Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 39 of 45
Found at i:6869703 original size:20 final size:19
Alignment explanation
Indices: 6869671--6869747 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
6869661 TGTATCGATA
*
6869671 CATTTTATCGATACATTTT
1 CATTGTATCGATACATTTT
* *
6869690 GCATTGTATAGATACATTGCT
1 -CATTGTATCGATACATT-TT
*
6869711 CATTGTATCGGTACATTTT
1 CATTGTATCGATACATTTT
*
6869730 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
6869748 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (19 bp):
CATTGTATCGATACATTTT
Found at i:6869738 original size:40 final size:40
Alignment explanation
Indices: 6869671--6869747 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
6869661 TGTATCGATA
* * *
6869671 CATTTTATCGATACATTTTGCATTGTATAGATACATTGCT
1 CATTGTATCGATACATTTTACAATGTATAGATACATTGCT
* *
6869711 CATTGTATCGGTACATTTTACAATGTATCGATACATT
1 CATTGTATCGATACATTTTACAATGTATAGATACATT
6869748 CAGGCATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (40 bp):
CATTGTATCGATACATTTTACAATGTATAGATACATTGCT
Found at i:6872087 original size:51 final size:51
Alignment explanation
Indices: 6872032--6872319 Score: 371
Period size: 51 Copynumber: 5.6 Consensus size: 51
6872022 TAAGTTTCTC
* * * *
6872032 AATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
* *
6872083 AATTTTCCACAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
* * * *
6872134 AATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTTGAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
*
6872185 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTT-TCAAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACT
** * * * *
6872236 AATTTTATATAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACACT
* * *
6872288 AATTTTTCATAATCGAGGATACTCCAACCCCG
1 AATTTTCCACAATCGGGGATACTCCAACCCCG
6872320 TTAATCATCG
Statistics
Matches: 212, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
50 1 0.00
51 177 0.83
52 34 0.16
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
Found at i:6872387 original size:28 final size:27
Alignment explanation
Indices: 6872304--6872401 Score: 142
Period size: 27 Copynumber: 3.6 Consensus size: 27
6872294 TCATAATCGA
*
6872304 GGATACTCCAACCCCGTTAATCATCGG
1 GGATACTCCAACCCCGTTAATCATAGG
*
6872331 GAATACTCCAACCCCGTTAATCATAGG
1 GGATACTCCAACCCCGTTAATCATAGG
* **
6872358 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTA-ATCATAGG
6872386 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
6872402 ACTTTATTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
27 43 0.67
28 21 0.33
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTAATCATAGG
Found at i:6872489 original size:78 final size:79
Alignment explanation
Indices: 6872359--6872556 Score: 317
Period size: 78 Copynumber: 2.5 Consensus size: 79
6872349 AATCATAGGG
6872359 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGAT
1 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGAT
6872424 TTCTCACAATCAGA
66 TTCTCACAATCAGA
* * **
6872438 GATACTCCAACCCCGTTATTT-CGAGGGGATGCTCCATCCCCGGTTTTATTCCTAAAATATTGAT
1 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGAT
*
6872502 TTCTCACAATCAGG
66 TTCTCACAATCAGA
** *
6872516 GATACTCCAACCCCGTTATTTTTGCGGGGATACTCCAACCC
1 GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCC
6872557 TGTTTTTTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 73 0.67
79 36 0.33
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATTGAT
TTCTCACAATCAGA
Found at i:6872585 original size:28 final size:28
Alignment explanation
Indices: 6872513--6872596 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 28
6872503 TCTCACAATC
* * *
6872513 AGGGATACTCCAACCCCGTTATTTTTGC
1 AGGGATACTCCAACCCTGTTTTTTTTGA
*
6872541 GGGGATACTCCAACCCTGTTTTTTTTGA
1 AGGGATACTCCAACCCTGTTTTTTTTGA
6872569 AGGGATACTCCAACCCTGATTTTATTTT
1 AGGGATACTCCAACCCTG-TTTT-TTTT
6872597 CGAAACACCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
28 41 0.84
29 4 0.08
30 4 0.08
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (28 bp):
AGGGATACTCCAACCCTGTTTTTTTTGA
Found at i:6872670 original size:79 final size:79
Alignment explanation
Indices: 6872542--6872710 Score: 236
Period size: 79 Copynumber: 2.1 Consensus size: 79
6872532 TATTTTTGCG
* * *
6872542 GGGATACTCCAACCCTGTTTTTTTTGAAGGGATACTCCAACCCTGATTTTATTTTC-GAAACACC
1 GGGATACTCCAACCCTGTTTATTTTCAAGGGATACTCCAACCCTGATTTTATTTCCAG-AACACC
* *
6872606 AATTTTCTATAATTA
65 AATTTTCCATAATCA
6872621 GGGATACTCCAACCCTG-TTATTTTCAAGGGGATACTCCAACCCCT-ATTTTATTTCCAGAACAC
1 GGGATACTCCAACCCTGTTTATTTTCAA-GGGATACTCCAA-CCCTGATTTTATTTCCAGAACAC
6872684 CAATTTTCCATAATCA
64 CAATTTTCCATAATCA
*
6872700 GGGGTACTCCA
1 GGGATACTCCA
6872711 GCCCCGTCGT
Statistics
Matches: 81, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
78 8 0.10
79 68 0.84
80 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCTGTTTATTTTCAAGGGATACTCCAACCCTGATTTTATTTCCAGAACACCA
ATTTTCCATAATCA
Found at i:6876941 original size:28 final size:28
Alignment explanation
Indices: 6876902--6876965 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
6876892 AAGTCACTTG
6876902 ATTTTCATCCAC-AGATTTTTCAACCTA
1 ATTTTCATCCACAAGATTTTTCAACCTA
*
6876929 ATTTCTCATCCACATAGATTTTTCAACCCTG
1 ATTT-TCATCCACA-AGATTTTTCAA-CCTA
6876960 ATTTTC
1 ATTTTC
6876966 TCTCTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.12
28 8 0.25
30 13 0.41
31 7 0.22
ACGTcount: A:0.27, C:0.27, G:0.05, T:0.42
Consensus pattern (28 bp):
ATTTTCATCCACAAGATTTTTCAACCTA
Found at i:6880283 original size:20 final size:20
Alignment explanation
Indices: 6880258--6880297 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6880248 CTGCTAAGGA
6880258 AATGTATCAATACATTGTAT
1 AATGTATCAATACATTGTAT
*
6880278 AATGTATCTATACATTGTAT
1 AATGTATCAATACATTGTAT
6880298 CAATACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (20 bp):
AATGTATCAATACATTGTAT
Found at i:6880302 original size:33 final size:33
Alignment explanation
Indices: 6880260--6880325 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
6880250 GCTAAGGAAA
*
6880260 TGTATCAATACATTGTAT-AATGTATCTATACAT
1 TGTATCAATAC-TTGTATCAATGTATCGATACAT
* *
6880293 TGTATCAATACTTTTATCATTGTATCGATACAT
1 TGTATCAATACTTGTATCAATGTATCGATACAT
6880326 CTAGAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (33 bp):
TGTATCAATACTTGTATCAATGTATCGATACAT
Found at i:6883811 original size:20 final size:21
Alignment explanation
Indices: 6883772--6883825 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
6883762 TATTGCAAGC
* * *
6883772 ATGTATCAATAAATTCACTT-
1 ATGTATCGATACATTAACTTG
6883792 ATGTATCGATACATTAACTTG
1 ATGTATCGATACATTAACTTG
*
6883813 TTGTATCGATACA
1 ATGTATCGATACA
6883826 AATTATAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTAACTTG
Found at i:6884838 original size:21 final size:20
Alignment explanation
Indices: 6884814--6884887 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
6884804 TTTTATAATT
6884814 TGTATCGATACAATAAATAAA
1 TGTATCGATAC-ATAAATAAA
* * **
6884835 TGTATTGATACATAAGTGGA
1 TGTATCGATACATAAATAAA
*
6884855 TGTATCGATACATATATGAAA
1 TGTATCGATACATAAAT-AAA
6884876 TGTATCGATACA
1 TGTATCGATACA
6884888 AGACGATGCA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 20 0.47
21 23 0.53
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATAAATAAA
Found at i:6891702 original size:21 final size:22
Alignment explanation
Indices: 6891659--6891707 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
6891649 TATAATATTA
* * *
6891659 ATATTTTTTGTAATTATCTATG
1 ATATTTTATATAATTATCGATG
6891681 ATATTTTATATAATTAT-GATG
1 ATATTTTATATAATTATCGATG
*
6891702 ACATTT
1 ATATTT
6891708 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
ATATTTTATATAATTATCGATG
Found at i:6891820 original size:14 final size:14
Alignment explanation
Indices: 6891797--6891829 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6891787 ATTGGTCAAC
6891797 AAAA-AAATTTTTA
1 AAAATAAATTTTTA
6891810 AAAATAAATTTTTA
1 AAAATAAATTTTTA
6891824 AAAATA
1 AAAATA
6891830 TAAAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATAAATTTTTA
Found at i:6893750 original size:29 final size:29
Alignment explanation
Indices: 6893708--6893766 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
6893698 CATATATCCT
6893708 TTAATTTTCTAGGCGAAGTCTGTGATACA
1 TTAATTTTCTAGGCGAAGTCTGTGATACA
6893737 TTAATTTTCTAGGCGAAGTCTGTGATACA
1 TTAATTTTCTAGGCGAAGTCTGTGATACA
6893766 T
1 T
6893767 GTATAGTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (29 bp):
TTAATTTTCTAGGCGAAGTCTGTGATACA
Found at i:6895796 original size:13 final size:14
Alignment explanation
Indices: 6895778--6895812 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
6895768 ATAGTTGCAG
6895778 TTTTTCTTTTTT-T
1 TTTTTCTTTTTTAT
6895791 TTTTTCTTTTTTAT
1 TTTTTCTTTTTTAT
6895805 TGTTTTCT
1 T-TTTTCT
6895813 CAATTTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
14 2 0.10
15 6 0.30
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.86
Consensus pattern (14 bp):
TTTTTCTTTTTTAT
Found at i:6895872 original size:16 final size:16
Alignment explanation
Indices: 6895851--6895890 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
6895841 TTTAAATTTT
6895851 AATTATTTCA-ATCTTA
1 AATTATTTCACA-CTTA
6895867 AATTATTTCACACTTA
1 AATTATTTCACACTTA
*
6895883 GATTATTT
1 AATTATTT
6895891 TAAATTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATTTCACACTTA
Found at i:6896751 original size:16 final size:17
Alignment explanation
Indices: 6896720--6896758 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
6896710 TTATCTGCCC
6896720 ATTATAATAATTATTTT
1 ATTATAATAATTATTTT
*
6896737 ATTATAA-ATTTATTTT
1 ATTATAATAATTATTTT
6896753 ATTATA
1 ATTATA
6896759 TTATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATAATAATTATTTT
Found at i:6896784 original size:43 final size:40
Alignment explanation
Indices: 6896726--6896811 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 40
6896716 GCCCATTATA
* *
6896726 ATAATTATTTTATTA-TAAATTTATTTTATTATATTATAATAAT
1 ATAATTATTTGATTATTAAA--TA-TTTATTATA-TAAAATAAT
6896769 ATAATTATTTGATTATTAAATATTTATTATATAAAATAAT
1 ATAATTATTTGATTATTAAATATTTATTATATAAAATAAT
6896809 ATA
1 ATA
6896812 TTACGATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
40 11 0.28
41 9 0.22
42 2 0.05
43 14 0.35
44 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (40 bp):
ATAATTATTTGATTATTAAATATTTATTATATAAAATAAT
Found at i:6896803 original size:15 final size:16
Alignment explanation
Indices: 6896767--6896803 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
6896757 TATTATAATA
*
6896767 ATATAATTATTTGATT
1 ATATAAATATTTGATT
6896783 AT-TAAATATTT-ATT
1 ATATAAATATTTGATT
6896797 ATATAAA
1 ATATAAA
6896804 ATAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 12 0.63
16 2 0.11
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
ATATAAATATTTGATT
Found at i:6896829 original size:36 final size:35
Alignment explanation
Indices: 6896745--6896831 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
6896735 TTATTATAAA
* *
6896745 TTTATTTTATTATATTATAATAATATAATTATTTGAT
1 TTTA-TTTATT-TATTATAATAAAATAATTATTCGAT
**
6896782 TATTAAATATTTATTAT-ATAAAATAATATATTACGAT
1 T-TTATTTATTTATTATAATAAAATAAT-TATT-CGAT
6896819 TTTATTTATTTAT
1 TTTATTTATTTAT
6896832 GTTCATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
35 9 0.22
36 20 0.49
37 9 0.22
38 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (35 bp):
TTTATTTATTTATTATAATAAAATAATTATTCGAT
Found at i:6897103 original size:14 final size:14
Alignment explanation
Indices: 6897076--6897110 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
6897066 TAAGAAATAT
6897076 GTTTATTTTTTATA
1 GTTTATTTTTTATA
6897090 -TTTATTTGTTTATA
1 GTTTATTT-TTTATA
6897104 GTTTATT
1 GTTTATT
6897111 AATATATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (14 bp):
GTTTATTTTTTATA
Found at i:6897158 original size:24 final size:24
Alignment explanation
Indices: 6897099--6897183 Score: 67
Period size: 23 Copynumber: 3.7 Consensus size: 24
6897089 ATTTATTTGT
*
6897099 TTATA-GTTTATTAATAT-ATTG-
1 TTATATGTTTATAAATATGATTGA
6897120 TTA-AT-TATTCATAAATATGATTGA
1 TTATATGT-TT-ATAAATATGATTGA
*
6897144 TTATATGTTTATAAATATG-TTTA
1 TTATATGTTTATAAATATGATTGA
*
6897167 TT-TAATGTTCATAAATA
1 TTAT-ATGTTTATAAATA
6897184 AATTCATTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.04
21 5 0.09
22 8 0.15
23 21 0.40
24 12 0.23
25 4 0.08
26 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
TTATATGTTTATAAATATGATTGA
Found at i:6897180 original size:23 final size:24
Alignment explanation
Indices: 6897127--6897183 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
6897117 TTGTTAATTA
6897127 TTCATAAATATGATTGATTATATG
1 TTCATAAATATGATTGATTATATG
* *
6897151 TTTATAAATATG-TTTATT-TAATG
1 TTCATAAATATGATTGATTAT-ATG
6897174 TTCATAAATA
1 TTCATAAATA
6897184 AATTCATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 17 0.59
24 11 0.38
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
TTCATAAATATGATTGATTATATG
Found at i:6897192 original size:23 final size:23
Alignment explanation
Indices: 6897148--6897194 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6897138 GATTGATTAT
* ** *
6897148 ATGTTTATAAATATGTTTATTTA
1 ATGTTCATAAATAAATTCATTTA
6897171 ATGTTCATAAATAAATTCATTTA
1 ATGTTCATAAATAAATTCATTTA
6897194 A
1 A
6897195 GACGAATAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (23 bp):
ATGTTCATAAATAAATTCATTTA
Found at i:6897295 original size:25 final size:26
Alignment explanation
Indices: 6897256--6897310 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 26
6897246 TAAATAAATC
6897256 TAACTTAAACATAATTTAAAAATTCT
1 TAACTTAAACATAATTTAAAAATTCT
6897282 TAAC-TAAACATAATTTAAAAATTCT
1 TAACTTAAACATAATTTAAAAATTCT
6897307 TAAC
1 TAAC
6897311 GAAAATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (26 bp):
TAACTTAAACATAATTTAAAAATTCT
Found at i:6898259 original size:129 final size:128
Alignment explanation
Indices: 6898023--6898258 Score: 312
Period size: 129 Copynumber: 1.8 Consensus size: 128
6898013 AAGTTATTCA
* *
6898023 AAAACTTTAAATATAAAAATTAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACAT
1 AAAACTTTAAACATAAAAAATAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACAT
* ** * * *
6898088 AAACATGAAAGGGGGAAAAAACACAAAGACAAACTTGGAAAAAATCTGCACCGGAGATTAGAAT
66 AAACAAGAAA-GGAAAAAAAAAACAAAGACAAACTCGAAAAAAATCTGCACCGGAGATTAGAAT
* * * **
6898152 AAAACTTTAAACATAAAAAATAAATAATGAATAAAGCCAAAGATTATAACTATAATTTAAAGGAT
1 AAAACTTTAAACATAAAAAATAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACAT
** *
6898217 AAACAAGAAA-GAAAAAAAAAACATGGATAAACTCGAAAAAAA
66 AAACAAGAAAGGAAAAAAAAAACAAAGACAAACTCGAAAAAAA
6898259 ATTTCCACCA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
127 24 0.26
129 67 0.74
ACGTcount: A:0.59, C:0.10, G:0.11, T:0.19
Consensus pattern (128 bp):
AAAACTTTAAACATAAAAAATAAATAATGAATAAAGACAAACATTACAACTATAATTTAAAACAT
AAACAAGAAAGGAAAAAAAAAACAAAGACAAACTCGAAAAAAATCTGCACCGGAGATTAGAAT
Found at i:6899254 original size:12 final size:12
Alignment explanation
Indices: 6899239--6899263 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6899229 TTAAAAAACT
6899239 AATATAATATAA
1 AATATAATATAA
6899251 AATATAATATAA
1 AATATAATATAA
6899263 A
1 A
6899264 TGCATATATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATATAATATAA
Found at i:6899813 original size:2 final size:2
Alignment explanation
Indices: 6899806--6899871 Score: 89
Period size: 2 Copynumber: 33.5 Consensus size: 2
6899796 TCACATTTGT
* * *
6899806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TG T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6899847 TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6899872 TAATAAATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6901376 original size:23 final size:23
Alignment explanation
Indices: 6901349--6901396 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6901339 GTTTGAATAT
** *
6901349 ATGTTAATTAACATGTTCATTTA
1 ATGTTAACAAACAAGTTCATTTA
*
6901372 ATGTTTACAAACAAGTTCATTTA
1 ATGTTAACAAACAAGTTCATTTA
6901395 AT
1 AT
6901397 ATATATACGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (23 bp):
ATGTTAACAAACAAGTTCATTTA
Found at i:6901494 original size:16 final size:16
Alignment explanation
Indices: 6901459--6901506 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
6901449 ATTTTGAAAT
*
6901459 TCTAAACAAAAAT-GA
1 TCTAAACAAAAATAAA
*
6901474 TCTAAACACAAATAAA
1 TCTAAACAAAAATAAA
* *
6901490 TCTAAAGATAAATAAA
1 TCTAAACAAAAATAAA
6901506 T
1 T
6901507 AAATAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.60, C:0.12, G:0.04, T:0.23
Consensus pattern (16 bp):
TCTAAACAAAAATAAA
Found at i:6902144 original size:24 final size:24
Alignment explanation
Indices: 6902076--6902144 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
6902066 AAAAATAAAT
* *
6902076 AATAATTT-TTAAATGATTACATA
1 AATAATTTATTAAATAATTATATA
* * *
6902099 AATAATTTATCAAAAAAATATATA
1 AATAATTTATTAAATAATTATATA
6902123 AATAATTTATTAAATAATTATA
1 AATAATTTATTAAATAATTATA
6902145 AAGTTACTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
23 8 0.22
24 29 0.78
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (24 bp):
AATAATTTATTAAATAATTATATA
Found at i:6904796 original size:22 final size:20
Alignment explanation
Indices: 6904759--6904800 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
6904749 TGAAAAATCG
6904759 AAAGTAAAGTTTAAATTATT
1 AAAGTAAAGTTTAAATTATT
6904779 AAAGTTAAAGTGTTAAATTATT
1 AAAG-TAAAGT-TTAAATTATT
6904801 GAGTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 6 0.30
22 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
AAAGTAAAGTTTAAATTATT
Found at i:6905526 original size:17 final size:19
Alignment explanation
Indices: 6905503--6905553 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
6905493 ATATAATATT
*
6905503 ATATTAATTTA-ATTT-TT
1 ATATTAATTTATATTTATC
*
6905520 TTATTAATTTATATTTATC
1 ATATTAATTTATATTTATC
6905539 ATATTAATTTATATT
1 ATATTAATTTATATT
6905554 AATTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 10 0.34
18 4 0.14
19 15 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTAATTTATATTTATC
Found at i:6905552 original size:10 final size:10
Alignment explanation
Indices: 6905496--6905562 Score: 70
Period size: 10 Copynumber: 7.0 Consensus size: 10
6905486 TGAGATGATA
6905496 TAATATTATAT
1 TAAT-TTATAT
6905507 TAATTTA-AT
1 TAATTTATAT
*
6905516 T--TTTTTAT
1 TAATTTATAT
6905524 TAATTTATAT
1 TAATTTATAT
* *
6905534 TTA-TCATAT
1 TAATTTATAT
6905543 TAATTTATAT
1 TAATTTATAT
6905553 TAATTTATAT
1 TAATTTATAT
6905563 AGGTGAGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
7 3 0.07
8 3 0.07
9 10 0.22
10 26 0.57
11 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
TAATTTATAT
Found at i:6905798 original size:15 final size:16
Alignment explanation
Indices: 6905761--6905801 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
6905751 TTAATATTAA
6905761 AAAATTT-TAGATATT
1 AAAATTTATAGATATT
*
6905776 AAATATTTATA-ATTTT
1 AAA-ATTTATAGATATT
6905792 AAAATTTATA
1 AAAATTTATA
6905802 TTTCCACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AAAATTTATAGATATT
Found at i:6906297 original size:22 final size:21
Alignment explanation
Indices: 6906246--6906297 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
6906236 CCAAACCCAC
* * *
6906246 TTAAATCTATTTTTTATTTTT
1 TTAAATTTATTTATTATTTTA
*
6906267 TTATTATTTATTTATTATTATTA
1 TTA-AATTTATTTATTATT-TTA
6906290 TTAAATTT
1 TTAAATTT
6906298 TTTTCCTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 3 0.12
22 16 0.67
23 5 0.21
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTAAATTTATTTATTATTTTA
Found at i:6910799 original size:17 final size:17
Alignment explanation
Indices: 6910773--6910814 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
6910763 TCTTAAATAA
*
6910773 TTTT-TTTTCACTTTTT
1 TTTTCTTTTCAATTTTT
6910789 TTTTCTTTTCAATTTTT
1 TTTTCTTTTCAATTTTT
*
6910806 TTCTCTTTT
1 TTTTCTTTT
6910815 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTCAATTTTT
Found at i:6910828 original size:10 final size:10
Alignment explanation
Indices: 6910801--6910861 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
6910791 TTCTTTTCAA
*
6910801 TTTTTTTCTC
1 TTTTTTTTTC
6910811 TTTTTTTTTC
1 TTTTTTTTTC
6910821 TTTTTTTTTAC
1 TTTTTTTTT-C
*
6910832 TTTTCATTTTC
1 TTTT-TTTTTC
*
6910843 ATTTTTTTTC
1 TTTTTTTTTC
6910853 TTTTTTTTT
1 TTTTTTTTT
6910862 GAAAGCAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
10 31 0.70
11 9 0.20
12 4 0.09
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:6910841 original size:27 final size:25
Alignment explanation
Indices: 6910773--6910861 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 25
6910763 TCTTAAATAA
6910773 TTTTTTTTCACTTTTTTTTTCTTTTCAAT
1 TTTTTTTTCA-TTTTTTTTTCTTTT---T
*
6910802 TTTTTTCTC-TTTTTTTTTCTTTTT
1 TTTTTTTTCATTTTTTTTTCTTTTT
*
6910826 TTTTACTTTTCATTTTCATTTTT-TTTCT
1 TTTT--TTTTCATTTT--TTTTTCTTTTT
6910854 TTTTTTTT
1 TTTTTTTT
6910862 GAAAGCAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
24 5 0.10
26 8 0.15
27 18 0.35
28 8 0.15
29 13 0.25
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTTTTTCATTTTTTTTTCTTTTT
Found at i:6911766 original size:13 final size:13
Alignment explanation
Indices: 6911748--6911772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6911738 ATGCTGCACA
6911748 GTATCGATACATT
1 GTATCGATACATT
6911761 GTATCGATACAT
1 GTATCGATACAT
6911773 GACCAAATGT
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:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:6911785 original size:20 final size:21
Alignment explanation
Indices: 6911760--6911812 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
6911750 ATCGATACAT
**
6911760 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
6911780 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
6911801 TGTATCGATACA
1 TGTATCGATACA
6911813 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:6911785 original size:33 final size:32
Alignment explanation
Indices: 6911727--6911790 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
6911717 CACATTTAAA
*
6911727 TGTATCGATACATGCTGCACAGTATCGATACAT
1 TGTATCGATACATGC-GCAAAGTATCGATACAT
6911760 TGTATCGATACATGAC-CAAATGTATCGATAC
1 TGTATCGATACATG-CGCAAA-GTATCGATAC
6911791 TTGAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 3 0.11
33 24 0.86
34 1 0.04
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATGCGCAAAGTATCGATACAT
Found at i:6911882 original size:13 final size:13
Alignment explanation
Indices: 6911864--6911888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6911854 ACACACAGTA
6911864 TGTATCGATACAT
1 TGTATCGATACAT
6911877 TGTATCGATACA
1 TGTATCGATACA
6911889 CCATAAAATG
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6911885 original size:32 final size:33
Alignment explanation
Indices: 6911844--6911911 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
6911834 GTAGCCAAAC
**
6911844 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
6911876 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
6911909 TTG
1 TTG
6911912 GCTTGTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:6918228 original size:22 final size:21
Alignment explanation
Indices: 6918185--6918225 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
6918175 CAAATTTCTT
6918185 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAATACATC
6918207 GTTTTTCA-TCAAAAT-CATC
1 GTTTTTCACTCAAAATACATC
6918226 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTTTTCACTCAAAATACATC
Found at i:6918520 original size:20 final size:20
Alignment explanation
Indices: 6918488--6918539 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
6918478 CCCCTAAGCA
6918488 GCACCCACCAGGTCGCAACCG
1 GCACCC-CCAGGTCGCAACCG
6918509 GCACCCCCAGGTCGCAACCG
1 GCACCCCCAGGTCGCAACCG
6918529 GACAGCCCCCA
1 G-CA-CCCCCA
6918540 CACTAGCAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.52
21 8 0.28
22 6 0.21
ACGTcount: A:0.23, C:0.50, G:0.23, T:0.04
Consensus pattern (20 bp):
GCACCCCCAGGTCGCAACCG
Found at i:6920522 original size:13 final size:13
Alignment explanation
Indices: 6920504--6920528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6920494 ATGTTGCACA
6920504 GTATCGATACATT
1 GTATCGATACATT
6920517 GTATCGATACAT
1 GTATCGATACAT
6920529 GACCAATGTA
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:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:6920637 original size:13 final size:13
Alignment explanation
Indices: 6920619--6920643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6920609 ACACACAGTA
6920619 TGTATCGATACAT
1 TGTATCGATACAT
6920632 TGTATCGATACA
1 TGTATCGATACA
6920644 CCATAAAATG
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:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6920640 original size:32 final size:33
Alignment explanation
Indices: 6920599--6920666 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
6920589 GTAGCCAAAC
**
6920599 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
6920631 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
6920664 TTG
1 TTG
6920667 GCTTGTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:6921871 original size:41 final size:41
Alignment explanation
Indices: 6921826--6921925 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
6921816 CTTTTATTTT
* * * *
6921826 ATAAGGCATGAGCACGTTAATAAAACAAAAGCTCTCGTTTA
1 ATAAGGCGTGGGCACGCTAAGAAAACAAAAGCTCTCGTTTA
* * * * *
6921867 ATAAGGTGTGGGCATGCTAAGAAAACATAAGCTTTCGTTTG
1 ATAAGGCGTGGGCACGCTAAGAAAACAAAAGCTCTCGTTTA
6921908 ATAAGGCGTGGGCACGCT
1 ATAAGGCGTGGGCACGCT
6921926 CTATGAAAAG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (41 bp):
ATAAGGCGTGGGCACGCTAAGAAAACAAAAGCTCTCGTTTA
Found at i:6925291 original size:24 final size:23
Alignment explanation
Indices: 6925244--6925292 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
6925234 CACCATTGTC
*
6925244 TATTTATTTTAAAAATATATAAT
1 TATTTATTTTAAAAATATAAAAT
6925267 TATTTATTTTATAAAA-ATTAAAAT
1 TATTTATTTTA-AAAATA-TAAAAT
6925291 TA
1 TA
6925293 ATAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTTATTTTAAAAATATAAAAT
Found at i:6929367 original size:51 final size:50
Alignment explanation
Indices: 6929302--6929446 Score: 193
Period size: 49 Copynumber: 2.9 Consensus size: 50
6929292 TTTTAACTAG
** * *
6929302 ATGTATCGGCACATTGAAAAATGTATCAATACATCTGGGTAAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAGA-A
* * * * *
6929353 ATGTATTGATACATTGAAAAATATATCGATACATATAGG-AACAAAAGAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAGAA
6929402 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
6929447 TGTGACTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 36 0.46
50 11 0.14
51 32 0.41
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAGAA
Found at i:6930519 original size:16 final size:17
Alignment explanation
Indices: 6930490--6930551 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 17
6930480 TAAAAATTTG
6930490 AATCATTTCT-AGTTTA
1 AATCATTTCTAAGTTTA
*
6930506 TATCATTT-TAAGTTTA
1 AATCATTTCTAAGTTTA
* *
6930522 AATTATTT-TGAGTTTA
1 AATCATTTCTAAGTTTA
* *
6930538 GAT-ATTTGTAAGTT
1 AATCATTTCTAAGTT
6930552 GATACTCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
15 5 0.13
16 33 0.87
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (17 bp):
AATCATTTCTAAGTTTA
Found at i:6931573 original size:20 final size:21
Alignment explanation
Indices: 6931534--6931573 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6931524 TATATACTAA
*
6931534 TATGATACGACATGACATGAT
1 TATGATACGACATAACATGAT
6931555 TATGATACGA-ATAACATGA
1 TATGATACGACATAACATGA
6931574 AAGATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
TATGATACGACATAACATGAT
Found at i:6934133 original size:45 final size:45
Alignment explanation
Indices: 6934059--6934151 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
6934049 TATCATCAAA
6934059 CATAAAACAAACTCAAAGACAAGGCACTAAAACAACATGAAAATG
1 CATAAAACAAACTCAAAGACAAGGCACTAAAACAACATGAAAATG
* ** * *
6934104 CATACAACAAACTCAAATCCAAGGTACTAAAAGAACATGAAAATG
1 CATAAAACAAACTCAAAGACAAGGCACTAAAACAACATGAAAATG
6934149 CAT
1 CAT
6934152 GAGTCCATGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.55, C:0.20, G:0.11, T:0.14
Consensus pattern (45 bp):
CATAAAACAAACTCAAAGACAAGGCACTAAAACAACATGAAAATG
Found at i:6934781 original size:13 final size:13
Alignment explanation
Indices: 6934763--6934789 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6934753 ATATTATGCT
6934763 TTGTATCGATACA
1 TTGTATCGATACA
6934776 TTGTATCGATACA
1 TTGTATCGATACA
6934789 T
1 T
6934790 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:6936490 original size:9 final size:9
Alignment explanation
Indices: 6936476--6936509 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6936466 GTCAACCATC
6936476 AAAGATGAT
1 AAAGATGAT
6936485 AAAGATGAT
1 AAAGATGAT
*
6936494 AATGATGAT
1 AAAGATGAT
*
6936503 AATGATG
1 AAAGATG
6936510 TTGACTCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (9 bp):
AAAGATGAT
Found at i:6936951 original size:17 final size:16
Alignment explanation
Indices: 6936929--6936969 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
6936919 AGAAGAAAAT
6936929 AAATGAAAATCTATTGA
1 AAATGAAAATC-ATTGA
*
6936946 AAATG-AAATCCTTGA
1 AAATGAAAATCATTGA
6936961 AAA-GAAAAT
1 AAATGAAAAT
6936970 TATCGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 11 0.50
16 5 0.23
17 5 0.23
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.24
Consensus pattern (16 bp):
AAATGAAAATCATTGA
Found at i:6942582 original size:33 final size:33
Alignment explanation
Indices: 6942540--6942608 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
6942530 AGTTGATCAC
*
6942540 TTCACTTTCGCAGCACATGGATGAGCACTTTAG
1 TTCACTTTCGCAGCACATGGATGAGAACTTTAG
**
6942573 TTCACTTTCGCAGTGCATGGATGAGAACTTTAG
1 TTCACTTTCGCAGCACATGGATGAGAACTTTAG
6942606 TTC
1 TTC
6942609 TCTTAACCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (33 bp):
TTCACTTTCGCAGCACATGGATGAGAACTTTAG
Found at i:6943408 original size:21 final size:22
Alignment explanation
Indices: 6943368--6943408 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6943358 GTCATGAACA
**
6943368 AATGTTTTTAAGCTTCAAATCG
1 AATGTTTTTAAGCTAAAAATCG
6943390 AATGTTTTTAAG-TAAAAAT
1 AATGTTTTTAAGCTAAAAAT
6943409 ACTTCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.41
Consensus pattern (22 bp):
AATGTTTTTAAGCTAAAAATCG
Found at i:6950154 original size:123 final size:123
Alignment explanation
Indices: 6949926--6950174 Score: 390
Period size: 123 Copynumber: 2.0 Consensus size: 123
6949916 AAATGACATC
* * *
6949926 AAGACATTAAAACAATCCTAAAACTACCACATCCAAGGCCATAATAGTGTATGATGATCTTAAGA
1 AAGACATTAAAACAATCCTAAAACTACCACATCCAAGGCCACAATAGTGCATGAAGATCTTAAGA
* *
6949991 GGGTCGTGAAAGCATGCTAGGTTCACTAAAATGATCGCAATGATAAAACAGAAAATGA
66 GGGTCATGAAAGCATGCTAGGCTCACTAAAATGATCGCAATGATAAAACAGAAAATGA
* * *
6950049 AAGAGATTAAAACAATGCTAAAACTACCACATTCAAGGCCACAATAGTGCATGAAGATCTTAAGA
1 AAGACATTAAAACAATCCTAAAACTACCACATCCAAGGCCACAATAGTGCATGAAGATCTTAAGA
* * * *
6950114 GGGTCATGGAAGCATGTTAGGCTCACTAGAATGATGGCAATGATAAAACAGAAAATGA
66 GGGTCATGAAAGCATGCTAGGCTCACTAAAATGATCGCAATGATAAAACAGAAAATGA
6950172 AAG
1 AAG
6950175 TGGCAAGTTC
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 114 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (123 bp):
AAGACATTAAAACAATCCTAAAACTACCACATCCAAGGCCACAATAGTGCATGAAGATCTTAAGA
GGGTCATGAAAGCATGCTAGGCTCACTAAAATGATCGCAATGATAAAACAGAAAATGA
Found at i:6951020 original size:19 final size:20
Alignment explanation
Indices: 6950996--6951043 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
6950986 AAGGTCCAGC
*
6950996 ATCGATACATTTACTAATG-
1 ATCGATACATTCACTAATGT
*
6951015 ATCGATACATTCACTTATGT
1 ATCGATACATTCACTAATGT
6951035 ATCGATACA
1 ATCGATACA
6951044 AATTGTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (20 bp):
ATCGATACATTCACTAATGT
Found at i:6953807 original size:229 final size:232
Alignment explanation
Indices: 6953384--6953852 Score: 676
Period size: 229 Copynumber: 2.0 Consensus size: 232
6953374 GTACTTTTTG
* * *
6953384 ATTTTATTCGTACTTTATTATATCAAAACCAAGATCCTAACAATCCTCTTTTTTTGATATAACAA
1 ATTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAATCCCCATTTTTTGATATAACAA
6953449 AACTTTAAAAATAAATTTGGTTGACTTTTACTCGCTATCGATTGTATATCGATTGTATAAATTTC
66 AACTTTAAAAATAAATTTGGTTGACTTTTACTC-CTATC-----T-TATCGATTGTATAAATTTC
6953514 ACATATGCATTTTCGAAAAGCGTTTATAACCATACCAATTATTTCAAGCTTGTGTACAATCATTC
124 ACATATGCATTTTCGAAAAGCGTTTATAACCATACCAATTATTTCAAGCTTGTGTACAATCATTC
* *
6953579 TCTTCGTATCAACAAGATTCGTAACCTGTATTATGATATTCACA
189 TCTTCGCATCAACAAGATTCGTAACCTGAATTATGATATTCACA
*
6953623 ATTTTATTCATACTTTGTTATATCAAAACCAAGATCCTAACAATCTCCCATTTTTTGATATAACA
1 ATTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAATC-CCCATTTTTTGATATAACA
*
6953688 AAACTTTAAACATAAATTTGGTTGACTTTTACT-C-A-C-TATCGATTGTATAAATTTCACATAT
65 AAACTTTAAAAATAAATTTGGTTGACTTTTACTCCTATCTTATCGATTGTATAAATTTCACATAT
* ** * ** * * *
6953749 GTATTTTTTAAAAGCTTTTATAACTTTATCGATTATTTCAAGCTTGTGTACAATCATTCTTTTCG
130 GCATTTTCGAAAAGCGTTTATAACCATACCAATTATTTCAAGCTTGTGTACAATCATTCTCTTCG
* *
6953814 CATCAACCAGATTCGTAACCTGAATTCTGATATTCACA
195 CATCAACAAGATTCGTAACCTGAATTATGATATTCACA
6953852 A
1 A
6953853 CTCAAGAAAC
Statistics
Matches: 211, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
229 116 0.55
236 1 0.00
237 1 0.00
238 1 0.00
239 43 0.20
240 49 0.23
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (232 bp):
ATTTTATTCATACTTTATTATATCAAAACCAAGATCCTAACAATCCCCATTTTTTGATATAACAA
AACTTTAAAAATAAATTTGGTTGACTTTTACTCCTATCTTATCGATTGTATAAATTTCACATATG
CATTTTCGAAAAGCGTTTATAACCATACCAATTATTTCAAGCTTGTGTACAATCATTCTCTTCGC
ATCAACAAGATTCGTAACCTGAATTATGATATTCACA
Found at i:6954107 original size:36 final size:36
Alignment explanation
Indices: 6954059--6954130 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
6954049 AAATTTCTAA
6954059 AACAAATATCTCCCTCTTTTTGTTATTAAAACAAAT
1 AACAAATATCTCCCTCTTTTTGTTATTAAAACAAAT
* *
6954095 AACAAATCTCTCCCTCTTTTTGTTTTTAAAACAAAT
1 AACAAATATCTCCCTCTTTTTGTTATTAAAACAAAT
6954131 TTATATTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (36 bp):
AACAAATATCTCCCTCTTTTTGTTATTAAAACAAAT
Found at i:6956366 original size:20 final size:21
Alignment explanation
Indices: 6956341--6956389 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
6956331 TTTGTTGATA
*
6956341 ATTTTGATG-GAAAATGAAGT
1 ATTTTGAAGTGAAAATGAAGT
*
6956361 ATTTTGAAGTGAAAATGAAGA
1 ATTTTGAAGTGAAAATGAAGT
*
6956382 AATTTGAA
1 ATTTTGAA
6956390 AAAGATTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.45, C:0.00, G:0.22, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTGAAAATGAAGT
Found at i:6961801 original size:28 final size:28
Alignment explanation
Indices: 6961747--6961812 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
6961737 ATATAAAGTT
**
6961747 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCAAGGAAATAAC
* *
6961775 GGGGTTGGAGTATCCCCAATGACATAAC
1 GGGGTTGGAGTATCCCCAAGGAAATAAC
*
6961803 GAGGTTGGAG
1 GGGGTTGGAG
6961813 CACCCTCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCAAGGAAATAAC
Found at i:6961880 original size:108 final size:108
Alignment explanation
Indices: 6961638--6962046 Score: 484
Period size: 108 Copynumber: 3.8 Consensus size: 108
6961628 AAATAAAATC
* * * * * *
6961638 GGGGTTGGAGTATCCCCTCGAAAATAGCAGGATTGGAGTATCCCTGATGACATAATGGGGTTGAA
1 GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGA
* * * *
6961703 GTACCCCCCGATCATGAAAAAATCAATATTTTGGATATAAAGTT
66 GTACCCCTCAATTATGAAAAAATCAATATTTT-GATATAAAGCT
* * * * *
6961747 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGACATAACGAGGTTGGA
1 GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGA
*
6961812 GCA-CCCTCAATTATGAAAAAATCAATATTTTAGATATAAAGCT
66 GTACCCCTCAATTATGAAAAAATCAATATTTT-GATATAAAGCT
* *
6961855 GGGGTTGGAGTATCCCTTCGAAAATAACAGGGTTGGAGTATCCCTGATGAAATAACGGGGTTGGA
1 GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGA
* * ** * * * *
6961920 GTATCCC-CGATTATG-AAAAATTGATATTTTGAAAAGAAAACC
66 GTACCCCTCAATTATGAAAAAATCAATATTTTG-ATATAAAGCT
* * *
6961962 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAGCGGGGTTGGA
1 GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGA
* *
6962027 GTATCTC-CAATTATGAAAAA
66 GTACCCCTCAATTATGAAAAA
6962047 TTGGTGTTTT
Statistics
Matches: 260, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
106 1 0.00
107 92 0.35
108 106 0.41
109 61 0.23
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (108 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGA
GTACCCCTCAATTATGAAAAAATCAATATTTTGATATAAAGCT
Found at i:6961896 original size:28 final size:27
Alignment explanation
Indices: 6961856--6961926 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 27
6961846 TATAAAGCTG
6961856 GGGTTGGAGTATCCCTTCGA-AAATAACA
1 GGGTTGGAGTATCCC-T-GAGAAATAACA
*
6961884 GGGTTGGAGTATCCCTGATGAAATAACG
1 GGGTTGGAGTATCCCTGA-GAAATAACA
6961912 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
6961927 CGATTATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 37 0.93
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (27 bp):
GGGTTGGAGTATCCCTGAGAAATAACA
Found at i:6961994 original size:28 final size:28
Alignment explanation
Indices: 6961961--6962031 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
6961951 AAAAGAAAAC
**
6961961 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* *
6961989 CGGGGTTGGAGTATCCCCGATGAAATAG
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
6962017 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
6962032 TCCAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:6961995 original size:107 final size:107
Alignment explanation
Indices: 6961561--6962085 Score: 540
Period size: 107 Copynumber: 4.9 Consensus size: 107
6961551 GTAAAATCAA
** *
6961561 GGTTGGAGTATCCCCTCG--GAAATAATAGGGTTGGAGTATCCCTGATTAT-AGAAAATTGATAT
1 GGTTGGAGTAT-CCCT-GATGAAATAACGGGGTTGGAGTATCCCCGATTATGA-AAAATTGATAT
** *
6961623 TTCAAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAGCAG
63 TTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAG
* * * * * * **
6961668 GATTGGAGTATCCCTGATGACATAATGGGGTTGAAGTACCCCCCGATCATGAAAAAATCAATATT
1 GGTTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTA-TCCCCGATTATG-AAAAATTGATATT
* * * * * *
6961733 TTGGATATAAAGTTGGGGTTGGAGTATCCCCTCGGAAATAACGG
64 TTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAG
** * * * * **
6961777 GGTTGGAGTATCCCCAATGACATAACGAGGTTGGAGCA-CCCTCAATTATGAAAAAATCAATATT
1 GGTTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTATCCC-CGATTATG-AAAAATTGATATT
* * *
6961841 TT--AGATATAAAGCTGGGGTTGGAGTATCCCTTCGAAAATAACAG
64 TTGAAAATA-AAATC-GGGGTTGGAGTATCCCCTCGAAAATAACAG
6961885 GGTTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
1 GGTTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
* * * *
6961950 GAAAAGAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGG
66 GAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAG
* * * * * *
6961992 GGTTGGAGTATCCCCGATGAAATAGCGGGGTTGGAGTATCTCCAATTATGAAAAATTGGTGTTTT
1 GGTTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
* *
6962057 GGAAATAAAATCGGAGTTGGAGTATCCCC
66 GAAAATAAAATCGGGGTTGGAGTATCCCC
6962086 GATTGCGGTA
Statistics
Matches: 349, Mismatches: 58, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
105 1 0.00
106 8 0.02
107 156 0.45
108 101 0.29
109 82 0.23
110 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
GGTTGGAGTATCCCTGATGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTT
GAAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACAG
Found at i:6962182 original size:51 final size:51
Alignment explanation
Indices: 6962021--6962199 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
6962011 AAATAGCGGG
* * * *
6962021 GTTGGAGTATCTCCAATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
** ** * * *
6962072 GTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* ** *
6962123 GTTAGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGGAACCGG-
1 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* *
6962173 GATTGGAGTATCCCTGA-GAAGAAAAAT
1 G-TTGGAGTATCCCCGATTAAGAAAAAT
6962200 CTAGAAATTT
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
50 10 0.10
51 93 0.90
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:6964509 original size:20 final size:19
Alignment explanation
Indices: 6964484--6964660 Score: 114
Period size: 20 Copynumber: 8.8 Consensus size: 19
6964474 AAACTGCCTG
*
6964484 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
6964504 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
6964524 AATGTATCGAT---AT---
1 AATGTATCGATACAATGAA
*
6964537 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
6964557 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
* *
6964577 AATGTATCGATATATCTAGGTAAACCCA
1 AATGTATCG--ATA-C-A-AT-GA---A
*
6964605 GAATGTATCGATACAATGAGC
1 -AATGTATCGATACAATGA-A
6964626 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
6964645 CAATGTATCGATACAA
1 -AATGTATCGATACAA
6964661 ATTGTGAAAA
Statistics
Matches: 127, Mismatches: 10, Indels: 40
0.72 0.06 0.23
Matches are distributed among these distances:
13 11 0.09
16 2 0.02
17 2 0.02
19 1 0.01
20 86 0.68
21 1 0.01
22 3 0.02
23 2 0.02
24 2 0.02
25 3 0.02
26 1 0.01
27 3 0.02
28 1 0.01
29 9 0.07
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:6964546 original size:33 final size:33
Alignment explanation
Indices: 6964504--6964573 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
6964494 TACATTGTAA
*
6964504 AATGTATCGATACAATGAGCAATGTATCGATAT
1 AATGTATCGATACAATGAGCAATGTATCGATAC
6964537 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
6964570 AATG
1 AATG
6964574 CAAAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:6964546 original size:53 final size:52
Alignment explanation
Indices: 6964484--6964642 Score: 166
Period size: 53 Copynumber: 3.1 Consensus size: 52
6964474 AAACTGCCTG
*
6964484 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGCAATGTATCGATAT
1 AATGTATCGATACAATG-AAAATGTATCGATACAATGAGCAATGTATCGATAT
* *
6964537 AATGTATCGATACAATGAGCAATGTATCGATACAATGCA-AAATGTATCGATAT
1 AATGTATCGATACAATGA-AAATGTATCGATACAATG-AGCAATGTATCGATAT
* * ** * *
6964590 -ATCTA--GGTA-AACCCAGAATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAA-TGAAAATGTATCGATACAATGAGCAATGTATCGATAT
6964639 AATG
1 AATG
6964643 AACAATGTAT
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
48 1 0.01
49 31 0.34
50 6 0.07
52 5 0.06
53 46 0.51
54 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (52 bp):
AATGTATCGATACAATGAAAATGTATCGATACAATGAGCAATGTATCGATAT
Found at i:6964572 original size:13 final size:13
Alignment explanation
Indices: 6964523--6964553 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6964513 ATACAATGAG
6964523 CAATGTATCGATA
1 CAATGTATCGATA
*
6964536 TAATGTATCGATA
1 CAATGTATCGATA
6964549 CAATG
1 CAATG
6964554 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:6968045 original size:50 final size:50
Alignment explanation
Indices: 6967970--6968069 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
6967960 AAAAGAGAAA
*
6967970 ACTCAACACAAATGTTTATAGAGATTCGGTCGAAACATGGCACCTACATC
1 ACTCAACACAAATGTTTATAGAGATTCGGTCCAAACATGGCACCTACATC
6968020 ACTCAACACAAATGTTTATAGAGATTCGGTCCAAACATGGCACCTACATC
1 ACTCAACACAAATGTTTATAGAGATTCGGTCCAAACATGGCACCTACATC
6968070 CTCTTTTCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (50 bp):
ACTCAACACAAATGTTTATAGAGATTCGGTCCAAACATGGCACCTACATC
Found at i:6968674 original size:33 final size:33
Alignment explanation
Indices: 6968630--6968698 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
6968620 GTCGTTAGGC
* ** *
6968630 ACAATGTATCGATACTTTTTACCATGTATCGAT
1 ACAATGCATCGATACCATGTACCATGTATCGAT
*
6968663 ACAATGCATCGATACCATGTCCCATGTATCGAT
1 ACAATGCATCGATACCATGTACCATGTATCGAT
6968696 ACA
1 ACA
6968699 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (33 bp):
ACAATGCATCGATACCATGTACCATGTATCGAT
Found at i:6968774 original size:19 final size:19
Alignment explanation
Indices: 6968727--6968781 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
6968717 CTACCAATTT
* *
6968727 CATGTATCTATATAATTAAG
1 CATGTATCGATACAA-TAAG
* *
6968747 TATGCATCGATACAATAAG
1 CATGTATCGATACAATAAG
6968766 CATGTATCGATACAAT
1 CATGTATCGATACAAT
6968782 GCATAATGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACAATAAG
Found at i:6977047 original size:22 final size:23
Alignment explanation
Indices: 6977022--6977064 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
6977012 CCTCTCAATC
6977022 TCTTCAAGA-ATTAT-ACCCAAAT
1 TCTT-AAGATATTATAACCCAAAT
6977044 TCTTAAGATATTATAACCCAA
1 TCTTAAGATATTATAACCCAA
6977065 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (23 bp):
TCTTAAGATATTATAACCCAAAT
Found at i:6977496 original size:63 final size:63
Alignment explanation
Indices: 6977397--6977555 Score: 282
Period size: 63 Copynumber: 2.5 Consensus size: 63
6977387 TCTCGTTATT
6977397 ATGTATCGATACTTTTTATAATGTATCGATACATTCATTTGAAATTTATAGCCGCTGGGCACA
1 ATGTATCGATACTTTTTATAATGTATCGATACATTCATTTGAAATTTATAGCCGCTGGGCACA
* *
6977460 ATGTATCGATACTTTTTATAATGTATCAATACATTCATTTGAAATTTATAGCCGTTGGGCACA
1 ATGTATCGATACTTTTTATAATGTATCGATACATTCATTTGAAATTTATAGCCGCTGGGCACA
**
6977523 ATGTATCGATACTTTTTACCATGTATCGATACA
1 ATGTATCGATACTTTTTATAATGTATCGATACA
6977556 ATGTCTCATG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 91 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (63 bp):
ATGTATCGATACTTTTTATAATGTATCGATACATTCATTTGAAATTTATAGCCGCTGGGCACA
Found at i:6979291 original size:2 final size:2
Alignment explanation
Indices: 6979284--6979309 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6979274 CAATCGCAAA
6979284 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
6979310 TGAAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6980348 original size:21 final size:19
Alignment explanation
Indices: 6980314--6980362 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
6980304 AATATAAAAA
*
6980314 TTTAAATTAAAAATAAATTTT
1 TTTAAA-TAAAAAT-AATATT
*
6980335 TTTAAATAATAAATTATATT
1 TTTAAATAA-AAATAATATT
6980355 TTTAAATA
1 TTTAAATA
6980363 TGATAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAATAAAAATAATATT
Found at i:6980358 original size:20 final size:21
Alignment explanation
Indices: 6980333--6980372 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
6980323 AAAATAAATT
6980333 TTTTTAAATA-ATAAATTATA
1 TTTTTAAATAGATAAATTATA
6980353 TTTTTAAATATGATAAATTA
1 TTTTTAAATA-GATAAATTA
6980373 AATCAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTTAAATAGATAAATTATA
Found at i:6980924 original size:16 final size:16
Alignment explanation
Indices: 6980897--6980942 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
6980887 ATTATTTTTG
6980897 AATTTT-AATTATTTC
1 AATTTTAAATTATTTC
6980912 AATTTTAAATTATTTC
1 AATTTTAAATTATTTC
*
6980928 ACA-CTTAAATTATTT
1 A-ATTTTAAATTATTT
6980943 TAAATTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 6 0.21
16 21 0.75
17 1 0.04
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTAAATTATTTC
Found at i:6981574 original size:15 final size:15
Alignment explanation
Indices: 6981528--6981566 Score: 69
Period size: 16 Copynumber: 2.5 Consensus size: 15
6981518 TAATTTAGAT
6981528 TTTTTTAATTTTAAA
1 TTTTTTAATTTTAAA
6981543 TTATTTTAATTTTAAA
1 TT-TTTTAATTTTAAA
6981559 TTTTTTAA
1 TTTTTTAA
6981567 AATTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTAATTTTAAA
Found at i:6983167 original size:2 final size:2
Alignment explanation
Indices: 6983160--6983190 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6983150 TCTAATTTAT
6983160 TA TA 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 TA TA T
6983191 GTATGTTATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6983818 original size:20 final size:19
Alignment explanation
Indices: 6983773--6983835 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
6983763 AAATAATACA
6983773 ATATA-AAATATAACATAA-
1 ATATATAAATAT-ACATAAT
**
6983791 ATGCATAAATATATCATAAT
1 ATATATAAATATA-CATAAT
6983811 ATATATAAAT-TA-ATAAT
1 ATATATAAATATACATAAT
6983828 ATAT-TAAA
1 ATATATAAA
6983836 ATTTATATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 4 0.11
19 13 0.34
20 8 0.21
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
ATATATAAATATACATAAT
Found at i:6984007 original size:15 final size:16
Alignment explanation
Indices: 6983987--6984019 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6983977 ATTACTAAAA
6983987 TTACCTTTT-AATTAT
1 TTACCTTTTAAATTAT
6984002 TTACCTTTTAAATTAT
1 TTACCTTTTAAATTAT
6984018 TT
1 TT
6984020 TTATTTGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (16 bp):
TTACCTTTTAAATTAT
Found at i:6986601 original size:24 final size:24
Alignment explanation
Indices: 6986541--6986601 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
6986531 ATAATAAATG
* * * *
6986541 TTAAATGATTACATGAATAATTTG
1 TTAAATAATTATATAAATAATTTA
* * *
6986565 TCAAAAAAATATATAAATAATTTA
1 TTAAATAATTATATAAATAATTTA
6986589 TTAAATAATTATA
1 TTAAATAATTATA
6986602 AAGTTACTCA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (24 bp):
TTAAATAATTATATAAATAATTTA
Found at i:6990002 original size:16 final size:16
Alignment explanation
Indices: 6989983--6990045 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
6989973 TGAGATGATA
6989983 TTAATATTATATTAAT
1 TTAATATTATATTAAT
*
6989999 TTAATTTTATATTAAT
1 TTAATATTATATTAAT
*
6990015 TT-ATATT-TATT-GT
1 TTAATATTATATTAAT
6990028 ATTAAT-TTATATTAAT
1 -TTAATATTATATTAAT
6990044 TT
1 TT
6990046 TTGTAGGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.03
14 8 0.21
15 12 0.31
16 18 0.46
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTAATATTATATTAAT
Found at i:6990032 original size:19 final size:19
Alignment explanation
Indices: 6989987--6990040 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 19
6989977 ATGATATTAA
6989987 TATTATATTAATTTA-A-T
1 TATTATATTAATTTATATT
6990004 T-TTATATTAATTTATATT
1 TATTATATTAATTTATATT
*
6990022 TATTGTATTAATTTATATT
1 TATTATATTAATTTATATT
6990041 AATTTTTGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 13 0.39
17 2 0.06
18 2 0.06
19 16 0.48
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTATATTAATTTATATT
Found at i:6990256 original size:24 final size:24
Alignment explanation
Indices: 6990229--6990277 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6990219 TTATTTTATT
* *
6990229 TATTTAATATTAAAAATTTTTAAA
1 TATTAAATATTAAAAATTTTAAAA
* *
6990253 TATTAAATATTTATAATTTTAAAA
1 TATTAAATATTAAAAATTTTAAAA
6990277 T
1 T
6990278 TATATTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTAAATATTAAAAATTTTAAAA
Found at i:6994231 original size:58 final size:58
Alignment explanation
Indices: 6994158--6994271 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 58
6994148 AAAATATATG
* * * *
6994158 AAATTGCATTAAAGTTCCTAAATTATGAAAAGTGACTTAAATGATATCAAAATTCATA
1 AAATTGCATTAAAGTTCCTAAATCATGAAAAATGACCTAAATGACATCAAAATTCATA
* * *
6994216 AAATTGTATTCAAGTTCCTAGATCATGAAAAATGACCTAAATGACATCAAAATTCA
1 AAATTGCATTAAAGTTCCTAAATCATGAAAAATGACCTAAATGACATCAAAATTCA
6994272 AAATTCAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.31
Consensus pattern (58 bp):
AAATTGCATTAAAGTTCCTAAATCATGAAAAATGACCTAAATGACATCAAAATTCATA
Found at i:6994321 original size:72 final size:72
Alignment explanation
Indices: 6994204--6994343 Score: 212
Period size: 72 Copynumber: 1.9 Consensus size: 72
6994194 TTAAATGATA
* * *
6994204 TCAAAATTCATAAAATTGTATTCAAGTTCCTAGATCATGAAAAATGACCTAAATGACATCAAAAT
1 TCAAAATTCATAAAATTGCATTCAAGTTCCTAAATCATGAAAAATGACCAAAATGACATCAAAAT
6994269 TCAAAAT
66 TCAAAAT
*
6994276 TCAAAATTCATAAAATTGCA-TCAAAG-TCCTTAAATCATGGAAAATGACCAAAATGACATCAAA
1 TCAAAATTCATAAAATTGCATTC-AAGTTCC-TAAATCATGAAAAATGACCAAAATGACATCAAA
6994339 ATTCA
64 ATTCA
6994344 TAATATTACA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
71 5 0.08
72 57 0.92
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (72 bp):
TCAAAATTCATAAAATTGCATTCAAGTTCCTAAATCATGAAAAATGACCAAAATGACATCAAAAT
TCAAAAT
Found at i:6994513 original size:48 final size:47
Alignment explanation
Indices: 6994457--6994570 Score: 142
Period size: 48 Copynumber: 2.4 Consensus size: 47
6994447 TATGAAATAT
* *
6994457 CATAAAAATCCTTAAGTCATAGAAAATGGCTAAGATGACATAAAAATG-
1 CATAAAAATCC-TAAGTCATAGAAAATGGATAAAATGACAT-AAAATGA
* *
6994505 CATAAAAATCCCTAAGTCATAGAAAATGTATAAAATGACATGAAATGA
1 CATAAAAAT-CCTAAGTCATAGAAAATGGATAAAATGACATAAAATGA
*
6994553 CATAGAAA-CCTAAGTCAT
1 CATAAAAATCCTAAGTCAT
6994571 GGAACAAACA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
46 10 0.17
47 5 0.08
48 42 0.71
49 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (47 bp):
CATAAAAATCCTAAGTCATAGAAAATGGATAAAATGACATAAAATGA
Found at i:6997245 original size:25 final size:23
Alignment explanation
Indices: 6997201--6997246 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
6997191 TTGTTTTATT
*
6997201 TATTTTAAAAATATATAATTACA
1 TATTTTAAAAATATAAAATTACA
*
6997224 TATTTTATAAATAATTAAAATTA
1 TATTTTAAAAAT-A-TAAAATTA
6997247 AAAAATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 1 0.05
25 7 0.37
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTTTAAAAATATAAAATTACA
Found at i:6998014 original size:24 final size:25
Alignment explanation
Indices: 6997965--6998014 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6997955 ATCATCAAAT
* *
6997965 AAATTTATTTAATAAATAATTAAAA
1 AAATTTATTTAACAAAAAATTAAAA
6997990 AAATTTA-TTAACAATAAAATTAAAA
1 AAATTTATTTAACAA-AAAATTAAAA
6998015 TAATGATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATTTATTTAACAAAAAATTAAAA
Found at i:6998781 original size:16 final size:16
Alignment explanation
Indices: 6998762--6998823 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
6998752 AAATTAAAAA
* *
6998762 TTTAAATAATTTTTAG
1 TTTAAATTATTTTAAG
*
6998778 TTTATATTATTTTAAG
1 TTTAAATTATTTTAAG
* *
6998794 ATTAAATTATTTTGAG
1 TTTAAATTATTTTAAG
*
6998810 TTTAGA-TATTTTAA
1 TTTAAATTATTTTAA
6998824 AGTCGGCACT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
15 7 0.19
16 30 0.81
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
TTTAAATTATTTTAAG
Found at i:6998823 original size:31 final size:32
Alignment explanation
Indices: 6998763--6998823 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
6998753 AATTAAAAAT
* *
6998763 TTAAATAATTTTTAGTTTATATTATTTTAAGA
1 TTAAATAATTTTGAGTTTAGATTATTTTAAGA
*
6998795 TTAAATTATTTTGAGTTTAGA-TATTTTAA
1 TTAAATAATTTTGAGTTTAGATTATTTTAA
6998824 AGTCGGCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (32 bp):
TTAAATAATTTTGAGTTTAGATTATTTTAAGA
Found at i:6999336 original size:2 final size:2
Alignment explanation
Indices: 6999329--6999371 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6999319 ATTACAAAAT
6999329 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6999371 G
1 G
6999372 GCAGTGGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7001738 original size:21 final size:22
Alignment explanation
Indices: 7001691--7001742 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
7001681 GTTTATAAGC
7001691 AACTAATTTTAGAATGAATTAA
1 AACTAATTTTAGAATGAATTAA
7001713 AACTAATTTTAGAATGAATT-A
1 AACTAATTTTAGAATGAATTAA
7001734 AACTAATTT
1 AACTAATTT
7001743 GGGTGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
AACTAATTTTAGAATGAATTAA
Found at i:7010373 original size:32 final size:30
Alignment explanation
Indices: 7010337--7010395 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
7010327 GAAATCAAAT
7010337 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
7010369 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
7010396 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:7010693 original size:13 final size:13
Alignment explanation
Indices: 7010675--7010700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7010665 CAATTTTTTG
7010675 TGTATCGATACAT
1 TGTATCGATACAT
7010688 TGTATCGATACAT
1 TGTATCGATACAT
7010701 ACTTTGTGTA
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:7010712 original size:32 final size:33
Alignment explanation
Indices: 7010655--7010718 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
7010645 TACAAGCCAA
**
7010655 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
7010688 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
7010719 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:7012450 original size:15 final size:15
Alignment explanation
Indices: 7012430--7012460 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7012420 ATTTCGTTTG
*
7012430 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
7012445 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
7012460 G
1 G
7012461 GATAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:7016225 original size:32 final size:30
Alignment explanation
Indices: 7016189--7016247 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
7016179 GAAATCAAAT
7016189 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
7016221 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
7016248 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:7016545 original size:13 final size:13
Alignment explanation
Indices: 7016527--7016552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7016517 CAATTTTTTG
7016527 TGTATCGATACAT
1 TGTATCGATACAT
7016540 TGTATCGATACAT
1 TGTATCGATACAT
7016553 ACTTTGTGTA
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:7016564 original size:32 final size:33
Alignment explanation
Indices: 7016507--7016570 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
7016497 TACAAGCCAA
**
7016507 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
7016540 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
7016571 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:7023570 original size:13 final size:13
Alignment explanation
Indices: 7023552--7023576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7023542 AAATAGTACC
7023552 CAATGTATCGATA
1 CAATGTATCGATA
7023565 CAATGTATCGAT
1 CAATGTATCGAT
7023577 TCAAGGAATG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:7029725 original size:20 final size:19
Alignment explanation
Indices: 7029700--7029795 Score: 79
Period size: 20 Copynumber: 4.7 Consensus size: 19
7029690 GTTACAAGCT
7029700 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTC-TC
*
7029720 ATGTATCGATACATATCGATAC
1 ATGTATCGATACATTTC--T-C
7029742 AATGTATCGATACATTGTAC-C
1 -ATGTATCGATACATT-T-CTC
7029763 ATGTATCGATACATTGTAC-C
1 ATGTATCGATACATT-T-CTC
*
7029783 TTGTATCGATACA
1 ATGTATCGATACA
7029796 AATAGTGATA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
20 48 0.72
21 2 0.03
22 1 0.01
23 14 0.21
24 1 0.01
25 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACATTTCTC
Found at i:7029751 original size:13 final size:13
Alignment explanation
Indices: 7029720--7029760 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7029710 ACATTTCTTC
7029720 ATGTATCGATAC-
1 ATGTATCGATACA
7029732 A--TATCGATACA
1 ATGTATCGATACA
7029743 ATGTATCGATACA
1 ATGTATCGATACA
*
7029756 TTGTA
1 ATGTA
7029761 CCATGTATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 9 0.36
11 1 0.04
12 1 0.04
13 14 0.56
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7029884 original size:13 final size:13
Alignment explanation
Indices: 7029866--7029892 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7029856 TACAATGAAT
7029866 ATGTATCGATACA
1 ATGTATCGATACA
7029879 ATGTATCGATACA
1 ATGTATCGATACA
7029892 A
1 A
7029893 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7031873 original size:16 final size:16
Alignment explanation
Indices: 7031852--7031884 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7031842 AGCATAATAG
7031852 TCAAGGTTTCAAAAAT
1 TCAAGGTTTCAAAAAT
7031868 TCAAGGTTTCAAAAAT
1 TCAAGGTTTCAAAAAT
7031884 T
1 T
7031885 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (16 bp):
TCAAGGTTTCAAAAAT
Found at i:7034633 original size:34 final size:35
Alignment explanation
Indices: 7034557--7034660 Score: 124
Period size: 35 Copynumber: 3.0 Consensus size: 35
7034547 AATCTTACAA
* *
7034557 CCCTACCTTTTCATAGGCTAAGATAGAAACCT-TCT
1 CCCTATCTTTTCATAAGCTAAGATAG-AACCTCTCT
*
7034592 CCTTATCTTTTCATAAGCTAAGATAGAACCTCT-T
1 CCCTATCTTTTCATAAGCTAAGATAGAACCTCTCT
*
7034626 CCCTATCTATTTCA-AAGGCTAAAATAGAACCTCTC
1 CCCTATCT-TTTCATAA-GCTAAGATAGAACCTCTC
7034661 AATCACTTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 15 0.25
35 45 0.75
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (35 bp):
CCCTATCTTTTCATAAGCTAAGATAGAACCTCTCT
Found at i:7036570 original size:13 final size:13
Alignment explanation
Indices: 7036552--7036577 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7036542 CAATTTTTTG
7036552 TGTATCGATACAT
1 TGTATCGATACAT
7036565 TGTATCGATACAT
1 TGTATCGATACAT
7036578 ACTTGGTGTA
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:7036592 original size:32 final size:33
Alignment explanation
Indices: 7036532--7036595 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
7036522 TACAAGCCAA
** *
7036532 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
7036565 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
7036596 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:7039723 original size:97 final size:98
Alignment explanation
Indices: 7039502--7039770 Score: 287
Period size: 97 Copynumber: 2.8 Consensus size: 98
7039492 TCTCTCAGAG
* * *
7039502 GAATGGGGTT-AGAGTCTCTCCGACGATGATAATTTGAGCGAAAATAAGATTCAAATCTTGACAA
1 GAATGGGGTTGA-AGTATCTCCGATGATGATAATTTAAGCGAAAATAAGATTCAAATCTTGACAA
* * * *
7039566 ATTTTAAAAATAGGGCCGGAGTGTCCCCTTAGAG
65 AGTTTAAAAATAGGGCCAGAGTATCCCCTTAGAA
* * * * * *
7039600 GAATGAGGTTGAAGTATCCCCAATGATGATAATTTAAGCGAAAATAAGATTTAAAT-TTTA-ATG
1 GAATGGGGTTGAAGTATCTCCGATGATGATAATTTAAGCGAAAATAAGATTCAAATCTTGACA-A
* ** *
7039663 AGTTTAAAAGT-GGGATTAGAGTATCCCCTTGGAA
65 AGTTTAAAAATAGGG-CCAGAGTATCCCCTTAGAA
* *
7039697 GACTGGGGTTGAAGTGTCTCCGATGATGATAA-TTATAGCGAAAATAAGATTCAAATCTTGACAA
1 GAATGGGGTTGAAGTATCTCCGATGATGATAATTTA-AGCGAAAATAAGATTCAAATCTTGACAA
*
7039761 ATTTTAAAAA
65 AGTTTAAAAA
7039771 CGGTGATGGA
Statistics
Matches: 138, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
96 7 0.05
97 71 0.51
98 58 0.42
99 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (98 bp):
GAATGGGGTTGAAGTATCTCCGATGATGATAATTTAAGCGAAAATAAGATTCAAATCTTGACAAA
GTTTAAAAATAGGGCCAGAGTATCCCCTTAGAA
Found at i:7042373 original size:22 final size:22
Alignment explanation
Indices: 7042348--7042391 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7042338 TCTAATAATG
7042348 TAATGCTTGAAAAACATTGATT
1 TAATGCTTGAAAAACATTGATT
* *
7042370 TAATGCTTGACAAATATTGATT
1 TAATGCTTGAAAAACATTGATT
7042392 CAATACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
TAATGCTTGAAAAACATTGATT
Found at i:7045861 original size:21 final size:20
Alignment explanation
Indices: 7045812--7045862 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7045802 TTGAGACATT
* *
7045812 TATCGATACATTCACTTATG
1 TATCAATACATTCACTAATG
*
7045832 TATCGATACATTCACTAATTG
1 TATCAATACATTCACTAA-TG
*
7045853 TATTAATACA
1 TATCAATACA
7045863 AATTAGAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (20 bp):
TATCAATACATTCACTAATG
Done.