Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 48 of 56
Found at i:8142179 original size:15 final size:15
Alignment explanation
Indices: 8142161--8142189 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8142151 ATAAATTATT
8142161 TTTAAAAATTATAAA
1 TTTAAAAATTATAAA
8142176 TTTAAAAATTATAA
1 TTTAAAAATTATAA
8142190 TAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAAATTATAAA
Found at i:8142356 original size:12 final size:13
Alignment explanation
Indices: 8142331--8142363 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8142321 TTCGCAACAA
*
8142331 TTTATTTTTAAAT
1 TTTAATTTTAAAT
8142344 TTTAATTTT-AAT
1 TTTAATTTTAAAT
8142356 TTTAATTT
1 TTTAATTT
8142364 ATATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTAATTTTAAAT
Found at i:8142393 original size:23 final size:24
Alignment explanation
Indices: 8142334--8142405 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 24
8142324 GCAACAATTT
*
8142334 ATTTTTAAATTTTAATTTTAATTTTA
1 ATTTTTAAATTTTAATATT--TTTTA
8142360 ATTTATATTAAATTTTAATATTTTTT-
1 A-TT-T-TTAAATTTTAATATTTTTTA
*
8142386 ATTTTTAAATTGTAATATTT
1 ATTTTTAAATTTTAATATTT
8142406 ATATAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
23 15 0.37
24 1 0.02
25 2 0.05
26 2 0.05
27 6 0.15
28 1 0.02
29 14 0.34
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (24 bp):
ATTTTTAAATTTTAATATTTTTTA
Found at i:8144006 original size:13 final size:13
Alignment explanation
Indices: 8143988--8144012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8143978 CATTTTGGGA
8143988 TGTATCGATACAG
1 TGTATCGATACAG
8144001 TGTATCGATACA
1 TGTATCGATACA
8144013 TATTGTGTGT
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:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:8144010 original size:33 final size:32
Alignment explanation
Indices: 8143968--8144031 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
8143958 TACAAGCCAA
*
8143968 TGTATCGATACATTTTGGGATGTATCGATACAG
1 TGTATCGATACATATTGGG-TGTATCGATACAG
*
8144001 TGTATCGATACATATTGTGTGTATCGATACA
1 TGTATCGATACATATTGGGTGTATCGATACA
8144032 AATTTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATATTGGGTGTATCGATACAG
Found at i:8144111 original size:20 final size:21
Alignment explanation
Indices: 8144064--8144115 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
8144054 GCCAATGACC
**
8144064 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
8144085 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
8144105 TGTATCGATAC
1 TGTATCGATAC
8144116 TGTGCAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:8144698 original size:22 final size:22
Alignment explanation
Indices: 8144671--8144715 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
8144661 TTTTCTTTTC
8144671 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
8144693 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
8144715 T
1 T
8144716 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:8146464 original size:20 final size:21
Alignment explanation
Indices: 8146435--8146475 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8146425 TGTTTTTGTT
8146435 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
8146454 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
8146476 AAGAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:8146662 original size:47 final size:50
Alignment explanation
Indices: 8146607--8146703 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 50
8146597 ATAAACCCCT
*
8146607 TGTATCGATACA-GAGAATGCTGTATCGATAC-TTCT-GAA-TTTTCCAGA
1 TGTATCGATACATGAGAA-CCTGTATCGATACATTCTGGAATTTTTCCAGA
**
8146654 TGTATCGATACATTTGAACCTGTATCGATACATTCTGGAATTTTTCCAGA
1 TGTATCGATACATGAGAACCTGTATCGATACATTCTGGAATTTTTCCAGA
8146704 ATTTGACCCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 24 0.56
48 7 0.16
49 3 0.07
50 9 0.21
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (50 bp):
TGTATCGATACATGAGAACCTGTATCGATACATTCTGGAATTTTTCCAGA
Found at i:8152836 original size:20 final size:21
Alignment explanation
Indices: 8152786--8152840 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
8152776 GGCAATGACC
**
8152786 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
8152807 AGTGTCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
8152827 TGTATCGATACATT
1 TGTATCGATACATT
8152841 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:8154343 original size:43 final size:47
Alignment explanation
Indices: 8154293--8154387 Score: 110
Period size: 48 Copynumber: 2.1 Consensus size: 47
8154283 TAAATTTAAT
*
8154293 AATTTAATAATATTT-T-TGTT-TTATTGTT-TA-TAATAATAATTTA
1 AATTTAATAACATTTGTATGTTATTATT-TTATATTAATAATAATTTA
* *
8154336 AATTTAATTACATTTGTATTTTATTATTTTATATTTAATAATAATTTA
1 AATTTAATAACATTTGTATGTTATTATTTTATA-TTAATAATAATTTA
8154384 AATT
1 AATT
8154388 GACTTATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 13 0.30
44 1 0.02
45 5 0.12
46 7 0.16
48 17 0.40
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (47 bp):
AATTTAATAACATTTGTATGTTATTATTTTATATTAATAATAATTTA
Found at i:8154600 original size:15 final size:16
Alignment explanation
Indices: 8154580--8154617 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
8154570 ATGAATATGA
8154580 ATCAAACAA-AAATAG
1 ATCAAACAACAAATAG
*
8154595 ATCAAAAAACAAATAG
1 ATCAAACAACAAATAG
8154611 A-CAAACA
1 ATCAAACA
8154618 TGAAGCTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.68, C:0.16, G:0.05, T:0.11
Consensus pattern (16 bp):
ATCAAACAACAAATAG
Found at i:8164845 original size:13 final size:14
Alignment explanation
Indices: 8164827--8164860 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
8164817 AGCTAATAAT
8164827 TAAAAAAATC-AAA
1 TAAAAAAATCAAAA
8164840 T-AAAAAATCAAAA
1 TAAAAAAATCAAAA
8164853 TAAAAAAA
1 TAAAAAAA
8164861 AATGCTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 5 0.26
14 6 0.32
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAAAAATCAAAA
Found at i:8164846 original size:12 final size:13
Alignment explanation
Indices: 8164829--8164859 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8164819 CTAATAATTA
8164829 AAAAAATC-AAAT
1 AAAAAATCAAAAT
8164841 AAAAAATCAAAAT
1 AAAAAATCAAAAT
8164854 AAAAAA
1 AAAAAA
8164860 AAATGCTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAATCAAAAT
Found at i:8166582 original size:143 final size:143
Alignment explanation
Indices: 8166323--8166744 Score: 433
Period size: 143 Copynumber: 3.0 Consensus size: 143
8166313 TTTAAGATAG
* * * * * *
8166323 GTAGAGTCTTTTAGGGTTACCGAGATACTTTTATGTTGAAGGTATACCTAAAGGTATTTTTGTAA
1 GTAGAGTCTTTTAGGGTTACCGAGATACTTTCATGTCGAAAGTATACTTAAAAGCATTTTTGTAA
* * * * * *
8166388 TTTCTCTAGAACTAAGTCTGATATAGTCACTAGGATGCTTTAATGCCAAAGGTTTGCATTTATGA
66 CTTCTCCAGAACTAAGTCTGATATAGTCACTAAGATGCTTTAATGCCAAAGGTGTACATTTAGGA
8166453 TAGGTTTACCCTT
131 TAGGTTTACCCTT
* * * * *
8166466 TTAGAGTCTTTCAGGGTTACCAAGATACTTACATGTGGAAAGTATATCTTAAAAGCATTTTAT-T
1 GTAGAGTCTTTTAGGGTTACCGAGATACTTTCATGTCGAAAGTATA-CTTAAAAGCATTTT-TGT
* * * * *
8166530 AACTTC-CCATAACTGAGTCTGATATAGTTA-TCAAGATGTTTTAATGCTAAAGGTGTACATTTA
64 AACTTCTCCAGAACTAAGTCTGATATAGTCACT-AAGATGCTTTAATGCCAAAGGTGTACATTTA
*
8166593 GGATAGGTTTGCCCTT
128 GGATAGGTTTACCCTT
* * * *
8166609 GTACAGTCTTTTAGGGTTATCGAGATACTTTCATGTCGAAAGTATACCTTAAAGGTATTTTTGTA
1 GTAGAGTCTTTTAGGGTTACCGAGATACTTTCATGTCGAAAGTATA-CTTAAAAGCATTTTTGTA
* * * * * * * *
8166674 A-TTTTCCTAAAATCGAA-TCCGATATAGTCACTAGGATGCTTTTATGCCAAAAGTGTGCATTT-
65 ACTTCTCC-AGAA-CTAAGTCTGATATAGTCACTAAGATGCTTTAATGCCAAAGGTGTACATTTA
8166736 GGATAGGTT
128 GGATAGGTT
8166745 CATCCTTTAA
Statistics
Matches: 227, Mismatches: 44, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
142 4 0.02
143 164 0.72
144 55 0.24
145 4 0.02
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (143 bp):
GTAGAGTCTTTTAGGGTTACCGAGATACTTTCATGTCGAAAGTATACTTAAAAGCATTTTTGTAA
CTTCTCCAGAACTAAGTCTGATATAGTCACTAAGATGCTTTAATGCCAAAGGTGTACATTTAGGA
TAGGTTTACCCTT
Found at i:8170876 original size:17 final size:17
Alignment explanation
Indices: 8170854--8170901 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
8170844 CAAATGTCTT
*
8170854 CATATATGCA-TACCATG
1 CATATATACATTA-CATG
8170871 CATATATACATTACATG
1 CATATATACATTACATG
8170888 CATATATACATTAC
1 CATATATACATTAC
8170902 GTACATACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 27 0.93
18 2 0.07
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (17 bp):
CATATATACATTACATG
Found at i:8170908 original size:17 final size:17
Alignment explanation
Indices: 8170871--8170921 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
8170861 GCATACCATG
*
8170871 CATATATACATTACATG
1 CATATATACATTACATA
*
8170888 CATATATACATTACGTA
1 CATATATACATTACATA
* *
8170905 CATACATA-AATACATA
1 CATATATACATTACATA
8170921 C
1 C
8170922 TCATACATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (17 bp):
CATATATACATTACATA
Found at i:8170912 original size:21 final size:19
Alignment explanation
Indices: 8170882--8170931 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
8170872 ATATATACAT
* *
8170882 TACATGCATATATACATTAC
1 TACATACATAAATACA-TAC
8170902 GTACATACATAAATACATAC
1 -TACATACATAAATACATAC
8170922 T-CATACATAA
1 TACATACATAA
8170932 CTATTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 9 0.33
19 1 0.04
20 3 0.11
21 14 0.52
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (19 bp):
TACATACATAAATACATAC
Found at i:8178192 original size:22 final size:21
Alignment explanation
Indices: 8178145--8178192 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
8178135 GTATTATCCC
*
8178145 TAAAAAAATCAAACAAAAATA
1 TAAAAAAATAAAACAAAAATA
* * *
8178166 AAAAAAATATAAAATAAAATTA
1 TAAAAAA-ATAAAACAAAAATA
8178188 TAAAA
1 TAAAA
8178193 TTAAAAAGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAAAAATAAAACAAAAATA
Found at i:8179711 original size:107 final size:107
Alignment explanation
Indices: 8179600--8179796 Score: 277
Period size: 107 Copynumber: 1.8 Consensus size: 107
8179590 TTCAATCAAA
** * * * * * *
8179600 TCTTTTTTTACTTAGTTTTTGCCCTGGTGACCTTTTGTTGACTTGTATGGTTTTGTCTTGATCAA
1 TCTTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGATCAA
* * *
8179665 TCCTTCTAACTTATTAGTTTATATGGTTTTGTCTTAACCAAC
66 CCCCTCCAACTTATTAGTTTATATGGTTTTGTCTTAACCAAC
*
8179707 TCTTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGGTCAA
1 TCTTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGATCAA
*
8179772 CCCCTCCAACTTATTGGTTTATATG
66 CCCCTCCAACTTATTAGTTTATATG
8179797 ATTTCATCCC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
107 77 1.00
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (107 bp):
TCTTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGATCAA
CCCCTCCAACTTATTAGTTTATATGGTTTTGTCTTAACCAAC
Found at i:8179827 original size:107 final size:106
Alignment explanation
Indices: 8179603--8179834 Score: 257
Period size: 107 Copynumber: 2.2 Consensus size: 106
8179593 AATCAAATCT
* * * * * * * *
8179603 TTTTTTACTTAGTTTTTGCCCTGGTGACCTTTTGTTGACTTGTATGGTTTTGTCTTGATCAATCC
1 TTTTTAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGATCAACCC
* * * ** **
8179668 TTCTAACTTATTAGTTTATATGGTTTTGTCTTAACCAACTC
66 CTCCAACTTATTAGTTTATATGATTTCATCCCAACCAACTC
*
8179709 TTTTTCAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGGTCAACC
1 TTTTT-AACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGATCAACC
* ** *
8179774 CCTCCAACTTATTGGTTTATATGATTTCATCCCGGCCAATTCC
65 CCTCCAACTTATTAGTTTATATGATTTCATCCCAACCAACT-C
*
8179817 TTTTTGACTTAGGTTTTA
1 TTTTTAACTTAGGTTTTA
8179835 ACCTAATAAT
Statistics
Matches: 103, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
106 5 0.05
107 92 0.89
108 6 0.06
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (106 bp):
TTTTTAACTTAGGTTTTACCCTGGTCACCTTTTGTTGACTCGTATGGTTTTATCCTGATCAACCC
CTCCAACTTATTAGTTTATATGATTTCATCCCAACCAACTC
Found at i:8179849 original size:107 final size:107
Alignment explanation
Indices: 8179629--8179867 Score: 246
Period size: 107 Copynumber: 2.2 Consensus size: 107
8179619 TGCCCTGGTG
* * * * * *
8179629 ACCTTTTGTTGACTTGTATGGTTTTGTCTTGATCAATCCTTCTAACTTATTAGTTTATATGGTTT
1 ACCTTTTGTTGACTTGTATGGTTTTATCCTGATCAACCCCTCCAACTTATTAGTTTATATGATTT
** ** * ** *
8179694 TGTCTTAACCAACTCTTTTTCAACTTAGGTTTTACCCTGGTC
66 CATCCCAACCAACTCTTTTTCAACTTAGGTTTTAACCTAATA
* * *
8179736 ACCTTTTGTTGACTCGTATGGTTTTATCCTGGTCAACCCCTCCAACTTATTGGTTTATATGATTT
1 ACCTTTTGTTGACTTGTATGGTTTTATCCTGATCAACCCCTCCAACTTATTAGTTTATATGATTT
** * *
8179801 CATCCCGGCCAATTCCTTTTT-GACTTAGGTTTTAACCTAATA
66 CATCCCAACCAACT-CTTTTTCAACTTAGGTTTTAACCTAATA
* * *
8179843 ATCTTTTGTTGGCTTATATGGTTTT
1 ACCTTTTGTTGACTTGTATGGTTTT
8179868 CTCTCAATTA
Statistics
Matches: 106, Mismatches: 25, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
107 100 0.94
108 6 0.06
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (107 bp):
ACCTTTTGTTGACTTGTATGGTTTTATCCTGATCAACCCCTCCAACTTATTAGTTTATATGATTT
CATCCCAACCAACTCTTTTTCAACTTAGGTTTTAACCTAATA
Found at i:8180243 original size:41 final size:40
Alignment explanation
Indices: 8180134--8180312 Score: 117
Period size: 41 Copynumber: 4.4 Consensus size: 40
8180124 TTACCTTTTG
** * * * * *
8180134 TTGACTCGTATGGTTTTGTCTTGTTAATCTTTCTAACTCT
1 TTGACTCGTATGGTTTCATCCTGTCAACCCTTCTAACTCA
* * *
8180174 TTAACTCATATGGTTTCATCCCGATCAACCCTTCTAACTCA
1 TTGACTCGTATGGTTTCATCCTG-TCAACCCTTCTAACTCA
* * * **
8180215 TTGACTTGTATGGTTTCATTCCTGTCAACACC-TCTTATTTG
1 TTGACTCGTATGGTTTCA-TCCTGTCAAC-CCTTCTAACTCA
* ** * * *
8180256 TTGACTCGTATGGTTTTATCCTAGTCAATTCTTTTCATTCA
1 TTGACTCGTATGGTTTCATCCT-GTCAACCCTTCTAACTCA
*
8180297 TTGACTTGTATGGTTT
1 TTGACTCGTATGGTTT
8180313 TGTCCCAATC
Statistics
Matches: 107, Mismatches: 27, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
40 22 0.21
41 79 0.74
42 6 0.06
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (40 bp):
TTGACTCGTATGGTTTCATCCTGTCAACCCTTCTAACTCA
Found at i:8180300 original size:82 final size:81
Alignment explanation
Indices: 8180212--8180402 Score: 231
Period size: 82 Copynumber: 2.3 Consensus size: 81
8180202 CCCTTCTAAC
* ** *
8180212 TCATTGACTTGTATGGTTTCATTCCTGTCAACACCTCTTATTTGTTGACTCGTATGGTTTTATCC
1 TCATTGACTTGTATGGTTTCATCCCAATCAACACCTCTTATTCGTTGACTCGTATGGTTTTATCC
8180277 TAGTCAA-TTCTTTTCAT
66 T-GTCAACTT-TTTTCAT
** * * *
8180294 TCATTGACTTGTATGGTTTTGTCCCAATCAACACCTTTTATTCGTTGACTTGTATGGTTTTGTCC
1 TCATTGACTTGTATGGTTTCATCCCAATCAACACCTCTTATTCGTTGACTCGTATGGTTTTATCC
8180359 TGTCAACTTTTTTCAT
66 TGTCAACTTTTTTCAT
* * ** *
8180375 TTATTAACTCATATGGTGTCATCCCAAT
1 TCATTGACTTGTATGGTTTCATCCCAAT
8180403 TAACGTTTTT
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 33 0.36
82 59 0.64
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (81 bp):
TCATTGACTTGTATGGTTTCATCCCAATCAACACCTCTTATTCGTTGACTCGTATGGTTTTATCC
TGTCAACTTTTTTCAT
Found at i:8180313 original size:41 final size:40
Alignment explanation
Indices: 8180212--8180365 Score: 157
Period size: 41 Copynumber: 3.8 Consensus size: 40
8180202 CCCTTCTAAC
* *
8180212 TCATTGACTTGTATGGTTTCATTCCTGTCAACACCTCTTAT
1 TCATTGACTTGTATGGTTTTA-TCCTGTCAACACCTTTTAT
** * **
8180253 TTGTTGACTCGTATGGTTTTATCCTAGTCAA-TTCTTTTCAT
1 TCATTGACTTGTATGGTTTTATCCT-GTCAACACCTTTT-AT
* **
8180294 TCATTGACTTGTATGGTTTTGTCCCAATCAACACCTTTTAT
1 TCATTGACTTGTATGGTTTTAT-CCTGTCAACACCTTTTAT
* *
8180335 TCGTTGACTTGTATGGTTTTGTCCTGTCAAC
1 TCATTGACTTGTATGGTTTTATCCTGTCAAC
8180366 TTTTTTCATT
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
40 15 0.16
41 69 0.76
42 7 0.08
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (40 bp):
TCATTGACTTGTATGGTTTTATCCTGTCAACACCTTTTAT
Found at i:8180546 original size:41 final size:41
Alignment explanation
Indices: 8180501--8180588 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
8180491 CTCTAACTCA
* * * *
8180501 TTGACTCATAT-AGTTTTATCTTGATCAATTCTTTTCATTTG
1 TTGACTCATATGA-TTTTATCCTGATCAATTATTTTCAATCG
* * *
8180542 TTGACTTATATGATTTTGTCCTGATTAATTATTTTCAATCG
1 TTGACTCATATGATTTTATCCTGATCAATTATTTTCAATCG
8180583 TTGACT
1 TTGACT
8180589 AGTATGGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (41 bp):
TTGACTCATATGATTTTATCCTGATCAATTATTTTCAATCG
Found at i:8187237 original size:28 final size:28
Alignment explanation
Indices: 8187152--8187876 Score: 711
Period size: 28 Copynumber: 24.9 Consensus size: 28
8187142 TTTAAAAAAT
*
8187152 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* *
8187184 TTGCCA-TCGCCTTGTGTGAGCTTTGAAAGG
1 GTGCCACT-GACTTGTG-G-GCTTTGAAAGG
8187214 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
8187242 GTGCCACTGACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
8187270 ATGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
8187299 ATGCCACTGACTCGTGGGCTTTGAAAAAAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG------AAAG-G
* * *
8187334 TTGCCACCGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
8187362 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* * ** **
8187392 TTGCCACCGACTCATGGGCTTTGAAAAT
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
8187420 ATGCCACTGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* *
8187450 TTGCCA-TAGACTCATGTGGGCTTTGAAAAGA
1 GTGCCACT-GACT--TGTGGGCTTTG-AAAGG
8187481 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
8187509 GTGCCACTGACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
8187537 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
8187565 ATGCCACTGACTTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * **
8187593 ATGGCACTGACTTGTAAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
8187621 ATGCCACTAACTTGTGGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTGGGCTTTG-AAAG-G
* * *
8187651 TTACCAC-CAGCTTGTGGGCTTTGAAAGG
1 GTGCCACTGA-CTTGTGGGCTTTGAAAGG
8187679 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
8187707 GTGTCATTGACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
8187735 GTGTCATTGACTTGTGAGCTTTGAAAGAG
1 GTGCCACTGACTTGTGGGCTTTGAAAG-G
*
8187764 TTGCCA-TCGACTTGTGGGCTTTGAAAAGAG
1 GTGCCACT-GACTTGTGGGCTTTG-AAAG-G
* * *
8187794 TTGCCACCGACTAATGTGGGCTTTAAAAGG
1 GTGCCACTGACT--TGTGGGCTTTGAAAGG
* *
8187824 GTGCTATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
8187852 GTGCCACTAACTTATGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
8187877 GAGATGAACA
Statistics
Matches: 599, Mismatches: 65, Indels: 62
0.83 0.09 0.09
Matches are distributed among these distances:
28 341 0.57
29 82 0.14
30 90 0.15
31 21 0.04
32 39 0.07
34 5 0.01
35 21 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:8187875 original size:259 final size:257
Alignment explanation
Indices: 8187166--8187876 Score: 865
Period size: 259 Copynumber: 2.7 Consensus size: 257
8187156 CACTAACTTG
* * * *
8187166 TGTGGGCTTTGAAAAGAGTTGCCATCGCCTTGTGTGAGCTTTGAAAGGGTGCCACTGACTTGTGG
1 TGTGGGCTTTGAAAAGAGGTGCCATAGAC-TATGTGAGCTTTGAAAGGGTGCCACTGACTTGTGG
8187231 GCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
65 GCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAA
* * * * *
8187296 AGAATGCCACTGACTCGTGGGCTTTGAAAAAAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAG
129 AGGATGCCACTGACTTGTGGGCTTTG------AAAG-GATGCCACTGACTTGTGGGCTTTGAAAG
* * *
8187361 GATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCATGGGCTTTGAAAATATGCCA
187 GATGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAAAGATGCCA
8187426 CTGACT
252 CTGACT
* * *
8187432 TGTGGGCTTTGAAAAGAGTTGCCATAGACTCATGTGGGCTTTGAAAAGAGTGCCACTGACTTGTG
1 TGTGGGCTTTGAAAAGAGGTGCCATAGACT-ATGTGAGCTTTG-AAAGGGTGCCACTGACTTGTG
* *
8187497 GGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
64 GGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAA
* * **
8187562 AGGATGCCACTGACTTGTAGGCTTTGAAAGGATGGCACTGACTTGTAAGCTTTGAAAGGATGCCA
129 AGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCA
** * *
8187627 CTAACTTGTGGGCTTTGAAAAGAGTTACCACC-AGCTTGTGGGCTTTGAAAGGGTGCCACTGACT
194 CTAACTTGTGGGCTTTGAAAAGAGTTACCACCGA-CTCATGGGCTTTGAAAAGATGCCACTGACT
* * * * *
8187691 TGTGGGCTTTG-AAAG-GGTGTCATTGACT-TGTGAGCTTTGAAAGGGTGTCATTGACTTGTGAG
1 TGTGGGCTTTGAAAAGAGGTGCCATAGACTATGTGAGCTTTGAAAGGGTGCCACTGACTTGTGGG
* * * *
8187753 CTTTGAAAGAGTTGCCA-TCGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTAATGTGGGCTT
66 CTTTGAAAG-GGTGCCACT-GACTTGTGAGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTT
* * * * * *
8187817 TAAAAGGGTGCTATTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTATGGGCTTTGAA
125 TAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
8187877 GAGATGAACA
Statistics
Matches: 390, Mismatches: 46, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
254 29 0.07
255 30 0.08
256 4 0.01
257 21 0.05
258 5 0.01
259 153 0.39
260 4 0.01
265 1 0.00
266 62 0.16
267 81 0.21
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (257 bp):
TGTGGGCTTTGAAAAGAGGTGCCATAGACTATGTGAGCTTTGAAAGGGTGCCACTGACTTGTGGG
CTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAG
GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
AACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCATGGGCTTTGAAAAGATGCCACTGACT
Found at i:8189124 original size:23 final size:23
Alignment explanation
Indices: 8189098--8189152 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
8189088 GCCTCTTTCT
8189098 GTTTTTTTGTTATTTTTTCTTTG
1 GTTTTTTTGTTATTTTTTCTTTG
* * *
8189121 GTTTTTTTTTTGTTTTTTTTTTG
1 GTTTTTTTGTTATTTTTTCTTTG
*
8189144 TTTTTTTTG
1 GTTTTTTTG
8189153 GGTATAAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (23 bp):
GTTTTTTTGTTATTTTTTCTTTG
Found at i:8189125 original size:12 final size:11
Alignment explanation
Indices: 8189097--8189151 Score: 74
Period size: 11 Copynumber: 4.9 Consensus size: 11
8189087 GGCCTCTTTC
*
8189097 TGTTTTTTTGT
1 TGTTTTTTTTT
*
8189108 TATTTTTTCTTT
1 TGTTTTTT-TTT
*
8189120 GGTTTTTTTTT
1 TGTTTTTTTTT
8189131 TGTTTTTTTTT
1 TGTTTTTTTTT
8189142 TGTTTTTTTT
1 TGTTTTTTTT
8189152 GGGTATAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:8194186 original size:19 final size:19
Alignment explanation
Indices: 8194162--8194216 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
8194152 AATTCAACAA
8194162 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
8194181 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
8194200 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
8194217 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:8196707 original size:51 final size:53
Alignment explanation
Indices: 8196632--8196762 Score: 153
Period size: 51 Copynumber: 2.5 Consensus size: 53
8196622 AGTTTCTCAA
* * * *
8196632 TTCTCCACAATCG-GAGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGAG-GATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
8196683 TT-TTCTATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGAGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
*
8196737 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGAGGATACTCCAAC
8196763 CCCGTTATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
52 1 0.01
53 9 0.13
54 20 0.30
55 3 0.04
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:8196894 original size:52 final size:51
Alignment explanation
Indices: 8196777--8196998 Score: 210
Period size: 52 Copynumber: 4.3 Consensus size: 51
8196767 TTATTTCCGA
* * * *** *
8196777 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATC
* * * *
8196828 GGGGATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTT-CACAATC
* * * * **
8196880 GGGGATACTCCAACCCCGGTTTTATTTTTGAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTC-ACAATC
* * * * *
8196932 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTT
1 GGGGATACTCCAACCCCGATTTTATTT-CTAAAACACCAATTTTTCACAATC
*
8196984 GAGGATACTCCAACC
1 GGGGATACTCCAACC
8196999 TCGTTATTTC
Statistics
Matches: 138, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 37 0.27
52 88 0.64
53 13 0.09
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATC
Found at i:8197018 original size:28 final size:28
Alignment explanation
Indices: 8196986--8197057 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
8196976 TCACAGTTGA
*
8196986 GGATACTCCAACCTCGTTA-TTTC-ATCGG
1 GGATACTCCAACCCCGTTACTTTCGA--GG
8197014 GGATACTCCAACCCCGTTACTTTCGAGG
1 GGATACTCCAACCCCGTTACTTTCGAGG
8197042 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
8197058 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTTCGAGG
Found at i:8197123 original size:107 final size:107
Alignment explanation
Indices: 8196932--8197136 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 107
8196922 TCCTTTAATC
* * * *
8196932 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTTGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATTGAGGATACTCCAA
* *
8196997 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGA
66 CCCCGTTATTTCA-CGGGGAGACTCCAACCCCGTTACTTTCGA
* * *** * *
8197040 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATTGAGGATACTCCAA
*
8197104 CCCCGTTATTTTCGA-GGGGAGACTCCAATCCCG
66 CCCCGTTA-TTTC-ACGGGGAGACTCCAACCCCG
8197137 ATTTTTTTTC
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
107 55 0.68
108 25 0.31
109 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATTGAGGATACTCCAA
CCCCGTTATTTCACGGGGAGACTCCAACCCCGTTACTTTCGA
Found at i:8205241 original size:95 final size:97
Alignment explanation
Indices: 8205082--8205326 Score: 332
Period size: 95 Copynumber: 2.5 Consensus size: 97
8205072 TTTTGATTAA
* * * * *
8205082 AAAAACAGGGTTGGAGTATCCCCTAGGAGGAATTGGGTTGGAATGTCCCCGATGATGGCAATTTA
1 AAAAGCAGAGTTGGAGTATCCCCTAGGAGGAACTGGGTTGGAGTGTCCCCGATGATGACAATTTA
*
8205147 AGCGAGAATAAAATTTAAACTTTGATGCGTTT
66 AGCGAGAATAAAATTTAAACTTTGATGCATTT
* * * *
8205179 ACAAGC-GAGTTGGAGTATCCCCTCGGAGGAA-TGGGTTGGAGTATCCCTGATGATGACAATTTA
1 AAAAGCAGAGTTGGAGTATCCCCTAGGAGGAACTGGGTTGGAGTGTCCCCGATGATGACAATTTA
*
8205242 AGTGAGAATAAAATTTAAACTTTGATGCATTT
66 AGCGAGAATAAAATTTAAACTTTGATGCATTT
* * * * *
8205274 AAAAGCAGGGTTGGAGTATCTCTTTGGAGGAACGGGGTTGGAGTGTCCCCGAT
1 AAAAGCAGAGTTGGAGTATCCCCTAGGAGGAACTGGGTTGGAGTGTCCCCGAT
8205327 AAATAAAATT
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
95 63 0.49
96 44 0.34
97 21 0.16
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.28
Consensus pattern (97 bp):
AAAAGCAGAGTTGGAGTATCCCCTAGGAGGAACTGGGTTGGAGTGTCCCCGATGATGACAATTTA
AGCGAGAATAAAATTTAAACTTTGATGCATTT
Found at i:8207432 original size:20 final size:19
Alignment explanation
Indices: 8207407--8207480 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
8207397 TTTTAACTAG
* *
8207407 ATGTATTGATACATTGAAGA
1 ATGTATCGATACATT-AAAA
* *
8207427 ATGTATCGATACATTCATAC
1 ATGTATCGATACATT-AAAA
8207447 ATGTATCGATACATTAAAAA
1 ATGTATCGATACATT-AAAA
8207467 ATGTATCGATACAT
1 ATGTATCGATACAT
8207481 CTAGGTACTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (19 bp):
ATGTATCGATACATTAAAA
Found at i:8211591 original size:18 final size:17
Alignment explanation
Indices: 8211542--8211592 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
8211532 ATATTTCTTA
8211542 TTCATTATAAAATTTGAT
1 TTCATT-TAAAATTTGAT
* *
8211560 TTTATTAATAAATTTGAT
1 TTCATTTA-AAATTTGAT
8211578 TTCATTTAAGAATTT
1 TTCATTTAA-AATTT
8211593 ATGATTTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
TTCATTTAAAATTTGAT
Found at i:8213229 original size:15 final size:15
Alignment explanation
Indices: 8213202--8213243 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8213192 GCTTTTAGTG
*
8213202 AAGCAATTTTCAGTAA
1 AAGCAACTTTCAG-AA
8213218 AA-CAACTTTCAGAA
1 AAGCAACTTTCAGAA
*
8213232 AAGCAATTTTCA
1 AAGCAACTTTCA
8213244 ACAGAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (15 bp):
AAGCAACTTTCAGAA
Found at i:8214393 original size:20 final size:21
Alignment explanation
Indices: 8214345--8214404 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
8214335 TATATTTAAG
*
8214345 ATATCATATATTTATATAATT
1 ATATAATATATTTATATAATT
*
8214366 AT-TAATATATTTATA-ATTT
1 ATATAATATATTTATATAATT
*
8214385 ATATTATATAAATTTATATA
1 ATA-TA-ATATATTTATATA
8214405 TATAATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 5 0.16
20 12 0.38
21 4 0.12
22 10 0.31
23 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATAATATATTTATATAATT
Found at i:8217247 original size:3 final size:3
Alignment explanation
Indices: 8217241--8217275 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8217231 TAGAAAAAAA
8217241 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8217276 CTTTGAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8217738 original size:3 final size:3
Alignment explanation
Indices: 8217732--8217770 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
8217722 ACAACAACAT
*
8217732 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8217771 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8217922 original size:2 final size:2
Alignment explanation
Indices: 8217915--8217995 Score: 103
Period size: 2 Copynumber: 41.0 Consensus size: 2
8217905 ATGGGGTCCA
8217915 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
* * * *
8217957 AT AT AT TT A- AT GAT AT TT AT A- AA AT AT AT AA 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
8217996 GAAATAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
1 2 0.03
2 65 0.94
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8218464 original size:13 final size:14
Alignment explanation
Indices: 8218446--8218479 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
8218436 TTAAAAATAA
8218446 TTTTTTATTGA-AT
1 TTTTTTATTGATAT
*
8218459 TTTTTTATTGATGT
1 TTTTTTATTGATAT
8218473 TTTTTTA
1 TTTTTTA
8218480 ATATTGAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (14 bp):
TTTTTTATTGATAT
Found at i:8221454 original size:3 final size:3
Alignment explanation
Indices: 8221446--8221483 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8221436 ATGAAATAAG
8221446 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
8221484 TTTAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8224609 original size:28 final size:28
Alignment explanation
Indices: 8224572--8224628 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
8224562 AATGTGTATT
*
8224572 TTTATAAATTGTTTTGAATTTGGTATGG
1 TTTATAAATTGTTTTGAATTTGATATGG
* * *
8224600 TTTATGAATTTTTTTGCATTTGATATGG
1 TTTATAAATTGTTTTGAATTTGATATGG
8224628 T
1 T
8224629 GAAGAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.56
Consensus pattern (28 bp):
TTTATAAATTGTTTTGAATTTGATATGG
Found at i:8232961 original size:21 final size:21
Alignment explanation
Indices: 8232935--8232977 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8232925 TGAAATTGAA
8232935 AATAATAATAACATTAAAATT
1 AATAATAATAACATTAAAATT
* *
8232956 AATAATTATAGCATTAAAATT
1 AATAATAATAACATTAAAATT
8232977 A
1 A
8232978 TATGTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
AATAATAATAACATTAAAATT
Found at i:8233171 original size:26 final size:26
Alignment explanation
Indices: 8233120--8233171 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
8233110 ATTTTAATAT
* *
8233120 ATTATTGTATATATTTATATATTTTA
1 ATTATTGTATAAATTTATATAATTTA
*
8233146 ATTATTTTATAAA-TTATATAAATTTA
1 ATTATTGTATAAATTTATAT-AATTTA
8233172 TTTAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
ATTATTGTATAAATTTATATAATTTA
Found at i:8233182 original size:22 final size:22
Alignment explanation
Indices: 8233147--8233189 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8233137 TATATTTTAA
* *
8233147 TTATTTTATAAATTATATAAAT
1 TTATTTAATAAATTAAATAAAT
*
8233169 TTATTTAATTAATTAAATAAA
1 TTATTTAATAAATTAAATAAA
8233190 ATATAAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTAATAAATTAAATAAAT
Found at i:8233657 original size:39 final size:39
Alignment explanation
Indices: 8233579--8233654 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
8233569 AAATAAATTT
* * * * *
8233579 ATATTATTTTTACGAATAGTATATTCATATATTTAAATC
1 ATATTACTTTCACGAATAATAAATTCAAATATTTAAATC
*
8233618 ATATTACTTTCACGAATAATAAATTTAAATATCTTAA
1 ATATTACTTTCACGAATAATAAATTCAAATAT-TTAA
8233655 TCAACATCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
39 26 0.87
40 4 0.13
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (39 bp):
ATATTACTTTCACGAATAATAAATTCAAATATTTAAATC
Found at i:8235653 original size:13 final size:13
Alignment explanation
Indices: 8235635--8235664 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8235625 TGTAAACCAA
*
8235635 ATAATATGTATAT
1 ATAATATATATAT
8235648 ATAATATATATAT
1 ATAATATATATAT
8235661 ATAA
1 ATAA
8235665 AATACGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:8237967 original size:61 final size:62
Alignment explanation
Indices: 8237872--8237994 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 62
8237862 TTCAAATAAG
* *
8237872 TGCCACATATCATTGAATGAATGTTATTCGTCCCTCCTAAGTGAAGAGTTACTTT-TTAATT
1 TGCCACACATCATTGAATGAATGTTATTCATCCCTCCTAAGTGAAGAGTTACTTTCTTAATT
* *
8237933 TGCCACACATCATTGAATGAATGTTATTTATCCCTCCTACGTGAAGAGTTACTTTCTTAATT
1 TGCCACACATCATTGAATGAATGTTATTCATCCCTCCTAAGTGAAGAGTTACTTTCTTAATT
8237995 AAATGTTCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
61 51 0.89
62 6 0.11
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (62 bp):
TGCCACACATCATTGAATGAATGTTATTCATCCCTCCTAAGTGAAGAGTTACTTTCTTAATT
Found at i:8238891 original size:44 final size:44
Alignment explanation
Indices: 8238828--8238939 Score: 179
Period size: 44 Copynumber: 2.5 Consensus size: 44
8238818 TTCTAATTAA
*
8238828 TAGCCTAAATTGTAGGATCTGATTATACAACTGTAGTTGACTTT
1 TAGCCTAAATTGTAAGATCTGATTATACAACTGTAGTTGACTTT
* * * *
8238872 TAGCCTAAATTATAAGATCTGATTATATAGCTGTATTTGACTTT
1 TAGCCTAAATTGTAAGATCTGATTATACAACTGTAGTTGACTTT
8238916 TAGCCTAAATTGTAAGATCTGATT
1 TAGCCTAAATTGTAAGATCTGATT
8238940 TTTCAATGAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (44 bp):
TAGCCTAAATTGTAAGATCTGATTATACAACTGTAGTTGACTTT
Found at i:8243163 original size:37 final size:37
Alignment explanation
Indices: 8243122--8243196 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
8243112 TCGTAAAGCG
8243122 TATACTAGATTGCCTTTGCGGAGAGAAGGAACATACA
1 TATACTAGATTGCCTTTGCGGAGAGAAGGAACATACA
*
8243159 TATACTAGATTGCCTTTGCGGAGGGAAGGAACATACA
1 TATACTAGATTGCCTTTGCGGAGAGAAGGAACATACA
8243196 T
1 T
8243197 GTGTCGCTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (37 bp):
TATACTAGATTGCCTTTGCGGAGAGAAGGAACATACA
Found at i:8243442 original size:44 final size:44
Alignment explanation
Indices: 8243379--8243490 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
8243369 ATCATTGAAA
* * *
8243379 AATCAAATCCTACAATTTAGGCTAGAAGTCAAATACAGCTATAT
1 AATCAGATCCTACAATTTAGGCTAAAAGTCAAATACAACTATAT
* * *
8243423 AATCAGATCCTACAATTTAGACTAAAAGTCAACTACAACTTTAT
1 AATCAGATCCTACAATTTAGGCTAAAAGTCAAATACAACTATAT
*
8243467 AATCAGATCCTACAAGTTAGGCTA
1 AATCAGATCCTACAATTTAGGCTA
8243491 TTAATTAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (44 bp):
AATCAGATCCTACAATTTAGGCTAAAAGTCAAATACAACTATAT
Found at i:8243481 original size:21 final size:20
Alignment explanation
Indices: 8243420--8243481 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
8243410 AATACAGCTA
8243420 TATAATCAGATCCTACAATT
1 TATAATCAGATCCTACAATT
* * * *
8243440 TAGACTAAAAGTCAACTACAACTT
1 TATAATCAGA-TC--CTACAA-TT
8243464 TATAATCAGATCCTACAA
1 TATAATCAGATCCTACAA
8243482 GTTAGGCTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 7
0.67 0.18 0.16
Matches are distributed among these distances:
20 6 0.20
21 8 0.27
23 8 0.27
24 8 0.27
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (20 bp):
TATAATCAGATCCTACAATT
Found at i:8243794 original size:49 final size:47
Alignment explanation
Indices: 8243722--8243854 Score: 194
Period size: 49 Copynumber: 2.8 Consensus size: 47
8243712 ACCTTCCCAT
*
8243722 AATCTATTTTATTCAGCCTTCATTGTTAGAATTTTTTTTCTTTTCCAGG
1 AATCTATTTTATTCAGCCTTCATTGTTAGAATTTTTTTTATTTT-CA-G
* * * *
8243771 AATCTATGTTATTCAGTCTTCATTGCTGGAATTTTTTTTATTTTCAG
1 AATCTATTTTATTCAGCCTTCATTGTTAGAATTTTTTTTATTTTCAG
*
8243818 AATCTATTTTATTCAGCCTTCATTGTTAAAATTTTTT
1 AATCTATTTTATTCAGCCTTCATTGTTAGAATTTTTT
8243855 CTCTACTTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 33 0.45
48 2 0.03
49 39 0.53
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.53
Consensus pattern (47 bp):
AATCTATTTTATTCAGCCTTCATTGTTAGAATTTTTTTTATTTTCAG
Found at i:8244628 original size:49 final size:49
Alignment explanation
Indices: 8244491--8244628 Score: 156
Period size: 47 Copynumber: 2.9 Consensus size: 49
8244481 AGAAAGTAGA
* * * *
8244491 AAAAAAAAATTCTAGCAATGAAGGTTGAATAAAACAGATTC-AGGAAAG
1 AAAAAAATATTCCAACAATGAAGGTTGAATAAAACAGATTCTAGAAAAG
* * * *
8244539 AAAAAAAT-TTCCAACAATAAAGGCTGAATAACATAGATTCTA-AAAAGG
1 AAAAAAATATTCCAACAATGAAGGTTGAATAAAACAGATTCTAGAAAA-G
* *
8244587 AAAAAAATATTCCAACAATGAATGTTGAATAAAACGGATTCT
1 AAAAAAATATTCCAACAATGAAGGTTGAATAAAACAGATTCT
8244629 GGGAAGGTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
47 29 0.40
48 17 0.23
49 27 0.37
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.22
Consensus pattern (49 bp):
AAAAAAATATTCCAACAATGAAGGTTGAATAAAACAGATTCTAGAAAAG
Found at i:8244783 original size:35 final size:35
Alignment explanation
Indices: 8244738--8244822 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
8244728 TGAAGAAAGA
8244738 AAAAATCAGAACTGAAGAAATAATCAAAACTGATG
1 AAAAATCAGAACTGAAGAAATAATCAAAACTGATG
8244773 AAAAATCAGAACTGAAGAAATAATCAAAACTGATG
1 AAAAATCAGAACTGAAGAAATAATCAAAACTGATG
8244808 AAAAATCAGAACTGA
1 AAAAATCAGAACTGA
8244823 GATAAAATGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (35 bp):
AAAAATCAGAACTGAAGAAATAATCAAAACTGATG
Found at i:8244785 original size:17 final size:17
Alignment explanation
Indices: 8244738--8244822 Score: 116
Period size: 18 Copynumber: 4.9 Consensus size: 17
8244728 TGAAGAAAGA
8244738 AAAAATCAGAACTGAAG
1 AAAAATCAGAACTGAAG
* *
8244755 AAATAATCAAAACTGATG
1 AAA-AATCAGAACTGAAG
8244773 AAAAATCAGAACTGAAG
1 AAAAATCAGAACTGAAG
* *
8244790 AAATAATCAAAACTGATG
1 AAA-AATCAGAACTGAAG
8244808 AAAAATCAGAACTGA
1 AAAAATCAGAACTGA
8244823 GATAAAATGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
17 29 0.49
18 30 0.51
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (17 bp):
AAAAATCAGAACTGAAG
Found at i:8244829 original size:17 final size:16
Alignment explanation
Indices: 8244738--8244830 Score: 105
Period size: 17 Copynumber: 5.4 Consensus size: 16
8244728 TGAAGAAAGA
8244738 AAAAATCAGAACTGAAG
1 AAAAATCAGAACTG-AG
*
8244755 AAATAATCAAAACTGATG
1 AAA-AATCAGAACTGA-G
8244773 AAAAATCAGAACTGAAG
1 AAAAATCAGAACTG-AG
*
8244790 AAATAATCAAAACTGATG
1 AAA-AATCAGAACTGA-G
8244808 AAAAATCAGAACTGAG
1 AAAAATCAGAACTGAG
8244824 ATAAAAT
1 A-AAAAT
8244831 GCTTCTACTT
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
16 2 0.03
17 35 0.53
18 29 0.44
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.17
Consensus pattern (16 bp):
AAAAATCAGAACTGAG
Found at i:8247539 original size:29 final size:29
Alignment explanation
Indices: 8247480--8247536 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
8247470 TTTGCAAATA
*
8247480 ATAATTTAAATTATGTAAAAGATTATATT
1 ATAATTTAAATTATGTAAAAAATTATATT
* *
8247509 ATAATTT-AATTTTTTAAAAAATTATATT
1 ATAATTTAAATTATGTAAAAAATTATATT
8247537 TATTTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
ATAATTTAAATTATGTAAAAAATTATATT
Found at i:8249001 original size:21 final size:22
Alignment explanation
Indices: 8248976--8249029 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8248966 TTAAAAAACT
* *
8248976 AAGTATTGATACT-TTATGATA
1 AAGTATTGATACTCTAATAATA
8248997 AAGTATTGATACTCTAATAATA
1 AAGTATTGATACTCTAATAATA
*
8249019 AAATATTGATA
1 AAGTATTGATA
8249030 TTATGTTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (22 bp):
AAGTATTGATACTCTAATAATA
Found at i:8252054 original size:27 final size:25
Alignment explanation
Indices: 8251999--8252060 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 25
8251989 GATTGATTTG
* *
8251999 ATTAATTTAATTTTAATATTTTTAAA
1 ATTAA-TTAATTTAAATATTTTAAAA
8252025 ATTAATTAATTTAAATAAATTTTAAAA
1 ATTAATTAATTTAAAT--ATTTTAAAA
8252052 ATTAATTAA
1 ATTAATTAA
8252061 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 10 0.31
26 5 0.16
27 17 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTAATTAATTTAAATATTTTAAAA
Found at i:8252069 original size:21 final size:22
Alignment explanation
Indices: 8252028--8252081 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
8252018 TTTTAAAATT
8252028 AATTAATTTAAATAAATTTTAAA
1 AATTAA-TTAAATAAATTTTAAA
*
8252051 AATTAATTAAAT-TATTTTAAA
1 AATTAATTAAATAAATTTTAAA
8252072 AATT-ATTAAA
1 AATTAATTAAA
8252082 ATTAAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 6 0.20
21 12 0.40
22 6 0.20
23 6 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTAATTAAATAAATTTTAAA
Found at i:8252081 original size:31 final size:32
Alignment explanation
Indices: 8252023--8252094 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
8252013 AATATTTTTA
8252023 AAATT-AATTAATTTAAATAAATTTTAAAAATT
1 AAATTAAATTAATTTAAATAAATTTT-AAAATT
*
8252055 -AATTAAATT-ATTTTAA-AAATTATTAAAATT
1 AAATTAAATTAATTTAAATAAATT-TTAAAATT
8252085 AAATTAAATT
1 AAATTAAATT
8252095 TAAATTAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
30 11 0.31
31 21 0.58
32 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AAATTAAATTAATTTAAATAAATTTTAAAATT
Found at i:8252091 original size:21 final size:21
Alignment explanation
Indices: 8252028--8252092 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
8252018 TTTTAAAATT
8252028 AATTAATTTAAA-TAAATTTTAAA
1 AATTAA-TTAAATTAAA--TTAAA
**
8252051 AATTAATTAAATTATTTTAAA
1 AATTAATTAAATTAAATTAAA
8252072 AATT-ATTAAAATTAAATTAAA
1 AATTAATT-AAATTAAATTAAA
8252093 TTTAAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 3 0.08
21 20 0.56
22 5 0.14
23 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAATTAAATTAAATTAAA
Found at i:8252200 original size:14 final size:13
Alignment explanation
Indices: 8252182--8252257 Score: 50
Period size: 14 Copynumber: 5.8 Consensus size: 13
8252172 ATTATACATT
8252182 ATATATTTTAT-A
1 ATATATTTTATAA
**
8252194 ATATATACTATAA
1 ATATATTTTATAA
** *
8252207 ATGATATCATATATT
1 AT-ATATTTTATA-A
8252222 ATATATTTT-TAA
1 ATATATTTTATAA
*
8252234 AT-TATTATATAA
1 ATATATTTTATAA
8252246 ATATAATTTTAT
1 ATAT-ATTTTAT
8252258 TTATATTATA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
11 5 0.10
12 16 0.33
13 6 0.12
14 19 0.40
15 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (13 bp):
ATATATTTTATAA
Found at i:8252207 original size:40 final size:38
Alignment explanation
Indices: 8252149--8252248 Score: 96
Period size: 40 Copynumber: 2.6 Consensus size: 38
8252139 AATATAAATT
* *
8252149 TTTTATATTATTACATAAA-AATAATTATACATTATATA
1 TTTTATAATATTACATAAATAAT-ATCATACATTATATA
* *
8252187 TTTTATAATATATACTATAAATGATATCATATATTATATA
1 TTTTATAATAT-TAC-ATAAATAATATCATACATTATATA
*
8252227 TTTT-TAAATTATTATATAAATA
1 TTTTAT-AA-TATTACATAAATA
8252249 TAATTTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
38 10 0.20
39 10 0.20
40 26 0.51
41 5 0.10
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (38 bp):
TTTTATAATATTACATAAATAATATCATACATTATATA
Found at i:8252907 original size:16 final size:15
Alignment explanation
Indices: 8252886--8252938 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
8252876 TTTTTTTTAG
8252886 TTATTTTGTATTTAAA
1 TTATTTTG-ATTTAAA
*
8252902 TTATTTTAATTTAAAA
1 TTATTTTGATTT-AAA
* * *
8252918 TAATTTAGATTTAAG
1 TTATTTTGATTTAAA
8252933 TTATTT
1 TTATTT
8252939 AAATTTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 11 0.37
16 19 0.63
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TTATTTTGATTTAAA
Found at i:8252913 original size:15 final size:15
Alignment explanation
Indices: 8252895--8252946 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
8252885 GTTATTTTGT
8252895 ATTTAAATTATTTTA
1 ATTTAAATTATTTTA
* *
8252910 ATTTAAAATAATTTA
1 ATTTAAATTATTTTA
* *
8252925 GATTTAAGTTATTTAA
1 -ATTTAAATTATTTTA
8252941 ATTTAA
1 ATTTAA
8252947 TATTTAAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
ATTTAAATTATTTTA
Found at i:8255221 original size:6 final size:6
Alignment explanation
Indices: 8255212--8255236 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8255202 TATTAATATT
8255212 ATACGA ATACGA ATACGA ATACGA A
1 ATACGA ATACGA ATACGA ATACGA A
8255237 AGAAAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
ATACGA
Found at i:8256107 original size:19 final size:19
Alignment explanation
Indices: 8256083--8256121 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8256073 TCTTCATTCT
8256083 TCCCTTATATAAAATGTTA
1 TCCCTTATATAAAATGTTA
8256102 TCCCTTATATAAAATGTTA
1 TCCCTTATATAAAATGTTA
8256121 T
1 T
8256122 ACGATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
TCCCTTATATAAAATGTTA
Found at i:8257145 original size:28 final size:29
Alignment explanation
Indices: 8257114--8257181 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
8257104 TATATACAAG
*
8257114 TTTAATTTATAA-TTTTATGCATAAAAAA
1 TTTAATTTAAAATTTTTATGCATAAAAAA
**
8257142 TTTAA-TTAAAATTTTTATGTGTAAAAAA
1 TTTAATTTAAAATTTTTATGCATAAAAAA
8257170 TTTAATTTAAAA
1 TTTAATTTAAAA
8257182 ATCTAATCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.14
28 24 0.69
29 6 0.17
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (29 bp):
TTTAATTTAAAATTTTTATGCATAAAAAA
Found at i:8257195 original size:28 final size:28
Alignment explanation
Indices: 8257135--8257195 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
8257125 ATTTTATGCA
* * * *
8257135 TAAAAAATTTAATTAAAATTTTTATGTG
1 TAAAAAATTTAATTAAAAATCTAATCTG
8257163 TAAAAAATTTAATTTAAAAATCTAATCTG
1 TAAAAAATTTAA-TTAAAAATCTAATCTG
8257192 -AAAA
1 TAAAA
8257196 GGTTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (28 bp):
TAAAAAATTTAATTAAAAATCTAATCTG
Found at i:8264108 original size:2 final size:2
Alignment explanation
Indices: 8264101--8264209 Score: 184
Period size: 2 Copynumber: 54.0 Consensus size: 2
8264091 TTTGTCCTCC
*
8264101 TA TA TA TA TA TA TA TA TA TA TA CTCC TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA TA TA TA TA TA TA
8264145 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8264187 TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
8264210 GGTCTATAAC
Statistics
Matches: 102, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.01
2 99 0.97
3 2 0.02
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8265196 original size:14 final size:13
Alignment explanation
Indices: 8265178--8265232 Score: 60
Period size: 14 Copynumber: 4.2 Consensus size: 13
8265168 AACTTGGATA
8265178 AAAAAAATAGTTT
1 AAAAAAATAGTTT
8265191 AGAAAAAATATGTTT
1 A-AAAAAATA-GTTT
*
8265206 AAAAAAATAG--C
1 AAAAAAATAGTTT
8265217 AAAAAATATAGTTT
1 AAAAAA-ATAGTTT
8265231 AA
1 AA
8265233 TGACATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
11 6 0.17
12 4 0.11
13 2 0.06
14 18 0.51
15 5 0.14
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (13 bp):
AAAAAAATAGTTT
Found at i:8265312 original size:8 final size:9
Alignment explanation
Indices: 8265276--8265340 Score: 52
Period size: 8 Copynumber: 7.8 Consensus size: 9
8265266 ATTATGAGAA
*
8265276 ATAAAATGT
1 ATAAAATAT
8265285 A-AAAATAT
1 ATAAAATAT
*
8265293 AT-ATATAT
1 ATAAAATAT
8265301 ATAAAATA-
1 ATAAAATAT
8265309 ATAAAA-AT
1 ATAAAATAT
*
8265317 TTAAAA-AT
1 ATAAAATAT
8265325 ATAAAA-AT
1 ATAAAATAT
8265333 AATAAAAT
1 -ATAAAAT
8265341 TATTTTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
7 1 0.02
8 34 0.74
9 11 0.24
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAAAATAT
Found at i:8265385 original size:21 final size:22
Alignment explanation
Indices: 8265361--8265409 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
8265351 AAAAGTTAAC
*
8265361 TTTTAAACTTTAAATT-TTTATT
1 TTTTAAA-TTTAAATTATTAATT
*
8265383 TTTTTAATTTAAATTATTAATT
1 TTTTAAATTTAAATTATTAATT
8265405 TTTTA
1 TTTTA
8265410 TTTATTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTAAATTTAAATTATTAATT
Found at i:8265402 original size:29 final size:28
Alignment explanation
Indices: 8265362--8265419 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
8265352 AAAGTTAACT
*
8265362 TTTAAACTTTAAATTTTTATTTTTTTAA
1 TTTAAACTTTAAATTTTTATTTATTTAA
* *
8265390 TTTAAATTATTAATTTTTTATTTATTTAA
1 TTTAAACT-TTAAATTTTTATTTATTTAA
8265419 T
1 T
8265420 ATTATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (28 bp):
TTTAAACTTTAAATTTTTATTTATTTAA
Found at i:8266203 original size:6 final size:6
Alignment explanation
Indices: 8266192--8266216 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8266182 TCATGTGATG
8266192 CTTCAA CTTCAA CTTCAA CTTCAA C
1 CTTCAA CTTCAA CTTCAA CTTCAA C
8266217 AATCATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (6 bp):
CTTCAA
Found at i:8268054 original size:22 final size:23
Alignment explanation
Indices: 8268010--8268056 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8268000 ATTATTTGAA
*
8268010 TAATATAAAATTTTATTTAATTT
1 TAATAAAAAATTTTATTTAATTT
8268033 TAATAAAAAATTATT-TTT-ATTT
1 TAATAAAAAATT-TTATTTAATTT
8268055 TA
1 TA
8268057 TATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATAAAAAATTTTATTTAATTT
Found at i:8268607 original size:26 final size:26
Alignment explanation
Indices: 8268578--8268636 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
8268568 AATATCTAAT
8268578 AATATATT-ATAAC-TAATGATTTTAAA
1 AATAT-TTAATAACATAATGA-TTTAAA
* *
8268604 AATATTTAATAACATATTTATTTAAA
1 AATATTTAATAACATAATGATTTAAA
8268630 AATATTT
1 AATATTT
8268637 TAAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 23 0.79
27 4 0.14
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (26 bp):
AATATTTAATAACATAATGATTTAAA
Found at i:8268614 original size:36 final size:36
Alignment explanation
Indices: 8268568--8268655 Score: 92
Period size: 36 Copynumber: 2.4 Consensus size: 36
8268558 ATAATAATTT
* *
8268568 AATATCTAATAATATA-TTA-TAACTAATGATTTTAAA
1 AATATTTAATAATATATTTATTAA-AAAT-ATTTTAAA
*
8268604 AATATTTAATAACATATTTATTTAAAAATATTTTAAA
1 AATATTTAATAATATATTTA-TTAAAAATATTTTAAA
*
8268641 TAT-TTTAATAATATA
1 AATATTTAATAATATA
8268656 CTTAATAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 25 0.57
37 13 0.30
38 3 0.07
39 3 0.07
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (36 bp):
AATATTTAATAATATATTTATTAAAAATATTTTAAA
Found at i:8268622 original size:12 final size:12
Alignment explanation
Indices: 8268569--8268919 Score: 167
Period size: 10 Copynumber: 31.1 Consensus size: 12
8268559 TAATAATTTA
*
8268569 ATATCTAATAAT
1 ATATTTAATAAT
8268581 ATATTATAACTAAT
1 ATATT-TAA-TAAT
8268595 GAT-TTTAA-AA-
1 -ATATTTAATAAT
*
8268605 ATATTTAATAAC
1 ATATTTAATAAT
* *
8268617 ATATTTATTTAAAA
1 ATATTTA-AT-AAT
*
8268631 ATATTTTA-AAT
1 ATATTTAATAAT
8268642 AT-TTTAATAAT
1 ATATTTAATAAT
*
8268653 ATACTTAATAAT
1 ATATTTAATAAT
8268665 ATATTT-A-AAT
1 ATATTTAATAAT
*
8268675 ATA--T-AGAA-
1 ATATTTAATAAT
*
8268683 ATATTTCATAAT
1 ATATTTAATAAT
8268695 ATA-TTAAT-A-
1 ATATTTAATAAT
8268704 ATATTTAA-AAT
1 ATATTTAATAAT
*
8268715 -TA--TAATAAA
1 ATATTTAATAAT
8268724 ATATTTTAATAAT
1 ATA-TTTAATAAT
8268737 AATATTTAA-AACT
1 -ATATTTAATAA-T
*
8268750 AATATTGAA-AA-
1 -ATATTTAATAAT
* *
8268761 ATATGTAATAGT
1 ATATTTAATAAT
*
8268773 ATATGTAAT-A-
1 ATATTTAATAAT
8268783 ATATTTAATAAT
1 ATATTTAATAAT
*
8268795 ATATTTACT-A-
1 ATATTTAATAAT
*
8268805 ATATTTAATGAT
1 ATATTTAATAAT
8268817 ATA-TTAA-AAT
1 ATATTTAATAAT
*
8268827 AT-TTCAATAAT
1 ATATTTAATAAT
*
8268838 AATATTGAATAAT
1 -ATATTTAATAAT
8268851 ATATTTTAATAATT
1 ATA-TTTAATAA-T
*
8268865 ATATTTTAT-A-
1 ATATTTAATAAT
*
8268875 ATATTGAAT-A-
1 ATATTTAATAAT
*
8268885 ACATTTAATAAT
1 ATATTTAATAAT
*
8268897 ATA-TTAAAAAT
1 ATATTTAATAAT
8268908 AT-TTTAATAAT
1 ATATTTAATAAT
8268919 A
1 A
8268920 ATATATTTAT
Statistics
Matches: 266, Mismatches: 33, Indels: 81
0.70 0.09 0.21
Matches are distributed among these distances:
8 8 0.03
9 9 0.03
10 70 0.26
11 50 0.19
12 57 0.21
13 49 0.18
14 21 0.08
15 2 0.01
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:8268726 original size:41 final size:42
Alignment explanation
Indices: 8268638--8268737 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
8268628 AAAATATTTT
*
8268638 AAATATTTTAATAATATACTTAATAATATATTTAAATATATAG
1 AAATA-TTTAATAATATACTTAATAATATATTAAAATATATAG
*
8268681 AAATATTTCATAATATA-TTAATAATAT-TTAAAATTATAATA-
1 AAATATTTAATAATATACTTAATAATATATTAAAA-TAT-ATAG
8268722 AAATATTTTAATAATA
1 AAATA-TTTAATAATA
8268738 ATATTTAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
40 5 0.10
41 18 0.35
42 23 0.45
43 5 0.10
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (42 bp):
AAATATTTAATAATATACTTAATAATATATTAAAATATATAG
Found at i:8268735 original size:13 final size:14
Alignment explanation
Indices: 8268639--8268877 Score: 74
Period size: 13 Copynumber: 17.1 Consensus size: 14
8268629 AAATATTTTA
8268639 AATATTTTAATAAT
1 AATATTTTAATAAT
*
8268653 -ATA-CTTAATAAT
1 AATATTTTAATAAT
*
8268665 -ATATTTAAATATAT
1 AATATTTTAATA-AT
* *
8268679 AGAAATATTTCATAAT
1 A-ATAT-TTTAATAAT
* *
8268695 -ATATTAATAATATTT
1 AATATT-TTAATA-AT
* *
8268710 AAAATTATAATAA-
1 AATATTTTAATAAT
8268723 AATATTTTAATAAT
1 AATATTTTAATAAT
8268737 AATA-TTTAA-AACT
1 AATATTTTAATAA-T
** *
8268750 AATATTGAAAAATATGT
1 AATATT--TTAATA-AT
* * *
8268767 AATAGTATATGTAAT
1 AATATTTTA-ATAAT
8268782 AATA-TTTAATAAT
1 AATATTTTAATAAT
*
8268795 -ATATTTACTAATATTT
1 AATATTT--TAATA-AT
* *
8268811 AATGA-TATATTAA-
1 AAT-ATTTTAATAAT
*
8268824 AATATTTCAATAAT
1 AATATTTTAATAAT
*
8268838 AATA-TTGAATAAT
1 AATATTTTAATAAT
8268851 -ATATTTTAATAAT
1 AATATTTTAATAAT
*
8268864 TATATTTT-ATAAT
1 AATATTTTAATAAT
8268877 A
1 A
8268878 TTGAATAACA
Statistics
Matches: 166, Mismatches: 33, Indels: 53
0.66 0.13 0.21
Matches are distributed among these distances:
12 20 0.12
13 65 0.39
14 28 0.17
15 23 0.14
16 14 0.08
17 15 0.09
18 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (14 bp):
AATATTTTAATAAT
Found at i:8268785 original size:22 final size:21
Alignment explanation
Indices: 8268733--8268919 Score: 92
Period size: 22 Copynumber: 8.4 Consensus size: 21
8268723 AATATTTTAA
* *
8268733 TAATAATATTTAAAACTAATAT
1 TAATAATATTTAATAGT-ATAT
* *
8268755 TGAAAAATATGTAATAGTATAT
1 T-AATAATATTTAATAGTATAT
*
8268777 GTAATAATATTTAATAATATATT
1 -TAATAATATTTAATAGTATA-T
*
8268800 TACTAATATTTAAT-GATATAT
1 TAATAATATTTAATAG-TATAT
*
8268821 TAA-AATATTTCAATAATAATAT
1 TAATAATATTT-AATAGT-ATAT
*
8268843 TGAATAATATATTTTAATAATTATATT
1 T-AAT-A-ATA-TTTAAT-AGTATA-T
* * **
8268870 TTATAATATTGAATAACAT-T
1 TAATAATATTTAATAGTATAT
* * *
8268890 TAATAATATATTAAAAATATTT
1 TAATAATAT-TTAATAGTATAT
8268912 TAATAATA
1 TAATAATA
8268920 ATATATTTAT
Statistics
Matches: 129, Mismatches: 20, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
20 16 0.12
21 14 0.11
22 55 0.43
23 21 0.16
24 3 0.02
25 2 0.02
26 11 0.09
27 7 0.05
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
TAATAATATTTAATAGTATAT
Found at i:8268821 original size:34 final size:32
Alignment explanation
Indices: 8268617--8268910 Score: 105
Period size: 34 Copynumber: 8.9 Consensus size: 32
8268607 ATTTAATAAC
* * *
8268617 ATATTTATTTAAAAATAT-TTTA-AATATTTTA
1 ATATATATTTAATAATATATTTATAATA-TTGA
*
8268648 ATAATATACTTAATAATATATTTA-AATATAT-A
1 AT-ATATATTTAATAATATATTTATAATAT-TGA
* * *
8268680 GA-A-ATATTTCATAATATATTAATAATATTTA
1 -ATATATATTTAATAATATATTTATAATATTGA
* * * *
8268711 AAAT-TATAATAA-AATATTTTAATAATAATATTTA
1 ATATATAT-TTAATAATATATT--T-ATAATATTGA
* * * *
8268745 AAACTAATATTGAA-AA-ATATGTAATAGTATATGTA
1 ATA-T-ATATTTAATAATATAT-TTATAATAT-TG-A
*
8268780 ATA-ATATTTAATAATATATTTACTAATATTTA
1 ATATATATTTAATAATATATTTA-TAATATTGA
8268812 ATGATATA-TTAA-AATAT-TTCAATAATAATATTGA
1 AT-ATATATTTAATAATATATT---T-ATAATATTGA
8268846 ATAATATATTTTAATAATTATATTTTATAATATTGA
1 AT-ATATA-TTTAATAA-TATA-TTTATAATATTGA
* * *
8268882 ATA-ACATTTAATAATATATTAAAAATATT
1 ATATATATTTAATAATATATTTATAATATT
8268911 TTAATAATAA
Statistics
Matches: 204, Mismatches: 26, Indels: 66
0.69 0.09 0.22
Matches are distributed among these distances:
30 18 0.09
31 31 0.15
32 36 0.18
33 34 0.17
34 44 0.22
35 9 0.04
36 21 0.10
37 6 0.03
38 3 0.01
40 2 0.01
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (32 bp):
ATATATATTTAATAATATATTTATAATATTGA
Found at i:8268909 original size:101 final size:100
Alignment explanation
Indices: 8268685--8268911 Score: 248
Period size: 101 Copynumber: 2.2 Consensus size: 100
8268675 ATATAGAAAT
* * *
8268685 ATTTCATAATATATTAATAATATTTAAAATTATAATAAAATATTTTAATAATAATATTTAAAACT
1 ATTTAATAATATATTAATAATATTTAAAATTATAATAAAATATTTCAATAATAATATTGAAAACT
* *
8268750 AATATTGAAAAATATGTAATAGTATATGTAATAAT
66 AATATTGAAAAATATGTAATAATATATGTAATAAC
* * *
8268785 ATTTAATAATATATTTACTAATATTTAATGA-TATATTAAAATATTTCAATAATAATATTGAATA
1 ATTTAATAATATA-TTAATAATATTTAA-AATTATAATAAAATATTTCAATAATAATATTGAA-A
* * *
8268849 A-T-ATATTTTAATAATTATATTTTATAATAT-TG-AATAAC
63 ACTAATA-TTGAA-AA--ATATGTAATAATATATGTAATAAC
*
8268887 ATTTAATAATATATTAAAAATATTT
1 ATTTAATAATATATTAATAATATTT
8268912 TAATAATAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
100 15 0.14
101 56 0.52
102 23 0.21
103 2 0.02
104 11 0.10
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (100 bp):
ATTTAATAATATATTAATAATATTTAAAATTATAATAAAATATTTCAATAATAATATTGAAAACT
AATATTGAAAAATATGTAATAATATATGTAATAAC
Found at i:8269747 original size:20 final size:20
Alignment explanation
Indices: 8269722--8269762 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8269712 CAGTTATTGT
8269722 AAGCTTGATGATTTTAAGCC
1 AAGCTTGATGATTTTAAGCC
8269742 AAGCTTGATGATTTTAAGCC
1 AAGCTTGATGATTTTAAGCC
8269762 A
1 A
8269763 TTCTTAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (20 bp):
AAGCTTGATGATTTTAAGCC
Found at i:8270486 original size:29 final size:28
Alignment explanation
Indices: 8270409--8270487 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 28
8270399 TTAGGGGTTA
* *
8270409 TTATGCAATTTCATGTATTTTAGGGTCAT
1 TTATGCAATTTTATG-ATTTTAGGATCAT
*
8270438 TCTA-GTAATTTGTAAT-ATTTTAGGATCAT
1 T-TATGCAATTT-T-ATGATTTTAGGATCAT
8270467 TTATGCAATTTTATGCATTTT
1 TTATGCAATTTTATG-ATTTT
8270488 TGAGTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
27 2 0.05
28 3 0.08
29 31 0.77
30 2 0.05
31 2 0.05
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.51
Consensus pattern (28 bp):
TTATGCAATTTTATGATTTTAGGATCAT
Found at i:8270546 original size:58 final size:58
Alignment explanation
Indices: 8270332--8270628 Score: 208
Period size: 58 Copynumber: 5.1 Consensus size: 58
8270322 AACAATTATC
* * * * *
8270332 TTTCATGATATAAGGGTTATTATGTAATTTCATGTATTTTAGCA-TTATTTTAGTCATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAG-AGTTATTTTAGTAATT
* * * * * *
8270390 TTTTACGATTTAGGGGTTATTATGCAATTTCATGTATTTTAGGGTCATTCTAGTAATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAGAGTTATTTTAGTAATT
* * * * * * *
8270448 TGTAAT-ATTTTA-GGATCATTTATGCAATTTTATGCATTTTTGAGTTATTTTAGTAATT
1 TTTCATGA-TTTAGGGGT-AATTATGCAATTTCATGTATTTTAGAGTTATTTTAGTAATT
* * * * *
8270506 TTTCATGATTTAGGGGTAATTATGTAATTTTATGTATTTTTATA-TCATTTTAATAATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTA-TTTTAGAGTTATTTTAGTAATT
* * * ** * ** * *
8270564 TATCATGTTTTAAGACTATTTATGCAATTTCATACATTTTAG-GATAGCTTTAGTAATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAGAGTTA-TTTTAGTAATT
*
8270622 TGTCATG
1 TTTCATG
8270629 TTTTGTGCCC
Statistics
Matches: 184, Mismatches: 47, Indels: 16
0.74 0.19 0.06
Matches are distributed among these distances:
57 10 0.05
58 165 0.90
59 9 0.05
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (58 bp):
TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAGAGTTATTTTAGTAATT
Found at i:8270767 original size:116 final size:114
Alignment explanation
Indices: 8270351--8270776 Score: 324
Period size: 116 Copynumber: 3.7 Consensus size: 114
8270341 ATAAGGGTTA
* * * * * * *
8270351 TTATGTAATTTCATGTATTTTAGCATTATTTTAGTCATTTTTTACGATTTAGGGGTTATTATGCA
1 TTATGCAATTTCATGCATTTTAGGATTATTTTAGTAATTTTTCATGATTTA-GGGCTATTATGCA
* * * * *
8270416 ATTTCATGTATTTTAGGGTCATTCTAGTAATTTGTAATATTTTAGGATCAT
65 ATTTTATGCATTTTAGGGTCATTCTAGTAATTTATCATATTTAAGGAT-AT
* * * *
8270467 TTATGCAATTTTATGCATTTT-TGAGTTATTTTAGTAATTTTTCATGATTTAGGGGTAATTATGT
1 TTATGCAATTTCATGCATTTTAGGA-TTATTTTAGTAATTTTTCATGATTTAGGGCT-ATTATGC
* ** * * *
8270531 AATTTTATGTATTTTTA-TATCATTTTAATAATTTATCATGTTTTAA-GACTAT
64 AATTTTATGCA-TTTTAGGGTCATTCTAGTAATTTATCAT-ATTTAAGGA-TAT
* * * * * * *
8270583 TTATGCAATTTCATACATTTTAGGA-TAGCTTTAGTAATTTGTCATG-TTTTGTGCCCATTTATA
1 TTATGCAATTTCATGCATTTTAGGATTA-TTTTAGTAATTTTTCATGATTTAG-GGCTA-TTATG
* ** *
8270646 CAATTTTATGCATTCTAGGGTCATTGGAGTAATTTATCATATTATAAGGATTT
63 CAATTTTATGCATTTTAGGGTCATTCTAGTAATTTATCATATT-TAAGGATAT
* * * * * * *
8270699 TTATACAATTTCATGTATTTGT-GGATCATTTTAGTCATTTTTTATGTTTTAGGGACTATTATGT
1 TTATGCAATTTCATGCATTT-TAGGATTATTTTAGTAATTTTTCATGATTTAGGG-CTATTATGC
*
8270763 AATTTTATCCATTT
64 AATTTTATGCATTT
8270777 AGCATCATTC
Statistics
Matches: 240, Mismatches: 54, Indels: 32
0.74 0.17 0.10
Matches are distributed among these distances:
115 18 0.08
116 200 0.83
117 22 0.09
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (114 bp):
TTATGCAATTTCATGCATTTTAGGATTATTTTAGTAATTTTTCATGATTTAGGGCTATTATGCAA
TTTTATGCATTTTAGGGTCATTCTAGTAATTTATCATATTTAAGGATAT
Found at i:8272159 original size:29 final size:28
Alignment explanation
Indices: 8272082--8272160 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 28
8272072 TTAGGGGTTA
* *
8272082 TTATGCAATTTCATGTATTTTAGGGTCAT
1 TTATGCAATTTTATG-ATTTTAGGATCAT
*
8272111 TCTA-GTAATTTGTAAT-ATTTTAGGATCAT
1 T-TATGCAATTT-T-ATGATTTTAGGATCAT
8272140 TTATGCAATTTTATGCATTTT
1 TTATGCAATTTTATG-ATTTT
8272161 TGAGTTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
27 2 0.05
28 3 0.08
29 31 0.77
30 2 0.05
31 2 0.05
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.51
Consensus pattern (28 bp):
TTATGCAATTTTATGATTTTAGGATCAT
Found at i:8272219 original size:58 final size:58
Alignment explanation
Indices: 8272005--8272301 Score: 208
Period size: 58 Copynumber: 5.1 Consensus size: 58
8271995 AACAATTATC
* * * * *
8272005 TTTCATGATATAAGGGTTATTATGTAATTTCATGTATTTTAGCA-TTATTTTAGTCATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAG-AGTTATTTTAGTAATT
* * * * * *
8272063 TTTTACGATTTAGGGGTTATTATGCAATTTCATGTATTTTAGGGTCATTCTAGTAATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAGAGTTATTTTAGTAATT
* * * * * * *
8272121 TGTAAT-ATTTTA-GGATCATTTATGCAATTTTATGCATTTTTGAGTTATTTTAGTAATT
1 TTTCATGA-TTTAGGGGT-AATTATGCAATTTCATGTATTTTAGAGTTATTTTAGTAATT
* * * * *
8272179 TTTCATGATTTAGGGGTAATTATGTAATTTTATGTATTTTTATA-TCATTTTAATAATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTA-TTTTAGAGTTATTTTAGTAATT
* * * ** * ** * *
8272237 TATCATGTTTTAAGACTATTTATGCAATTTCATACATTTTAG-GATAGCTTTAGTAATT
1 TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAGAGTTA-TTTTAGTAATT
*
8272295 TGTCATG
1 TTTCATG
8272302 TTTTGTGCCC
Statistics
Matches: 184, Mismatches: 47, Indels: 16
0.74 0.19 0.06
Matches are distributed among these distances:
57 10 0.05
58 165 0.90
59 9 0.05
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (58 bp):
TTTCATGATTTAGGGGTAATTATGCAATTTCATGTATTTTAGAGTTATTTTAGTAATT
Found at i:8272440 original size:116 final size:114
Alignment explanation
Indices: 8272024--8272449 Score: 324
Period size: 116 Copynumber: 3.7 Consensus size: 114
8272014 ATAAGGGTTA
* * * * * * *
8272024 TTATGTAATTTCATGTATTTTAGCATTATTTTAGTCATTTTTTACGATTTAGGGGTTATTATGCA
1 TTATGCAATTTCATGCATTTTAGGATTATTTTAGTAATTTTTCATGATTTA-GGGCTATTATGCA
* * * * *
8272089 ATTTCATGTATTTTAGGGTCATTCTAGTAATTTGTAATATTTTAGGATCAT
65 ATTTTATGCATTTTAGGGTCATTCTAGTAATTTATCATATTTAAGGAT-AT
* * * *
8272140 TTATGCAATTTTATGCATTTT-TGAGTTATTTTAGTAATTTTTCATGATTTAGGGGTAATTATGT
1 TTATGCAATTTCATGCATTTTAGGA-TTATTTTAGTAATTTTTCATGATTTAGGGCT-ATTATGC
* ** * * *
8272204 AATTTTATGTATTTTTA-TATCATTTTAATAATTTATCATGTTTTAA-GACTAT
64 AATTTTATGCA-TTTTAGGGTCATTCTAGTAATTTATCAT-ATTTAAGGA-TAT
* * * * * * *
8272256 TTATGCAATTTCATACATTTTAGGA-TAGCTTTAGTAATTTGTCATG-TTTTGTGCCCATTTATA
1 TTATGCAATTTCATGCATTTTAGGATTA-TTTTAGTAATTTTTCATGATTTAG-GGCTA-TTATG
* ** *
8272319 CAATTTTATGCATTCTAGGGTCATTGGAGTAATTTATCATATTATAAGGATTT
63 CAATTTTATGCATTTTAGGGTCATTCTAGTAATTTATCATATT-TAAGGATAT
* * * * * * *
8272372 TTATACAATTTCATGTATTTGT-GGATCATTTTAGTCATTTTTTATGTTTTAGGGACTATTATGT
1 TTATGCAATTTCATGCATTT-TAGGATTATTTTAGTAATTTTTCATGATTTAGGG-CTATTATGC
*
8272436 AATTTTATCCATTT
64 AATTTTATGCATTT
8272450 AGCATCATTC
Statistics
Matches: 240, Mismatches: 54, Indels: 32
0.74 0.17 0.10
Matches are distributed among these distances:
115 18 0.08
116 200 0.83
117 22 0.09
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (114 bp):
TTATGCAATTTCATGCATTTTAGGATTATTTTAGTAATTTTTCATGATTTAGGGCTATTATGCAA
TTTTATGCATTTTAGGGTCATTCTAGTAATTTATCATATTTAAGGATAT
Found at i:8279839 original size:60 final size:60
Alignment explanation
Indices: 8279768--8279887 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
8279758 TATAAATGAT
*
8279768 AACTTCCTTTAAAATCATAATGAAACATTAATGCCAAATATTATCCATTGATGACTTTTC
1 AACTTCCTTTAAAATCATAATGAAACATTAATGCCAAATATTATCCATTAATGACTTTTC
*
8279828 AACTTCGTTTAAAATCATAATGAAACATTAATGCCAAATATTATCCATTAATGACTTTTC
1 AACTTCCTTTAAAATCATAATGAAACATTAATGCCAAATATTATCCATTAATGACTTTTC
8279888 CAGAACTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (60 bp):
AACTTCCTTTAAAATCATAATGAAACATTAATGCCAAATATTATCCATTAATGACTTTTC
Found at i:8279914 original size:2 final size:2
Alignment explanation
Indices: 8279907--8279937 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8279897 TATCATATGC
8279907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8279938 CATTTATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8287342 original size:53 final size:53
Alignment explanation
Indices: 8287278--8287413 Score: 177
Period size: 52 Copynumber: 2.6 Consensus size: 53
8287268 ATATTTTGGG
* * * *
8287278 AATAAAGCCGGGGTTGGAGTATCCCTGATTAAAGGGAAAATTGGTGTTTT-GAA
1 AATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAG-A
* ** *
8287331 AATAAAACCGGGGTTAGAGTATCCCCGATT-GTGGAAAAATTAGTGTTTTAGC
1 AATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAGA
8287383 AATAAAACCGGGGTTGGAGTATCCCCGATTA
1 AATAAAACCGGGGTTGGAGTATCCCCGATTA
8287414 TGAAAAATCA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
52 44 0.61
53 28 0.39
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (53 bp):
AATAAAACCGGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTGTTTTAGA
Found at i:8287389 original size:52 final size:52
Alignment explanation
Indices: 8287238--8287628 Score: 219
Period size: 51 Copynumber: 7.5 Consensus size: 52
8287228 GAAATAACGA
* * * * * ** *
8287238 GGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * * *
8287289 GGTTGGAGTATCCCTGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
8287342 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * **
8287394 GGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * * * *** ** *
8287445 AGTTGGAGTATCCCC--TCA-GAAATAACAGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGGAA-AA-A---TT--AGTGT-TTTGAAAATAAAACCGG
* * * *
8287500 GGTTGGAGTATCCCCG-TT-TGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATG-GAA-AAATTAG--TGTTTTGAAAATAAAACCGG
* * *
8287554 AGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
8287605 AGTTGGAATATCCCCGATTGTGGA
1 GGTTGGAGTATCCCCGATTATGGA
8287629 GAATTGAGGA
Statistics
Matches: 257, Mismatches: 60, Indels: 45
0.71 0.17 0.12
Matches are distributed among these distances:
49 4 0.02
50 2 0.01
51 94 0.37
52 50 0.19
53 50 0.19
54 20 0.08
55 20 0.08
56 9 0.04
57 8 0.03
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:8287479 original size:28 final size:27
Alignment explanation
Indices: 8287446--8287514 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
8287436 TAAAGTCGGA
8287446 GTTGGAGTATCCCCTCA-GAAATAACAGG
1 GTTGGAGTATCCCC-CATG-AATAACAGG
* * *
8287474 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACAGG
8287501 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
8287515 GTTTGTGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACAGG
Found at i:8290001 original size:13 final size:13
Alignment explanation
Indices: 8289983--8290008 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8289973 ACAAAGATCC
8289983 ATGTATCGATACA
1 ATGTATCGATACA
8289996 ATGTATCGATACA
1 ATGTATCGATACA
8290009 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8290004 original size:33 final size:33
Alignment explanation
Indices: 8289962--8290028 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
8289952 AAAATTTCCA
***
8289962 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
8289995 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
8290028 A
1 A
8290029 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:8290073 original size:19 final size:19
Alignment explanation
Indices: 8290049--8290114 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
8290039 AGTAGCTAAA
8290049 TATGTATCGATACAATACT
1 TATGTATCGATACAATACT
8290068 TATGTATCG-----ATACT
1 TATGTATCGATACAATACT
*
8290082 T-TGTATCGATACAAAACT
1 TATGTATCGATACAATACT
*
8290100 TATGTATCAATACAA
1 TATGTATCGATACAA
8290115 ATTGTTGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
13 7 0.18
14 6 0.15
18 5 0.13
19 21 0.54
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TATGTATCGATACAATACT
Found at i:8290088 original size:13 final size:14
Alignment explanation
Indices: 8290063--8290093 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8290053 TATCGATACA
8290063 ATACTTATGTATCG
1 ATACTTATGTATCG
8290077 ATACTT-TGTATCG
1 ATACTTATGTATCG
8290090 ATAC
1 ATAC
8290094 AAAACTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (14 bp):
ATACTTATGTATCG
Found at i:8290092 original size:32 final size:32
Alignment explanation
Indices: 8290051--8290112 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
8290041 TAGCTAAATA
* *
8290051 TGTATCGATACAATACTTATGTATCGATACTT
1 TGTATCGATACAAAACTTATGTATCAATACTT
8290083 TGTATCGATACAAAACTTATGTATCAATAC
1 TGTATCGATACAAAACTTATGTATCAATAC
8290113 AAATTGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACTT
Found at i:8290194 original size:21 final size:21
Alignment explanation
Indices: 8290170--8290249 Score: 160
Period size: 21 Copynumber: 3.8 Consensus size: 21
8290160 ACATTTGTAG
8290170 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
8290191 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
8290212 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
8290233 AATGTATCGATACATTC
1 AATGTATCGATACATTC
8290250 GGATAAATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:8290750 original size:15 final size:15
Alignment explanation
Indices: 8290730--8290759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8290720 GATCAAAAAA
*
8290730 TAAAAAACTTGAACT
1 TAAAAAACTAGAACT
8290745 TAAAAAACTAGAACT
1 TAAAAAACTAGAACT
8290760 CGAAATGACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (15 bp):
TAAAAAACTAGAACT
Found at i:8290811 original size:16 final size:16
Alignment explanation
Indices: 8290792--8290839 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
8290782 AGCTTGAATC
*
8290792 CGAAAGAATTCAAACT
1 CGAAAAAATTCAAACT
*
8290808 CGAAAAAATTTAAACT
1 CGAAAAAATTCAAACT
*
8290824 C-AAGAAAACTCAAACT
1 CGAA-AAAATTCAAACT
8290840 TGAGATTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (16 bp):
CGAAAAAATTCAAACT
Found at i:8292202 original size:33 final size:33
Alignment explanation
Indices: 8292143--8292207 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
8292133 TACAAGCCAA
* *
8292143 TGTATCGATACAATTTTTTGTATATCGATACAT
1 TGTATCGATACAATCTTTGGTATATCGATACAT
*
8292176 TGTATCGATAC-ATACTTTGGTGTATCGATACA
1 TGTATCGATACAAT-CTTTGGTATATCGATACA
8292208 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTATATCGATACAT
Found at i:8294789 original size:13 final size:13
Alignment explanation
Indices: 8294771--8294808 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
8294761 ATAATCCCCC
*
8294771 TGTATCGATATAG
1 TGTATCGATACAG
*
8294784 TGTATCGATACAT
1 TGTATCGATACAG
8294797 TGTATCGATACA
1 TGTATCGATACA
8294809 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:8298756 original size:21 final size:20
Alignment explanation
Indices: 8298708--8298758 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
8298698 ATCATGCAAG
* *
8298708 TTTTTATTTTTCTTAGCTAAC
1 TTTTTA-TTTTCTTAGCCAAA
*
8298729 TTATTATTTTCATTAGCCAAA
1 TTTTTATTTTC-TTAGCCAAA
8298750 TTTTTATTT
1 TTTTTATTT
8298759 CAACTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCCAAA
Found at i:8301004 original size:13 final size:13
Alignment explanation
Indices: 8300986--8301011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8300976 CAATTTTTTG
8300986 TGTATCGATACAT
1 TGTATCGATACAT
8300999 TGTATCGATACAT
1 TGTATCGATACAT
8301012 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8301008 original size:33 final size:33
Alignment explanation
Indices: 8300966--8301030 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8300956 TACAAGCCAA
* *
8300966 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
8300999 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
8301031 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:8303011 original size:52 final size:52
Alignment explanation
Indices: 8302944--8303283 Score: 180
Period size: 52 Copynumber: 6.4 Consensus size: 52
8302934 ATAACGGGGC
*
8302944 TGGAGTATCCTCGATTGTGAGAAATTGGTATTTTTGGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTGTGAGAAATTGGTATTTTTGGAAATAAAATCGGAGT
* * *
8302996 TGGAGTATCCCCGATTAAAG-GA-AAATTGG-CTTTTTGAAAATAAAACCGG-GAT
1 TGGAGTATCCCCGATT---GTGAGAAATTGGTATTTTTGGAAATAAAATCGGAG-T
* * * * * *
8303048 TGGAGTATCCCCGATTATGGAAAAATTAGTGTTTTAGCG--ATAAAATCGGGGT
1 TGGAGTATCCCCGATTGT-GAGAAATTGGTATTTTTG-GAAATAAAATCGGAGT
*** * *** **** * * *
8303100 TGGAGTATCCCCTCGAAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGGGT
1 TGGAGTAT-CCC-CGATTGTGA-GAAATTGGTA-T-TTTTGGA-AATAAAATCGGAGT
8303155 TGGAGTATCCCCGATTGTGAAGAAATTGGTATTTTTTGGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTGTG-AGAAATTGGTA-TTTTTGGAAATAAAATCGGAGT
* * * * * *
8303209 TAGAGTATCCACGATTAT-AGAAAATTAGTA-TTTTGAAAATAAAATCGAAGT
1 TGGAGTATCCCCGATTGTGAG-AAATTGGTATTTTTGGAAATAAAATCGGAGT
*
8303260 TGGAATATCCCCGATTGTGGAGAA
1 TGGAGTATCCCCGATTGT-GAGAA
8303284 TTGAGAAACT
Statistics
Matches: 214, Mismatches: 49, Indels: 50
0.68 0.16 0.16
Matches are distributed among these distances:
51 36 0.17
52 79 0.37
53 41 0.19
54 38 0.18
55 16 0.07
56 2 0.01
57 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
TGGAGTATCCCCGATTGTGAGAAATTGGTATTTTTGGAAATAAAATCGGAGT
Found at i:8303157 original size:27 final size:27
Alignment explanation
Indices: 8303085--8303169 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
8303075 AGTGTTTTAG
*
8303085 CGATAAA-ATCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
8303112 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
8303139 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
8303166 CGAT
1 CGAT
8303170 TGTGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 31 0.60
28 18 0.35
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:8305647 original size:33 final size:33
Alignment explanation
Indices: 8305609--8305675 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
8305599 AAAATTTCCA
***
8305609 AATGTATCAATACAAAGATCCATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
* *
8305642 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
8305675 A
1 A
8305676 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCAATACAAAGAAAAATGTATCGATAC
Found at i:8305648 original size:13 final size:13
Alignment explanation
Indices: 8305630--8305655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8305620 ACAAAGATCC
8305630 ATGTATCGATACA
1 ATGTATCGATACA
8305643 ATGTATCGATACA
1 ATGTATCGATACA
8305656 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8305810 original size:21 final size:21
Alignment explanation
Indices: 8305786--8305842 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
8305776 CATTTGTAGG
8305786 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
8305807 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
8305828 ATGTATCGATACATT
1 ATGTATCGATACATT
8305843 TGGATAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Done.