Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 34 of 333
Found at i:9439162 original size:33 final size:33
Alignment explanation
Indices: 9439054--9439173 Score: 91
Period size: 33 Copynumber: 3.6 Consensus size: 33
9439044 ACGGGCCGGG
* * * **
9439054 AGGAGTGGAGTAAGGCGGTGGATAC-AGACCGGG
1 AGGACTGGAGTAATGAGGTGGATACAAG-CCGAA
* * * * *
9439087 AGGAGTGGAGT-ACGAAGGTGGATACAGGCTGGA
1 AGGACTGGAGTAATG-AGGTGGATACAAGCCGAA
*
9439120 AGGAGTGGAGTAATGAGGTGGATACAAGCCGAA
1 AGGACTGGAGTAATGAGGTGGATACAAGCCGAA
* *
9439153 ATGACTGGAGTACTGAGGTGG
1 AGGACTGGAGTAATGAGGTGG
9439174 TAGTGGGCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.03
33 67 0.93
34 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.44, T:0.16
Consensus pattern (33 bp):
AGGACTGGAGTAATGAGGTGGATACAAGCCGAA
Found at i:9439162 original size:66 final size:66
Alignment explanation
Indices: 9439021--9439173 Score: 166
Period size: 66 Copynumber: 2.3 Consensus size: 66
9439011 TTGAGCCAGG
* * * * * * *
9439021 AGGAATGGAGTACAGCGGTGGATACGGGCCGGGAGGAGTGGAGTAAGGCGGTGGATACAGACCGG
1 AGGACTGGAGTACTGAGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACCGA
*
9439086 G
66 A
* * *
9439087 AGGAGTGGAGTAC-GAAGGTGGATACAGGCTGGAAGGAGTGGAGTAATGAGGTGGATACA-AGCC
1 AGGACTGGAGTACTG-AGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGA-CC
9439150 GAA
64 GAA
*
9439153 ATGACTGGAGTACTGAGGTGG
1 AGGACTGGAGTACTGAGGTGG
9439174 TAGTGGGCTG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
65 2 0.03
66 70 0.96
67 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.45, T:0.15
Consensus pattern (66 bp):
AGGACTGGAGTACTGAGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACCGA
A
Found at i:9441394 original size:51 final size:51
Alignment explanation
Indices: 9441316--9441526 Score: 352
Period size: 51 Copynumber: 4.2 Consensus size: 51
9441306 ACTTCTGATC
*
9441316 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
9441367 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
*
9441418 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* * *
9441469 AGTGATAAGT-ATAAGTGGTAGTTTTAGTTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
9441519 AGTGATAA
1 AGTGATAA
9441527 ATGTGATCAA
Statistics
Matches: 150, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 45 0.30
51 105 0.70
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
Found at i:9441478 original size:102 final size:101
Alignment explanation
Indices: 9441316--9441529 Score: 392
Period size: 102 Copynumber: 2.1 Consensus size: 101
9441306 ACTTCTGATC
* *
9441316 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGT-ATA
9441381 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
65 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
9441418 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTATAA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTATAA
*
9441483 GTGGTAGTTTTAGTTACACTTATCTGATCAGTGACA
66 GTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
9441519 AGTGATAAATG
1 AGTGATAAATG
9441530 TGATCAATGT
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 50 0.46
102 59 0.54
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (101 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTATAA
GTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:9444965 original size:60 final size:60
Alignment explanation
Indices: 9444886--9445069 Score: 323
Period size: 60 Copynumber: 3.1 Consensus size: 60
9444876 AATACTAAAC
* *
9444886 TAAACACAACAACTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
*
9444946 TAAACATAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
* *
9445006 GAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
9445066 TAAA
1 TAAA
9445070 AAAATTACAT
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 117 1.00
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.34
Consensus pattern (60 bp):
TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
Found at i:9444976 original size:27 final size:27
Alignment explanation
Indices: 9444946--9445036 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
9444936 AAAATAATTA
9444946 TAAACATAAAAATTTATAACATAATCC
1 TAAACATAAAAATTTATAACATAATCC
* **
9444973 TAAATTACTAATAAATTAATTT-TAAAATAATTA
1 T-AA--AC--ATAAA--AATTTATAACATAATCC
* *
9445006 GAAACACAAAAATTTATAACATAATCC
1 TAAACATAAAAATTTATAACATAATCC
9445033 TAAA
1 TAAA
9445037 TTACTAACAA
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
26 5 0.11
27 12 0.26
28 6 0.13
30 4 0.09
32 7 0.15
33 8 0.17
34 5 0.11
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (27 bp):
TAAACATAAAAATTTATAACATAATCC
Found at i:9445397 original size:21 final size:21
Alignment explanation
Indices: 9445359--9445399 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9445349 CCAAGCAGTA
* *
9445359 TACAGTGTAGTAGCAGAGGGG
1 TACAGTGCAGCAGCAGAGGGG
*
9445380 TACAGTGCAGCAGTAGAGGG
1 TACAGTGCAGCAGCAGAGGG
9445400 ACTCTTGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.41, T:0.17
Consensus pattern (21 bp):
TACAGTGCAGCAGCAGAGGGG
Found at i:9449662 original size:21 final size:19
Alignment explanation
Indices: 9449626--9449669 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9449616 TACTACGTTC
*
9449626 TATATATTTTTATATTATG
1 TATATATTTTAATATTATG
9449645 TATATATTTTAA-ATTAT-
1 TATATATTTTAATATTATG
9449662 TATATATT
1 TATATATT
9449670 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATTTTAATATTATG
Found at i:9449665 original size:17 final size:18
Alignment explanation
Indices: 9449626--9449669 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9449616 TACTACGTTC
*
9449626 TATATATTTTTATATTATG
1 TATATA-TTTTAAATTATG
9449645 TATATATTTTAAATTAT-
1 TATATATTTTAAATTATG
9449662 TATATATT
1 TATATATT
9449670 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTAAATTATG
Found at i:9449791 original size:11 final size:13
Alignment explanation
Indices: 9449763--9449847 Score: 54
Period size: 13 Copynumber: 6.6 Consensus size: 13
9449753 TCATTTCTAG
9449763 TATATGTATATAT
1 TATATGTATATAT
9449776 TATATGTA-AT-T
1 TATATGTATATAT
*
9449787 TATATATTATGTATAT
1 TATAT-GTA--TATAT
* *
9449803 TATTAT-T-TCTAG
1 TA-TATGTATATAT
9449815 TATATGTATATAT
1 TATATGTATATAT
* *
9449828 TATAGGTATATCT
1 TATATGTATATAT
9449841 T-TATGTA
1 TATATGTA
9449848 AAATTGGTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
11 9 0.16
12 15 0.27
13 23 0.41
15 3 0.05
16 3 0.05
17 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.54
Consensus pattern (13 bp):
TATATGTATATAT
Found at i:9450145 original size:18 final size:18
Alignment explanation
Indices: 9450086--9450221 Score: 195
Period size: 18 Copynumber: 7.6 Consensus size: 18
9450076 CAATGATATA
9450086 CAATCTTAGATATGATATG
1 CAATCTTAGATATGAT-TG
*
9450105 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTG
*
9450122 CAATCTTAGATATAATTG
1 CAATCTTAGATATGATTG
9450140 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTG
*
9450158 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTG
9450175 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTG
* *
9450193 CAATATTAGATATGATATA
1 CAATCTTAGATATGAT-TG
9450212 CAATCTTAGA
1 CAATCTTAGA
9450222 AGATATGATT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
17 31 0.30
18 49 0.47
19 25 0.24
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
CAATCTTAGATATGATTG
Found at i:9450149 original size:35 final size:37
Alignment explanation
Indices: 9450078--9450221 Score: 197
Period size: 35 Copynumber: 4.0 Consensus size: 37
9450068 ATAATCTTCA
*
9450078 ATGATATACAATCTTAGATATGATATGCAATCTTAGAT
1 ATGAT-TACAATCTTAGATATGATATACAATCTTAGAT
* *
9450116 ATGA-TACAATCTTAGATATAAT-TGCAATCTTAGAT
1 ATGATTACAATCTTAGATATGATATACAATCTTAGAT
*
9450151 ATGATTGCAATCTTAGATATG--ATACAATCTTAGAT
1 ATGATTACAATCTTAGATATGATATACAATCTTAGAT
* *
9450186 ATGATTGCAATATTAGATATGATATACAATCTTAGA
1 ATGATTACAATCTTAGATATGATATACAATCTTAGA
9450222 AGATATGATT
Statistics
Matches: 97, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
35 49 0.51
36 31 0.32
37 13 0.13
38 4 0.04
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (37 bp):
ATGATTACAATCTTAGATATGATATACAATCTTAGAT
Found at i:9450165 original size:53 final size:54
Alignment explanation
Indices: 9450086--9450221 Score: 238
Period size: 53 Copynumber: 2.5 Consensus size: 54
9450076 CAATGATATA
9450086 CAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATAATTG
1 CAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATAATTG
*
9450140 CAATCTTAGATATGAT-TGCAATCTTAGATATGATACAATCTTAGATATGATTG
1 CAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATAATTG
* *
9450193 CAATATTAGATATGATATACAATCTTAGA
1 CAATCTTAGATATGATATGCAATCTTAGA
9450222 AGATATGATT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 51 0.65
54 27 0.35
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (54 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATACAATCTTAGATATAATTG
Found at i:9450722 original size:17 final size:17
Alignment explanation
Indices: 9450700--9450766 Score: 75
Period size: 17 Copynumber: 3.9 Consensus size: 17
9450690 TCTAAACCAA
9450700 TATATAATATATTTTTT
1 TATATAATATATTTTTT
*
9450717 TATATAAT-TATTATTCT
1 TATATAATATATT-TTTT
9450734 TATA-AATATATTTTTTAT
1 TATATAATATA-TTTTT-T
*
9450752 TATATATTATATTTT
1 TATATAATATATTTT
9450767 AAATTTATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
16 7 0.17
17 19 0.45
18 11 0.26
19 5 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATAATATATTTTTT
Found at i:9450791 original size:26 final size:26
Alignment explanation
Indices: 9450743--9450792 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9450733 TTATAAATAT
* * * *
9450743 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
9450769 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
9450793 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:9453352 original size:9 final size:9
Alignment explanation
Indices: 9453322--9453364 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
9453312 AAATATAATA
*
9453322 AATAATAAT
1 AATAATAAC
*
9453331 AATAATAAT
1 AATAATAAC
9453340 AATAATAAC
1 AATAATAAC
*
9453349 AATAATAGC
1 AATAATAAC
9453358 AATAATA
1 AATAATA
9453365 GTAAAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (9 bp):
AATAATAAC
Found at i:9453364 original size:3 final size:3
Alignment explanation
Indices: 9453298--9453355 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
9453288 AAGTACCTAT
*
9453298 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
9453345 TAA CAA TAA TA
1 TAA TAA TAA TA
9453356 GCAATAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 1 0.02
3 40 0.85
4 6 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9453579 original size:3 final size:3
Alignment explanation
Indices: 9453571--9453755 Score: 71
Period size: 3 Copynumber: 59.7 Consensus size: 3
9453561 TACATAACAG
* *
9453571 TAA TAA TAA GTAA CAA TAA TAA TAA TAA T-A TAGA -AA TCAA AAA GTAAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TAA T-AA TAA -T-AA
* * *
9453619 TAA T-A TAA TGA T-A TAA AAA AAA TACA CT-A TAAA TAA TAA TAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA T-AA TAA TAA TAA TA-A
* * * * *
9453664 TAA TAA TAA TAA -AA AAA TAG TAT TAA GT-A TAG TAAA TAA TATG TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TA-A TA-A
* * *
9453711 TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA
9453756 TAGAAATTCA
Statistics
Matches: 139, Mismatches: 22, Indels: 42
0.68 0.11 0.21
Matches are distributed among these distances:
2 12 0.09
3 103 0.74
4 21 0.15
5 3 0.02
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:9453590 original size:16 final size:16
Alignment explanation
Indices: 9453565--9453595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9453555 AAAATGTACA
*
9453565 TAACAGTAATAATAAG
1 TAACAATAATAATAAG
9453581 TAACAATAATAATAA
1 TAACAATAATAATAA
9453596 TAATATAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
TAACAATAATAATAAG
Found at i:9453739 original size:19 final size:19
Alignment explanation
Indices: 9453711--9453747 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9453701 AATATGTACA
*
9453711 TAACAGTAATAATAATAAG
1 TAACAATAATAATAATAAG
9453730 TAACAATAATAATAATAA
1 TAACAATAATAATAATAA
9453748 TAATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
TAACAATAATAATAATAAG
Found at i:9455063 original size:1 final size:1
Alignment explanation
Indices: 9455057--9455233 Score: 336
Period size: 1 Copynumber: 177.0 Consensus size: 1
9455047 TATTTTATTA
*
9455057 TTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9455122 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
9455187 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9455234 GTAAATGTGA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
1 172 1.00
ACGTcount: A:0.00, C:0.01, G:0.00, T:0.99
Consensus pattern (1 bp):
T
Found at i:9471240 original size:75 final size:75
Alignment explanation
Indices: 9471155--9471307 Score: 193
Period size: 75 Copynumber: 2.0 Consensus size: 75
9471145 TAGTTGTCCC
* * * * *
9471155 ATAATTTTTTGGTGTTATAG-G-AATCAAGTTGACAATATGTTTGCAACGTGTTGACTGCTTCTA
1 ATAATTTTTTGATGTCAT-GTGAAAT-AAGTTGACAACATGTTCGCAACGTGTTGACTACTTCTA
9471218 TTAGGATTTTAT
64 TTAGGATTTTAT
* * *
9471230 ATAATTTTTTGATGTCATGTGAAATAGGTTGACAACATGTTCGCAACTTGTTGACTACTTTTATT
1 ATAATTTTTTGATGTCATGTGAAATAAGTTGACAACATGTTCGCAACGTGTTGACTACTTCTATT
*
9471295 AGGATTTTGT
66 AGGATTTTAT
9471305 ATA
1 ATA
9471308 TAAATTACTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 1 0.01
75 63 0.94
76 3 0.04
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (75 bp):
ATAATTTTTTGATGTCATGTGAAATAAGTTGACAACATGTTCGCAACGTGTTGACTACTTCTATT
AGGATTTTAT
Found at i:9471613 original size:37 final size:38
Alignment explanation
Indices: 9471499--9472240 Score: 469
Period size: 37 Copynumber: 20.3 Consensus size: 38
9471489 GAGGCAAAGA
* *
9471499 TCTATCCCAAC-CTTTTTTAAGTTTGCCTTAGAC-AGG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * * *
9471535 TTTA-CCCTAAC--CTTTTTAAGGTTGCTTTAGACGA-G
1 TCTATCCC-AACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * *
9471570 TTTATCCGAACTTTTTTTTAA-GTTGCCTTAGAAAAGG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * * *
9471607 TCTATCCCAAC--CTTTTTAGGGTTG-TTGTAAACAA-G
1 TCTATCCCAACTTTTTTTTAAGGTTGCCT-TAGACAAGG
* * * *
9471642 TCTAT-GCAAC--ATTTTTAACGTTGTCTTAGAC-AGG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * * * * * *
9471676 TCAATCCTAACCTTTTCTAAAAGTTGCCTTAGACAAGA
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * *
9471714 TTTATCCCAAC--CTTTTTAAGGTTACCTTAGACGAA--
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGAC-AAGG
* *
9471749 TCTATCCCAAC--CTTTTTAAGGTTGCTTTAGACAA-G
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* *
9471784 TCTATCCCAACCTTTTATTAAGGTTGCCTTAGACAA-G
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* *
9471821 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGAC-AGA
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * *
9471858 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATAAGG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* ** *
9471896 TTTAT-CCAACTTTTTTAAAAGGTTGCCTTAGATAAGG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* ** *
9471933 TCTAT-CCTACCCTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * * * * *
9471970 TCTATACTAAC--CTATTTAAGGTTGCCTTAGACGA-T
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* *
9472005 TCTATCCCAA-TCATTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACT-TTTTTTTAAGGTTGCCTTAGACAAGG
* * ** *
9472043 TTTATCACAA-TTTTTTTTAAATATTGCCTTAGATAAGG
1 TCTATCCCAACTTTTTTTT-AAGGTTGCCTTAGACAAGG
* * ** *
9472081 TCTATCCCAACTTTTTTTAAAAAGTTATCTTAGAC-TGG
1 TCTATCCCAACTTTTTTT-TAAGGTTGCCTTAGACAAGG
* *
9472119 TCTATCCCAAC--CTTTTTAAGGTTGCCTTAGAC-ATG
1 TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
* * ** *
9472154 TCTATCACAACCTTTTTCAAAGGTTGGCCTTA-ACTAGG
1 TCTATCCCAACTTTTTTTTAAGGTT-GCCTTAGACAAGG
* ** * * *
9472192 CCTATCCCAACCCTTTTTAAAGGTTGGTCTT-GACTAGG
1 TCTATCCCAACTTTTTTTTAAGGTT-GCCTTAGACAAGG
*
9472230 TCTTTCCCAAC
1 TCTATCCCAAC
9472241 CTTTCAATAA
Statistics
Matches: 565, Mismatches: 108, Indels: 64
0.77 0.15 0.09
Matches are distributed among these distances:
33 1 0.00
34 25 0.04
35 117 0.21
36 69 0.12
37 222 0.39
38 114 0.20
39 17 0.03
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (38 bp):
TCTATCCCAACTTTTTTTTAAGGTTGCCTTAGACAAGG
Found at i:9471701 original size:107 final size:108
Alignment explanation
Indices: 9471499--9472048 Score: 352
Period size: 107 Copynumber: 5.1 Consensus size: 108
9471489 GAGGCAAAGA
* * * * * * *
9471499 TCTATCCCAACCTTTTTTAAGTTTGCCTTAGAC-AGGTTTA-CCCTAACCTTTTTAAGGTTGCTT
1 TCTATCCCAACC-TTTTTAAGGTTACCTTAAACGA-ATCTATCCC-AACATTTTTAACGTTGCTT
* ** * * ** *
9471562 TAGACGAGTTTATCCGAA-CTTTTTTTTAAGTTGCCTTAGAAAAGG
63 TAGACAAGTCAATCCCAACCTTTTATAAAAGTTGCCTTAGACAAGG
* ** *
9471607 TCTATCCCAACCTTTTTAGGGTT-GTTGTAAAC-AAGTCTAT-GCAACATTTTTAACGTTG-TCT
1 TCTATCCCAACCTTTTTAAGGTTACCT-TAAACGAA-TCTATCCCAACATTTTTAACGTTGCT-T
* * * *
9471668 TAGACAGGTCAATCCTAACCTTTTCTAAAAGTTGCCTTAGACAAGA
63 TAGACAAGTCAATCCCAACCTTTTATAAAAGTTGCCTTAGACAAGG
* * * *
9471714 TTTATCCCAACCTTTTTAAGGTTACCTTAGACGAATCTATCCCAACCTTTTTAAGGTTGCTTTAG
1 TCTATCCCAACCTTTTTAAGGTTACCTTAAACGAATCTATCCCAACATTTTTAACGTTGCTTTAG
* * *
9471779 ACAAGTCTATCCCAACCTTTTATTAAGGTTGCCTTAGACAA-G
66 ACAAGTCAATCCCAACCTTTTATAAAAGTTGCCTTAGACAAGG
* * * *
9471821 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGAC-AGATCTATCCCAACCTTTTTTAAAGGTTGC
1 TCTATCCCAACC--TTTTTAAGGTTACCTTAAACGA-ATCTATCCCAA-CATTTTT-AACGTTGC
* * ** * *
9471885 CTTAGATAAGGTTTAT-CCAA-CTTTTTTAAAAGGTTGCCTTAGATAAGG
61 TTTAGACAA-GTCAATCCCAACCTTTTATAAAA-GTTGCCTTAGACAAGG
* * * * * * * * * *
9471933 TCTATCCTACCCTTTTTAAAGGTTGCCTTAGAC-AAGGTCTATACTAACCTATTTAAGGTTGCCT
1 TCTATCCCAACCTTTTT-AAGGTTACCTTAAACGAA--TCTATCCCAACATTTTTAACGTTGCTT
* * * * *
9471997 TAGACGATTCTATCCCAATCATTTT-TAAAGGTTGCCTTAGACAAGG
63 TAGACAAGTCAATCCCAA-CCTTTTATAAAAGTTGCCTTAGACAAGG
*
9472043 TTTATC
1 TCTATC
9472049 ACAATTTTTT
Statistics
Matches: 360, Mismatches: 59, Indels: 44
0.78 0.13 0.10
Matches are distributed among these distances:
105 1 0.00
106 29 0.08
107 81 0.22
108 70 0.19
109 35 0.10
110 59 0.16
111 57 0.16
112 28 0.08
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (108 bp):
TCTATCCCAACCTTTTTAAGGTTACCTTAAACGAATCTATCCCAACATTTTTAACGTTGCTTTAG
ACAAGTCAATCCCAACCTTTTATAAAAGTTGCCTTAGACAAGG
Found at i:9471853 original size:74 final size:71
Alignment explanation
Indices: 9471499--9472244 Score: 605
Period size: 73 Copynumber: 10.2 Consensus size: 71
9471489 GAGGCAAAGA
* * * *
9471499 TCTATCCCAACCTTTTTTAAGTTTGCCTTAGACAGGTTTA-CCCTAACCTTTTTAAGGTTGCTTT
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGTCTATCCC-AACCTTTTTAAGGTTGCCTT
*
9471563 AGACGAG
65 AGACAAG
* * * * * *
9471570 TTTATCCGAACTTTTTTTTAA-GTTGCCTTAGAAAAGGTCTATCCCAACCTTTTTAGGGTTG-TT
1 TCTATCCCAAC-CTTTTTTAAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTAAGGTTGCCT
*
9471633 GTAAACAAG
64 -TAGACAAG
* * * * * * * *
9471642 TCTAT-GCAA-CATTTTTAACGTTGTCTTAGACAGGTCAATCCTAACCTTTTCTAAAAGTTGCCT
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTT-T-AAGGTTGCCT
9471705 TAGACAAG
64 TAGACAAG
* * *
9471713 ATTTATCCCAACC-TTTTTAAGGTTACCTTAGACGAA-TCTATCCCAACCTTTTTAAGGTTGCTT
1 -TCTATCCCAACCTTTTTTAAGGTTGCCTTAGAC-AAGTCTATCCCAACCTTTTTAAGGTTGCCT
9471776 TAGACAAG
64 TAGACAAG
9471784 TCTATCCCAACCTTTTATTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTTTAAGGTTGCC
1 TCTATCCCAACCTTTT-TTAAGGTTGCCTTAGACAAGTCTATCCCAACC--TTTTTAAGGTTGCC
9471849 TTAGAC-AG
63 TTAGACAAG
* * *
9471857 ATCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATAAGGTTTAT-CCAACTTTTTTAAAAGGTTG
1 -TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTT--AAGGTTG
*
9471921 CCTTAGATAAGG
61 CCTTAGACAA-G
* * * * * *
9471933 TCTATCCTACCCTTTTTAAAGGTTGCCTTAGACAAGGTCTATACTAACCTATTTAAGGTTGCCTT
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAA-GTCTATCCCAACCTTTTTAAGGTTGCCTT
* *
9471998 AGACGAT
65 AGACAAG
* * * * ** **
9472005 TCTATCCCAATCATTTTTAAAGGTTGCCTTAGACAAGGTTTATCACAATTTTTTTTAAATATTGC
1 TCTATCCCAA-CCTTTTTTAAGGTTGCCTTAGACAA-GTCTATCCCAA-CCTTTTT-AAGGTTGC
*
9472070 CTTAGATAAGG
62 CTTAGACAA-G
* * ** **
9472081 TCTATCCCAACTTTTTTTAAAAAGTTATCTTAGACTGGTCTATCCCAACCTTTTTAAGGTTGCCT
1 TCTATCCCAACCTTTTTT--AAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTAAGGTTGCCT
*
9472146 TAGACATG
64 TAGACAAG
* * * *
9472154 TCTATCACAACCTTTTTCAAAGGTTGGCCTTA-ACTAGGCCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAACCTTTTT-TAAGGTT-GCCTTAGAC-AAGTCTATCCCAA-CCTTTTT-AAGGTT-
* *
9472218 GTCTT-GACTAGG
60 GCCTTAGAC-AAG
*
9472230 TCTTTCCCAACCTTT
1 TCTATCCCAACCTTT
9472245 CAATAAGGGT
Statistics
Matches: 543, Mismatches: 94, Indels: 71
0.77 0.13 0.10
Matches are distributed among these distances:
69 22 0.04
70 23 0.04
71 57 0.10
72 91 0.17
73 119 0.22
74 118 0.22
75 62 0.11
76 39 0.07
77 12 0.02
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (71 bp):
TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTAAGGTTGCCTTA
GACAAG
Found at i:9471949 original size:111 final size:109
Alignment explanation
Indices: 9471499--9472244 Score: 594
Period size: 111 Copynumber: 6.8 Consensus size: 109
9471489 GAGGCAAAGA
* * *
9471499 TCTATCCCAACCTTTTTTAAGTTTGCCTTAGACAGGTTTA-CCCTAACCTTTTTAAGGTTGCTTT
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAGGTCTATCCC-AACCTTTTTAAGGTTGCCTT
* * * * * *
9471563 AG-ACGAGTTTATCCGAACTTTTTTTTAA-GTTGCCTTAGAAAAGG
65 AGAAAG-GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* * * * * * * *
9471607 TCTATCCCAACC-TTTTTAGGGTTG-TTGTAAACAAGTCTAT-GCAACATTTTTAACGTTGTCTT
1 TCTATCCCAACCTTTTTTAAGGTTGCCT-TAGACAGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* * * * * *
9471669 AGACAGGTCAATCCTAACCTTTTCTAAAAGTTGCCTTAGACAAGA
65 AGAAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* * * *
9471714 TTTATCCCAACC-TTTTTAAGGTTACCTTAGAC-GAATCTATCCCAACCTTTTTAAGGTTGCTTT
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAG-GTCTATCCCAACCTTTTTAAGGTTGCCTT
9471777 AGACAA-GTCTATCCCAACCTTTTATT-AAGGTTGCCTTAGACAA-G
65 AGA-AAGGTCTATCCCAACCTTTT-TTAAAGGTTGCCTTAGACAAGG
*
9471821 TCTATCCCAACCTTTTTTTAAGGTTGCCTTAGACAGATCTATCCCAACCTTTTTTAAAGGTTGCC
1 TCTATCCCAACC-TTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTT-AAGGTTGCC
* *
9471886 TTAGATAAGGTTTAT-CCAA-CTTTTTTAAAAGGTTGCCTTAGATAAGG
63 TTAGA-AAGGTCTATCCCAACCTTTTTT-AAAGGTTGCCTTAGACAAGG
* * * * * *
9471933 TCTATCCTACCCTTTTTAAAGGTTGCCTTAGACAAGGTCTATACTAACCTATTTAAGGTTGCCTT
1 TCTATCCCAACCTTTTTTAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTAAGGTTGCCTT
* * * *
9471998 AG-ACGATTCTATCCCAATCATTTTTAAAGGTTGCCTTAGACAAGG
65 AGAAAG-GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* * ** ** * * * *
9472043 TTTATCACAATTTTTTTTAAATATTGCCTTAGATAAGGTCTATCCCAACTTTTTTTAAAAAGTTA
1 TCTATCCCAACCTTTTTT-AAGGTTGCCTTAGA-CAGGTCTATCCCAAC-CTTTTT--AAGGTTG
* ** *
9472108 TCTTAGACTGGTCTATCCCAACC-TTTTT-AAGGTTGCCTTAGAC-ATG
61 CCTTAGAAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
* * *
9472154 TCTATCACAACCTTTTTCAAAGGTTGGCCTTA-ACTAGGCCTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAACCTTTTT-TAAGGTT-GCCTTAGAC-AGGTCTATCCCAA-CCTTTTT-AAGGTT-
* * *
9472218 GTCTT-GACTAGGTCTTTCCCAACCTTT
60 GCCTTAGA-AAGGTCTATCCCAACCTTT
9472245 CAATAAGGGT
Statistics
Matches: 510, Mismatches: 93, Indels: 66
0.76 0.14 0.10
Matches are distributed among these distances:
106 35 0.07
107 76 0.15
108 66 0.13
109 40 0.08
110 66 0.13
111 144 0.28
112 56 0.11
113 5 0.01
114 21 0.04
115 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (109 bp):
TCTATCCCAACCTTTTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAGGTTGCCTTA
GAAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGG
Found at i:9474645 original size:19 final size:18
Alignment explanation
Indices: 9474623--9474662 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
9474613 TGAATAAAAC
9474623 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
9474642 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
9474660 TTA
1 TTA
9474663 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:9478378 original size:40 final size:40
Alignment explanation
Indices: 9478334--9478462 Score: 213
Period size: 40 Copynumber: 3.2 Consensus size: 40
9478324 CTCTCGATAC
*
9478334 AATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGT
1 AATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
9478374 AATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 AATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
*
9478414 AATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT
1 -A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
*
9478456 ACTATAT
1 AATATAT
9478463 CCGGACTTAG
Statistics
Matches: 84, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
40 44 0.52
41 2 0.02
42 38 0.45
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (40 bp):
AATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:9478421 original size:42 final size:42
Alignment explanation
Indices: 9478335--9478462 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
9478325 TCTCGATACA
*
9478335 ATATATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
9478375 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
9478417 ATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
9478459 ATAT
1 ATAT
9478463 CCGGACTTAG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
40 38 0.46
41 1 0.01
42 44 0.53
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:9483053 original size:61 final size:61
Alignment explanation
Indices: 9482929--9483085 Score: 183
Period size: 61 Copynumber: 2.6 Consensus size: 61
9482919 ATTCTAAAAG
* * * * * *
9482929 TTTACACATTTTATTAATTTAATTCTAA-TCTAAACAATTCAACAAATTTAACCCTTAATA
1 TTTACAAAATTTATCAATTTAATTCTAATTCTAAAAAAATCAACAAATTTAACCCTCAATA
* * **
9482989 TTTACAAAATTTATCATTTTAATTCTAATTCTAAAAAAATCAATAAATTTTGCCCTCAATA
1 TTTACAAAATTTATCAATTTAATTCTAATTCTAAAAAAATCAACAAATTTAACCCTCAATA
* * *
9483050 TTTACAAAATTTGTGAATTTAGTTCTAATT-TAAAAA
1 TTTACAAAATTTATCAATTTAATTCTAATTCTAAAAA
9483086 GTTTGAGTAG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 30 0.37
61 52 0.63
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (61 bp):
TTTACAAAATTTATCAATTTAATTCTAATTCTAAAAAAATCAACAAATTTAACCCTCAATA
Found at i:9490543 original size:25 final size:24
Alignment explanation
Indices: 9490519--9490615 Score: 72
Period size: 25 Copynumber: 4.0 Consensus size: 24
9490509 TAGGAACCAT
* *
9490519 TAATCAGGAAGCTCCAGATAGCCA
1 TAATCAGGAAGCTCAAGAGAGCCA
* *
9490543 TATATC-GAGAAGTTCAAGCGAGCCA
1 TA-ATCAG-GAAGCTCAAGAGAGCCA
* **
9490568 T-ATCGGGAAGCTCTGGAGAGCCA
1 TAATCAGGAAGCTCAAGAGAGCCA
*
9490591 TTAATCAGGAAGCTCACAAAGAGCC
1 -TAATCAGGAAGCTCA-AGAGAGCC
9490616 TTTCATCGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
23 16 0.29
24 5 0.09
25 28 0.51
26 6 0.11
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (24 bp):
TAATCAGGAAGCTCAAGAGAGCCA
Found at i:9490627 original size:26 final size:26
Alignment explanation
Indices: 9490584--9490658 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
9490574 GAAGCTCTGG
9490584 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * * *
9490610 AGAGCCTTTCATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
9490636 AGAGTCATATAA-CAGGATGCTCA
1 AGAGCCAT-TAATCAGGAAGCTCA
9490659 TAAGAGTTGC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 37 0.95
27 2 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:9495167 original size:21 final size:20
Alignment explanation
Indices: 9495143--9495181 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9495133 TGTGTATTGG
9495143 ATTAAATTGAATATAAATTAT
1 ATTAAATTGAAT-TAAATTAT
* *
9495164 ATTAACTTGAGTTAAATT
1 ATTAAATTGAATTAAATT
9495182 CATTCGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (20 bp):
ATTAAATTGAATTAAATTAT
Found at i:9495616 original size:13 final size:13
Alignment explanation
Indices: 9495600--9495624 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9495590 CAAGTGCTCA
9495600 ACCCAACCCAATT
1 ACCCAACCCAATT
9495613 ACCCAACCCAAT
1 ACCCAACCCAAT
9495625 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:9495662 original size:5 final size:6
Alignment explanation
Indices: 9495649--9495689 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
9495639 ATAATTTAAT
*
9495649 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
9495690 AACATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:9495677 original size:20 final size:21
Alignment explanation
Indices: 9495641--9495684 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
9495631 AATTACAAAT
9495641 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
9495662 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
9495682 AAT
1 AAT
9495685 AAAAAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:9495690 original size:20 final size:20
Alignment explanation
Indices: 9495652--9495690 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9495642 ATTTAATAAA
**
9495652 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
9495672 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
9495691 ACATATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:9495778 original size:9 final size:9
Alignment explanation
Indices: 9495710--9495777 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
9495700 TTTATACAAA
9495710 TAATTCGGT
1 TAATTCGGT
9495719 TAATTCGGT
1 TAATTCGGT
* *
9495728 TAATTTGGG
1 TAATTCGGT
*
9495737 TAATTCGGG
1 TAATTCGGT
*
9495746 TAATTCAGT
1 TAATTCGGT
9495755 TAATTCGGT
1 TAATTCGGT
*
9495764 TAATTTGGT
1 TAATTCGGT
9495773 TAATT
1 TAATT
9495778 TTATACTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:9502039 original size:40 final size:40
Alignment explanation
Indices: 9501976--9502067 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
9501966 AACTTCGTCT
* * * *
9501976 AACCCAACACACC--ATGTGGGGATAAAATCGACCTACCC
1 AACCCTACACACCAAATATGGGGATAAAATCAACCCACCC
* * *
9502014 ATCCTTACACACCAAATATGGGGATAAAATCAACCCATCC
1 AACCCTACACACCAAATATGGGGATAAAATCAACCCACCC
9502054 AACCCTACACACCA
1 AACCCTACACACCA
9502068 TAAAGTACCG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
38 10 0.23
40 33 0.77
ACGTcount: A:0.39, C:0.35, G:0.11, T:0.15
Consensus pattern (40 bp):
AACCCTACACACCAAATATGGGGATAAAATCAACCCACCC
Found at i:9505384 original size:19 final size:19
Alignment explanation
Indices: 9505360--9505404 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
9505350 GAAAGATAAA
9505360 AAATTTATGGAGAAATTTT
1 AAATTTATGGAGAAATTTT
*
9505379 AAATTTTTTGGAGAAATTTT
1 AAA-TTTATGGAGAAATTTT
9505399 AAATTT
1 AAATTT
9505405 TTTGAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (19 bp):
AAATTTATGGAGAAATTTT
Found at i:9505392 original size:20 final size:20
Alignment explanation
Indices: 9505367--9505408 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9505357 AAAAAATTTA
9505367 TGGAGAAATTTTAAATTTTT
1 TGGAGAAATTTTAAATTTTT
9505387 TGGAGAAATTTTAAATTTTT
1 TGGAGAAATTTTAAATTTTT
9505407 TG
1 TG
9505409 AAATACATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
TGGAGAAATTTTAAATTTTT
Found at i:9506020 original size:25 final size:26
Alignment explanation
Indices: 9505910--9506023 Score: 98
Period size: 25 Copynumber: 4.6 Consensus size: 26
9505900 ACAGCTTTCT
* *
9505910 TGAGCTTCTCGA-TACTT-GACTCTCA
1 TGAGCTTCCCGATTACTTAG-CTCACA
* * *
9505935 TGAGCTTCCCGA-TATTTGGCTCGCA
1 TGAGCTTCCCGATTACTTAGCTCACA
* *
9505960 AGAGCTTCCCGATATAC--AGCTCATA
1 TGAGCTTCCCGAT-TACTTAGCTCACA
9505985 TGAGCTTCCC-ATTACTTAGCTCACA
1 TGAGCTTCCCGATTACTTAGCTCACA
9506010 TGAGCTTCCC-ATTA
1 TGAGCTTCCCGATTA
9506024 TATGGCTCGG
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
23 3 0.04
24 2 0.03
25 66 0.89
26 1 0.01
27 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (26 bp):
TGAGCTTCCCGATTACTTAGCTCACA
Found at i:9506031 original size:25 final size:25
Alignment explanation
Indices: 9505933--9506045 Score: 88
Period size: 25 Copynumber: 4.5 Consensus size: 25
9505923 ACTTGACTCT
* * *
9505933 CATGAGCTTCCCGATATTTGGCTCG
1 CATGAGCTTCCCGATATATAGCTCA
* *
9505958 CAAGAGCTTCCCGATATACAGCTCA
1 CATGAGCTTCCCGATATATAGCTCA
*
9505983 TATGAGCTTCCC-AT-TACTTAGCTCA
1 CATGAGCTTCCCGATATA--TAGCTCA
* *
9506008 CATGAGCTTCCC-ATTATATGGCTCG
1 CATGAGCTTCCCGA-TATATAGCTCA
* *
9506033 GAAGAGCTTCCCG
1 CATGAGCTTCCCG
9506046 TTTACATGCT
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
23 2 0.03
24 2 0.03
25 63 0.90
26 1 0.01
27 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (25 bp):
CATGAGCTTCCCGATATATAGCTCA
Found at i:9507087 original size:30 final size:30
Alignment explanation
Indices: 9507053--9507126 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
9507043 ATGTGCCTTA
*
9507053 GCCGTGTGTGACACATGGCTAGATGACATG
1 GCCGTGTGTGACACATGGCCAGATGACATG
*
9507083 GCCGTGTGTGACACATGGCCAGGTGACATG
1 GCCGTGTGTGACACATGGCCAGATGACATG
*
9507113 GCCGTGTGTAACAC
1 GCCGTGTGTGACAC
9507127 CACTTGCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.22
Consensus pattern (30 bp):
GCCGTGTGTGACACATGGCCAGATGACATG
Found at i:9507094 original size:15 final size:15
Alignment explanation
Indices: 9507076--9507121 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
9507066 CATGGCTAGA
9507076 TGACATGGCCGTGTG
1 TGACATGGCCGTGTG
*
9507091 TGACACATGGCC-AG-G
1 TG--ACATGGCCGTGTG
9507106 TGACATGGCCGTGTG
1 TGACATGGCCGTGTG
9507121 T
1 T
9507122 AACACCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
13 8 0.32
14 1 0.04
15 7 0.28
16 1 0.04
17 8 0.32
ACGTcount: A:0.17, C:0.22, G:0.37, T:0.24
Consensus pattern (15 bp):
TGACATGGCCGTGTG
Found at i:9507100 original size:17 final size:17
Alignment explanation
Indices: 9507078--9507126 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9507068 TGGCTAGATG
9507078 ACATGGCCGTGTGTGAC
1 ACATGGCCGTGTGTGAC
*
9507095 ACATGGCC-AG-GTG--
1 ACATGGCCGTGTGTGAC
*
9507108 ACATGGCCGTGTGTAAC
1 ACATGGCCGTGTGTGAC
9507125 AC
1 AC
9507127 CACTTGCCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
13 8 0.32
14 1 0.04
15 5 0.20
16 1 0.04
17 10 0.40
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.20
Consensus pattern (17 bp):
ACATGGCCGTGTGTGAC
Found at i:9508477 original size:53 final size:54
Alignment explanation
Indices: 9508392--9508598 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
9508382 TTCCTTTTTA
* * * *
9508392 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
9508445 AACTCACCATTGCCATGCCTTGGCATGTTCTTACATGGAATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** ** * * *
9508499 TAGTTTACCAATGCCATGTTTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
9508554 AACTTACCAATGCCATGCCTTGGCGTGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
9508599 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.30
55 41 0.34
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:9511465 original size:28 final size:28
Alignment explanation
Indices: 9511404--9511461 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
9511394 TTTTTTAAGT
9511404 TATATCATTATTATTTTAAAACCTTCTTA
1 TATATCATTATTATTTTAAAA-CTTCTTA
9511433 TATATCA-TATTATTTTAAAA-TT-TTA
1 TATATCATTATTATTTTAAAACTTCTTA
9511458 TATA
1 TATA
9511462 ATATTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.24
26 2 0.07
28 13 0.45
29 7 0.24
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATCATTATTATTTTAAAACTTCTTA
Found at i:9511593 original size:26 final size:27
Alignment explanation
Indices: 9511554--9511620 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
9511544 ATCCCTTGTT
*
9511554 ATTT-TTTATATATAATTT-CTTTTAA
1 ATTTATTTATATATAATTTCCTTTCAA
9511579 ATTTATTTATATAT-ATTTCCTTTCAA
1 ATTTATTTATATATAATTTCCTTTCAA
* *
9511605 ATCTATTATGTATATA
1 ATTTATT-TATATATA
9511621 GTTTATTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 8 0.23
26 21 0.60
27 6 0.17
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (27 bp):
ATTTATTTATATATAATTTCCTTTCAA
Found at i:9515076 original size:12 final size:12
Alignment explanation
Indices: 9515055--9515085 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9515045 TTAACAAAAA
9515055 TTAT-TTTAATT
1 TTATATTTAATT
9515066 TTATATTTAATT
1 TTATATTTAATT
9515078 TTATATTT
1 TTATATTT
9515086 TTTTAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATATTTAATT
Found at i:9515206 original size:10 final size:9
Alignment explanation
Indices: 9515194--9515256 Score: 74
Period size: 10 Copynumber: 6.8 Consensus size: 9
9515184 TTGATTAAAT
*
9515194 TTTTTAATG
1 TTTTTAATA
9515203 TTTTTAATA
1 TTTTTAATA
*
9515212 TTTTCAATAA
1 TTTTTAAT-A
9515222 TTTTTATATA
1 TTTTTA-ATA
9515232 TTTTTAATA
1 TTTTTAATA
9515241 TTTTTTAAT-
1 -TTTTTAATA
9515250 TTTTTAA
1 TTTTTAA
9515257 AATAAATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 7 0.15
9 18 0.38
10 21 0.44
11 2 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTAATA
Found at i:9515214 original size:29 final size:27
Alignment explanation
Indices: 9515188--9515294 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 27
9515178 CAGTATTTGA
*
9515188 TTAAATTTTTTAATGTTTTTAATATTT
1 TTAAATTTTTTAATATTTTTAATATTT
* *
9515215 TCAATAATTTTTATATATTTTTAATATTT
1 TTAA-ATTTTTTA-ATATTTTTAATATTT
*
9515244 TTTAATTTTTTAAAATAAATTTTTAAAATATTT
1 TTAAATTTTTT--AAT--ATTTTT--AATATTT
*
9515277 TTTAATTTTTTAA-ATTTT
1 TTAAATTTTTTAATATTTT
9515295 AAAAAATTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
27 3 0.05
28 18 0.27
29 18 0.27
30 1 0.02
31 8 0.12
33 18 0.27
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTAAATTTTTTAATATTTTTAATATTT
Found at i:9515215 original size:18 final size:19
Alignment explanation
Indices: 9515194--9515286 Score: 77
Period size: 20 Copynumber: 4.8 Consensus size: 19
9515184 TTGATTAAAT
*
9515194 TTTTTAAT-GTTTTTAATA
1 TTTTTAATAATTTTTAATA
*
9515212 TTTTCAATAATTTTTATATA
1 TTTTTAATAATTTTTA-ATA
*
9515232 TTTTTAATATTTTTTAAT-
1 TTTTTAATAATTTTTAATA
9515250 TTTTTAAAATAAATTTTTAAAATA
1 TTTTT--AAT-AATTTTT--AATA
9515274 TTTTT--TAATTTTT
1 TTTTTAATAATTTTT
9515287 TAAATTTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
18 12 0.19
19 15 0.24
20 21 0.34
21 6 0.10
23 3 0.05
24 5 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTAATAATTTTTAATA
Found at i:9515226 original size:11 final size:10
Alignment explanation
Indices: 9515194--9515286 Score: 56
Period size: 10 Copynumber: 9.5 Consensus size: 10
9515184 TTGATTAAAT
*
9515194 TTTTTAAT-G
1 TTTTTAATAA
9515203 TTTTTAAT-A
1 TTTTTAATAA
*
9515212 TTTTCAATAA
1 TTTTTAATAA
9515222 TTTTT-ATATA
1 TTTTTAATA-A
*
9515232 TTTTTAATAT
1 TTTTTAATAA
9515242 TTTTTAAT--
1 TTTTTAATAA
9515250 TTTTTAAAATAAA
1 TTTTT--AAT-AA
9515263 TTTTTAA-AA
1 TTTTTAATAA
*
9515272 TATTTT-TTAA
1 T-TTTTAATAA
9515282 TTTTT
1 TTTTT
9515287 TAAATTTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
8 5 0.07
9 25 0.36
10 29 0.42
11 5 0.07
13 5 0.07
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:9515279 original size:13 final size:13
Alignment explanation
Indices: 9515246--9515281 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9515236 TAATATTTTT
9515246 TAATTTTTTAAAA
1 TAATTTTTTAAAA
*
9515259 TAAATTTTTAAAA
1 TAATTTTTTAAAA
9515272 T-ATTTTTTAA
1 TAATTTTTTAA
9515282 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTTTAAAA
Found at i:9515286 original size:9 final size:9
Alignment explanation
Indices: 9515188--9515294 Score: 58
Period size: 9 Copynumber: 11.0 Consensus size: 9
9515178 CAGTATTTGA
9515188 TTAAATTTT
1 TTAAATTTT
9515197 TT-AATGTTT
1 TTAAAT-TTT
9515206 TT-AATATTT
1 TTAAAT-TTT
* *
9515215 TCAATAATTT
1 TTAA-ATTTT
*
9515225 TTATATATTT
1 TTAAAT-TTT
9515235 TTAATATTTT
1 TTAA-ATTTT
9515245 TT-AATTTT
1 TTAAATTTT
9515253 TTAAAATAAATTT
1 TT-AAAT---TTT
9515266 TTAAAATATTT
1 TT-AAAT-TTT
*
9515277 TTTAATTTT
1 TTAAATTTT
9515286 TTAAATTTT
1 TTAAATTTT
9515295 AAAAAATTAA
Statistics
Matches: 79, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
8 10 0.13
9 27 0.34
10 23 0.29
11 9 0.11
13 10 0.13
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTAAATTTT
Found at i:9516419 original size:3 final size:3
Alignment explanation
Indices: 9516411--9516449 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
9516401 TGATTCACCG
* * *
9516411 TCA TCA TCA CCA TCA TCA TCG TCG TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
9516450 CTTTCTCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.36, G:0.05, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:9518104 original size:72 final size:71
Alignment explanation
Indices: 9517841--9518078 Score: 354
Period size: 72 Copynumber: 3.3 Consensus size: 71
9517831 AAAATCATAT
* ** *
9517841 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATCAATATCCAAAT
1 ATAAACAACTATTGGTAAAACTAGA-TTACACATAAATAAGTAGAACATAAATCAATATCCAAAA
9517904 ACCAAAC
65 ACCAAAC
**
9517911 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAA-TCAATATCCAAAA
9517976 ACCAAAC
65 ACCAAAC
*
9517983 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAAGTCAATATCCAAAA
1 ATAAACAACTATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAA-TCAATATCCAAAA
9518048 ACCAAAC
65 ACCAAAC
* *
9518055 ATATATAACTATTGGTAAAACTAG
1 ATAAACAACTATTGGTAAAACTAG
9518079 TTTAGCATTT
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
70 25 0.16
71 21 0.14
72 108 0.70
ACGTcount: A:0.54, C:0.16, G:0.07, T:0.24
Consensus pattern (71 bp):
ATAAACAACTATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATCAATATCCAAAAA
CCAAAC
Found at i:9519513 original size:22 final size:23
Alignment explanation
Indices: 9519461--9519522 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
9519451 CGCATAAGAT
* **
9519461 AATATATATAAATATATATGGTC
1 AATATATAAAAATATATACAGTC
9519484 -ATAGTATAAAAATAT-TACAGTC
1 AATA-TATAAAAATATATACAGTC
*
9519506 AATATATAAATATATAT
1 AATATATAAAAATATAT
9519523 GGACATAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATATAAAAATATATACAGTC
Found at i:9526479 original size:77 final size:77
Alignment explanation
Indices: 9526347--9526501 Score: 265
Period size: 77 Copynumber: 2.0 Consensus size: 77
9526337 CTTCAGAGAG
* *
9526347 TCTATATCTTGTTCACTAAAGCTTTATACCCTGTGGATTTGCCAAGGAGATCAACAATAACACAT
1 TCTATATCTTGTTCACTAAAGCTTTATACCCTATGGATTTGCCAAGGAGACCAACAATAACACAT
9526412 TACTCCATGCTT
66 TACTCCATGCTT
* * *
9526424 TCTATATCTTGTTCACTAAGGTTTTATACCCTATGGATTTGCCAAGGAGACCAACAATATCACAT
1 TCTATATCTTGTTCACTAAAGCTTTATACCCTATGGATTTGCCAAGGAGACCAACAATAACACAT
9526489 TACTCCATGCTT
66 TACTCCATGCTT
9526501 T
1 T
9526502 AGTCTAACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (77 bp):
TCTATATCTTGTTCACTAAAGCTTTATACCCTATGGATTTGCCAAGGAGACCAACAATAACACAT
TACTCCATGCTT
Found at i:9527990 original size:15 final size:16
Alignment explanation
Indices: 9527955--9527993 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
9527945 CGTATATGAT
*
9527955 ATTATTTCTAATTTAA
1 ATTATTTTTAATTTAA
*
9527971 TTTATTTTTAA-TTAA
1 ATTATTTTTAATTTAA
9527986 ATTATTTT
1 ATTATTTT
9527994 AAAATAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTTTTAATTTAA
Found at i:9528139 original size:35 final size:34
Alignment explanation
Indices: 9528075--9528141 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
9528065 CTGTAATCAA
* *
9528075 AAAATAAAAAAACTGATAAAAATTATAAAAATTG
1 AAAATAAAAAAACTGACAAAAATCATAAAAATTG
**
9528109 AAAATAAAAAAACTGACACCAATCATTAAAAAT
1 AAAATAAAAAAACTGACAAAAATCA-TAAAAAT
9528142 AAAAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.66, C:0.09, G:0.04, T:0.21
Consensus pattern (34 bp):
AAAATAAAAAAACTGACAAAAATCATAAAAATTG
Found at i:9530697 original size:13 final size:13
Alignment explanation
Indices: 9530679--9530716 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9530669 TCAATTAAAA
*
9530679 TTATATTTAATTT
1 TTATATTAAATTT
9530692 TTATATTAAATTT
1 TTATATTAAATTT
*
9530705 TTTTA-TAAATTT
1 TTATATTAAATTT
9530717 ACTATGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATATTAAATTT
Found at i:9537255 original size:18 final size:19
Alignment explanation
Indices: 9537232--9537267 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9537222 ATATTTTATT
*
9537232 TTATTAC-ACTTTAAAACG
1 TTATTACTACTTAAAAACG
9537250 TTATTACTACTTAAAAAC
1 TTATTACTACTTAAAAAC
9537268 ATATTTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.39
Consensus pattern (19 bp):
TTATTACTACTTAAAAACG
Found at i:9537371 original size:22 final size:22
Alignment explanation
Indices: 9537298--9537374 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
9537288 GGTGATTGAT
*
9537298 TAAATTTAAAATATAAATATGA
1 TAAAATTAAAATATAAATATGA
** *
9537320 TAAAATTATTTTATTTAAA-ATGAA
1 TAAAATTA--AAATATAAATATG-A
*
9537344 GAAAAATTAAAATATAAATATGA
1 -TAAAATTAAAATATAAATATGA
9537367 TAAAATTA
1 TAAAATTA
9537375 TTTTATTTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.34
23 10 0.24
24 10 0.24
25 7 0.17
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAAATTAAAATATAAATATGA
Found at i:9538078 original size:30 final size:30
Alignment explanation
Indices: 9538044--9538101 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
9538034 TTTTAGTAAA
9538044 ATTTGACCCA-AACCTTTTAAAAAGAGTCAG
1 ATTTGA-CCATAACCTTTTAAAAAGAGTCAG
9538074 ATTTGACCATTAACCTTTTAAAAAGAGT
1 ATTTGACCA-TAACCTTTTAAAAAGAGT
9538102 TAAATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 3 0.12
30 6 0.23
31 17 0.65
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (30 bp):
ATTTGACCATAACCTTTTAAAAAGAGTCAG
Found at i:9545924 original size:2 final size:2
Alignment explanation
Indices: 9545917--9545953 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9545907 TTCCCCAAGG
9545917 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9545954 TTCAAAATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9558051 original size:27 final size:26
Alignment explanation
Indices: 9557987--9558128 Score: 99
Period size: 26 Copynumber: 5.3 Consensus size: 26
9557977 CGTTTATATA
* * * *
9557987 TTATCTTAAATGATTTCATAAATTAT
1 TTATTTTAAATTATTTTATATATTAT
*
9558013 TTATTTTAAATTGTTTTATATATTAT
1 TTATTTTAAATTATTTTATATATTAT
* * *
9558039 TTCATTTTGAATTATTTTGTATACTAAT
1 TT-ATTTTAAATTATTTTATATA-TTAT
* * *
9558067 TTGTTTTCAATTA-TTT-TATATGAT
1 TTATTTTAAATTATTTTATATATTAT
* *
9558091 TTACTTTAAATTGCTTTTATAGTATCTAT
1 TTATTTTAAATT-ATTTTATA-TAT-TAT
9558120 TCTATTTTA
1 T-TATTTTA
9558129 TTTCTATCAT
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
24 12 0.13
25 4 0.04
26 29 0.32
27 28 0.31
28 8 0.09
29 3 0.03
30 6 0.07
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (26 bp):
TTATTTTAAATTATTTTATATATTAT
Found at i:9558197 original size:22 final size:21
Alignment explanation
Indices: 9558137--9558199 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 21
9558127 TATTTCTATC
9558137 ATTTTAGAATTTTTTTTATATTTT
1 ATTTTA-AA-TTTTTTTATA-TTT
*
9558161 ATTTTAAATTGTTTTATA-TT
1 ATTTTAAATTTTTTTATATTT
*
9558181 ATTTATATTATTTTTTTAT
1 ATTT-TA-AATTTTTTTAT
9558200 TGTTAATGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 18 0.53
23 2 0.06
24 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTAAATTTTTTTATATTT
Found at i:9561890 original size:19 final size:20
Alignment explanation
Indices: 9561863--9561905 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
9561853 CTTTTTTGCA
* *
9561863 TTCATTCATTTGCACTACAT
1 TTCATTCATATGCACTAAAT
*
9561883 TTCA-TCATATGCATTAAAT
1 TTCATTCATATGCACTAAAT
9561902 TTCA
1 TTCA
9561906 CAAAAAGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (20 bp):
TTCATTCATATGCACTAAAT
Found at i:9570154 original size:133 final size:133
Alignment explanation
Indices: 9569916--9570391 Score: 568
Period size: 133 Copynumber: 3.6 Consensus size: 133
9569906 TACAAATCAT
* * * * * * * *
9569916 AAGTCTTATCTCCCTGAAGTTGCAGGGGAGCAGATTGAAGACAATATATTTTATCTCTCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCTGTGGAGCAGACTGAAGATAATAGATCTTATCTCCCTAAAGT
* * *
9569981 TGCAGTGGAGCAGGTCGAAGTTACAAACCTCATCTCCCTGAAGTTACGGTAGAGTAGGTTAAAAT
66 TGCAGTGGAGCAGGTCGAAGTTACAAACCTCATCTCCCTGAAGTTGCGGTGGAGCAGGTTAAAAT
9570046 AGC
131 AGC
* *
9570049 AAGTCTTATCTCTCC-GAAGTTGCTGTGCAGCAGACTGAAGATAGTAGATCTTATCTCCCTAAAG
1 AAGTCTTATCTC-CCTGAAGTTGCTGTGGAGCAGACTGAAGATAATAGATCTTATCTCCCTAAAG
* * *
9570113 TTGTAGTGGAACAGGTTGAAGTTACAAACCTCATCTCCCTGAAGTTGCGGTGGAGCAGGTTAAAA
65 TTGCAGTGGAGCAGGTCGAAGTTACAAACCTCATCTCCCTGAAGTTGCGGTGGAGCAGGTTAAAA
9570178 TAGC
130 TAGC
* * * *
9570182 AAGTCTTATCTCCCTGAAGTTGCGGTGAAGCAGACTGAAGATAGTAGATCTTATTTCCC-AGAAG
1 AAGTCTTATCTCCCTGAAGTTGCTGTGGAGCAGACTGAAGATAATAGATCTTATCTCCCTA-AAG
* * * * * * *
9570246 TTGCAGTAGAGCAGATCGAAGTTACAGACCTTATCTCTCTGAAGTTGCGGTGGAGCAAGTTGAAG
65 TTGCAGTGGAGCAGGTCGAAGTTACAAACCTCATCTCCCTGAAGTTGCGGTGGAGCAGGTT-AAA
9570311 ATA-C
129 ATAGC
* * * *
9570315 AAATCTTATCTCCCTGAAGTTG-TAGTGGAGCAGAATGAAGATAAT-GAATCTCATC-CCACTAG
1 AAGTCTTATCTCCCTGAAGTTGCT-GTGGAGCAGACTGAAGATAATAG-ATCTTATCTCC-CTAA
*
9570377 AGTTGTAGTGGAGCA
63 AGTTGCAGTGGAGCA
9570392 TATTGAAGCT
Statistics
Matches: 296, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
132 6 0.02
133 282 0.95
134 8 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (133 bp):
AAGTCTTATCTCCCTGAAGTTGCTGTGGAGCAGACTGAAGATAATAGATCTTATCTCCCTAAAGT
TGCAGTGGAGCAGGTCGAAGTTACAAACCTCATCTCCCTGAAGTTGCGGTGGAGCAGGTTAAAAT
AGC
Found at i:9570288 original size:89 final size:88
Alignment explanation
Indices: 9569966--9570348 Score: 235
Period size: 89 Copynumber: 4.3 Consensus size: 88
9569956 ACAATATATT
* * * * * * *
9569966 TTATCTCTCTGAAGTTGCAGTGGAGCAGGTCGAAGTTACAAACCTCATCTCCCTGAAGTTACGGT
1 TTATCTCCCAGAAGTTGCAGTAGAGCAGATCGAAGTTACAGACCTTATCTCCCTGAAGTTGCGGT
* * * * *
9570031 -AGAG-TAGGTTAAAATAGCAAGTC
66 GA-AGCAAGCTGAAGATA-CAAATC
* * * * *
9570054 TTATCTCTCC-GAAGTTGCTGT-GCAGCAGA-CTGAAGATAGTAGATCTTATCTCCCTAAAGTTG
1 TTATCTC-CCAGAAGTTGCAGTAG-AGCAGATC-GAAGTTA-CAGACCTTATCTCCCTGAAGTTG
** * * * *
9570116 TAGTGGAA-CAGGTTGAAGTTACAAACC
62 CGGT-GAAGCAAGCTGAAGATACAAATC
* * * * * * ** *
9570143 TCATCTCCCTGAAGTTGCGGTGGAGCAGGT-TAAAATAGCA-AGTCTTATCTCCCTGAAGTTGCG
1 TTATCTCCCAGAAGTTGCAGTAGAGCAGATCGAAGTTA-CAGA-CCTTATCTCCCTGAAGTTGCG
* *
9570206 GTGAAGC-AGACTGAAGATAGTAGATC
64 GTGAAGCAAG-CTGAAGATA-CAAATC
* *
9570232 TTATTTCCCAGAAGTTGCAGTAGAGCAGATCGAAGTTACAGACCTTATCTCTCTGAAGTTGCGGT
1 TTATCTCCCAGAAGTTGCAGTAGAGCAGATCGAAGTTACAGACCTTATCTCCCTGAAGTTGCGGT
* *
9570297 GGAGCAAGTTGAAGATACAAATC
66 GAAGCAAGCTGAAGATACAAATC
* * *
9570320 TTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 TTATCTCCCAGAAGTTGCAGTAGAGCAGA
9570349 ATGAAGATAA
Statistics
Matches: 224, Mismatches: 54, Indels: 34
0.72 0.17 0.11
Matches are distributed among these distances:
87 7 0.03
88 94 0.42
89 107 0.48
90 15 0.07
91 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (88 bp):
TTATCTCCCAGAAGTTGCAGTAGAGCAGATCGAAGTTACAGACCTTATCTCCCTGAAGTTGCGGT
GAAGCAAGCTGAAGATACAAATC
Found at i:9570354 original size:44 final size:44
Alignment explanation
Indices: 9569919--9570357 Score: 318
Period size: 44 Copynumber: 9.9 Consensus size: 44
9569909 AAATCATAAG
* * *
9569919 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGATTGAAGACA-ATATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTGAAGATACA-A-A
* * *
9569964 TTTTATCTCTCTGAAGTTGCAGTGGAGCAG-GTCGAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGT-GAAGATACAAA
* * * * * * * * *
9570008 CCTCATCTCCCTGAAGTTACGGTAGAGTAG-GTTAAAATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTGAAGATA-CAAA
* * * * *
9570052 TCTTATCTCTCC-GAAGTTGCTGTGCAGCAGACTGAAGATAGTAGA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGAGTGAAGATA-CAAA
* * * *
9570097 TCTTATCTCCCTAAAGTTGTAGTGGAACAG-GTTGAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAG-TGAAGATACAAA
* * * * * *
9570141 CCTCATCTCCCTGAAGTTGCGGTGGAGCAG-GTTAAAATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTGAAGATA-CAAA
* * * * *
9570185 TCTTATCTCCCTGAAGTTGCGGTGAAGCAGACTGAAGATAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTGAAGATA-CAAA
* * * * *
9570230 TCTTATTTCCCAGAAGTTGCAGTAGAGCAGA-TCGAAGTTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGT-GAAGATACAAA
* * *
9570274 CCTTATCTCTCTGAAGTTGCGGTGGAGCA-AGTTGAAGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAG-TGAAGATACAAA
* *
9570318 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATGAAGATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTGAAGATA
9570358 ATGAATCTCA
Statistics
Matches: 302, Mismatches: 79, Indels: 27
0.74 0.19 0.07
Matches are distributed among these distances:
43 10 0.03
44 177 0.59
45 114 0.38
46 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTGAAGATACAAA
Found at i:9572012 original size:22 final size:21
Alignment explanation
Indices: 9571965--9572012 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
9571955 TTACATTATC
*
9571965 TATTTTAAATCGTTTATATAT
1 TATTTTAAATCGTTTATAAAT
9571986 TATTTTAAAT-GATTTCATAAAT
1 TATTTTAAATCG-TTT-ATAAAT
9572008 TATTT
1 TATTT
9572013 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 13 0.54
22 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTTTAAATCGTTTATAAAT
Found at i:9572059 original size:27 final size:26
Alignment explanation
Indices: 9571926--9572125 Score: 83
Period size: 26 Copynumber: 7.7 Consensus size: 26
9571916 CTTTAATATT
* * ***
9571926 TTTATATATTATGTATCTTAAACCCC
1 TTTATATATTATTTATTTTAAATTAC
* * *
9571952 TTTTTACATTATCTATTTTAAA-T-C
1 TTTATATATTATTTATTTTAAATTAC
* *
9571976 GTT-TATA-TA-TTATTTTAAATGA-
1 TTTATATATTATTTATTTTAAATTAC
*
9571998 TTTCATAAATTATTTATTTTAAATTAC
1 TTT-ATATATTATTTATTTTAAATTAC
* **
9572025 TTTATATATTATTTCATTTTGAATTGT
1 TTTATATATTATTT-ATTTTAAATTAC
* * * * *
9572052 TTTGTATACTAATTTGTTTTCAATCA-
1 TTTATATA-TTATTTATTTTAAATTAC
* * *
9572078 TTT-TATATGATTTACTTTAAATTGC
1 TTTATATATTATTTATTTTAAATTAC
9572103 TTTTATAGTATCTATTCTATTTT
1 -TTTATA-TAT-TATT-TATTTT
9572126 CTTTCTATCA
Statistics
Matches: 129, Mismatches: 30, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
21 9 0.07
22 4 0.03
23 3 0.02
24 17 0.13
25 6 0.05
26 46 0.36
27 28 0.22
28 8 0.06
29 3 0.02
30 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATATATTATTTATTTTAAATTAC
Found at i:9572162 original size:24 final size:25
Alignment explanation
Indices: 9572135--9572188 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
9572125 TCTTTCTATC
9572135 ATTTTAGAAATT-TTTCTATA-T-TTT
1 ATTTTA-AAATTATTT-TATATTATTT
9572159 ATTTT-AAATTATTTTATATTATTT
1 ATTTTAAAATTATTTTATATTATTT
9572183 ATTTTA
1 ATTTTA
9572189 CTTCTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 9 0.35
23 4 0.15
24 13 0.50
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTAAAATTATTTTATATTATTT
Found at i:9574870 original size:3 final size:3
Alignment explanation
Indices: 9574862--9574886 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9574852 GCAATAACTT
9574862 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
9574887 TAAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9579294 original size:19 final size:18
Alignment explanation
Indices: 9579270--9579305 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9579260 TAATAAATTA
*
9579270 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAT
9579289 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
9579306 AAAATCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:9580000 original size:15 final size:15
Alignment explanation
Indices: 9579980--9580014 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
9579970 ACTATAGTAT
9579980 TTTATAACAAATATA
1 TTTATAACAAATATA
9579995 TTTATAACAAATATA
1 TTTATAACAAATATA
9580010 TTTAT
1 TTTAT
9580015 GGCATATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (15 bp):
TTTATAACAAATATA
Found at i:9583799 original size:21 final size:22
Alignment explanation
Indices: 9583766--9583808 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
9583756 ATAAAAGCTT
*
9583766 CAAAAATATTAAT-TTTGTTAAA
1 CAAAAATAATAATATTT-TTAAA
9583788 CAAAAA-AATAATATTTTTAAA
1 CAAAAATAATAATATTTTTAAA
9583809 GGGATAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
CAAAAATAATAATATTTTTAAA
Found at i:9584112 original size:26 final size:26
Alignment explanation
Indices: 9584076--9584126 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
9584066 TGTACTGGAT
9584076 ATATAATTCCTTCGAAGTGATGAACA
1 ATATAATTCCTTCGAAGTGATGAACA
9584102 ATATAATTCCTTCGAAGTGATGAAC
1 ATATAATTCCTTCGAAGTGATGAAC
9584127 TTGAGTCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (26 bp):
ATATAATTCCTTCGAAGTGATGAACA
Found at i:9587720 original size:49 final size:49
Alignment explanation
Indices: 9587642--9587887 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
9587632 GTAGCCGAAG
* * * *
9587642 CTATCTGGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
9587691 TTATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * *
9587741 CCATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
9587791 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
9587841 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
9587888 TCACAATAGC
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 79 0.49
50 46 0.28
51 37 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:9587883 original size:100 final size:99
Alignment explanation
Indices: 9587644--9587887 Score: 328
Period size: 100 Copynumber: 2.5 Consensus size: 99
9587634 AGCCGAAGCT
* * * * * * *
9587644 ATCTGGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
* * *
9587709 AGCTTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
9587743 ATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATA
*
9587808 GTAGCCTGCACTTAGTACTACACATGCGACC-AACA
64 GTAGCCTGCACTTAGTACTACACACGCGACCTAACA
9587843 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
9587888 TCACAATAGC
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 37 0.30
100 47 0.38
101 41 0.33
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:9599339 original size:3 final size:3
Alignment explanation
Indices: 9599333--9599547 Score: 153
Period size: 3 Copynumber: 70.3 Consensus size: 3
9599323 ACACTACTAT
9599333 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
9599381 ATA ATA ATA ATA AT- ATA GA-A ATA CA-A AGA GCA-A ATA AGA ATA TTA
1 ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA --ATA ATA ATA ATA ATA
* * * *
9599426 A-A TTTA A-A AAA ACA ATA CT- ATA TATA A-A AGTA TATA TATA CAT-
1 ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA A-TA -ATA -ATA -ATA
* *
9599469 ATA TGTA CATA AAA AT- ATA CACTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA -ATA -ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA
9599517 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9599548 AAATGCAGAA
Statistics
Matches: 175, Mismatches: 16, Indels: 42
0.75 0.07 0.18
Matches are distributed among these distances:
2 15 0.09
3 134 0.77
4 22 0.13
5 4 0.02
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9600428 original size:7 final size:8
Alignment explanation
Indices: 9600412--9600437 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9600402 ATAAATTCGG
9600412 AAAATAAA
1 AAAATAAA
9600420 AAAATAAA
1 AAAATAAA
9600428 AAAATAAA
1 AAAATAAA
9600436 AA
1 AA
9600438 GGAAAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:9600590 original size:29 final size:30
Alignment explanation
Indices: 9600548--9600607 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
9600538 GATTTTTTGT
*
9600548 TCTTGAATCTCAAAAAAAGA-AAAATCCCC
1 TCTTGAATCACAAAAAAAGACAAAATCCCC
9600577 TCTTGAATCACAAAAAAAGAGCAAAATCCCC
1 TCTTGAATCACAAAAAAAGA-CAAAATCCCC
9600608 CCTGTGTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 19 0.68
31 9 0.32
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.18
Consensus pattern (30 bp):
TCTTGAATCACAAAAAAAGACAAAATCCCC
Found at i:9608447 original size:12 final size:12
Alignment explanation
Indices: 9608430--9608459 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9608420 TACCATTTGT
9608430 ATGTATGCATGC
1 ATGTATGCATGC
*
9608442 ATGTATGTATGC
1 ATGTATGCATGC
9608454 ATGTAT
1 ATGTAT
9608460 AGGGAAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (12 bp):
ATGTATGCATGC
Found at i:9609946 original size:17 final size:18
Alignment explanation
Indices: 9609906--9609939 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9609896 TTTAATTAAT
9609906 TAAATTGATTTTTTCAAA
1 TAAATTGATTTTTTCAAA
9609924 TAAATT-ATTTTTTCAA
1 TAAATTGATTTTTTCAA
9609940 CTCAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAATTGATTTTTTCAAA
Found at i:9610512 original size:26 final size:26
Alignment explanation
Indices: 9610479--9610529 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
9610469 GGGTAAACCC
9610479 GTTCTCCTAATATCATCCTATTTAAA
1 GTTCTCCTAATATCATCCTATTTAAA
9610505 GTTCTCCTAATATCATCCTATTTAA
1 GTTCTCCTAATATCATCCTATTTAA
9610530 TCTCATGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (26 bp):
GTTCTCCTAATATCATCCTATTTAAA
Found at i:9613301 original size:56 final size:56
Alignment explanation
Indices: 9613215--9613330 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
9613205 GGGATGATAG
9613215 GCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGA
1 GCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGA
* *
9613271 GCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGG
1 GCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGA
9613327 GCAA
1 GCAA
9613331 TAAACTAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (56 bp):
GCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGA
Found at i:9614596 original size:78 final size:80
Alignment explanation
Indices: 9614461--9614683 Score: 269
Period size: 78 Copynumber: 2.8 Consensus size: 80
9614451 TCGAATGATG
* * * * * *
9614461 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT--CGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
9614523 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
9614540 TCCGGGCTAAG-CCCGAAGGCATTGGTG-GAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
9614602 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
9614618 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
9614683 G
66 G
9614684 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
76 2 0.02
77 14 0.11
78 43 0.35
79 31 0.25
80 32 0.26
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:9614690 original size:40 final size:40
Alignment explanation
Indices: 9614461--9614683 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
9614451 TCGAATGATG
* * * *
9614461 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
9614501 TCCGGACTAAGAT--CGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9614540 TCCGGGCTAAG-CCCGAAGGCATTGGTG-GAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9614578 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9614618 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
9614659 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
9614684 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 19 0.12
39 50 0.31
40 89 0.55
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9621195 original size:56 final size:56
Alignment explanation
Indices: 9621109--9621228 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
9621099 ACAAGGGATG
9621109 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
9621165 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
9621221 ATGGGCAA
1 ATGGGCAA
9621229 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:9622588 original size:80 final size:78
Alignment explanation
Indices: 9622364--9622614 Score: 267
Period size: 79 Copynumber: 3.2 Consensus size: 78
9622354 ATGTCCGGGC
* * * * *
9622364 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
9622427 AGATACTAATTCCGGGC
64 AG-TACTAAATCC-GGT
* *
9622444 TAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
9622507 GTTACTAAATCCTGGT
65 G-TACTAAATCC-GGT
* **
9622523 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
9622588 TAGCTATATCCGGT
66 TA-CTAAATCCGGT
* *
9622602 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
9622615 TACGTGATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 73 0.50
80 69 0.47
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TACTAAATCCGGT
Found at i:9622595 original size:40 final size:40
Alignment explanation
Indices: 9622357--9622581 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
9622347 TCGAATGATG
* * * *
9622357 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
9622397 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9622437 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9622476 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
9622516 TCCTGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
9622557 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
9622582 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9636641 original size:56 final size:56
Alignment explanation
Indices: 9636555--9636674 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
9636545 ACAAGGGATG
9636555 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
9636611 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
9636667 ATGGGCAA
1 ATGGGCAA
9636675 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:9638032 original size:80 final size:79
Alignment explanation
Indices: 9637840--9638058 Score: 266
Period size: 79 Copynumber: 2.8 Consensus size: 79
9637830 AAGTGACCAT
* * *
9637840 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCAT
9637903 TGGTGCGAGTTACTAA
64 TGGTGCGAGTTACTAA
*
9637919 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
9637984 TGTGCGAGTTACTATA
65 GGTGCGAGTTACTA-A
* ** * * *
9638000 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAGG
9638059 TACGTGATTT
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 61 0.50
80 59 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTG
GTGCGAGTTACTAA
Found at i:9638039 original size:40 final size:40
Alignment explanation
Indices: 9637801--9638025 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
9637791 TCGAATGATG
* * * * * *
9637801 TCCGAGCTAAGTCCCGAAGG-TTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
9637841 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9637881 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9637920 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9637960 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
9638001 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
9638026 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9640783 original size:97 final size:97
Alignment explanation
Indices: 9640638--9640868 Score: 275
Period size: 97 Copynumber: 2.4 Consensus size: 97
9640628 AAAAGTTGTT
* * *
9640638 AATACGTTGTGGATGAACCACTAGTCATTGTAAATAAACTACCAACTAAAACATGTTGCGGATGA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAAATAAACTACCAACTAAAACATGTTGCGGATGA
* * *
9640703 ACTACTGGTTGTGCAGATAAATTGTTGACTAA
66 ACTACTGGTCGTGCAGATAAACTGTCGACTAA
* * * * ** * * * * *
9640735 AATATGTTGTGGATGAACCATTGGTCGTTGGAGATAAACTGTCGACTAAAATATTTTGTGGGTGA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAAATAAACTACCAACTAAAACATGTTGCGGATGA
9640800 ACTACTGGTCGTGCAGATAAACTGTCGACTAA
66 ACTACTGGTCGTGCAGATAAACTGTCGACTAA
* * *
9640832 AATAAATTATGGATGAACCACTGGTCA-TGCAAATAAA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAAATAAA
9640869 TTGTTGACAC
Statistics
Matches: 111, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
96 8 0.07
97 103 0.93
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
AATAAGTTGTGGATGAACCACTGGTCATTGGAAATAAACTACCAACTAAAACATGTTGCGGATGA
ACTACTGGTCGTGCAGATAAACTGTCGACTAA
Found at i:9640784 original size:49 final size:48
Alignment explanation
Indices: 9640638--9640868 Score: 228
Period size: 48 Copynumber: 4.8 Consensus size: 48
9640628 AAAAGTTGTT
* * * * * ** *
9640638 AATACGTTGTGGATGAACCACTAGTCATTGTAAATAAACTACCAACTAA
1 AATATGTTGTGGATGAACCACTGGTC-GTGCAGATAAACTGTCGACTAA
* * * * * *
9640687 AACATGTTGCGGATGAACTACTGGTTGTGCAGATAAATTGTTGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAA
* *
9640735 AATATGTTGTGGATGAACCATTGGTCGTTGGAGATAAACTGTCGACTAA
1 AATATGTTGTGGATGAACCACTGGTCG-TGCAGATAAACTGTCGACTAA
* * *
9640784 AATATTTTGTGGGTGAACTACTGGTCGTGCAGATAAACTGTCGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAA
** * * *
9640832 AATAAATTATGGATGAACCACTGGTCATGCAAATAAA
1 AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAA
9640869 TTGTTGACAC
Statistics
Matches: 147, Mismatches: 34, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 86 0.59
49 61 0.41
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAA
Found at i:9640926 original size:17 final size:17
Alignment explanation
Indices: 9640904--9640942 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9640894 CATCCCACCC
9640904 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
9640921 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
9640938 CATGC
1 CATGC
9640943 TTATAGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (17 bp):
CATGCAATGTAACATAA
Found at i:9653706 original size:15 final size:15
Alignment explanation
Indices: 9653686--9653760 Score: 75
Period size: 15 Copynumber: 5.0 Consensus size: 15
9653676 CATAATATCG
*
9653686 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
9653701 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
9653716 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
*
9653731 TAT-TCTGGGTTT-TT
1 TATCT-TGGATTTCTT
9653745 CTATCTTGGATTTCTT
1 -TATCTTGGATTTCTT
9653761 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.06
15 45 0.88
16 3 0.06
ACGTcount: A:0.11, C:0.15, G:0.16, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:9657733 original size:60 final size:60
Alignment explanation
Indices: 9657660--9657778 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
9657650 TGATGTTATG
9657660 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCTT
1 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCTT
* *
9657720 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCTTTAACCATGTTCT
1 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCT
9657779 GGCATTGAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (60 bp):
TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCTT
Found at i:9658334 original size:6 final size:6
Alignment explanation
Indices: 9658303--9658359 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
9658293 AAACATAAAC
* * * * * *
9658303 AAATAA GAATAA CATTAA CAAT-A AAATAA AAATGA AAGTAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
9658350 AAATAA AAAT
1 AAATAA AAAT
9658360 TTTGAAGTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:9694342 original size:27 final size:26
Alignment explanation
Indices: 9694297--9694384 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
9694287 CCCTGTTTAG
* *
9694297 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-GTAAAATTACCGA
* *
9694324 AATACGCTTAGTTTGTAAAAATACTGA
1 AATAC-CTTAGTTTGTAAAATTACCGA
* * **
9694351 AATACCCTCGATTTGTAAAATTACTAA
1 AATACCTTAG-TTTGTAAAATTACCGA
9694378 AATACCT
1 AATACCT
9694385 AAAATTACCA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
26 3 0.06
27 40 0.80
28 7 0.14
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (26 bp):
AATACCTTAGTTTGTAAAATTACCGA
Found at i:9694401 original size:18 final size:18
Alignment explanation
Indices: 9694366--9694401 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9694356 CCTCGATTTG
*
9694366 TAAAATTACTAAAATACC
1 TAAAATTACCAAAATACC
*
9694384 TAAAATTACCAAAGTACC
1 TAAAATTACCAAAATACC
9694402 CCCGATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (18 bp):
TAAAATTACCAAAATACC
Found at i:9694428 original size:27 final size:27
Alignment explanation
Indices: 9694398--9694608 Score: 226
Period size: 27 Copynumber: 7.8 Consensus size: 27
9694388 ATTACCAAAG
* *
9694398 TACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
9694425 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
9694452 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
9694479 TACCCTCGACTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
9694506 TACCCTCAATTTACAGAATTCCCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * **
9694533 TACCCTCGGTTTACAAAACTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
9694560 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
9694587 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
9694609 TAAAATACCC
Statistics
Matches: 156, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 154 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:9694531 original size:81 final size:81
Alignment explanation
Indices: 9694398--9694608 Score: 264
Period size: 81 Copynumber: 2.6 Consensus size: 81
9694388 ATTACCAAAG
* * *
9694398 TACCCCCGATTTATAGAATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCC-CTGAT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTC-GAT
* *
9694462 TTACATAATTA-TCATTT
65 TTACAAAACTACT-ATTT
* * * * *
9694479 TACCCTCGACTTATAGAATTACCGTTTTACCCTCAATTTACAGAATTCCCGTTTTACCCTCGGTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
9694544 TACAAAACTACTATTT
66 TACAAAACTACTATTT
* * **
9694560 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
9694609 TAAAATACCC
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 109 0.98
82 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAAAACTACTATTT
Found at i:9694617 original size:27 final size:27
Alignment explanation
Indices: 9694533--9694809 Score: 134
Period size: 27 Copynumber: 10.2 Consensus size: 27
9694523 ATTCCCGTTT
* * ***
9694533 TACCCTCGGTTTACAAAACTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ***
9694560 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
9694587 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
9694614 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
9694641 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
9694668 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* **
9694695 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
9694722 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
9694749 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
9694778 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
9694805 TACCC
1 TACCC
9694810 GTAGTTTGTA
Statistics
Matches: 206, Mismatches: 33, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.01
27 177 0.86
28 7 0.03
29 19 0.09
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:9694634 original size:54 final size:53
Alignment explanation
Indices: 9694533--9694726 Score: 151
Period size: 54 Copynumber: 3.6 Consensus size: 53
9694523 ATTCCCGTTT
* * *** * * **
9694533 TACCCTCGGTTTACAAAACTACTATTTTACCCTTGATT-TACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGTTTGTA-A-AATTACCATAA
*
9694587 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTT-GTTTGTAAAATTACCATAA
* ** * *
9694641 TACCCT-TAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGA-AA
1 TACCCTCGA-TTTACAAAATTACTAAAATACCCTT-GTTTGTAAAATTACC-ATAA
* **
9694695 TACCCTCAATTTGTAAAATTACTAAAATACCC
1 TACCCTCGATTTACAAAATTACTAAAATACCC
9694727 CTGATTTACA
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 108 0.92
55 6 0.05
56 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (53 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGTTTGTAAAATTACCATAA
Found at i:9694645 original size:81 final size:80
Alignment explanation
Indices: 9694560--9694754 Score: 187
Period size: 81 Copynumber: 2.4 Consensus size: 80
9694550 ACTACTATTT
* *** * * *
9694560 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAGTT
1 TACCCTTGATTTACA-AATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCAATT
9694625 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * *** *
9694641 TACCCTTAGTTTGTA-AAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCTT-GATT-TACAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCAAT
*
9694705 TTGTAAAATTACTAAAA
64 TTGTAAAATTACCAAAA
*
9694722 TACCCCTGATTTACAAAGTTA-CAGAAATACCCT
1 TACCCTTGATTTACAAA-TTACCA-AAATACCCT
9694755 TGACTTTCTA
Statistics
Matches: 92, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
79 2 0.02
80 8 0.09
81 76 0.83
82 4 0.04
83 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:9694749 original size:54 final size:53
Alignment explanation
Indices: 9694587--9694809 Score: 191
Period size: 54 Copynumber: 4.1 Consensus size: 53
9694577 ATTACTATTT
* ** *
9694587 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTT-GGTT-TACAAATTA-CAGAAA
* * * ** *
9694641 TACCCTTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTT-ACAAATTACAGAAA
* *
9694695 TACCCTCAATTTGTAAAATTACTAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTACAAA-TTACAGAAA
* * * * *
9694749 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACTA-AAATACCCTTGGTTTAC-AAATTACAGAAA
9694805 TACCC
1 TACCC
9694810 GTAGTTTGTA
Statistics
Matches: 137, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 84 0.61
55 8 0.06
56 34 0.25
57 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCTTGGTTTACAAATTACAGAAA
Found at i:9694755 original size:81 final size:81
Alignment explanation
Indices: 9694602--9694756 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
9694592 TCGATTTACA
* * * * *
9694602 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
9694667 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
* *
9694683 AAATTACCGAAATACCCTCAATTTGTAAAATTACTAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA
9694745 GAAATACCCTTG
64 -AAATACCCTTG
9694757 ACTTTCTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 54 0.84
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:9694816 original size:27 final size:27
Alignment explanation
Indices: 9694600--9694817 Score: 165
Period size: 27 Copynumber: 8.0 Consensus size: 27
9694590 CCTCGATTTA
9694600 CAAAATTACTAAAATACCCTTAGTTTG
1 CAAAATTACTAAAATACCCTTAGTTTG
* *
9694627 TAAAATTACCAAAATACCCTTAGTTTG
1 CAAAATTACTAAAATACCCTTAGTTTG
* * *
9694654 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACTAAAATACCCTTAGTTTG
** ** * *
9694681 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACTAAAATACCCTTAGTTTG
* * *
9694708 TAAAATTACTAAAATACCCCT-GATTTA
1 CAAAATTACTAAAATACCCTTAG-TTTG
* *
9694735 CAAAGTTAC-AGAAATACCCTTGACTTT-
1 CAAAATTACTA-AAATACCCTT-AGTTTG
* * *
9694762 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACTA-AAATACCCTTAGTTTG
* *
9694791 CAAAATTACTGAAATACCCGTAGTTTG
1 CAAAATTACTAAAATACCCTTAGTTTG
9694818 TAGATTTACC
Statistics
Matches: 154, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.01
27 128 0.83
28 7 0.05
29 18 0.12
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACTAAAATACCCTTAGTTTG
Found at i:9694934 original size:27 final size:27
Alignment explanation
Indices: 9694857--9694934 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
9694847 AAATGACTAA
* *
9694857 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
9694884 AA-AGCTCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
9694911 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
9694935 GAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:9696123 original size:25 final size:25
Alignment explanation
Indices: 9696094--9696141 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9696084 TTATAATATG
* * *
9696094 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
9696119 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
9696142 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:9696192 original size:9 final size:9
Alignment explanation
Indices: 9696180--9696236 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
9696170 TTTGATAAAC
9696180 ATGATATGT
1 ATGATATGT
*
9696189 ATGATATGCAC
1 ATGATATG--T
*
9696200 ATGACATGT
1 ATGATATGT
*
9696209 ATGATATGCAC
1 ATGATATG--T
9696220 ATGATATGT
1 ATGATATGT
9696229 ATGATATG
1 ATGATATG
9696237 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:9696203 original size:20 final size:20
Alignment explanation
Indices: 9696178--9696248 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
9696168 ATTTTGATAA
9696178 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9696198 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
9696218 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
9696238 ACATGAGATGT
1 ACATGATATGT
9696249 TCGTAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:9696225 original size:11 final size:11
Alignment explanation
Indices: 9696189--9696243 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
9696179 CATGATATGT
9696189 ATGATATGCAC
1 ATGATATGCAC
* *
9696200 ATGACATG--T
1 ATGATATGCAC
9696209 ATGATATGCAC
1 ATGATATGCAC
*
9696220 ATGATATG--T
1 ATGATATGCAC
9696229 ATGATATGCAC
1 ATGATATGCAC
9696240 ATGA
1 ATGA
9696244 GATGTTCGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:9696425 original size:24 final size:25
Alignment explanation
Indices: 9696295--9696438 Score: 240
Period size: 25 Copynumber: 5.9 Consensus size: 25
9696285 AGGAAGTGCA
9696295 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
9696318 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
9696343 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
9696368 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
9696393 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
9696417 AAAGGGCTTTTGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
9696439 TAAAAGAGGC
Statistics
Matches: 115, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
23 22 0.19
24 22 0.19
25 71 0.62
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Done.