
43647615 TATGTAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
9 9 0.12
10 9 0.12
11 23 0.32
12 2 0.03
13 10 0.14
14 18 0.25
15 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:43647594 original size:14 final size:14
Alignment explanation
Indices: 43647529--43647614 Score: 52
Period size: 14 Copynumber: 6.1 Consensus size: 14
43647519 ATATATATTT
*
43647529 TATACATTTTATATA
1 TATATATTTT-TATA
* * *
43647544 TATTATATATATATT
1 TA-TATATTTTTATA
*
43647559 TATTATATTTTTATG
1 TA-TATATTTTTATA
43647574 TATATATTTTTA-A
1 TATATATTTTTATA
* *
43647587 TATCATATTATT-CA
1 TAT-ATATTTTTATA
43647601 TATAT-TTTTTATA
1 TATATATTTTTATA
43647614 T
1 T
43647615 TATGTAAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
12 4 0.07
13 7 0.12
14 21 0.38
15 19 0.34
16 5 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (14 bp):
TATATATTTTTATA
Found at i:43647597 original size:25 final size:23
Alignment explanation
Indices: 43647517--43647653 Score: 110
Period size: 25 Copynumber: 6.0 Consensus size: 23
43647507 TGTGTATGTA
*
43647517 TTATATATATT-T-TATACA-TT
1 TTATATATATTATGTATATATTT
*
43647537 TTATATATATTATATATATATTT
1 TTATATATATTATGTATATATTT
*
43647560 ATTATAT-TTTTATGTATATATTT
1 -TTATATATATTATGTATATATTT
43647583 TTAATATCATATTAT-TCATATA-TT
1 TT-ATAT-ATATTATGT-ATATATTT
*
43647607 TT-T-TATATTATGTAAATATTT
1 TTATATATATTATGTATATATTT
* *
43647628 TCAATACTACATTATGTATATATTT
1 T-TATA-TATATTATGTATATATTT
43647653 T
1 T
43647654 GTCTATATTG
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
20 22 0.23
21 6 0.06
22 8 0.08
23 21 0.22
24 11 0.12
25 27 0.28
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATATATATTATGTATATATTT
Found at i:43647642 original size:45 final size:47
Alignment explanation
Indices: 43647569--43647662 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 47
43647559 TATTATATTT
* * *
43647569 TTATGTATATATTTTTAATATCATATTAT-TCATATATTTT-T-TATA
1 TTATGTAAATATTTTCAATATCACATTATGT-ATATATTTTGTCTATA
43647614 TTATGTAAATATTTTCAATA-CTACATTATGTATATATTTTGTCTATA
1 TTATGTAAATATTTTCAATATC-ACATTATGTATATATTTTGTCTATA
43647661 TT
1 TT
43647663 GTATACATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 1 0.02
45 33 0.79
46 2 0.05
47 6 0.14
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (47 bp):
TTATGTAAATATTTTCAATATCACATTATGTATATATTTTGTCTATA
Found at i:43647826 original size:2 final size:2
Alignment explanation
Indices: 43647819--43647845 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43647809 ATATCATTAT
43647819 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
43647846 GTGTGTGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43647945 original size:26 final size:26
Alignment explanation
Indices: 43647915--43647966 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43647905 ATTATGTATA
*
43647915 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
43647941 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
43647967 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:43660592 original size:204 final size:205
Alignment explanation
Indices: 43660097--43660595 Score: 743
Period size: 204 Copynumber: 2.4 Consensus size: 205
43660087 GGAGTAGATT
* * ** * * * * *
43660097 GAAGATATAGATGATTTGGCTTTCACGTATTTACGATGAAGCAAATCCAAGATGATTTGTCGTCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCT
* * * *
43660162 CTGTAGTGTCAGAGAACAAATCAAAGTCTGGCATCTCTACTTCAATAGAGAGCAGATACATAGCA
66 CTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGACACATAGCA
* * *
43660227 GATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAA
131 GATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTTACAA
43660292 GGAACAAATC
196 GGAACAAATC
43660302 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAA-ATGATTTGGCATCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCT
* * * *
43660366 CTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGATGGAGGGTAGACACATAGCA
66 CTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGACACATAGCA
*
43660431 GATC-CAACCTTCAGATGTTTCTACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTTACA
131 GATCTC-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTTACA
*
43660495 AGGAGCAAAT-
195 AGGAACAAATC
* *
43660505 GAAGACGTAGCTGATTTGGCTTTCACGTGCTTAAGTTAAAGCAAATCTAAGATGATTTGGCATCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCT
*
43660570 CTGTATTGTCAGGGAACAAATCGAAG
66 CTGTATTGTCAGAGAACAAATCGAAG
43660596 AAGCAGATTT
Statistics
Matches: 267, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
203 49 0.18
204 175 0.66
205 43 0.16
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
GAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGATTTGGCATCT
CTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATAGAGAGCAGACACATAGCA
GATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTAGCATCCTTGTGCTTACAA
GGAACAAATC
Found at i:43662525 original size:9 final size:9
Alignment explanation
Indices: 43662508--43662567 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
43662498 AATGTGTATG
*
43662508 TATTATATA
1 TATTTTATA
43662517 TATTTTATA
1 TATTTTATA
*
43662526 CATTTTATA
1 TATTTTATA
*
43662535 TATATTATA
1 TATTTTATA
*
43662544 TA-TATATA
1 TATTTTATA
43662552 T-TTATTATA
1 TATT-TTATA
43662561 T-TTTTAT
1 TATTTTAT
43662568 GTATATATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
8 10 0.24
9 32 0.76
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:43662536 original size:11 final size:11
Alignment explanation
Indices: 43662510--43662608 Score: 71
Period size: 11 Copynumber: 8.5 Consensus size: 11
43662500 TGTGTATGTA
43662510 TTATATATA-T
1 TTATATATATT
*
43662520 TT-TATACATT
1 TTATATATATT
43662530 TTATATATATT
1 TTATATATATT
*
43662541 ATATATATATAT
1 TTATATATAT-T
43662553 TTAT-TATATTT
1 TTATATATA-TT
43662564 TTATGTATATATTT
1 TTA--TATATA-TT
43662578 TTAATATCATATT
1 TT-ATAT-ATATT
43662591 ATTCATATAT-TT
1 -TT-ATATATATT
43662603 TTATAT
1 TTATAT
43662609 TATGTAAATA
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
9 5 0.07
10 9 0.12
11 26 0.35
12 7 0.09
13 8 0.11
14 18 0.24
15 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:43662589 original size:14 final size:14
Alignment explanation
Indices: 43662511--43662600 Score: 53
Period size: 14 Copynumber: 6.4 Consensus size: 14
43662501 GTGTATGTAT
43662511 TATATATATTTTATA
1 TATATATATTTT-TA
* * *
43662526 CATTTTATATATATTA
1 TA-TATATAT-TTTTA
*
43662542 TATATATA-TATT-
1 TATATATATTTTTA
43662554 TAT-TATATTTTTA
1 TATATATATTTTTA
*
43662567 TGTATATATTTTTA
1 TATATATATTTTTA
*
43662581 -ATATCATATTATTCA
1 TATAT-ATATT-TTTA
43662596 TATAT
1 TATAT
43662601 TTTTATATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
11 4 0.07
12 6 0.10
13 9 0.16
14 15 0.26
15 9 0.16
16 13 0.22
17 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (14 bp):
TATATATATTTTTA
Found at i:43662592 original size:25 final size:24
Alignment explanation
Indices: 43662512--43662648 Score: 96
Period size: 25 Copynumber: 6.0 Consensus size: 24
43662502 TGTATGTATT
*
43662512 ATATATATT-T-TATACA-TTTT-
1 ATATATATTATGTATATATTTTTA
* *
43662532 ATATATATTATATATATATATTTA
1 ATATATATTATGTATATATTTTTA
* *
43662556 TTATATTTTTATGTATATATTTTTA
1 ATATA-TATTATGTATATATTTTTA
43662581 ATATCATATTAT-TCATATA--TTT-
1 ATAT-ATATTATGT-ATATATTTTTA
* *
43662603 -T-TATATTATGTAAATATTTTCA
1 ATATATATTATGTATATATTTTTA
*
43662625 ATACTACATTATGTATATATTTTT
1 ATA-TATATTATGTATATATTTTT
43662649 GTCTATATTG
Statistics
Matches: 90, Mismatches: 13, Indels: 23
0.71 0.10 0.18
Matches are distributed among these distances:
19 11 0.12
20 11 0.12
21 4 0.04
22 5 0.06
23 7 0.08
24 5 0.06
25 46 0.51
26 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATATATTATGTATATATTTTTA
Found at i:43662621 original size:44 final size:44
Alignment explanation
Indices: 43662546--43662648 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
43662536 ATATTATATA
* * *
43662546 TATATATTTATTATATTTTTATGTATATATTTTTAATA-TCATATTAT-
1 TATATATTT-TTATA---TTATGTAAATATTTTCAATACT-ACATTATG
43662593 TCATATATTTTTATATTATGTAAATATTTTCAATACTACATTATG
1 T-ATATATTTTTATATTATGTAAATATTTTCAATACTACATTATG
43662638 TATATATTTTT
1 TATATATTTTT
43662649 GTCTATATTG
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
44 34 0.68
45 2 0.04
47 6 0.12
48 8 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (44 bp):
TATATATTTTTATATTATGTAAATATTTTCAATACTACATTATG
Found at i:43662942 original size:26 final size:26
Alignment explanation
Indices: 43662912--43662963 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43662902 ATTATGTATA
*
43662912 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
43662938 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
43662964 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:43676107 original size:28 final size:28
Alignment explanation
Indices: 43676046--43676143 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
43676036 TCACAAATTG
** * *
43676046 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
43676075 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
43676103 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
43676131 GCACTAAGTGTGC
1 GCACTAAGTGTGC
43676144 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:43683783 original size:28 final size:28
Alignment explanation
Indices: 43683722--43683819 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
43683712 TCACAAATTG
** * *
43683722 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
43683751 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
43683779 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
43683807 GCACTAAGTGTGC
1 GCACTAAGTGTGC
43683820 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:43686625 original size:46 final size:46
Alignment explanation
Indices: 43686572--43686735 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
43686562 ATTGTGAGCT
* *
43686572 AGTGTAAGACATGTTTGGGACATGCATTGGCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTAAGAAAGCC
* * *
43686618 AGTGTAAGACCATGTCTGGGACATGGCA-T--CGACATTAAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCACATTAAGA--A-AGCC
* * * * * *
43686666 AGTGTAAGACATGTCTGGGACATGCATAGGCCTCGA-GACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTAAGAAAGCC
43686712 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
43686736 TATCTGCTAC
Statistics
Matches: 95, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
45 9 0.09
46 37 0.39
47 30 0.32
48 14 0.15
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTAAGAAAGCC
Found at i:43686749 original size:46 final size:44
Alignment explanation
Indices: 43686617--43686780 Score: 141
Period size: 46 Copynumber: 3.6 Consensus size: 44
43686607 TTATGAAAGC
* * * ** *
43686617 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGACGAGT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATAGGCCTCGAGACGTGT
43686663 GCTAGTGTAAGACATGTCTGGGACATGCATAGGCCTCGAGACGTAAGT
1 -C-AGTGTAAGACATGTCTGGGACATGCATAGGCCTCGAGACGT--GT
* ** *
43686711 CAGTGTAAGACATGTCTGGGACATGTATCTG-CTACGAGATGTGT
1 CAGTGTAAGACATGTCTGGGACATGCATAGGCCT-CGAGACGTGT
* *
43686755 TAGTGTAAGACCACGTCTGGGACATG
1 CAGTGTAAGA-CATGTCTGGGACATG
43686781 GCATCAGCAT
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 46 0.46
47 16 0.16
48 11 0.11
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
CAGTGTAAGACATGTCTGGGACATGCATAGGCCTCGAGACGTGT
Found at i:43690326 original size:43 final size:43
Alignment explanation
Indices: 43690256--43690413 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
43690246 AATGTGTTAT
*
43690256 CGTGTAAGACCACGTCTGGGACTTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGACTT-TGATTTA
*
43690300 CGT-TAAGACCACGTTTGGGACATTGGCATCGTAC-TTGATTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTTTGATTTA
* * * * *
43690341 TGTGTAAGACC-CTGTCTGGGACAGTGACATCGATATTTGA-CTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGA-CTTTGATTTA
* * *
43690384 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
43690414 TGTACGAGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
41 4 0.04
42 30 0.32
43 53 0.57
44 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGACTTTGATTTA
Found at i:43693006 original size:13 final size:13
Alignment explanation
Indices: 43692988--43693012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43692978 TATGTGAAAT
43692988 ATTATTTAATTTG
1 ATTATTTAATTTG
43693001 ATTATTTAATTT
1 ATTATTTAATTT
43693013 TAATTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATTATTTAATTTG
Found at i:43693788 original size:20 final size:21
Alignment explanation
Indices: 43693749--43693788 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
43693739 AAGGGCTATT
*
43693749 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
43693770 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
43693789 TTGAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:43694167 original size:2 final size:2
Alignment explanation
Indices: 43694162--43694187 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43694152 GTATGATTTA
43694162 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
43694188 TGGAAAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43700840 original size:2 final size:2
Alignment explanation
Indices: 43700835--43700859 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43700825 TTGTATGATT
43700835 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
43700860 TGGAAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43702922 original size:94 final size:95
Alignment explanation
Indices: 43702728--43703087 Score: 314
Period size: 94 Copynumber: 3.8 Consensus size: 95
43702718 GATTTGTGCA
* * * * * *
43702728 CCAGTGTAAGACGTGTCTGGGACATGCTTCGGC-CACATTATGAGAACCAGTGTAAGACCATGT-
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCTCATACTATGAGAGCCAGTGTAAGACCATGTC
* * * * *
43702791 TCGGGGCATGGCATCAGCATC-CAGACGAGGG
66 T-GGGACATGGCATCGGCA-CAGAGATGAGTG
* * *
43702822 CTAGTGTAAGACATGTCTGGGACATACATCAGC-CATACTATGATAGCCAGTGTAAGACCATGTC
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCTCATACTATGAGAGCCAGTGTAAGACCATGTC
*
43702886 TGGGACATGTCATCGGCACAGAGATGAGTG
66 TGGGACATGGCATCGGCACAGAGATGAGTG
* * * * *
43702916 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTTC-GAC-A-GAGATAGCCACTATAAGA-TAT
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGC-TCATACTATGAG--AGCCAGTGTAAGACCAT
* * * * *
43702977 GTCTGGGACA-CGTATTGACTA-AGAG-T-TGTG
63 GTCTGGGACATGGCATCGGC-ACAGAGATGAGTG
* *
43703007 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-TATGAGAGCCAGTGTAAGACCATG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAG--CTCATACTATGAGAGCCAGTGTAAGACCATG
43703071 TCTGGGACATGGCATCG
64 TCTGGGACATGGCATCG
43703088 ACAATATATC
Statistics
Matches: 213, Mismatches: 39, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
91 33 0.15
92 13 0.06
93 26 0.12
94 126 0.59
95 14 0.07
96 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (95 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCTCATACTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGCACAGAGATGAGTG
Found at i:43702931 original size:47 final size:46
Alignment explanation
Indices: 43702728--43703087 Score: 220
Period size: 47 Copynumber: 7.7 Consensus size: 46
43702718 GATTTGTGCA
* * ** **
43702728 CCAGTGTAAGACGTGTCTGGGACATGCTTCGGCCACA-TTATGAGAA
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGTG
* * * * *
43702774 CCAGTGTAAGACCATGT-TCGGGGCATGGCATCAGCATC-CAGACGAGGG
1 CCAGTGTAAGA-CATGTCT-GGGACAT-GCATCGGCA-CAGAGATGAGTG
* * * * *
43702822 CTAGTGTAAGACATGTCTGGGACATACATCAGC-CATACTATGA-TAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGA-GATGAGT-G
43702868 CCAGTGTAAGACCATGTCTGGGACATGTCATCGGCACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCACAGAGATGAGTG
43702916 CCAGTGTAAGACATGTCTGGGACATGCATCGGCTTCGACAGAGAT-A--G
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAGTG
* * * * * * * *
43702963 CCACTATAAGATATGTCTGGGACACGTATTGACTA-AGAG-T-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGTG
* * * * *
43703007 CTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGTG
43703055 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
43703088 ACAATATATC
Statistics
Matches: 243, Mismatches: 45, Indels: 48
0.72 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 5 0.02
44 28 0.12
45 1 0.00
46 41 0.17
47 79 0.33
48 55 0.23
49 20 0.08
50 13 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGTG
Found at i:43712317 original size:27 final size:26
Alignment explanation
Indices: 43712287--43712338 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43712277 TCCATATCTA
* *
43712287 TAGGCTAGTATTACTGAAATAGCCCTG
1 TAGGCTAGAATTACTAAAATA-CCCTG
*
43712314 TAGGGTAGAATTACTAAAATACCCT
1 TAGGCTAGAATTACTAAAATACCCT
43712339 TGGTTTACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (26 bp):
TAGGCTAGAATTACTAAAATACCCTG
Found at i:43712658 original size:27 final size:27
Alignment explanation
Indices: 43712322--43712692 Score: 266
Period size: 27 Copynumber: 13.7 Consensus size: 27
43712312 TGTAGGGTAG
* * **
43712322 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * * *
43712349 AATCACCAAAATACCCTCGATTAGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
43712376 AATTACCAAAATACCTCTAG-TTTGTAA
1 AATTACCAAAATACC-CTTGATTTGTAA
* * *
43712403 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCTTGATTTGTAA
** * **
43712430 AATTACTGAAATACCCTCGACATGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * * *
43712457 ATTTACCGAAATACCCTTAACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
43712484 AATTACTGAAATA-CCTTCGATTTGTAA
1 AATTACCAAAATACCCTT-GATTTGTAA
*
43712511 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
43712538 AATTACCAAAATACCCCTGATTTATGA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
43712565 AATTACAAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
43712592 AATTA-TAGAAATACCTTTGACTTT-CAA
1 AATTACCA-AAATACCCTTGA-TTTGTAA
** *
43712619 GAATTATAAAAATACCATTGATTTGTAA
1 -AATTACCAAAATACCCTTGATTTGTAA
** * *
43712647 AATTACCAAAATACTATTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
43712674 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
43712693 TAGGGTGAAA
Statistics
Matches: 279, Mismatches: 54, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.03
27 243 0.87
28 28 0.10
29 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:43712980 original size:41 final size:41
Alignment explanation
Indices: 43712935--43713053 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
43712925 GAAGAAATTG
* *
43712935 AGGATCGCATGGCTGCTTGACGACCGTGGATCCACTGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
*
43712976 AGGATTGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
43713017 AGGATCGCATGTTTGCTTGATGACCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
43713054 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:43721255 original size:7 final size:6
Alignment explanation
Indices: 43721221--43721259 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
43721211 GTTTAAAAAC
* * *
43721221 TTTTTA TTTTTA TTTTTA TTTTCA CTTTTA TCTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
43721260 ATCTTAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:43733995 original size:29 final size:29
Alignment explanation
Indices: 43733961--43734092 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
43733951 TACTCGATTT
** * *
43733961 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
43733990 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
43734019 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43734048 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43734077 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43734093 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43746194 original size:29 final size:29
Alignment explanation
Indices: 43746161--43746234 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
43746151 CCTTCGAGCT
43746161 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43746190 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43746219 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43746235 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43746195 original size:58 final size:58
Alignment explanation
Indices: 43746102--43746234 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
43746092 ATACTCGATT
* * * * *
43746102 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
43746160 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
43746218 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
43746235 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:43754016 original size:29 final size:29
Alignment explanation
Indices: 43753982--43754113 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
43753972 TACTCGATTT
** * *
43753982 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
43754011 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
43754040 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
43754069 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
43754098 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
43754114 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:43760379 original size:24 final size:22
Alignment explanation
Indices: 43760342--43760457 Score: 90
Period size: 23 Copynumber: 5.1 Consensus size: 22
43760332 CCTGAGCTGA
*
43760342 TGAACAGTAAGCTCTAATGAGC
1 TGAATAGTAAGCTCTAATGAGC
*
43760364 TGAATATGGTAAGCTCTATTGAGC
1 TGAATA--GTAAGCTCTAATGAGC
*
43760388 TGAATAGTAAGCTCT-TTCGAGC
1 TGAATAGTAAGCTCTAAT-GAGC
* * * *
43760410 TAAATCGATAAGCTCCAACGAGC
1 TGAATAG-TAAGCTCTAATGAGC
* * *
43760433 TGAAACAGTAAGCTCTTACGAGC
1 TG-AATAGTAAGCTCTAATGAGC
43760456 TG
1 TG
43760458 TGGTGAGTCT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
21 2 0.03
22 23 0.30
23 27 0.36
24 24 0.32
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (22 bp):
TGAATAGTAAGCTCTAATGAGC
Found at i:43760410 original size:46 final size:46
Alignment explanation
Indices: 43760342--43760457 Score: 121
Period size: 46 Copynumber: 2.5 Consensus size: 46
43760332 CCTGAGCTGA
* * * **
43760342 TGAACAGTAAGCTCTAAT-GAGCTGAATAT-GGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCT-TTCGAGCTGAA-ATCGATAAGCTCCAACGAGC
*
43760388 TGAATAGTAAGCTCTTTCGAGCT-AAATCGATAAGCTCCAACGAGC
1 TGAACAGTAAGCTCTTTCGAGCTGAAATCGATAAGCTCCAACGAGC
*
43760433 TGAAACAGTAAGCTCTTACGAGCTG
1 TG-AACAGTAAGCTCTTTCGAGCTG
43760458 TGGTGAGTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
44 2 0.03
45 18 0.31
46 38 0.66
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (46 bp):
TGAACAGTAAGCTCTTTCGAGCTGAAATCGATAAGCTCCAACGAGC
Found at i:43761909 original size:19 final size:19
Alignment explanation
Indices: 43761885--43761926 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
43761875 TGTGCTGTTC
43761885 CTTGCGAGCTCTAAGGTTT
1 CTTGCGAGCTCTAAGGTTT
43761904 CTTGCGAGCTCTAAGGTTT
1 CTTGCGAGCTCTAAGGTTT
43761923 CTTG
1 CTTG
43761927 GAGAGTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.38
Consensus pattern (19 bp):
CTTGCGAGCTCTAAGGTTT
Found at i:43763122 original size:25 final size:25
Alignment explanation
Indices: 43763083--43763136 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
43763073 CGAAGTGGTG
43763083 TGTAGAGCATAGATGGGTAGGACCT
1 TGTAGAGCATAGATGGGTAGGACCT
* *
43763108 TGTAGAGGATGGATGGGTAGGACCT
1 TGTAGAGCATAGATGGGTAGGACCT
43763133 TGTA
1 TGTA
43763137 TGCATCTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.09, G:0.39, T:0.26
Consensus pattern (25 bp):
TGTAGAGCATAGATGGGTAGGACCT
Found at i:43768446 original size:80 final size:80
Alignment explanation
Indices: 43768362--43768510 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
43768352 TATGGTAACC
* * * *
43768362 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
43768426 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
43768442 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
43768507 CCGG
66 CCGG
43768511 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:43768452 original size:40 final size:38
Alignment explanation
Indices: 43768403--43768510 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
43768393 ATCACGATTT
*
43768403 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
43768443 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
43768483 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
43768511 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:43778243 original size:40 final size:40
Alignment explanation
Indices: 43778116--43778245 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
43778106 ATGCTGGAAA
* *
43778116 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
43778156 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
43778196 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
43778236 TTATATCCGG
1 TTATATCCGG
43778246 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:43786230 original size:40 final size:40
Alignment explanation
Indices: 43786104--43786232 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
43786094 ATGCTGGAAA
* *
43786104 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
43786144 CTACA-CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
43786183 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
43786223 TTATATCCGG
1 TTATATCCGG
43786233 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
38 3 0.04
39 30 0.39
40 43 0.57
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:43791861 original size:20 final size:20
Alignment explanation
Indices: 43791802--43791900 Score: 58
Period size: 20 Copynumber: 5.0 Consensus size: 20
43791792 AATTATTGAA
*
43791802 TGAATGCATATACGTGCCCC
1 TGAATGCACATACGTGCCCC
** * * *
43791822 TGTTTGTACTTTA-GTACCCC
1 TGAATGCAC-ATACGTGCCCC
43791842 TGAATGCACATACGTGCCCC
1 TGAATGCACATACGTGCCCC
* * * *
43791862 TGATTGTAC-TTCGGTACCCC
1 TGAATGCACATAC-GTGCCCC
* *
43791882 TGAATGCATATATGTGCCC
1 TGAATGCACATACGTGCCC
43791901 TGCTTGTACT
Statistics
Matches: 54, Mismatches: 21, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
19 4 0.07
20 47 0.87
21 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAATGCACATACGTGCCCC
Found at i:43791923 original size:39 final size:40
Alignment explanation
Indices: 43791802--43791925 Score: 169
Period size: 40 Copynumber: 3.1 Consensus size: 40
43791792 AATTATTGAA
* *
43791802 TGAATGCATATACGTGCCCCTGTTTGTACTTTAGTACCCC
1 TGAATGCATATACGTGCCCCTGATTGTACTTTGGTACCCC
* *
43791842 TGAATGCACATACGTGCCCCTGATTGTACTTCGGTACCCC
1 TGAATGCATATACGTGCCCCTGATTGTACTTTGGTACCCC
* * **
43791882 TGAATGCATATATGTG-CCCTGCTTGTACTTTGGTAATCC
1 TGAATGCATATACGTGCCCCTGATTGTACTTTGGTACCCC
43791921 TGAAT
1 TGAAT
43791926 TAAATAATAC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 24 0.32
40 50 0.68
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (40 bp):
TGAATGCATATACGTGCCCCTGATTGTACTTTGGTACCCC
Found at i:43797154 original size:17 final size:17
Alignment explanation
Indices: 43797132--43797164 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43797122 TCTTTCCTCT
*
43797132 ACTCAGGTTGCACTAAG
1 ACTCAGATTGCACTAAG
43797149 ACTCAGATTGCACTAA
1 ACTCAGATTGCACTAA
43797165 CACCGGTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
ACTCAGATTGCACTAAG
Found at i:43821985 original size:40 final size:38
Alignment explanation
Indices: 43821941--43822090 Score: 124
Period size: 40 Copynumber: 3.8 Consensus size: 38
43821931 TGGAAATTAT
*
43821941 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTAC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT--CTAC
* * * * *
43821981 ATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGG-CAATTGTGCTAGT--CTAC
* *
43822021 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTC-TAC
* *
43822060 TATCCGGGCTAAGACTCGAAGGCATTTGTGC
1 -ATCCGGGCTAAGACCCGAAGGCAATTGTGC
43822091 AAATCGTGAT
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
39 6 0.07
40 76 0.87
41 5 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (38 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTCTAC
Found at i:43822065 original size:80 final size:80
Alignment explanation
Indices: 43821900--43822072 Score: 226
Period size: 80 Copynumber: 2.2 Consensus size: 80
43821890 AATTGAATGA
* * *
43821900 TATCCGGGCTAAGTCCCGAAGACGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAAGACATTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
43821965 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
* * *
43821981 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAAGACATTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
43822044 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
43822060 TATCCGGGCTAAG
1 TATCCGGGCTAAG
43822073 ACTCGAAGGC
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 5 0.06
80 75 0.93
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAAGACATTAATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:43822104 original size:40 final size:40
Alignment explanation
Indices: 43822019--43822105 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
43822009 GCTAGTAATT
* * *
43822019 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
* * * *
43822059 CTATCCGGGCTAAGACTCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
43822099 ATATCCG
1 ATATCCG
43822106 AGTTAAGTCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATG
Found at i:43823290 original size:27 final size:27
Alignment explanation
Indices: 43823247--43823470 Score: 268
Period size: 27 Copynumber: 8.3 Consensus size: 27
43823237 GACCTCGATT
* * *
43823247 TGTAAAATTGCCAAAATACCCTTATAG
1 TGTAAAATTACCGAAATACCCTTGTAG
** *
43823274 TGTAAAATTATTGAAATACCTTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
**
43823301 TGTAAAATTATTGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
43823328 TGTAAAATAACCAAAATACCCTTATAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
43823355 TGTAAAATTATCGAAATACCCATGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
43823382 TGAAAAATTACTGAAATACCCTTTTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
43823409 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
43823436 TGTAAAATTACCGAAATACCCCTATAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
43823463 GGTAAAAT
1 TGTAAAAT
43823471 GACTATTTTA
Statistics
Matches: 167, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 167 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:43823382 original size:81 final size:81
Alignment explanation
Indices: 43823247--43823470 Score: 331
Period size: 81 Copynumber: 2.8 Consensus size: 81
43823237 GACCTCGATT
* * ** *
43823247 TGTAAAATTGCCAAAATACCCTTATAGTGTAAAATTATTGAAATACCTTTGTAGTGTAAAATTAT
1 TGTAAAATTACCAAAATACCCTTATAGTGTAAAATTATCGAAATACCCATGTAGTGTAAAATTAC
43823312 TGAAATACCCTTGTAG
66 TGAAATACCCTTGTAG
* *
43823328 TGTAAAATAACCAAAATACCCTTATAGTGTAAAATTATCGAAATACCCATGTAGTGAAAAATTAC
1 TGTAAAATTACCAAAATACCCTTATAGTGTAAAATTATCGAAATACCCATGTAGTGTAAAATTAC
*
43823393 TGAAATACCCTTTTAG
66 TGAAATACCCTTGTAG
* * * * *
43823409 TGTAAAATTACCAAAATACCCTTGTAGTGTAAAATTACCGAAATACCCCTATAGGGTAAAAT
1 TGTAAAATTACCAAAATACCCTTATAGTGTAAAATTATCGAAATACCCATGTAGTGTAAAAT
43823471 GACTATTTTA
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 128 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (81 bp):
TGTAAAATTACCAAAATACCCTTATAGTGTAAAATTATCGAAATACCCATGTAGTGTAAAATTAC
TGAAATACCCTTGTAG
Found at i:43825093 original size:29 final size:27
Alignment explanation
Indices: 43825059--43825161 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
43825049 TACTCAATCA
*
43825059 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
43825088 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
43825117 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
43825146 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43825162 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:43826952 original size:27 final size:27
Alignment explanation
Indices: 43826902--43826963 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
43826892 CTATGTGCCT
*
43826902 ATCATATTTATTGATGACTCTGTGTCG
1 ATCATATTTATTCATGACTCTGTGTCG
** *
43826929 ATCATATTTATTCATGGTTGTGTGTCG
1 ATCATATTTATTCATGACTCTGTGTCG
*
43826956 ATTATATT
1 ATCATATT
43826964 ACTGTCGCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (27 bp):
ATCATATTTATTCATGACTCTGTGTCG
Done.