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 384 of 425
Found at i:118135358 original size:27 final size:26
Alignment explanation
Indices: 118135326--118135394 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
118135316 TAATAATATA
*
118135326 AATAATAATAT-ATACATGAGAAATAAT
1 AATAATAATATAATA-AT-AGAAAAAAT
118135353 AATAATAATATAAATAATAGAAAAAAT
1 AATAATAATAT-AATAATAGAAAAAAT
*
118135380 AATAA-AATAAAATAA
1 AATAATAATATAATAA
118135395 AAAATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 5 0.13
26 4 0.11
27 24 0.63
28 2 0.05
29 3 0.08
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.26
Consensus pattern (26 bp):
AATAATAATATAATAATAGAAAAAAT
Found at i:118135398 original size:12 final size:13
Alignment explanation
Indices: 118135346--118135403 Score: 68
Period size: 12 Copynumber: 4.6 Consensus size: 13
118135336 TATACATGAG
118135346 AAATAATAATAATA
1 AAATAA-AATAATA
*
118135360 ATAT-AAATAATA
1 AAATAAAATAATA
*
118135372 GAA-AAAATAATA
1 AAATAAAATAATA
118135384 AAATAAAATAA-A
1 AAATAAAATAATA
118135396 AAATAAAA
1 AAATAAAA
118135404 CAAAGCTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 27 0.71
13 8 0.21
14 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:118135832 original size:35 final size:35
Alignment explanation
Indices: 118135786--118135854 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
118135776 TTTGTAGGCA
118135786 AGTGGAGTGGTTGGGATGGTTTAGTGGAGTGGTTT
1 AGTGGAGTGGTTGGGATGGTTTAGTGGAGTGGTTT
* * *
118135821 AGTGGGGTGGTTGGGGTGGTTTAGTGGGGTGGTT
1 AGTGGAGTGGTTGGGATGGTTTAGTGGAGTGGTT
118135855 GGGGTGGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.10, C:0.00, G:0.54, T:0.36
Consensus pattern (35 bp):
AGTGGAGTGGTTGGGATGGTTTAGTGGAGTGGTTT
Found at i:118135839 original size:22 final size:22
Alignment explanation
Indices: 118135814--118135876 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
118135804 GTTTAGTGGA
118135814 GTGGTTTAGTGGGGTGGTTGGG
1 GTGGTTTAGTGGGGTGGTTGGG
118135836 GTGGTTTAGTGGGGTGGTTGGG
1 GTGGTTTAGTGGGGTGGTTGGG
*
118135858 GTGGTTTAGTGGAGTGGTT
1 GTGGTTTAGTGGGGTGGTT
118135877 TAGTGGGGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.06, C:0.00, G:0.56, T:0.38
Consensus pattern (22 bp):
GTGGTTTAGTGGGGTGGTTGGG
Found at i:118136012 original size:16 final size:15
Alignment explanation
Indices: 118135971--118136015 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
118135961 CTTCGAAGGT
** *
118135971 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
118135986 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
118136001 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
118136016 CCCGGGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:118144689 original size:22 final size:22
Alignment explanation
Indices: 118144661--118144705 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
118144651 CCCTAGTAAC
118144661 TGAAGTTCTACTACTTTTATGA
1 TGAAGTTCTACTACTTTTATGA
*
118144683 TGAAGTTCTATTACTTTTATGA
1 TGAAGTTCTACTACTTTTATGA
118144705 T
1 T
118144706 TTAGTCCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (22 bp):
TGAAGTTCTACTACTTTTATGA
Found at i:118146062 original size:138 final size:138
Alignment explanation
Indices: 118145810--118146062 Score: 380
Period size: 138 Copynumber: 1.8 Consensus size: 138
118145800 CATAGTGTCT
* * * **
118145810 TTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTATTC
1 TTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
* * * **
118145875 TTTTCATGTCACGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTAATGTCACGCAGCCA
66 ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTAATGTCACGCAGCCA
118145940 TGGTATCC
131 TGGTATCC
* * * *
118145948 TTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCGTGGTATCTTTCAACCATGGTCTTCCAC
1 TTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
118146013 ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
66 ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
118146063 CATTTCAGAG
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 101 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (138 bp):
TTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTAATGTCACGCAGCCA
TGGTATCC
Found at i:118146063 original size:46 final size:46
Alignment explanation
Indices: 118145797--118146065 Score: 324
Period size: 46 Copynumber: 5.8 Consensus size: 46
118145787 TTTGACATGA
* * * *
118145797 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGT
* * *
118145843 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * *
118145889 TGTCATGGTATCTTTCAACCATGGTCTTATTCATTTAATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * ** *
118145935 AGCCATGGTATCCTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
* * * *
118145981 TGCCGTGGTATCTTTCAACCATGGTCTTCCACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
*
118146027 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
118146066 TTCAGAGAGC
Statistics
Matches: 192, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 4 0.02
46 188 0.98
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCACGT
Found at i:118147941 original size:11 final size:11
Alignment explanation
Indices: 118147887--118147945 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
118147877 CTTTATATAC
118147887 TAATAAAATAA
1 TAATAAAATAA
* *
118147898 CAATAAAAAAA
1 TAATAAAATAA
*
118147909 TAATAAAATATCT
1 TAATAAAATA--A
* *
118147922 TATTAAAATAT
1 TAATAAAATAA
118147933 TAATAAAATAA
1 TAATAAAATAA
118147944 TA
1 TA
118147946 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 29 0.76
13 9 0.24
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:118151095 original size:18 final size:19
Alignment explanation
Indices: 118151060--118151102 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
118151050 TCCAACCAAA
*
118151060 ATTTCATTTTGAAAAGAAT
1 ATTTAATTTTGAAAAGAAT
*
118151079 TTTTAATTTTG-AAAGAAT
1 ATTTAATTTTGAAAAGAAT
118151097 ATTTAA
1 ATTTAA
118151103 CCTAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTTAATTTTGAAAAGAAT
Found at i:118154427 original size:13 final size:13
Alignment explanation
Indices: 118154409--118154448 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
118154399 GCTCGTCAGG
118154409 GACACGCTCGTGT
1 GACACGCTCGTGT
118154422 GACACGCTCGTGT
1 GACACGCTCGTGT
118154435 GACACGCTCGTGT
1 GACACGCTCGTGT
118154448 G
1 G
118154449 CAATTGCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.23
Consensus pattern (13 bp):
GACACGCTCGTGT
Found at i:118158791 original size:12 final size:12
Alignment explanation
Indices: 118158774--118158800 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
118158764 ACCGAATCGA
118158774 CGTTAAAAACGC
1 CGTTAAAAACGC
118158786 CGTTAAAAACGC
1 CGTTAAAAACGC
118158798 CGT
1 CGT
118158801 CTTCTTTTTT
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:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (12 bp):
CGTTAAAAACGC
Found at i:118161435 original size:18 final size:18
Alignment explanation
Indices: 118161412--118161482 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
118161402 AATTAGGGTT
*
118161412 ATTTCGGTTTCAATTTTA
1 ATTTCGATTTCAATTTTA
** *
118161430 ATTTCGATTTTGATTTTG
1 ATTTCGATTTCAATTTTA
* **
118161448 ATTTCGATTTCTATTTCG
1 ATTTCGATTTCAATTTTA
* *
118161466 ATTTTGATTACAATTTT
1 ATTTCGATTTCAATTTT
118161483 GAAACACTCA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (18 bp):
ATTTCGATTTCAATTTTA
Found at i:118161439 original size:6 final size:6
Alignment explanation
Indices: 118161430--118161474 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
118161420 TTCAATTTTA
* * * *
118161430 ATTTCG ATTTTG ATTTTG ATTTCG ATTTCT ATTTCG ATTTTG ATT
1 ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATTTCG ATT
118161475 ACAATTTTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.18, C:0.09, G:0.13, T:0.60
Consensus pattern (6 bp):
ATTTCG
Found at i:118161450 original size:12 final size:12
Alignment explanation
Indices: 118161430--118161583 Score: 78
Period size: 12 Copynumber: 12.3 Consensus size: 12
118161420 TTCAATTTTA
* *
118161430 ATTTCGATTTTG
1 ATTTTGATTTCG
118161442 ATTTTGATTTCG
1 ATTTTGATTTCG
118161454 ATTTCT-ATTTCG
1 ATTT-TGATTTCG
* *
118161466 ATTTTGATTACA
1 ATTTTGATTTCG
**
118161478 ATTTTGAAACACTCACTG
1 ATTTTG----A-TTTC-G
* *
118161496 ATTCTGATTTAG
1 ATTTTGATTTCG
*
118161508 ATTTTGATTTCA
1 ATTTTGATTTCG
118161520 ATTTTGATTTCG
1 ATTTTGATTTCG
* * *
118161532 ATCTCGATTTAG
1 ATTTTGATTTCG
* * *
118161544 AATTAGAATTT-T
1 ATTTTG-ATTTCG
*
118161556 ATTTTAATTTCG
1 ATTTTGATTTCG
118161568 ATTTTGATTTCG
1 ATTTTGATTTCG
118161580 ATTT
1 ATTT
118161584 AGGGTTATTT
Statistics
Matches: 106, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
11 5 0.05
12 85 0.80
13 6 0.06
14 1 0.01
16 1 0.01
17 3 0.03
18 5 0.05
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:118161523 original size:18 final size:18
Alignment explanation
Indices: 118161502--118161544 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
118161492 ACTGATTCTG
* *
118161502 ATTTAGATTTTGATTTCA
1 ATTTAGATTTCGATCTCA
* *
118161520 ATTTTGATTTCGATCTCG
1 ATTTAGATTTCGATCTCA
118161538 ATTTAGA
1 ATTTAGA
118161545 ATTAGAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (18 bp):
ATTTAGATTTCGATCTCA
Found at i:118161550 original size:42 final size:42
Alignment explanation
Indices: 118161504--118161585 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
118161494 TGATTCTGAT
*
118161504 TTAG-ATTTTGATTTCAATTTTGATTTCGATCTCGATTTAGAA
1 TTAGAATTTT-ATTTCAATTTCGATTTCGATCTCGATTTAGAA
* * *
118161546 TTAGAATTTTATTTTAATTTCGATTTTGATTTCGATTTAG
1 TTAGAATTTTATTTCAATTTCGATTTCGATCTCGATTTAG
118161586 GGTTATTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.86
43 5 0.14
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (42 bp):
TTAGAATTTTATTTCAATTTCGATTTCGATCTCGATTTAGAA
Found at i:118161805 original size:64 final size:64
Alignment explanation
Indices: 118161696--118161835 Score: 226
Period size: 64 Copynumber: 2.2 Consensus size: 64
118161686 CATGATGTTT
* *
118161696 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAGACAGATGTTTATTGTGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACAGATGTTTATTGGGTATATCTGCC
* * * *
118161760 ATTGCTTGTATCTGCCATTGTATGAATGCTATTATCAAACTGATGTTTATTGGGTATATCTGCC
1 ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACAGATGTTTATTGGGTATATCTGCC
118161824 ATTGTTTGTATC
1 ATTGTTTGTATC
118161836 CAAGCTCCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.43
Consensus pattern (64 bp):
ATTGTTTGTATCTGCCATTGTACGAATGCCATTATCAAACAGATGTTTATTGGGTATATCTGCC
Found at i:118163931 original size:40 final size:40
Alignment explanation
Indices: 118163831--118163932 Score: 168
Period size: 40 Copynumber: 2.5 Consensus size: 40
118163821 TTAGTGAATG
* *
118163831 TTTTTTAATATGCATGTACTGATTGTTGGTGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGACTA
*
118163871 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGACTA
*
118163911 TTTTTTAATATGCATACAGTGA
1 TTTTTTAATATGCATGCAGTGA
118163933 GTATTTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.48
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGACTA
Found at i:118163998 original size:38 final size:37
Alignment explanation
Indices: 118163954--118164082 Score: 195
Period size: 38 Copynumber: 3.4 Consensus size: 37
118163944 ATAATATGCA
* *
118163954 TGTTGGTGGGGTTGGTTTTTTAGGGGTGTATGTATCAT
1 TGTTGGTGGGGCT-GTTTTTTAGGGGTGTGTGTATCAT
* *
118163992 TTTTGGTGGGGCTATTTTTTTAGGGGTGTGTGTATCAT
1 TGTTGGTGGGGCT-GTTTTTTAGGGGTGTGTGTATCAT
*
118164030 TGTTGGTGGGGCTGTTTTTTAAGGGTGTGTGTATCAT
1 TGTTGGTGGGGCTGTTTTTTAGGGGTGTGTGTATCAT
118164067 TGTTGGTGGGGCTGTT
1 TGTTGGTGGGGCTGTT
118164083 CACAATGTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
37 38 0.46
38 45 0.54
ACGTcount: A:0.09, C:0.05, G:0.39, T:0.47
Consensus pattern (37 bp):
TGTTGGTGGGGCTGTTTTTTAGGGGTGTGTGTATCAT
Found at i:118164740 original size:21 final size:21
Alignment explanation
Indices: 118164710--118164756 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
118164700 AAGTTGATGT
* *
118164710 CCCAACTCAGCAACAGGCTAC
1 CCCAAATCAGCAAAAGGCTAC
*
118164731 CCCAAATCAGCAAAAGGGTAC
1 CCCAAATCAGCAAAAGGCTAC
118164752 CCCAA
1 CCCAA
118164757 CTCAACAGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.09
Consensus pattern (21 bp):
CCCAAATCAGCAAAAGGCTAC
Found at i:118165266 original size:18 final size:18
Alignment explanation
Indices: 118165243--118165277 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118165233 TTCTAACAAC
*
118165243 TGTGTGACTATTGAGAAA
1 TGTGTGACAATTGAGAAA
*
118165261 TGTGTGAGAATTGAGAA
1 TGTGTGACAATTGAGAA
118165278 TTGAGAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (18 bp):
TGTGTGACAATTGAGAAA
Found at i:118167983 original size:17 final size:17
Alignment explanation
Indices: 118167963--118167995 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
118167953 TCATTATAAG
*
118167963 AAAAATTAAATTAAACA
1 AAAAAATAAATTAAACA
118167980 AAAAAATAAATTAAAC
1 AAAAAATAAATTAAAC
118167996 TTATTAAATA
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:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAATAAATTAAACA
Found at i:118168599 original size:23 final size:22
Alignment explanation
Indices: 118168573--118168626 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
118168563 GAGGGGTCGA
*
118168573 AATAAAATTATAATTTTTATAAT
1 AATAAAATTATAATTTTTA-AAG
*
118168596 AATAAAA-TGTAATTTTTAAAG
1 AATAAAATTATAATTTTTAAAG
*
118168617 AATTAAATTA
1 AATAAAATTA
118168627 ATATTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.31
22 11 0.42
23 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
AATAAAATTATAATTTTTAAAG
Found at i:118168624 original size:21 final size:21
Alignment explanation
Indices: 118168573--118168635 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
118168563 GAGGGGTCGA
*
118168573 AATAAAATTATAATTTTTATAAT
1 AATAAAA-T-TAATTTTTATAAG
118168596 AATAAAATGTAATTTTTA-AAG
1 AATAAAAT-TAATTTTTATAAG
*
118168617 AATTAAATTAATATTTTAT
1 AATAAAATTAAT-TTTTAT
118168636 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 4 0.11
21 14 0.40
22 10 0.29
23 7 0.20
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (21 bp):
AATAAAATTAATTTTTATAAG
Found at i:118168641 original size:30 final size:30
Alignment explanation
Indices: 118168607--118168674 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
118168597 ATAAAATGTA
*
118168607 ATTTTTAAAGAATTAAATTA-ATATTTTATT
1 ATTTTTAAAGAATTAAAATATA-ATTTTATT
118168637 ATTTTTAAAGAATTAAAATATAATTTTATT
1 ATTTTTAAAGAATTAAAATATAATTTTATT
118168667 -TTTATTAA
1 ATTT-TTAA
118168675 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
29 3 0.09
30 31 0.89
31 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTTTTAAAGAATTAAAATATAATTTTATT
Found at i:118179053 original size:12 final size:12
Alignment explanation
Indices: 118179036--118179060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118179026 AATAATTTAA
118179036 TCTTTTCTTTTT
1 TCTTTTCTTTTT
118179048 TCTTTTCTTTTT
1 TCTTTTCTTTTT
118179060 T
1 T
118179061 TTACATTGAG
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TCTTTTCTTTTT
Found at i:118179722 original size:106 final size:104
Alignment explanation
Indices: 118179557--118179784 Score: 244
Period size: 106 Copynumber: 2.2 Consensus size: 104
118179547 CCAGAGACAA
* * * * ** *
118179557 AAAAAAAAATTTGGTGCTAGCTAGTAGATGGCCGGCACCAGGTACAATTTTTGGTTCCCAAGGCA
1 AAAAAAAAATTGGGTGCTAGCCAGTAGATGGCCGGCACCAAGTACAATTCTCAGCTCCCAAGG--
118179622 CTTTTTTTTTTA-AGACACTGATGGCCGGCACTAATATATTT
64 CTTTTTTTTTTAGA-ACACTGATGGCCGGCACTAATATATTT
* * *
118179663 AAAAAAAAATTGGGTGTTGGCCATGTA-ATGGCCGGCACCAAGTACAATTCTCAGCTCCCAATGC
1 AAAAAAAAATTGGGTGCTAGCCA-GTAGATGGCCGGCACCAAGTACAATTCTCAGCTCCCAAGGC
* * * * *
118179727 TTTTTTTTTTGGAACACTGATGGCCGCCACCAGTGTATTTT
65 TTTTTTTTTTAGAACACTGATGGCCGGCACTAATATA-TTT
* *
118179768 TAAAAAAAATTAGGTGC
1 AAAAAAAAATTGGGTGC
118179785 CGGCCACATT
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
104 31 0.31
105 18 0.18
106 49 0.49
107 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (104 bp):
AAAAAAAAATTGGGTGCTAGCCAGTAGATGGCCGGCACCAAGTACAATTCTCAGCTCCCAAGGCT
TTTTTTTTTAGAACACTGATGGCCGGCACTAATATATTT
Found at i:118184947 original size:18 final size:17
Alignment explanation
Indices: 118184908--118184953 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
118184898 AGCAGTGTCC
*
118184908 TTTCAACTTCTTTTTTTCA
1 TTTCAA-TT-TTTTTTTAA
118184927 TTTCAATTTTTGTTTTAA
1 TTTCAATTTTT-TTTTAA
118184945 TTTCAATTT
1 TTTCAATTT
118184954 ATAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTCAATTTTTTTTTAA
Found at i:118185015 original size:16 final size:16
Alignment explanation
Indices: 118184996--118185058 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
118184986 TTCATAATCA
118184996 TCATTT-CATTTTATAT
1 TCATTTACATTTTAT-T
118185012 TCATTTAACATTTTATT
1 TCATTT-ACATTTTATT
118185029 TCA-TTA-A-TTTATTT
1 TCATTTACATTTTA-TT
*
118185043 TCATTTA-AATTTATT
1 TCATTTACATTTTATT
118185058 T
1 T
118185059 TTTTCCTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.10
14 6 0.14
15 8 0.19
16 12 0.29
17 4 0.10
18 8 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (16 bp):
TCATTTACATTTTATT
Found at i:118185166 original size:22 final size:20
Alignment explanation
Indices: 118185126--118185168 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
118185116 ATTTTTTCAA
*
118185126 TTCAATTTTTTTCAGTTAAT
1 TTCAATTTTTTTCAATTAAT
118185146 TTCATATTTTTTTCATATTAAT
1 TTCA-ATTTTTTTCA-ATTAAT
118185168 T
1 T
118185169 AGAAGTAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (20 bp):
TTCAATTTTTTTCAATTAAT
Found at i:118185235 original size:21 final size:21
Alignment explanation
Indices: 118185193--118185235 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
118185183 TATCTGGGTC
*
118185193 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
118185214 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
118185235 A
1 A
118185236 AACATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:118185458 original size:22 final size:21
Alignment explanation
Indices: 118185429--118185469 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
118185419 TTTTGTTTTC
*
118185429 ATTTCATTTCATTTTATTTGT
1 ATTTCATTTCATTTCATTTGT
118185450 ATTTCCATTTCATTTCATTT
1 ATTT-CATTTCATTTCATTT
118185470 AAATTATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.20, C:0.15, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTCATTTCATTTCATTTGT
Found at i:118185459 original size:6 final size:5
Alignment explanation
Indices: 118185425--118185469 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
118185415 CTTTTTTTGT
* *
118185425 TTTCA TTTCA TTTCA TTTTA TTTGTA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTTCA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTTCA TTT
118185470 AAATTATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.18, C:0.16, G:0.02, T:0.64
Consensus pattern (5 bp):
TTTCA
Found at i:118185459 original size:27 final size:24
Alignment explanation
Indices: 118185416--118185469 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 24
118185406 AACATGTCCC
118185416 TTTTTTTGTTTTCATTTCATTTCA
1 TTTTTTTGTTTTCATTTCATTTCA
118185440 TTTTATTTGTATTTCCATTTCATTTCA
1 TTTT-TTTGT-TTT-CATTTCATTTCA
118185467 TTT
1 TTT
118185470 AAATTATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 4 0.15
25 5 0.19
26 3 0.11
27 15 0.56
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTTTTTGTTTTCATTTCATTTCA
Found at i:118185486 original size:21 final size:21
Alignment explanation
Indices: 118185462--118185525 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 21
118185452 TTCCATTTCA
118185462 TTTCATTTAAATTATCTTTTT
1 TTTCATTTAAATTATCTTTTT
118185483 TTTCATTTAAATTTAAT-TTTTT
1 TTTCATTTAAA-TT-ATCTTTTT
118185505 TAATT-ATTTTAAATTATCTTT
1 T--TTCA-TTTAAATTATCTTT
118185526 CTTCCCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
21 11 0.30
22 10 0.27
23 8 0.22
24 8 0.22
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTCATTTAAATTATCTTTTT
Found at i:118185538 original size:22 final size:21
Alignment explanation
Indices: 118185510--118185839 Score: 112
Period size: 22 Copynumber: 14.2 Consensus size: 21
118185500 TTTTTTAATT
*
118185510 ATTTTAAATTATCTTTCTTCCC
1 ATTTTAAATTAT-TTTTTTCCC
* *
118185532 ATTTTAATTTAATTTTTTTCTC
1 ATTTTAAATT-ATTTTTTTCCC
118185554 ATTTCAGTTAAATTATTTTTTT-CC
1 A-TT---TTAAATTATTTTTTTCCC
*
118185578 A-TTTAAATTTAATTTTTTTCTC
1 ATTTTAAA-TT-ATTTTTTTCCC
*
118185600 ATTTCATTTAAATTATCTTTCTTCCC
1 A--T--TTTAAATTAT-TTTTTTCCC
* *
118185626 ATTTTAATTTAATTTTTTTCTC
1 ATTTTAAATT-ATTTTTTTCCC
118185648 ATTTCAGTTAAATTATTTTTTT-CC
1 A-TT---TTAAATTATTTTTTTCCC
*
118185672 A-TTTAAATTTAATTTTTTTCTC
1 ATTTTAAA-TT-ATTTTTTTCCC
*
118185694 ATTTCATTTAAATTATCTTTCTTCCC
1 A--T--TTTAAATTAT-TTTTTTCCC
* *
118185720 ATTTTAATTTAATTTTTTTCTC
1 ATTTTAAATT-ATTTTTTTCCC
*
118185742 ATTTCATTTAAATTATCTTTTTTTCC
1 A--T--TTTAAATTAT-TTTTTTCCC
* * ** *
118185768 ATTTCAATTTAATTTAATTCTC
1 ATTTTAAATT-ATTTTTTTCCC
118185790 ATTTCATTTAAATTATCTTTTTT-CC
1 A--T--TTTAAATTAT-TTTTTTCCC
* * *
118185815 ATTTTAATTTATTTTATTCTC
1 ATTTTAAATTATTTTTTTCCC
118185836 ATTT
1 ATTT
118185840 CATTTAAATT
Statistics
Matches: 231, Mismatches: 36, Indels: 83
0.66 0.10 0.24
Matches are distributed among these distances:
19 10 0.04
20 9 0.04
21 30 0.13
22 65 0.28
23 13 0.06
24 9 0.04
25 26 0.11
26 57 0.25
27 12 0.05
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.61
Consensus pattern (21 bp):
ATTTTAAATTATTTTTTTCCC
Found at i:118185567 original size:27 final size:27
Alignment explanation
Indices: 118185531--118185978 Score: 320
Period size: 27 Copynumber: 18.4 Consensus size: 27
118185521 TCTTTCTTCC
*
118185531 CATTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185558 CAGTTAAA-TT-A-TTTTTT-TC----
1 CATTTAAATTTAATTTTTTTCTCATTT
118185577 CATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185604 CATTTAAA-TT-ATCTTTCTTC-C----
1 CATTTAAATTTAAT-TTTTTTCTCATTT
*
118185625 CATTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185652 CAGTTAAA-TT-A-TTTTTT-TC----
1 CATTTAAATTTAATTTTTTTCTCATTT
118185671 CATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185698 CATTTAAA-TT-ATCTTTCTTC-C----
1 CATTTAAATTTAAT-TTTTTTCTCATTT
*
118185719 CATTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185746 CATTTAAA-TTATCTTTTTTTC-CATTT
1 CATTTAAATTTA-ATTTTTTTCTCATTT
118185772 CAATTT-AATTTAA-----TTCTCATTT
1 C-ATTTAAATTTAATTTTTTTCTCATTT
118185794 CATTTAAA-TT-ATCTTTTTTC-CA--T
1 CATTTAAATTTAAT-TTTTTTCTCATTT
*
118185817 --TTT-AATTT-ATTTTATTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
118185840 CATTTAAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185867 CATTTAAATTTAATTTTTTTTCTCTTTT
1 CATTTAAATTTAA-TTTTTTTCTCATTT
* *
118185895 CATTTAAA-TT-A--TCTTTCT--TTC
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185916 CATTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTCTCATTT
* *
118185943 CATTTAAATATAA-TTTTTTCTCTTTT
1 CATTTAAATTTAATTTTTTTCTCATTT
*
118185969 CAGTTAAATT
1 CATTTAAATT
118185979 ATCTTTCTTT
Statistics
Matches: 335, Mismatches: 28, Indels: 117
0.70 0.06 0.24
Matches are distributed among these distances:
19 14 0.04
20 13 0.04
21 43 0.13
22 38 0.11
23 23 0.07
24 12 0.04
25 19 0.06
26 60 0.18
27 92 0.27
28 21 0.06
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (27 bp):
CATTTAAATTTAATTTTTTTCTCATTT
Found at i:118185596 original size:48 final size:46
Alignment explanation
Indices: 118185459--118185962 Score: 613
Period size: 48 Copynumber: 10.5 Consensus size: 46
118185449 TATTTCCATT
* *
118185459 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAA-TTTTTT-
1 TCATTTCATTTAAATTA--TTTTTTTCCATTTTAATTTAATTTTTTTC
* *
118185505 T-AATT-ATTTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCA-TTTAAATTAT-TTT-TTTCCATTTTAATTTAATTTTTTTC
* *
118185552 TCATTTCAGTTAAATTATTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATTTTTTTCCATTTTAATTTAATTTTTTTC
*
118185598 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTAT-TTT-TTTCCATTTTAATTTAATTTTTTTC
* *
118185646 TCATTTCAGTTAAATTATTTTTTTCCATTTAAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATTTTTTTCCATTTTAATTTAATTTTTTTC
*
118185692 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTAT-TTT-TTTCCATTTTAATTTAATTTTTTTC
* **
118185740 TCATTTCATTTAAATTATCTTTTTTTCCATTTCAATTTAATTTAATTC
1 TCATTTCATTTAAATTA--TTTTTTTCCATTTTAATTTAATTTTTTTC
*
118185788 TCATTTCATTTAAATTATCTTTTTTCCATTTTAATTT-ATTTTATTC
1 TCATTTCATTTAAATTAT-TTTTTTCCATTTTAATTTAATTTTTTTC
118185834 TCATTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTTC
1 TCATTTCATTTAAA-TT-ATTTTTTTC-CA--T--TTT-AATTTAA-TTTTTTTC
*
118185889 TCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTAT-TTT-TTTCCATTTTAATTTAATTTTTTTC
*
118185937 TCATTTCATTTAAATATAATTTTTTC
1 TCATTTCATTTAAAT-TATTTTTTTC
118185963 TCTTTTCAGT
Statistics
Matches: 404, Mismatches: 27, Indels: 53
0.83 0.06 0.11
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 26 0.06
46 110 0.27
47 43 0.11
48 159 0.39
49 13 0.03
50 5 0.01
52 4 0.01
53 7 0.02
54 8 0.02
55 24 0.06
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (46 bp):
TCATTTCATTTAAATTATTTTTTTCCATTTTAATTTAATTTTTTTC
Found at i:118185632 original size:94 final size:95
Alignment explanation
Indices: 118185459--118185961 Score: 734
Period size: 94 Copynumber: 5.3 Consensus size: 95
118185449 TATTTCCATT
* *
118185459 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAA-TTTTTT-T-AATT-ATTTTAAATT
1 TCATTTCATTTAAATTAT-TTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCA-TTTAAATT
118185520 ATCTTTCTTCCCATTTTAATTTAATTTTTTTC
64 ATCTTTCTTCCCATTTTAATTTAATTTTTTTC
*
118185552 TCATTTCAGTTAAATTA-TTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAT
1 TCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAT
118185616 CTTTCTTCCCATTTTAATTTAATTTTTTTC
66 CTTTCTTCCCATTTTAATTTAATTTTTTTC
*
118185646 TCATTTCAGTTAAATTA-TTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAT
1 TCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAT
118185710 CTTTCTTCCCATTTTAATTTAATTTTTTTC
66 CTTTCTTCCCATTTTAATTTAATTTTTTTC
* **
118185740 TCATTTCATTTAAATTATCTTTTTTTCCATTTCAATTTAATTTAATTCTCATTTCATTTAAATTA
1 TCATTTCATTTAAATTAT-TTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTA
* *
118185805 TCTTT-TTTCCATTTTAATTT-ATTTTATTC
65 TCTTTCTTCCCATTTTAATTTAATTTTTTTC
*
118185834 TCATTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTTCTCTTTTCATT
1 TCATTTCATTTAAA-TT-ATTTTTTT-TC----CATTTAAATTTAA-TTTTTTTCTCATTTCATT
*
118185899 TAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTC
58 TAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
*
118185937 TCATTTCATTTAAATATAATTTTTT
1 TCATTTCATTTAAAT-TATTTTTTT
118185962 CTCTTTTCAG
Statistics
Matches: 378, Mismatches: 15, Indels: 25
0.90 0.04 0.06
Matches are distributed among these distances:
91 20 0.05
92 6 0.02
93 17 0.04
94 175 0.46
95 23 0.06
96 52 0.14
100 12 0.03
101 27 0.07
102 23 0.06
103 23 0.06
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (95 bp):
TCATTTCATTTAAATTATTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTAT
CTTTCTTCCCATTTTAATTTAATTTTTTTC
Found at i:118185825 original size:74 final size:74
Alignment explanation
Indices: 118185462--118186001 Score: 416
Period size: 74 Copynumber: 7.5 Consensus size: 74
118185452 TTCCATTTCA
* * * * *
118185462 TTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAA-TTTTTT-T-AATT-ATTTTAAATTATC
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCA-TTTAAATTATA
* *
118185523 TTTCTTCCCAT
65 TTTTTTCTC-T
* * * * * * *
118185534 TTTAATTT-AATT-T-TTT-TCT-CATTTCAGTTAAATTATTTT-T--TTCCATTTAAATT-TAA
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT-A
*
118185590 TTTTTTTCTCA
65 -TTTTTTCTCT
* *
118185601 TTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTCTCATTTCAGTTAAATTAT-T
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATAT
118185665 TTTTTC-CAT
66 TTTTTCTC-T
** * * * ** *
118185674 TTAAATTT-AATT-T-TTT-TCT-CA-TTTCATTTAAATTATCTTTCT--TCCCATTTTAATT-T
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTT-AATT-TTTTTCTCATTTCATTTAAATTAT
*
118185730 AATTTTTTTCTCA
64 -A-TTTTTTCTCT
* * ** *
118185743 TTTCATTTAAATTATCTTTTTTTCCATTTCAATTTAATTTAATTCTCATTTCATTTAAATTATCT
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATAT
118185808 TTTTTC-CAT
66 TTTTTCTC-T
* ** * *
118185817 TTTAATTTATTTTAT-TCTCATTT-CATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTTAA
1 TTTCATTTAAATTATCTTTC-TTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAA-TT-A
*
118185880 TTTTTTTTCTCT
63 TATTTTTTCTCT
118185892 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAA-TATAA
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTAT-A
118185956 TTTTTTCTCT
65 TTTTTTCTCT
*
118185966 TTTCAGTTAAATTATCTTTCTTTCCATTTTAATTTA
1 TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTA
118186002 CGTTTTTACA
Statistics
Matches: 370, Mismatches: 61, Indels: 72
0.74 0.12 0.14
Matches are distributed among these distances:
66 2 0.01
67 42 0.11
68 26 0.07
69 24 0.06
70 12 0.03
71 7 0.02
72 31 0.08
73 58 0.16
74 76 0.21
75 52 0.14
76 40 0.11
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.62
Consensus pattern (74 bp):
TTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATAT
TTTTTCTCT
Found at i:118186674 original size:133 final size:133
Alignment explanation
Indices: 118186431--118186701 Score: 497
Period size: 133 Copynumber: 2.0 Consensus size: 133
118186421 ATTATAGAAA
*
118186431 ATTCATTCCCCCACATACGCAATAAGCATTGTAACTTGTAGATCTTGTCTATGAATTGTTCAACA
1 ATTCATTCCCCCACATACGCAATAAGCATTGTAACTTGTAGATATTGTCTATGAATTGTTCAACA
* *
118186496 TTTAAGTTTGCTTTCGCTCACGCTGCATGAACATGCGCACATGGACCAAAGAGTCTTAAATATCT
66 TTTAAGTTTGCTTTCGCACACGCTGCATGAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
118186561 CGC
131 CGC
* *
118186564 ATTCGTTCCCCCACATACGCAATATGCATTGTAACTTGTAGATATTGTCTATGAATTGTTCAACA
1 ATTCATTCCCCCACATACGCAATAAGCATTGTAACTTGTAGATATTGTCTATGAATTGTTCAACA
118186629 TTTAAGTTTGCTTTCGCACACGCTGCATGAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
66 TTTAAGTTTGCTTTCGCACACGCTGCATGAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
118186694 CGC
131 CGC
118186697 ATTCA
1 ATTCA
118186702 GATCACCTAT
Statistics
Matches: 132, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (133 bp):
ATTCATTCCCCCACATACGCAATAAGCATTGTAACTTGTAGATATTGTCTATGAATTGTTCAACA
TTTAAGTTTGCTTTCGCACACGCTGCATGAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
CGC
Found at i:118190426 original size:16 final size:17
Alignment explanation
Indices: 118190407--118190439 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
118190397 TTTGTGTATT
*
118190407 AATACTTTTTTA-AAAA
1 AATAATTTTTTACAAAA
118190423 AATAATTTTTTACAAAA
1 AATAATTTTTTACAAAA
118190440 TCCATTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAATTTTTTACAAAA
Found at i:118190901 original size:5 final size:5
Alignment explanation
Indices: 118190891--118190922 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
118190881 GTCCCTGTGA
118190891 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
118190923 GAACATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:118190916 original size:9 final size:9
Alignment explanation
Indices: 118190892--118190922 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
118190882 TCCCTGTGAA
118190892 AAATAAAAT
1 AAATAAAAT
118190901 AAAATAAAAT
1 -AAATAAAAT
118190911 AAATAAAAT
1 AAATAAAAT
118190920 AAA
1 AAA
118190923 GAACATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:118195355 original size:5 final size:5
Alignment explanation
Indices: 118195345--118195376 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
118195335 CAATTTGTGA
118195345 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
118195377 GAGCACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:118195370 original size:9 final size:9
Alignment explanation
Indices: 118195346--118195376 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
118195336 AATTTGTGAA
118195346 AAATAAAAT
1 AAATAAAAT
118195355 AAAATAAAAT
1 -AAATAAAAT
118195365 AAATAAAAT
1 AAATAAAAT
118195374 AAA
1 AAA
118195377 GAGCACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:118198959 original size:32 final size:32
Alignment explanation
Indices: 118198923--118198987 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
118198913 TGTATGCATT
118198923 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
118198955 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
118198987 T
1 T
118198988 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:118200497 original size:26 final size:26
Alignment explanation
Indices: 118200468--118200520 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
118200458 TTTACAGTTT
118200468 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
118200494 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
118200520 T
1 T
118200521 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:118202642 original size:18 final size:18
Alignment explanation
Indices: 118202621--118202668 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 18
118202611 ATAAAAATAT
118202621 TTATAAATATAAAATAAA
1 TTATAAATATAAAATAAA
118202639 TTAT--AT-T-AAATAAA
1 TTATAAATATAAAATAAA
118202653 TT-TCAAATATAAAATA
1 TTAT-AAATATAAAATA
118202669 TTAATGTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
13 1 0.04
14 9 0.36
15 1 0.04
16 4 0.16
17 1 0.04
18 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TTATAAATATAAAATAAA
Found at i:118203530 original size:3 final size:3
Alignment explanation
Indices: 118203522--118203547 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
118203512 TTGAATTTCC
118203522 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
118203548 TTGGGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:118205351 original size:3 final size:3
Alignment explanation
Indices: 118205343--118205369 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
118205333 AAGAAAAAGG
118205343 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
118205370 AAGCATAGAA
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:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:118211585 original size:19 final size:20
Alignment explanation
Indices: 118211560--118211606 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
118211550 AATTATAAAA
118211560 AATAAAAATCAATAAATTTT
1 AATAAAAATCAATAAATTTT
* *
118211580 -AT-AAAATTATTAAATTTT
1 AATAAAAATCAATAAATTTT
118211598 AATAAAAAT
1 AATAAAAAT
118211607 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAAAAATCAATAAATTTT
Found at i:118211611 original size:18 final size:18
Alignment explanation
Indices: 118211560--118211611 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
118211550 AATTATAAAA
118211560 AATAAAAATCAATAAATTTT
1 AATAAAAAT--ATAAATTTT
*
118211580 -ATAAAATTATTAAATTTT
1 AATAAAAATA-TAAATTTT
118211598 AATAAAAATATAAA
1 AATAAAAATATAAA
118211612 AAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 1 0.04
18 12 0.43
19 15 0.54
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAAAATATAAATTTT
Found at i:118211634 original size:22 final size:22
Alignment explanation
Indices: 118211609--118211653 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
118211599 ATAAAAATAT
118211609 AAAAAAATAAAAATTTATAAAA
1 AAAAAAATAAAAATTTATAAAA
** *
118211631 AAAATTATAAAATTTTATAAAA
1 AAAAAAATAAAAATTTATAAAA
118211653 A
1 A
118211654 TCGTAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAAATAAAAATTTATAAAA
Found at i:118211673 original size:10 final size:10
Alignment explanation
Indices: 118211615--118211673 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
118211605 ATATAAAAAA
118211615 ATAAAAATTT
1 ATAAAAATTT
*
118211625 ATAAAAAAAATT
1 AT--AAAAATTT
*
118211637 ATAAAATTTT
1 ATAAAAATTT
*
118211647 ATAAAAATCGT
1 ATAAAAAT-TT
*
118211658 AAAAAAATTT
1 ATAAAAATTT
118211668 ATAAAA
1 ATAAAA
118211674 TGCATCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 21 0.55
11 8 0.21
12 9 0.24
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:118211684 original size:31 final size:31
Alignment explanation
Indices: 118211626--118211684 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
118211616 TAAAAATTTA
**
118211626 TAAAAAAAATTATAAAATTTTATAAAAATCG
1 TAAAAAAAATTATAAAATTGCATAAAAATCG
*
118211657 TAAAAAAATTTATAAAA-TGCATCAAAAA
1 TAAAAAAAATTATAAAATTGCAT-AAAAA
118211685 GGCCCTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (31 bp):
TAAAAAAAATTATAAAATTGCATAAAAATCG
Found at i:118211904 original size:39 final size:38
Alignment explanation
Indices: 118211860--118212004 Score: 113
Period size: 39 Copynumber: 3.8 Consensus size: 38
118211850 ACGTACGATA
* *
118211860 ATTTTTATAATTTTTTTTACAAATTTTAT-ATTTCTTTA-T
1 ATTTTTATAATTTTCTTT-C-AATTTTATAATTT-TTTACG
*
118211899 ATTTTTATAATTTTCTTTCTATTTTATAATTTTTTACG
1 ATTTTTATAATTTTCTTTCAATTTTATAATTTTTTACG
** *
118211937 ATTTTTATAA-AAT-TTACAATTTTTATAATTTTTTTTAC-
1 ATTTTTATAATTTTCTTTCAA-TTTTATAA--TTTTTTACG
* *
118211975 AGTTTTATAATTTTTTTTCTAATTTT-TAAT
1 ATTTTTATAATTTTCTTTC-AATTTTATAAT
118212005 ATATTTATAG
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
36 4 0.05
37 21 0.24
38 24 0.28
39 29 0.33
40 7 0.08
41 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (38 bp):
ATTTTTATAATTTTCTTTCAATTTTATAATTTTTTACG
Found at i:118211911 original size:19 final size:21
Alignment explanation
Indices: 118211860--118212002 Score: 103
Period size: 19 Copynumber: 7.3 Consensus size: 21
118211850 ACGTACGATA
* *
118211860 ATTTTTATAATTTTTTTTACA
1 ATTTTTATAATTTTCTTTACT
*
118211881 AATTTTAT-A-TTTCTTTA-T
1 ATTTTTATAATTTTCTTTACT
118211899 ATTTTTATAATTTTCTTT-CT
1 ATTTTTATAATTTTCTTTACT
*
118211919 A-TTTTATAA-TTT-TTTACG
1 ATTTTTATAATTTTCTTTACT
** *
118211937 ATTTTTATAA---AATTTACA
1 ATTTTTATAATTTTCTTTACT
*
118211955 ATTTTTATAATTTTTTTTAC-
1 ATTTTTATAATTTTCTTTACT
* *
118211975 AGTTTTATAATTTT-TTTTCT
1 ATTTTTATAATTTTCTTTACT
118211995 AATTTTTA
1 -ATTTTTA
118212003 ATATATTTAT
Statistics
Matches: 99, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.03
18 27 0.27
19 28 0.28
20 23 0.23
21 18 0.18
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTACT
Found at i:118211915 original size:20 final size:20
Alignment explanation
Indices: 118211860--118212002 Score: 93
Period size: 20 Copynumber: 7.3 Consensus size: 20
118211850 ACGTACGATA
*
118211860 ATTTTTATAATTTTTTTTACA
1 ATTTTTATAATTTTTTTTA-T
* *
118211881 AATTTTAT-A-TTTCTTTAT
1 ATTTTTATAATTTTTTTTAT
* *
118211899 ATTTTTATAATTTTCTTTCT
1 ATTTTTATAATTTTTTTTAT
*
118211919 A-TTTTATAA--TTTTTTACG
1 ATTTTTATAATTTTTTTTA-T
** **
118211937 ATTTTTATAA-AATTTACA-
1 ATTTTTATAATTTTTTTTAT
*
118211955 ATTTTTATAATTTTTTTTAC
1 ATTTTTATAATTTTTTTTAT
* *
118211975 AGTTTTATAATTTTTTTTCT
1 ATTTTTATAATTTTTTTTAT
118211995 AATTTTTA
1 -ATTTTTA
118212003 ATATATTTAT
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
17 5 0.05
18 18 0.19
19 28 0.29
20 31 0.33
21 13 0.14
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (20 bp):
ATTTTTATAATTTTTTTTAT
Found at i:118211932 original size:29 final size:27
Alignment explanation
Indices: 118211900--118211990 Score: 67
Period size: 29 Copynumber: 3.2 Consensus size: 27
118211890 TTTCTTTATA
118211900 TTTTTATAATTTTCTTTCTATTTTATAAT
1 TTTTTATAATTTT-TTTC-ATTTTATAAT
** ** * *
118211929 TTTTTACGATTTTTATAAAATTTACAA-
1 TTTTTATAATTTTT-TTCATTTTATAAT
118211956 TTTTTATAATTTTTTTTACAGTTTTATAAT
1 TTTTTATAA-TTTTTTT-CA-TTTTATAAT
118211986 TTTTT
1 TTTTT
118211991 TTCTAATTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
27 8 0.18
28 14 0.31
29 18 0.40
30 5 0.11
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTATAATTTTTTTCATTTTATAAT
Found at i:118211943 original size:56 final size:57
Alignment explanation
Indices: 118211862--118211990 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 57
118211852 GTACGATAAT
*** *
118211862 TTTTATAATTTTTTTTACAAATTTTATATTTCTTTA-TATTTTTATAATTTTCTTT-CTA-
1 TTTTATAA--TTTTTTACAAATTTTATA-AAATTTACAATTTTTATAATTTTCTTTAC-AG
* * *
118211920 TTTTATAATTTTTTACGATTTTTATAAAATTTACAATTTTTATAATTTTTTTTACAG
1 TTTTATAATTTTTTACAAATTTTATAAAATTTACAATTTTTATAATTTTCTTTACAG
118211977 TTTTATAATTTTTT
1 TTTTATAATTTTTT
118211991 TTCTAATTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 4 0.07
56 34 0.56
57 15 0.25
58 8 0.13
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (57 bp):
TTTTATAATTTTTTACAAATTTTATAAAATTTACAATTTTTATAATTTTCTTTACAG
Found at i:118212059 original size:19 final size:19
Alignment explanation
Indices: 118211920--118212061 Score: 62
Period size: 18 Copynumber: 7.3 Consensus size: 19
118211910 TTTCTTTCTA
118211920 TTTTAT-AATTTT-TTACGAT
1 TTTTATAAATTTTATTA--AT
* *
118211939 TTTTATAAAATTTA-CAAT
1 TTTTATAAATTTTATTAAT
* * *
118211957 TTTTATAATTTTTTTTACAG
1 TTTTATAAATTTTATTA-AT
* *
118211977 TTTTATAATTTTTTTTCTAAT
1 TTTTATAA-ATTTTAT-TAAT
* *
118211998 TTTTA-ATATATTTA-TAGT
1 TTTTATAAAT-TTTATTAAT
* *
118212016 TTTCTCATTAAAATTTAAT-AT
1 TTT-T-A-TAAATTTTATTAAT
118212037 TTTTATAAATTTTATTAAT
1 TTTTATAAATTTTATTAAT
118212056 TTTTAT
1 TTTTAT
118212062 TTTCTATCAT
Statistics
Matches: 93, Mismatches: 17, Indels: 26
0.68 0.12 0.19
Matches are distributed among these distances:
18 28 0.30
19 18 0.19
20 21 0.23
21 21 0.23
22 5 0.05
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAAATTTTATTAAT
Found at i:118213144 original size:23 final size:24
Alignment explanation
Indices: 118213094--118213144 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
118213084 TGTCATCACC
118213094 TAAAA-TATTAAAATAATTTAAAA
1 TAAAATTATTAAAATAATTTAAAA
*
118213117 -GAAATTATT-AAA-AATTATAAAA
1 TAAAATTATTAAAATAATT-TAAAA
118213139 TAAAAT
1 TAAAAT
118213145 ATAAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
TAAAATTATTAAAATAATTTAAAA
Found at i:118213762 original size:13 final size:14
Alignment explanation
Indices: 118213741--118213769 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
118213731 TGAAAAATGA
118213741 ATTAGAAAATATTT
1 ATTAGAAAATATTT
118213755 ATTA-AAAATATTT
1 ATTAGAAAATATTT
118213768 AT
1 AT
118213770 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:118214196 original size:31 final size:31
Alignment explanation
Indices: 118214142--118214204 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
118214132 TTAGAATAAA
118214142 AGATATTTATTAATTAAATAATTAAATAATG
1 AGATATTTATTAATTAAATAATTAAATAATG
* *
118214173 AGATTTTTTTTAA-TAAATAAATTAAATAATG
1 AGATATTTATTAATTAAAT-AATTAAATAATG
118214204 A
1 A
118214205 CAATTGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (31 bp):
AGATATTTATTAATTAAATAATTAAATAATG
Found at i:118214332 original size:31 final size:32
Alignment explanation
Indices: 118214283--118214346 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
118214273 ATATTAAATA
*
118214283 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
118214314 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
118214346 A
1 A
118214347 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:118214420 original size:142 final size:140
Alignment explanation
Indices: 118214141--118214432 Score: 315
Period size: 142 Copynumber: 2.1 Consensus size: 140
118214131 TTTAGAATAA
*
118214141 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTTTAATAAATAAATTAAATAATGAC
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTAATAAATAAATTAAATAATGAC
* * * * ** * * *
118214206 AATTGTAATGAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTATT
66 AAATGTAATGAA-TAATTGGTACAAATGTGAAAATAAAAATGCATACAAGTGTAATATAAATATT
118214271 TAATATTAAAT
130 TAATATTAAAT
* * * *
118214282 AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGA
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTT-TGTAATAAATAAATTAAATAATGA
* *
118214347 CAAATGT-ATGGTAA-AATTTGT-GAAATGTGTAATAATAAAAATGCATACAAGTGTTAA-ATAA
65 CAAATGTAAT-G-AATAATTGGTACAAATGTG-AA-AATAAAAATGCATACAAGTG-TAATATAA
**
118214408 ATATTTGTTATTAAAT
125 ATATTTAATATTAAAT
*
118214424 -AGATTTTTA
1 AAGATATTTA
118214433 ATATAGATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
140 7 0.06
141 55 0.44
142 59 0.47
143 5 0.04
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (140 bp):
AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTAATAAATAAATTAAATAATGAC
AAATGTAATGAATAATTGGTACAAATGTGAAAATAAAAATGCATACAAGTGTAATATAAATATTT
AATATTAAAT
Found at i:118215294 original size:15 final size:15
Alignment explanation
Indices: 118215271--118215318 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
118215261 TATCAAATTT
118215271 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
118215286 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
118215301 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
118215315 ATAT
1 ATAT
118215319 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:118217451 original size:16 final size:18
Alignment explanation
Indices: 118217424--118217462 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
118217414 ATAAATATTA
*
118217424 ATTTTTATTATT-CTTAT
1 ATTTTTATTATTACTTAG
118217441 ATTTTTA-TATTACTTAG
1 ATTTTTATTATTACTTAG
118217458 ATTTT
1 ATTTT
118217463 AATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (18 bp):
ATTTTTATTATTACTTAG
Found at i:118237977 original size:2 final size:2
Alignment explanation
Indices: 118237966--118237998 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
118237956 AATAGTGGTA
118237966 AT AT -T 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
118237999 GTTGGGAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:118244227 original size:27 final size:28
Alignment explanation
Indices: 118244180--118244235 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
118244170 AAAAATAAGT
118244180 TGTTTGAGTTGAAAACAAAAAAATTGAG
1 TGTTTGAGTTGAAAACAAAAAAATTGAG
*
118244208 TGTTTGAGTTGAAAA-TAAAAAATTGAG
1 TGTTTGAGTTGAAAACAAAAAAATTGAG
118244235 T
1 T
118244236 CTAGTCGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (28 bp):
TGTTTGAGTTGAAAACAAAAAAATTGAG
Found at i:118244716 original size:21 final size:21
Alignment explanation
Indices: 118244691--118244730 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
118244681 ACCCTCAATC
118244691 TTAAATTATTTTAACAAAAAA
1 TTAAATTATTTTAACAAAAAA
118244712 TTAAATTATTTTAACAAAA
1 TTAAATTATTTTAACAAAA
118244731 CCCTAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATTATTTTAACAAAAAA
Found at i:118245076 original size:15 final size:12
Alignment explanation
Indices: 118245046--118245078 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
118245036 TCGAAGAAGG
118245046 AAGAAGAAAATC
1 AAGAAGAAAATC
118245058 AAGAAGAAAATC
1 AAGAAGAAAATC
*
118245070 AAAAAGAAA
1 AAGAAGAAA
118245079 TCCTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (12 bp):
AAGAAGAAAATC
Found at i:118258068 original size:13 final size:13
Alignment explanation
Indices: 118258050--118258074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118258040 GAGGGCTACC
118258050 AAAATTCTTTTTG
1 AAAATTCTTTTTG
118258063 AAAATTCTTTTT
1 AAAATTCTTTTT
118258075 TTTTTTTTTT
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:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
AAAATTCTTTTTG
Found at i:118261874 original size:47 final size:47
Alignment explanation
Indices: 118261765--118261875 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 47
118261755 CCGGGATAAG
* *
118261765 CACATAGTGAT-TCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTG-TCTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
118261812 CACAAAGT-ACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
118261859 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
118261876 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
47 50 0.94
48 3 0.06
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:118262647 original size:4 final size:4
Alignment explanation
Indices: 118262638--118262730 Score: 96
Period size: 4 Copynumber: 22.8 Consensus size: 4
118262628 CCCTTTTCTA
**
118262638 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* * * ** *
118262686 GTTTGC TCTC TGTA ACTC TTTC TATC TTTC TTTC TTTC TTTC TTT
1 -TTT-C TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
118262731 TTTTTTTAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
4 69 0.95
5 3 0.04
6 1 0.01
ACGTcount: A:0.04, C:0.26, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTC
Found at i:118269720 original size:99 final size:100
Alignment explanation
Indices: 118269611--118269803 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 100
118269601 TACACTCGTA
* * * *
118269611 GTGCCATAACCCAGTTATGGTCT-TGTC-TTCAAGATGTCATAGCTCAATTATGGTCTTACA-TA
1 GTGCCATAACCCAATTATGGTCTCT-TCATT-AAAATGTCATAGCCCAACTATGGTCTTACATTA
* *
118269673 TATACTGCCATGGTGCAACCATGGTCTTATGTTCACG
64 AATACTGCCATGGTCCAACCATGGTCTTATGTTCACG
*
118269710 GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAGCTATGGTCTTACATTTAA
1 GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAACTATGGTCTTACA-TTAA
* *
118269775 ATATTTCCATGGTCCAACCATGGTCTTAT
65 ATACTGCCATGGTCCAACCATGGTCTTAT
118269804 CCATCAATTC
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
99 50 0.62
100 3 0.04
101 28 0.35
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (100 bp):
GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAACTATGGTCTTACATTAAA
TACTGCCATGGTCCAACCATGGTCTTATGTTCACG
Found at i:118275002 original size:2 final size:2
Alignment explanation
Indices: 118274995--118275044 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
118274985 GACATGCATG
118274995 AT AT AT AT 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 AT AT AT AT
118275037 AT AT AT AT
1 AT AT AT AT
118275045 GAATAAAGCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118280490 original size:2 final size:2
Alignment explanation
Indices: 118280483--118280509 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118280473 CAAAACAAGC
118280483 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
118280510 TCAAGCACAT
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:118287677 original size:53 final size:53
Alignment explanation
Indices: 118287536--118287695 Score: 179
Period size: 52 Copynumber: 3.1 Consensus size: 53
118287526 TGACGGAATA
* *
118287536 GATGTGATAA-GTGCGC-CCGTATAAGACCATAGT-TGGGCTATGACATCGGTGT
1 GATGTGATAATGTGC-CTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAT
* ** *
118287588 -ATTGTGAT-ATGT-ACTCCCGTATAAGACCATGGCTGGGCTATGGCATCAGTAT
1 GA-TGTGATAATGTGCCT-CCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
*
118287640 GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
118287693 GAT
1 GAT
118287696 ATGTGATCTG
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 44 0.49
53 40 0.45
54 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (53 bp):
GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
Found at i:118287713 original size:46 final size:46
Alignment explanation
Indices: 118287656--118287795 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 46
118287646 ATAATGTGCC
118287656 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
* * * * *
118287702 TCTGTATAAGACCATATCTGGAATATGGTATCGGTATGATACGTAA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
* * * * *
118287748 TCCGTGTAAGACCATAGCAGGGCTATGGCTTCGGTATGTGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTA--TGATATGTGA
118287796 CTATATGCAA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 69 0.90
48 8 0.10
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
Found at i:118295208 original size:52 final size:53
Alignment explanation
Indices: 118295148--118295287 Score: 153
Period size: 53 Copynumber: 2.7 Consensus size: 53
118295138 GTGCGCTCGC
* *
118295148 ATAAGACCATAGTTGGGCTATGACATCGGTGT-ATTGTGAT-ATGTA-CTCCCGT
1 ATAAGACCATAGTTGGGCTATGGCATCGGTATGA-TGTGATAATGTACCT-CCGT
* * * *
118295200 ATAAGACCATGGCTGGGCTATGGCATCAGTATGATGTGATAATGTGCCTCCGT
1 ATAAGACCATAGTTGGGCTATGGCATCGGTATGATGTGATAATGTACCTCCGT
* *
118295253 AGAAGACCATA-TCTGGGATATGGCATCGGTATGAT
1 ATAAGACCATAGT-TGGGCTATGGCATCGGTATGAT
118295288 ATGTGATCCG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
52 33 0.45
53 38 0.52
54 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (53 bp):
ATAAGACCATAGTTGGGCTATGGCATCGGTATGATGTGATAATGTACCTCCGT
Found at i:118295269 original size:53 final size:52
Alignment explanation
Indices: 118295129--118295333 Score: 169
Period size: 52 Copynumber: 4.0 Consensus size: 52
118295119 GACGGAATAT
* * * * * *
118295129 ATGTGATAAGTGCGCT-CGCATAAGACCATAGT-TGGGCTATGACATCGGTGT-
1 ATGTGATATGTGC-CTCCGTATAAGACCATA-TCTGGGATATGGCATCAGTATG
* ** *
118295180 ATTGTGATATGT-ACTCCCGTATAAGACCATGGCTGGGCTATGGCATCAGTATG
1 A-TGTGATATGTGCCT-CCGTATAAGACCATATCTGGGATATGGCATCAGTATG
*
118295233 ATGTGATAATGTGCCTCCGTAGAAGACCATATCTGGGATATGGCATC-G---G
1 ATGTGAT-ATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCAGTATG
* * *
118295282 -TATGATATGTG-ATCCGTATAAGACCATATCTGAGATATGGCATCAGTATG
1 ATGTGATATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCAGTATG
118295332 AT
1 AT
118295334 ATGTGATCCA
Statistics
Matches: 125, Mismatches: 17, Indels: 24
0.75 0.10 0.14
Matches are distributed among these distances:
46 30 0.24
47 6 0.05
48 5 0.04
49 1 0.01
50 3 0.02
51 2 0.02
52 44 0.35
53 32 0.26
54 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCAGTATG
Found at i:118295305 original size:46 final size:46
Alignment explanation
Indices: 118295248--118295387 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 46
118295238 ATAATGTGCC
*
118295248 TCCGTAGAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
* *
118295294 TCCGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
* * ** * * *
118295340 TCCATGTAAGACCATGGCAGGGCTATGGCTTCGGTATGTGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTA--TGATATGTGA
118295388 CTATGTGTAC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 70 0.88
48 10 0.12
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
Found at i:118296903 original size:7 final size:7
Alignment explanation
Indices: 118296893--118296966 Score: 60
Period size: 7 Copynumber: 10.7 Consensus size: 7
118296883 ACATAAATTT
118296893 TAAACCC
1 TAAACCC
* *
118296900 TAAATCT
1 TAAACCC
*
118296907 TAAAGCC
1 TAAACCC
*
118296914 TACACCC
1 TAAACCC
118296921 TAAACCC
1 TAAACCC
**
118296928 TAAACTT
1 TAAACCC
* * *
118296935 TAGAGCT
1 TAAACCC
118296942 TAAACCC
1 TAAACCC
118296949 TAAACCC
1 TAAACCC
118296956 TAAACCC
1 TAAACCC
118296963 -AAAC
1 TAAAC
118296967 TCAAACTCAA
Statistics
Matches: 52, Mismatches: 15, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
6 4 0.08
7 48 0.92
ACGTcount: A:0.42, C:0.34, G:0.04, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:118296925 original size:28 final size:28
Alignment explanation
Indices: 118296893--118296960 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
118296883 ACATAAATTT
*
118296893 TAAACCCTAAA-TCTTAAAGCCTACACCC
1 TAAACCCTAAACT-TTAAAGCCTAAACCC
* *
118296921 TAAACCCTAAACTTTAGAGCTTAAACCC
1 TAAACCCTAAACTTTAAAGCCTAAACCC
118296949 TAAACCCTAAAC
1 TAAACCCTAAAC
118296961 CCAAACTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 35 0.97
29 1 0.03
ACGTcount: A:0.41, C:0.32, G:0.04, T:0.22
Consensus pattern (28 bp):
TAAACCCTAAACTTTAAAGCCTAAACCC
Found at i:118297432 original size:14 final size:14
Alignment explanation
Indices: 118297413--118297442 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118297403 AAATTATTAA
*
118297413 TTATTAATAATATT
1 TTATTAAAAATATT
118297427 TTATTAAAAATATT
1 TTATTAAAAATATT
118297441 TT
1 TT
118297443 TGTAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTAAAAATATT
Found at i:118297505 original size:2 final size:2
Alignment explanation
Indices: 118297498--118297524 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118297488 CCATCACTTC
118297498 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
118297525 GGGGGAGAAT
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:118299402 original size:20 final size:20
Alignment explanation
Indices: 118299374--118299425 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
118299364 GCTTAAATCA
* *
118299374 GTATTGATACC-AAGATAGGG
1 GTATCGATACCTAAGATA-AG
*
118299394 GTATCGATACCTAAGCTAAG
1 GTATCGATACCTAAGATAAG
118299414 GTATCGATACCT
1 GTATCGATACCT
118299426 CAGTGCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (20 bp):
GTATCGATACCTAAGATAAG
Found at i:118300306 original size:25 final size:23
Alignment explanation
Indices: 118300255--118300307 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
118300245 CCCTATACTT
* *
118300255 TTATTTTTAAGAATTTAATCTAT
1 TTATTTTTAAGAATTTAATCCAA
*
118300278 TTATTTTTTAGAATTTCAAGTCCAA
1 TTATTTTTAAGAATTT-AA-TCCAA
118300303 TTATT
1 TTATT
118300308 AACACTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTATTTTTAAGAATTTAATCCAA
Found at i:118303337 original size:27 final size:27
Alignment explanation
Indices: 118303307--118303363 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
118303297 ATTAAATTTA
*
118303307 GTATTACTATCAAATTTTATAATAAGT
1 GTATCACTATCAAATTTTATAATAAGT
* * *
118303334 GTATCATTATCAAATTTTGTAGTAAGT
1 GTATCACTATCAAATTTTATAATAAGT
118303361 GTA
1 GTA
118303364 CCATCATGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (27 bp):
GTATCACTATCAAATTTTATAATAAGT
Found at i:118311502 original size:12 final size:11
Alignment explanation
Indices: 118311481--118311552 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 11
118311471 CCAATCTTTA
118311481 ATTTTAAATTTT
1 ATTTT-AATTTT
118311493 ATTTCTAATTTT
1 ATTT-TAATTTT
118311505 ATTATT-ATTATT
1 ATT-TTAATT-TT
118311517 ATTTTATTATTTT
1 ATTTTA--ATTTT
*
118311530 ATTTCTTATTTT
1 ATTT-TAATTTT
118311542 ATTTTAATTTT
1 ATTTTAATTTT
118311553 TTTATTTTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 11 0.22
12 28 0.55
13 8 0.16
14 4 0.08
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTAATTTT
Found at i:118311511 original size:3 final size:3
Alignment explanation
Indices: 118311503--118311579 Score: 51
Period size: 3 Copynumber: 27.0 Consensus size: 3
118311493 ATTTCTAATT
*
118311503 TTA TTA TTA TTA TTA TT- TTA TTA TT- TTA TTTC TTA TT- TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* *
118311545 TTAA TT- TTT TTA TTT TTAA TTA TT- TTA TTA -TA TTA
1 TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
118311580 ATAAAATTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
2 14 0.24
3 39 0.66
4 6 0.10
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:118311525 original size:8 final size:8
Alignment explanation
Indices: 118311500--118311575 Score: 75
Period size: 8 Copynumber: 9.2 Consensus size: 8
118311490 TTTATTTCTA
118311500 ATTTTATT
1 ATTTTATT
118311508 ATTATTATT
1 ATT-TTATT
118311517 ATTTTATT
1 ATTTTATT
118311525 ATTTTATT
1 ATTTTATT
*
118311533 -TCTTATTTT
1 AT-TT-TATT
118311542 ATTTTAATT
1 ATTTT-ATT
*
118311551 TTTTTATT
1 ATTTTATT
*
118311559 -TTTAATT
1 ATTTTATT
118311566 ATTTTATT
1 ATTTTATT
118311574 AT
1 AT
118311576 ATTAATAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
7 7 0.12
8 30 0.53
9 19 0.33
10 1 0.02
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTATT
Found at i:118311580 original size:17 final size:17
Alignment explanation
Indices: 118311500--118311581 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
118311490 TTTATTTCTA
118311500 ATTTTATTATTATT-ATT
1 ATTTTATTA-TATTAATT
* *
118311517 ATTTTATTATTTTATTT
1 ATTTTATTATATTAATT
* *
118311534 CTTATT-TTATTTTAATT
1 ATT-TTATTATATTAATT
*
118311551 TTTTTATT-T-TTAATT
1 ATTTTATTATATTAATT
118311566 ATTTTATTATATTAAT
1 ATTTTATTATATTAAT
118311582 AAAATTCTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 13 0.24
16 7 0.13
17 32 0.59
18 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATTATATTAATT
Found at i:118328143 original size:58 final size:60
Alignment explanation
Indices: 118328012--118328149 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 60
118328002 TTATTAAATT
* * * * * *
118328012 TTAATA-AATTTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAGTTTAATCATATTT
1 TTAATATAA-TTATTATTAAATACAATTTAATAAAAAT--AAATAAATAATTTAATAATATTC
* *
118328074 TTAATGTAATTATTATTAAATACAATTTAAT-AAAAT-AATATATAATTTAATAATATTC
1 TTAATATAATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATAATATTC
118328132 TTAATATAATTATTATTA
1 TTAATATAATTATTATTA
118328150 TATGAATTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
58 35 0.53
61 5 0.08
62 24 0.36
63 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (60 bp):
TTAATATAATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATAATATTC
Found at i:118330711 original size:3 final size:3
Alignment explanation
Indices: 118330703--118330755 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
118330693 AAATTTAGAT
* * * * * *
118330703 TTA TTA TTA TTG TTG TTA TTA TTA TTG TTA TCA TTA TTG TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
118330751 TTA TT
1 TTA TT
118330756 TACATTGTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:118330723 original size:12 final size:12
Alignment explanation
Indices: 118330706--118330752 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
118330696 TTTAGATTTA
*
118330706 TTATTATTGTTG
1 TTATTATTATTG
118330718 TTATTATTATTG
1 TTATTATTATTG
*
118330730 TTATCATTATTG
1 TTATTATTATTG
*
118330742 TTATCATTATT
1 TTATTATTATT
118330753 ATTTACATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:118330738 original size:15 final size:15
Alignment explanation
Indices: 118330705--118330755 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
118330695 ATTTAGATTT
* *
118330705 ATTATTATTGTTGTT
1 ATTATTATTGTTATC
118330720 ATTATTATTGTTATC
1 ATTATTATTGTTATC
118330735 ---ATTATTGTTATC
1 ATTATTATTGTTATC
118330747 ATTATTATT
1 ATTATTATT
118330756 TACATTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 12 0.39
15 19 0.61
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (15 bp):
ATTATTATTGTTATC
Found at i:118334436 original size:19 final size:19
Alignment explanation
Indices: 118334412--118334466 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
118334402 CAACGCCTCT
118334412 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTTCA-TCA
118334431 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
* *
118334450 TATGCATTAAATTTCAT
1 TTTGCATTACATTTCAT
118334467 GAAAAAACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:118342616 original size:44 final size:45
Alignment explanation
Indices: 118342568--118342664 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
118342558 AATTCACAAC
* * ** *
118342568 CTTATCTCTCTGAGGTTG-TAAGAGAGCAGGTTGAAGATTGTAG-T
1 CTTATCTCTCTGAGGTAGCGAAGA-AGCAGACTGAAGATTGAAGAT
*
118342612 CTTATCTTTCTGAGGTAGCGAAGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCGAAGAAGCAGACTGAAGATTGAAGAT
118342657 CTTATCTC
1 CTTATCTC
118342665 CCTAAGTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCGAAGAAGCAGACTGAAGATTGAAGAT
Found at i:118342792 original size:44 final size:46
Alignment explanation
Indices: 118342744--118342842 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 46
118342734 AGCGACCAGC
* *
118342744 CTTATCTCT-TTGAGGTAGCAA-GAGAGCAGGTTAAAGATT-ATAG-T
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGGCTAAAGATTGA-AGAT
*
118342788 CTTATCT-TCCTGAGGTAGCAAGGAAGCAGGCTGAAGATTGAAGAT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGGCTAAAGATTGAAGAT
118342833 CTTATCTCTC
1 CTTATCTCTC
118342843 TAAGCAGTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 33 0.70
45 11 0.23
46 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (46 bp):
CTTATCTCTCCTGAGGTAGCAAGGAAGCAGGCTAAAGATTGAAGAT
Found at i:118342968 original size:177 final size:176
Alignment explanation
Indices: 118342567--118343039 Score: 700
Period size: 177 Copynumber: 2.7 Consensus size: 176
118342557 GAATTCACAA
* * *
118342567 CCTTATCTCTCTGAGGTTGTAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTTCTGAGGTAGCG
1 CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGC-
* * * *
118342632 AA-GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGTTGG
65 AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGG
* *
118342696 GAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGGTTTTAGCGACCAG
130 GAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCAACCAG
* * *
118342743 CCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTAAAGATT-ATAGTCTTATCTTCCTGAGGTAGC
1 CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTGA-AGTCTTATCTTCCTGAGGTAGC
*
118342807 AAGGAAGCAGGCTGAAGATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGG
65 AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGG
*
118342872 TGAATCTTATCTTCCTAAGGTAGCAGGGGAGCAGGTTTTAGCAACCAG
130 -GAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCAACCAG
* * *
118342920 CCTTATCTCTCTGAGGTTGCAAAAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTAAGGTAACA
1 CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
* * **
118342985 AGAAAGCAGACT-AAGAATTGAAAATCTCGTCTCTCTAAGCAGTAGTGGAGCAGAT
66 AGGAAGCAGACTGAAG-ATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGAT
118343040 TTAAGCCACC
Statistics
Matches: 267, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
175 2 0.01
176 117 0.44
177 147 0.55
178 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (176 bp):
CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
AGGAAGCAGACTGAAGATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGATGGG
AATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCAACCAG
Found at i:118343211 original size:85 final size:88
Alignment explanation
Indices: 118343071--118343299 Score: 221
Period size: 89 Copynumber: 2.6 Consensus size: 88
118343061 TTGAGCAGCT
* * * * * * * * * * *
118343071 GTGGAGTAGGTTGAAATCAACAATTCTTATCTCCTTGAAGTTGCAACGGAGCAGATTGAAGCTAT
1 GTGGAGCAGGATGAAGTC-ACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGATAG
**
118343136 AAAACCTTA-TC-C-GATGTTACA
65 AAAACCTTATTCTCTGAAATTACA
* * * * *
118343157 GTGGGGCAGGATGAAGTTACGAGTCCTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGC
1 GTGGAGCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGATAGA
*
118343222 AAACCTTATTTCTCTGAAATTGCA
66 AAACCTTA-TTCTCTGAAATTACA
* * *
118343246 GTGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGA
1 GTGGAGCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGA
118343300 CTAAAAATGG
Statistics
Matches: 113, Mismatches: 26, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
85 44 0.39
86 13 0.12
87 2 0.02
88 1 0.01
89 53 0.47
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (88 bp):
GTGGAGCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGATAGA
AAACCTTATTCTCTGAAATTACA
Found at i:118343216 original size:44 final size:43
Alignment explanation
Indices: 118343151--118343299 Score: 113
Period size: 44 Copynumber: 3.4 Consensus size: 43
118343141 CTTATCCGAT
*
118343151 GTTACAGTGGGGCAGGATGAAGTTACGAGTCCTATCTCCCTAAA
1 GTTACAGTGGAGCA-GATGAAGTTACGAGTCCTATCTCCCTAAA
* ** * *
118343195 GTTACAGTGGAGCAGATTGAAGATA-GCAAACCTTATTTCTCTGAAA
1 GTTACAGTGGAGCAGA-TGAAGTTACG-AGTCC-TATCTCCCT-AAA
* * * * *
118343241 -TTGCAGTGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAA
1 GTTACAGTGGAGCA-GATGAAGTTACGAGTCCTATCTCCCTAAA
* *
118343284 GTTGCAGCGGAGCAGA
1 GTTACAGTGGAGCAGA
118343300 CTAAAAATGG
Statistics
Matches: 80, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
43 7 0.09
44 42 0.52
45 27 0.34
46 4 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
GTTACAGTGGAGCAGATGAAGTTACGAGTCCTATCTCCCTAAA
Found at i:118343319 original size:89 final size:89
Alignment explanation
Indices: 118343155--118343326 Score: 218
Period size: 89 Copynumber: 1.9 Consensus size: 89
118343145 TCCGATGTTA
* * * * * * *
118343155 CAGTGGGGCAGGATGAAGTTACGAGTCCTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATA
1 CAGTGGAGCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGACTAAAAATA
*
118343220 GCAAACCTTATTTCTCTGAAATTG
66 GCAAACCTTATCTCTCTGAAATTG
* * * *
118343244 CAGTGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAAATG
1 CAGTGGAGCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGACTAAAAATA
* *
118343309 GCGAATCTTATCTCTCTG
66 GCAAACCTTATCTCTCTG
118343327 GAGTTGGAGT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (89 bp):
CAGTGGAGCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGACTAAAAATA
GCAAACCTTATCTCTCTGAAATTG
Found at i:118343439 original size:120 final size:122
Alignment explanation
Indices: 118343226--118343593 Score: 474
Period size: 120 Copynumber: 3.0 Consensus size: 122
118343216 GATAGCAAAC
* * *
118343226 CTTATTTCTCTGAAA-TTGCAGTGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCA
1 CTTATCTCTCT-AAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCA
* * *
118343290 GCGGAGCAGACTAAAAATGGCGAATCTTATCTCTCTGGAGTTGGAGTAGAGCAG-AT-
65 GCGGAACAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAATA
* *
118343346 CTTATCTCTCTAAAGTTACAGTGGAACAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCAG
*
118343411 CGGAACAAACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAACAAA
66 CGGAACAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA--AT-----A
* * * * *
118343475 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCTTCTTGAAGTTACA
1 -CTTATCTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCA
* *
118343540 GC-GAATCAGACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
65 GCGGAA-CAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAG
118343594 GTTGAAAACT
Statistics
Matches: 217, Mismatches: 19, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
119 3 0.01
120 105 0.48
123 2 0.01
129 3 0.01
130 104 0.48
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (122 bp):
CTTATCTCTCTAAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCAG
CGGAACAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAATA
Found at i:118343579 original size:130 final size:132
Alignment explanation
Indices: 118343346--118343625 Score: 404
Period size: 130 Copynumber: 2.1 Consensus size: 132
118343336 TAGAGCAGAT
* * * *
118343346 CTTATCTCTCTAAAGTTACAGTGGAACAGGTTGAAGTCACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAACAGGTTGAAGTCACAAGTCTTACCTCCCTGAAGTTACAG
* *
118343411 CGGAACAAACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCA-GATCATAAC-AA
66 CGGAACAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATCAAAACTAA
118343474 AC
131 AC
* * *
118343476 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCTTCTTGAAGTTACAG
1 CTTATCTCTCTGAAGTTGCAGTGGAACAGGTTGAAGTCACAAGTCTTACCTCCCTGAAGTTACAG
* * * *
118343541 C-GAATCAGACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAAACTA
66 CGGAA-CAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATCAAAACTA
118343605 AAC
130 AAC
*
118343608 CTTATTTCTCTGAAGTTG
1 CTTATCTCTCTGAAGTTG
118343626 TGGTGGAATG
Statistics
Matches: 133, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
129 3 0.02
130 103 0.77
131 6 0.05
132 21 0.16
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (132 bp):
CTTATCTCTCTGAAGTTGCAGTGGAACAGGTTGAAGTCACAAGTCTTACCTCCCTGAAGTTACAG
CGGAACAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATCAAAACTAA
AC
Found at i:118345304 original size:12 final size:12
Alignment explanation
Indices: 118345287--118345318 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
118345277 AAATTTAGAT
118345287 TTATTATTGTTA
1 TTATTATTGTTA
118345299 TTATTATTGTTA
1 TTATTATTGTTA
*
118345311 TCATTATT
1 TTATTATT
118345319 ATTTACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:118346679 original size:27 final size:30
Alignment explanation
Indices: 118346640--118346694 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
118346630 TAAAGTGAAT
*
118346640 AAAAGAAACAGAGTAAAGA-AA-AGAAACA
1 AAAAGAAACAGAGAAAAGAGAACAGAAACA
*
118346668 AAAAG-AATAGAGAAAAGAGAACAGAAA
1 AAAAGAAACAGAGAAAAGAGAACAGAAA
118346695 ACATTCGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.04
Consensus pattern (30 bp):
AAAAGAAACAGAGAAAAGAGAACAGAAACA
Found at i:118347981 original size:16 final size:16
Alignment explanation
Indices: 118347956--118347989 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
118347946 AGGTAAGTAT
* *
118347956 TGATATTTGAGTTGAA
1 TGATAATTGAATTGAA
118347972 TGATAATTGAATTGAA
1 TGATAATTGAATTGAA
118347988 TG
1 TG
118347990 GTAAATGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (16 bp):
TGATAATTGAATTGAA
Found at i:118348225 original size:21 final size:21
Alignment explanation
Indices: 118348201--118348250 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
118348191 GTGTTGTATT
118348201 TCAGGCACCTCGTGTGTCATA
1 TCAGGCACCTCGTGTGTCATA
*
118348222 TCAGGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
118348243 TTAGGCAC
1 TCAGGCAC
118348251 TTTATGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:118348258 original size:21 final size:21
Alignment explanation
Indices: 118348198--118348260 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
118348188 TATGTGTTGT
*
118348198 ATTTCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCATGTGTC
* *
118348219 ATATCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCATGTGTC
* * *
118348240 ATTTTAGGCACTTTATGTGTC
1 ATTTCAGGCACCTCATGTGTC
118348261 GTATACTGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (21 bp):
ATTTCAGGCACCTCATGTGTC
Found at i:118350382 original size:21 final size:21
Alignment explanation
Indices: 118350358--118350398 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
118350348 AAACCATCCA
118350358 AAAATACAATAATACTTAATT
1 AAAATACAATAATACTTAATT
* *
118350379 AAAATGCAATACTACTTAAT
1 AAAATACAATAATACTTAAT
118350399 CAATACTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATACAATAATACTTAATT
Found at i:118355393 original size:25 final size:25
Alignment explanation
Indices: 118355365--118355416 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
118355355 TGAAAGAGAA
118355365 AAGAAAATAATTCAATTCCAAATGG
1 AAGAAAATAATTCAATTCCAAATGG
118355390 AAGAAAATAATTCAATTCCAAATGG
1 AAGAAAATAATTCAATTCCAAATGG
118355415 AA
1 AA
118355417 ATAGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (25 bp):
AAGAAAATAATTCAATTCCAAATGG
Found at i:118361445 original size:23 final size:22
Alignment explanation
Indices: 118361415--118361477 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
118361405 CTGTAGCCCA
118361415 TATGAGCTTATCGTTTCAACTCT
1 TATGAGCTTA-CGTTTCAACTCT
** *
118361438 TATGAGCTTACCATTCAGCTCT
1 TATGAGCTTACGTTTCAACTCT
118361460 TCA-GAGCTTACCGTTTCA
1 T-ATGAGCTTA-CGTTTCA
118361478 GTCTTTAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (22 bp):
TATGAGCTTACGTTTCAACTCT
Found at i:118361482 original size:22 final size:22
Alignment explanation
Indices: 118361418--118361500 Score: 62
Period size: 23 Copynumber: 3.7 Consensus size: 22
118361408 TAGCCCATAT
* * *
118361418 GAGCTTATCGTTTCAACTCTTAT
1 GAGCTTACCGTTTC-AGTCTTAG
*
118361441 GAGCTTACC-ATTCAGCTCTTCA-
1 GAGCTTACCGTTTCAG-TCTT-AG
118361463 GAGCTTACCGTTTCAGTCTTTAG
1 GAGCTTACCGTTTCAGTC-TTAG
* *
118361486 GGGTTTACCGTTTCA
1 GAGCTTACCGTTTCA
118361501 ACTCTACGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
21 1 0.02
22 19 0.39
23 29 0.59
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (22 bp):
GAGCTTACCGTTTCAGTCTTAG
Found at i:118368645 original size:48 final size:48
Alignment explanation
Indices: 118368589--118368757 Score: 221
Period size: 48 Copynumber: 3.5 Consensus size: 48
118368579 TATGTCCTAG
*
118368589 ACATGGTCTTACACTAGCTCTCGTAACAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
* * * * ** * * * *
118368637 ACATGGTCTTACATTGGATCACATATTAAGGCCGATGGCATGTCCCAG
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
*
118368685 ACATGGTCTTACACTAGCTCTCATAACAATGCTGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
*
118368733 ACATGGTCTTACACTAGCTCACATA
1 ACATGGTCTTACACTAGCTCTCATA
118368758 TACCCTAATG
Statistics
Matches: 98, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
Found at i:118368755 original size:96 final size:96
Alignment explanation
Indices: 118368580--118368758 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
118368570 TGCCAATGCT
* *
118368580 ATGTCCTAGACATGGTCTTACACTAGCTCTCGTAACAATGCCGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
* *
118368645 TTACATTGGATCACATATTAAGGCCGATGGC
66 TTACACTAGATCACATATTAAGGCCGATGGC
*
118368676 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCTGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
*
118368741 TTACACTAGCTCACATAT
66 TTACACTAGATCACATAT
118368759 ACCCTAATGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
TTACACTAGATCACATATTAAGGCCGATGGC
Done.