Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 51
Found at i:8227579 original size:3 final size:3
Alignment explanation
Indices: 8227571--8227599 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8227561 TATTTATGGT
8227571 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8227600 AAAGTAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8229006 original size:3 final size:3
Alignment explanation
Indices: 8228988--8229041 Score: 72
Period size: 3 Copynumber: 17.0 Consensus size: 3
8228978 TTTGGGCCTG
*
8228988 TAA TATA TAA TAAA TAA TAA TAT TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
8229036 TAA TAA
1 TAA TAA
8229042 ATAAAAAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 37 0.80
4 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8229033 original size:13 final size:13
Alignment explanation
Indices: 8228988--8229045 Score: 80
Period size: 13 Copynumber: 4.2 Consensus size: 13
8228978 TTTGGGCCTG
8228988 TAATATATAATAAA
1 TAATA-ATAATAAA
*
8229002 TAATAATATTAATAA
1 TAATAATAAT-A-AA
8229017 TAATAATAATAAA
1 TAATAATAATAAA
8229030 TAATAATAATAAA
1 TAATAATAATAAA
8229043 TAA
1 TAA
8229046 AAAAACCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
13 22 0.55
14 7 0.17
15 11 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:8230395 original size:3 final size:3
Alignment explanation
Indices: 8230387--8230463 Score: 131
Period size: 3 Copynumber: 26.0 Consensus size: 3
8230377 TTGATTTTTA
8230387 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8230433 TAT TAT TAT TAT TAT TA- TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8230464 ATTCTATATC
Statistics
Matches: 71, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 64 0.90
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8231356 original size:19 final size:18
Alignment explanation
Indices: 8231332--8231369 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
8231322 TTGGTTTATC
8231332 AAACTAAAACCAAGAAATA
1 AAACTAAAACCAA-AAATA
*
8231351 AAACTAAAACTAAAAATA
1 AAACTAAAACCAAAAATA
8231369 A
1 A
8231370 CAAAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.71, C:0.13, G:0.03, T:0.13
Consensus pattern (18 bp):
AAACTAAAACCAAAAATA
Found at i:8232662 original size:8 final size:8
Alignment explanation
Indices: 8232616--8232671 Score: 53
Period size: 8 Copynumber: 6.9 Consensus size: 8
8232606 TTATTTATAT
8232616 AAATATAAC
1 AAATA-AAC
8232625 -AATAAAC
1 AAATAAAC
* *
8232632 AAACAAAT
1 AAATAAAC
8232640 ATTAATAAA-
1 A--AATAAAC
8232649 AAATAAAC
1 AAATAAAC
8232657 AAATAAAC
1 AAATAAAC
8232665 AAATAAA
1 AAATAAA
8232672 ATAAATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
7 9 0.22
8 25 0.62
9 1 0.03
10 5 0.12
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (8 bp):
AAATAAAC
Found at i:8232812 original size:37 final size:37
Alignment explanation
Indices: 8232748--8232821 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
8232738 TATTAGTATA
8232748 CATAAATAAATTAAATATATCTCTATTCAAATTTATT
1 CATAAATAAATTAAATATATCTCTATTCAAATTTATT
* * * *
8232785 CATATAATAAA-TAATTATATTTTTATTCATATTTATT
1 CATA-AATAAATTAAATATATCTCTATTCAAATTTATT
8232822 TACTTAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 26 0.81
38 6 0.19
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (37 bp):
CATAAATAAATTAAATATATCTCTATTCAAATTTATT
Found at i:8236412 original size:16 final size:16
Alignment explanation
Indices: 8236391--8236425 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8236381 CCTGACCGTC
8236391 GACCAGAGTAGACTTT
1 GACCAGAGTAGACTTT
* *
8236407 GACCAGGGTTGACTTT
1 GACCAGAGTAGACTTT
8236423 GAC
1 GAC
8236426 TTTGGCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (16 bp):
GACCAGAGTAGACTTT
Found at i:8249199 original size:12 final size:12
Alignment explanation
Indices: 8249182--8249214 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
8249172 TACTCTTCTT
8249182 TTTTGCCTTTGC
1 TTTTGCCTTTGC
8249194 TTTTGCCTTTGC
1 TTTTGCCTTTGC
8249206 TTTTGCCTT
1 TTTTGCCTT
8249215 GTCAGTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.15, T:0.61
Consensus pattern (12 bp):
TTTTGCCTTTGC
Found at i:8253413 original size:3 final size:3
Alignment explanation
Indices: 8253405--8253430 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8253395 TAAATATGTG
8253405 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8253431 CCGATATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8253443 original size:15 final size:15
Alignment explanation
Indices: 8253425--8253461 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8253415 TATTATTATT
8253425 ATTATTCCGATATGA
1 ATTATTCCGATATGA
8253440 ATTATTCCGATATGA
1 ATTATTCCGATATGA
8253455 ATTATTC
1 ATTATTC
8253462 TGATTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (15 bp):
ATTATTCCGATATGA
Found at i:8256900 original size:40 final size:40
Alignment explanation
Indices: 8256856--8256977 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
8256846 ACTGTAGTAC
*
8256856 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
8256896 TACACATAAGGTAGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
8256936 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
8256976 TA
1 TA
8256978 TAAACCTGCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:8261916 original size:6 final size:6
Alignment explanation
Indices: 8261905--8261933 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8261895 ATCATAATCG
8261905 TGACCA TGACCA TGACCA TGACCA TGACC
1 TGACCA TGACCA TGACCA TGACCA TGACC
8261934 TATGGGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
TGACCA
Found at i:8263163 original size:13 final size:13
Alignment explanation
Indices: 8263130--8263168 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
8263120 ATTTTATATG
8263130 AATAGTGAATAGT
1 AATAGTGAATAGT
*
8263143 ACA-CGTGAATAGT
1 A-ATAGTGAATAGT
8263156 AATAGTGAATAGT
1 AATAGTGAATAGT
8263169 GGGGGAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (13 bp):
AATAGTGAATAGT
Found at i:8263763 original size:47 final size:49
Alignment explanation
Indices: 8263640--8263769 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 49
8263630 ATATAAATTT
* *
8263640 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA--TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTTACCAAAATA
* ** *
8263686 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTTTTTCAATATA
1 CTTACCATTT-AATTCCATAAGCTCATAAGCTTATTTTTTTACCAAAATA
* *
8263736 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
8263770 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 6 0.08
47 26 0.37
48 20 0.28
49 2 0.03
50 17 0.24
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (49 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTTACCAAAATA
Found at i:8263917 original size:40 final size:40
Alignment explanation
Indices: 8263873--8263994 Score: 219
Period size: 40 Copynumber: 3.0 Consensus size: 40
8263863 ACTGTAGTGC
*
8263873 TACACATAA-GTCCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGT-CGTGCCCACCATATACACCGAAGTGTAT
8263913 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
8263953 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
8263993 TA
1 TA
8263995 TAAACCTGCA
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
40 78 0.98
41 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:8271030 original size:39 final size:36
Alignment explanation
Indices: 8270936--8271180 Score: 169
Period size: 36 Copynumber: 6.8 Consensus size: 36
8270926 TAAGTCATGT
*
8270936 AAGA-AAATTGTCCCAAGTGAGATGAATTTTTTTTC
1 AAGAGAAATTGTCTCAAGTGAGATGAATTTTTTTTC
* *
8270971 AAGAGAAAATATCTCAAGTGAGATGATATTTTTTGTTTC
1 AAGAGAAATTGTCTCAAGTGAGATGA-A-TTTTT-TTTC
* * * *
8271010 ATGGGAAATTGTCTCGAGTGAGA-CAATTTTTTTT-
1 AAGAGAAATTGTCTCAAGTGAGATGAATTTTTTTTC
* * *
8271044 AAG-GAAATATATCTCAAGCGAGATAAATTTTTGTTTC
1 AAGAGAAAT-TGTCTCAAGTGAGATGAATTTTT-TTTC
* * * * *
8271081 AAGACAAAGTATCTCAAGTGAGATGAAACTTTTTTTG
1 AAGAGAAATTGTCTCAAGTGAGATG-AATTTTTTTTC
* * * * *
8271118 AGGA-AAACTATCTCAAGTGAAAT-AATTTTTTGTTTT
1 AAGAGAAATTGTCTCAAGTGAGATGAA-TTTTT-TTTC
* * *
8271154 AATAGAAATAGTCTCGAGTGAGATGAA
1 AAGAGAAATTGTCTCAAGTGAGATGAA
8271181 ATTTGCTTTA
Statistics
Matches: 164, Mismatches: 32, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
33 5 0.03
34 15 0.09
35 18 0.11
36 48 0.29
37 39 0.24
38 17 0.10
39 22 0.13
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (36 bp):
AAGAGAAATTGTCTCAAGTGAGATGAATTTTTTTTC
Found at i:8271067 original size:73 final size:71
Alignment explanation
Indices: 8270940--8271254 Score: 260
Period size: 73 Copynumber: 4.3 Consensus size: 71
8270930 TCATGTAAGA
* *
8270940 AAATTGTCCCAAGTGAGATGAATTTTTTTTCAAGAGAAAATATCTCAAGTGAGATGATATTTTTT
1 AAATTGTCTCAAGTGAGATAAATTTTTTTT-AAG-GAAAATATCTCAAGTGAGAT-A-ATTTTTT
*
8271005 GTTTCATGGG
62 GTTTCATGAG
* * * *
8271015 AAATTGTCTCGAGTGAGA-CAATTTTTTTTAAGGAAATATATCTCAAGCGAGATAAATTTTTGTT
1 AAATTGTCTCAAGTGAGATAAATTTTTTTTAAGGAAA-ATATCTCAAGTGAGATAATTTTTTGTT
* *
8271079 TCAAGAC
65 TCATGAG
* * * * *
8271086 AAAGTATCTCAAGTGAGATGAAACTTTTTTTGAGGAAAACTATCTCAAGTGAAATAATTTTTTGT
1 AAATTGTCTCAAGTGAGAT-AAATTTTTTTTAAGGAAAA-TATCTCAAGTGAGATAATTTTTTG-
*
8271151 TTTAAT-AG
63 TTTCATGAG
* * ** * * *
8271159 AAATAGTCTCGAGTGAGATGAAATTTGCTTTAA-GAAAATTACCACAAATGAGATAAAGTTTTTT
1 AAATTGTCTCAAGTGAGAT-AAATTTTTTTTAAGGAAAA-TATCTCAAGTGAGAT-AA-TTTTTT
*
8271223 GTTTCAAGAG
62 GTTTCATGAG
* *
8271233 AAACTATCTCAA-TGGAGATAAA
1 AAATTGTCTCAAGT-GAGATAAA
8271255 AAAATTATTT
Statistics
Matches: 192, Mismatches: 39, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
71 28 0.15
72 22 0.11
73 90 0.47
74 36 0.19
75 16 0.08
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.36
Consensus pattern (71 bp):
AAATTGTCTCAAGTGAGATAAATTTTTTTTAAGGAAAATATCTCAAGTGAGATAATTTTTTGTTT
CATGAG
Found at i:8271177 original size:110 final size:109
Alignment explanation
Indices: 8270949--8271184 Score: 246
Period size: 110 Copynumber: 2.1 Consensus size: 109
8270939 AAAATTGTCC
* * **
8270949 CAAGTGAGATGAATTTTTTTTCAAGAGAAAATATCTCAAGTGAGATGATATTTTTTGTTTCATGG
1 CAAGTGAGATAAATTTTTTTTCAAGACAAAATATCTCAAGTGAGATGATAACTTTTGTTTCATGG
* * * * * *
8271014 GAAATTGTCTCGAGTGAGACAATTTTTTTTAAGGAAATATATCT
66 AAAACTATCTCAAGTGAAACAATTTTTTTTAAAGAAATATATCT
* * *
8271058 CAAGCGAGATAAATTTTTGTTTCAAGACAAAGTATCTCAAGTGAGATGA-AACTTTT-TTTGA-G
1 CAAGTGAGATAAATTTTT-TTTCAAGACAAAATATCTCAAGTGAGATGATAACTTTTGTTTCATG
* *
8271120 GAAAACTATCTCAAGTGAAATAATTTTTTGTTTTAATAGAAATA-GTCT
65 GAAAACTATCTCAAGTGAAACAA--TTTT-TTTTAA-AGAAATATATCT
*
8271168 CGAGTGAGATGAAATTT
1 CAAGTGAGAT-AAATTT
8271185 GCTTTAAGAA
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
107 18 0.17
108 4 0.04
109 25 0.24
110 45 0.43
111 12 0.12
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (109 bp):
CAAGTGAGATAAATTTTTTTTCAAGACAAAATATCTCAAGTGAGATGATAACTTTTGTTTCATGG
AAAACTATCTCAAGTGAAACAATTTTTTTTAAAGAAATATATCT
Found at i:8271221 original size:146 final size:147
Alignment explanation
Indices: 8270949--8271244 Score: 345
Period size: 146 Copynumber: 2.0 Consensus size: 147
8270939 AAAATTGTCC
* * * *
8270949 CAAGTGAGATGAATTTTTTTTCAAGAGAAAATATCTCAAGTGAGATGATATTTTTTGTTTCATGG
1 CAAGTGAGATGAACTTTTTTTCAAGAGAAAATATCTCAAGTGAAATGATATTTTTTGTTTAATGA
* * ** * * * *
8271014 GAAATTGTCTCGAGTGAGACAATTTTTTTTAAGGAAATATATCTCAAGCGAGATAAA-TTTTTGT
66 GAAATAGTCTCGAGTGAGAAAATTTGCTTTAAGAAAATATACCACAAACGAGATAAATTTTTTGT
*
8271078 TTCAAGACAAAGTATCT
131 TTCAAGACAAACTATCT
*
8271095 CAAGTGAGATGAAACTTTTTTT-GAG-GAAAACTATCTCAAGTGAAAT-A-ATTTTTTGTTTTAA
1 CAAGTGAGATG-AACTTTTTTTCAAGAGAAAA-TATCTCAAGTGAAATGATATTTTTTG-TTTAA
*
8271156 T-AGAAATAGTCTCGAGTGAGATGAAATTTGCTTTAAGAAAAT-TACCACAAATGAGATAAAGTT
63 TGAGAAATAGTCTCGAGTGAGA--AAATTTGCTTTAAGAAAATATACCACAAACGAGATAAA-TT
*
8271219 TTTTGTTTCAAGAGAAACTATCT
125 TTTTGTTTCAAGACAAACTATCT
8271242 CAA
1 CAA
8271245 TGGAGATAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
144 26 0.20
145 25 0.20
146 42 0.33
147 34 0.27
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (147 bp):
CAAGTGAGATGAACTTTTTTTCAAGAGAAAATATCTCAAGTGAAATGATATTTTTTGTTTAATGA
GAAATAGTCTCGAGTGAGAAAATTTGCTTTAAGAAAATATACCACAAACGAGATAAATTTTTTGT
TTCAAGACAAACTATCT
Found at i:8274408 original size:21 final size:21
Alignment explanation
Indices: 8274378--8274448 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
8274368 GATAGATACT
* *
8274378 TTACAATATAAGCACTACCTA
1 TTACATTATAAGCGCTACCTA
*
8274399 TTACATTATAAACGCTACCTA
1 TTACATTATAAGCGCTACCTA
8274420 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAAGCGCTACCTA
8274443 TTACAT
1 TTACAT
8274449 CATATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 23 0.52
22 2 0.05
23 19 0.43
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (21 bp):
TTACATTATAAGCGCTACCTA
Found at i:8274437 original size:23 final size:23
Alignment explanation
Indices: 8274383--8274453 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
8274373 ATACTTTACA
*
8274383 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
8274406 ATA-AA-CGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
8274427 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
8274450 ATAT
1 ATAT
8274454 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.41
22 4 0.09
23 22 0.50
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:8274842 original size:23 final size:23
Alignment explanation
Indices: 8274807--8274879 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
8274797 ATACTTTACA
* *
8274807 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
8274830 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
8274853 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
8274876 ATAT
1 ATAT
8274880 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:8275258 original size:22 final size:22
Alignment explanation
Indices: 8275227--8275302 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
8275217 GATAGATACT
8275227 TTACA-ATATAACCACTACCTA
1 TTACATATATAACCACTACCTA
*
8275248 TTACATATATAAACGA-TACCTA
1 TTACATATAT-AACCACTACCTA
*
8275270 TTACATTATATAA-CGCTACCTA
1 TTACA-TATATAACCACTACCTA
8275292 TTACATCATAT
1 TTACAT-ATAT
8275303 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.13
22 32 0.68
23 9 0.19
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (22 bp):
TTACATATATAACCACTACCTA
Found at i:8275478 original size:423 final size:425
Alignment explanation
Indices: 8274041--8276433 Score: 4136
Period size: 425 Copynumber: 5.7 Consensus size: 425
8274031 TATTACATTA
*
8274041 TATTATATTAAAAG-GTCCATAC-TTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
8274104 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT--AATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
8274167 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAATATATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT-AAAATATATTTAGAATTTTTAA-TT
8274232 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
193 -ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
* *
8274297 CTTAAAACTCACTC-AAATATAATCTT--A--AATGTTTTCCACAGTGAAAAAAGTATGGACACT
257 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
8274357 TTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACAT-TATAAACGCTACCTAT
322 TTTATAAAAAGGATAGATACTTTACAATATAA-CACTACCTATTACATATATAAACGATACCTAT
8274421 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
386 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
8274461 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATATAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
8274526 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
8274591 TTTGCAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA-TATTTAGAATTTTTAA-TT-
8274655 ATAATAATATATATCGTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAATA-C
193 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
8274718 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC-T
258 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
*
8274782 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGCTACCTAT
323 TTATAAAAAGGATAGATACTTTACAATATAA-CACTACCTATTACA-TATATAAACGATACCTAT
8274847 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
386 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
8274887 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
* * *
8274951 TTATGTTTCATTTTTTTTAATAGTGTTTCATG-CTTCCACCTACAATATTAATTTAATAATTTTA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
8275015 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTTATAAAATATATTTAGAATTTTTAATT-T
131 TTTGCACAAAAAATTATTTGATTGTTTTGATA-TTTTATAAAATATATTTAGAATTTTTAATTAT
*
8275079 AATAATATATATCGTAAAGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
195 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
*
8275144 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
260 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
8275209 ATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATATATAAACGATACCTATTAC
325 ATAAAAAGGATAGATACTTTACAATATAA-CACTACCTATTACATATATAAACGATACCTATTAC
8275274 ATTATATAA-CGCTACCTATTACATCATATTTTTACC
389 ATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
8275310 TATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATAGTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
8275374 TTATGTTTCAATTTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
66 TTATGTTTCAA--TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTT
*
8275439 -ATTTGCACAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATATATTTAGAATTTTTATTTA
129 CATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTTTAATT-
*
8275502 ATAATAATATATATTGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
193 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
8275567 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
258 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTT
8275632 TTAT-AAAAGGATAGATACTTTACAATATAAC-CTACCTATTACATATATAAACGATACCTATTA
323 TTATAAAAAGGATAGATACTTTACAATATAACACTACCTATTACATATATAAACGATACCTATTA
8275695 CATTATATAAGCGCTACCTATTACATCATATTTTTACC
388 CATTATATAAGCGCTACCTATTACATCATATTTTTACC
8275733 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
8275798 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATCTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
8275863 TTTGCAC-AAAAATTATTTGATTGCTTTGATATTTTAT-AAATATTATTTAGAA-TTTTAATT-T
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA-TATTTAGAATTTTTAATTAT
8275924 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
195 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
*
8275989 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
260 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTT
8276054 ATAAAAAGGATAGATACTTTACAATAT-A-ACTACCTATTACAT-TATAAACGATACCTATTACA
325 ATAAAAAGGATAGATACTTTACAATATAACACTACCTATTACATATATAAACGATACCTATTACA
8276116 TTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTATATAAGCGCTACCTATTACATCATATTTTTACC
*
8276152 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAC-T-TTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
8276215 TTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
8276279 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAG-A-TTTTAATTTAT
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTTTAA-TTAT
*
8276342 AATAATATATA----AATGT-AAAAAT-AATCATTAGACGCCTATAATTACTAAA-TAATATCTT
195 AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
*
8276400 -AAACTCACTCAAAAGATAACTTTAAA-TAATGTTT
260 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTT
8276434 ATTGTTTTTA
Statistics
Matches: 1908, Mismatches: 32, Indels: 77
0.95 0.02 0.04
Matches are distributed among these distances:
409 8 0.00
410 25 0.01
411 9 0.00
412 27 0.01
413 6 0.00
414 4 0.00
416 66 0.03
417 66 0.03
418 18 0.01
419 100 0.05
420 172 0.09
421 112 0.06
422 285 0.15
423 262 0.14
424 254 0.13
425 374 0.20
426 120 0.06
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (425 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATATTTAGAATTTTTAATTATA
ATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTA
TAAAAAGGATAGATACTTTACAATATAACACTACCTATTACATATATAAACGATACCTATTACAT
TATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:8275712 original size:23 final size:22
Alignment explanation
Indices: 8275656--8275725 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
8275646 ATACTTTACA
8275656 ATATAAC-CTACCTATTACA-T
1 ATATAACGCTACCTATTACATT
*
8275676 ATATAAACGATACCTATTACATT
1 ATAT-AACGCTACCTATTACATT
*
8275699 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
8275722 ATAT
1 ATAT
8275726 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.09
21 3 0.07
22 13 0.30
23 23 0.53
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:8276099 original size:18 final size:19
Alignment explanation
Indices: 8276072--8276120 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
8276062 GATAGATACT
*
8276072 TTACAATATAAC-TACCTA
1 TTACATTATAACATACCTA
8276090 TTACATTATAAACGATACCTA
1 TTACATTAT-AAC-ATACCTA
8276111 TTACATTATA
1 TTACATTATA
8276121 TAAGCGCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 1 0.04
21 15 0.56
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (19 bp):
TTACATTATAACATACCTA
Found at i:8276110 original size:21 final size:23
Alignment explanation
Indices: 8276084--8276144 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
8276074 ACAATATAAC
8276084 TACCTATTACATTATA-AA-CGA
1 TACCTATTACATTATATAAGCGA
*
8276105 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGA
*
8276128 TACCTATTACATCATAT
1 TACCTATTACATTATAT
8276145 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 16 0.44
22 2 0.06
23 18 0.50
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGA
Found at i:8277770 original size:9 final size:9
Alignment explanation
Indices: 8277756--8277829 Score: 58
Period size: 9 Copynumber: 7.6 Consensus size: 9
8277746 CTTGTTTGGA
8277756 TCATCATCT
1 TCATCATCT
8277765 TCATCATCAT
1 TCATCATC-T
*
8277775 CATCATCATCG
1 --TCATCATCT
8277786 TCATCATCT
1 TCATCATCT
*
8277795 TCATCGTCATCG
1 TCA---TCATCT
*
8277807 TCATCATCA
1 TCATCATCT
*
8277816 TCGTCATCT
1 TCATCATCT
8277825 TCATC
1 TCATC
8277830 TTCTGCGACC
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 35 0.67
10 1 0.02
12 16 0.31
ACGTcount: A:0.23, C:0.34, G:0.05, T:0.38
Consensus pattern (9 bp):
TCATCATCT
Found at i:8277775 original size:15 final size:15
Alignment explanation
Indices: 8277755--8277829 Score: 96
Period size: 15 Copynumber: 5.0 Consensus size: 15
8277745 ACTTGTTTGG
8277755 ATCATCATCTTCATC
1 ATCATCATCTTCATC
*
8277770 ATCATCATCATCATC
1 ATCATCATCTTCATC
*
8277785 GTCATCATCTTCATC
1 ATCATCATCTTCATC
* * *
8277800 GTCATCGTCATCATC
1 ATCATCATCTTCATC
*
8277815 ATCGTCATCTTCATC
1 ATCATCATCTTCATC
8277830 TTCTGCGACC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.37
Consensus pattern (15 bp):
ATCATCATCTTCATC
Found at i:8277832 original size:6 final size:6
Alignment explanation
Indices: 8277755--8277829 Score: 87
Period size: 6 Copynumber: 12.5 Consensus size: 6
8277745 ACTTGTTTGG
* * * *
8277755 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * *
8277803 ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATC
8277830 TTCTGCGACC
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.24, C:0.33, G:0.05, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:8279612 original size:196 final size:198
Alignment explanation
Indices: 8279278--8279845 Score: 1011
Period size: 197 Copynumber: 2.9 Consensus size: 198
8279268 TTTAAATTAG
*
8279278 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
8279343 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* * *
8279408 GACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGAACAA
8279471 AAA
196 AAA
*
8279474 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGAC
1 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
8279539 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
8279604 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTG-TTTCCATTCATTCTAGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGAACAA
8279668 AAA
196 AAA
8279671 TATCGACA-CAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACCAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
8279735 CTTGTACCGGTTAGATTGAAAAATTACATATTATATT-TACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
*
8279799 TAGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
8279846 GGCCATATTG
Statistics
Matches: 358, Mismatches: 9, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
196 151 0.42
197 175 0.49
198 32 0.09
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTAGAACAA
AAA
Found at i:8280009 original size:19 final size:19
Alignment explanation
Indices: 8279965--8280011 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
8279955 ATATATTACA
*
8279965 ACAAAAATATAAATCGTAT
1 ACAAAATTATAAATCGTAT
*
8279984 ACAAAATTATAAATCTTAT
1 ACAAAATTATAAATCGTAT
8280003 ACAAAATTA
1 ACAAAATTA
8280012 ACCCTACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ACAAAATTATAAATCGTAT
Found at i:8281805 original size:33 final size:33
Alignment explanation
Indices: 8281768--8281833 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8281758 CATCTTAATA
*
8281768 TCACCCCTTAACACCCCAACTTCATTCACCACT
1 TCACCCCTCAACACCCCAACTTCATTCACCACT
* * *
8281801 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCATTCACCACT
8281834 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.27
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCATTCACCACT
Found at i:8281890 original size:21 final size:21
Alignment explanation
Indices: 8281864--8281905 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8281854 CCCCCTTATA
8281864 CTCAAGTGTATCTTCGACTCT
1 CTCAAGTGTATCTTCGACTCT
* *
8281885 CTCAAGTTTCTCTTCGACTCT
1 CTCAAGTGTATCTTCGACTCT
8281906 TGATTGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCAAGTGTATCTTCGACTCT
Found at i:8284100 original size:17 final size:18
Alignment explanation
Indices: 8284078--8284120 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
8284068 ATATATCCGG
8284078 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
8284095 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
8284115 TATCAT
1 TATCAT
8284121 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:8284138 original size:20 final size:19
Alignment explanation
Indices: 8284083--8284129 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
8284073 TCCGGTATCA
8284083 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
8284102 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
8284123 TTTTACC
1 TTTTACC
8284130 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:8284352 original size:178 final size:182
Alignment explanation
Indices: 8284050--8284518 Score: 668
Period size: 178 Copynumber: 2.6 Consensus size: 182
8284040 CGTACTTACG
* *
8284050 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTG-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * *
8284114 TTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
*
8284179 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCAATCC-T-TA-T
131 TAGGAGCTAAAA-TGCTTCTCTTTTAAATTCACAAAGTGTCAATCCTTATATT
*
8284229 ACAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGG-TTTATCATTTTGTA-ACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * *
8284292 TTATCATATTTTTACCTGGTATATCGTTTTGAATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** * *
8284357 TAGGATTTAAAATGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 TAGGAGCTAAAATGCTTCTCTTTTAAATTCACAAAGTGTCAATCCTTATATT
* * * * * *
8284409 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCTATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* *
8284473 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCG--ACATTTTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
8284519 TTTGGATCGA
Statistics
Matches: 259, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
177 31 0.12
178 88 0.34
179 52 0.20
180 42 0.16
181 46 0.18
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
TAGGAGCTAAAATGCTTCTCTTTTAAATTCACAAAGTGTCAATCCTTATATT
Found at i:8284973 original size:224 final size:222
Alignment explanation
Indices: 8284583--8285062 Score: 799
Period size: 224 Copynumber: 2.2 Consensus size: 222
8284573 TACTTTATAC
*
8284583 GTATGGACACTTTTATAAAAATG-TATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTAAAAGTTATGTAATTTA-GTTTCAATTT
8284647 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAA
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAA
* *
8284712 TTATTTGATTTTTTGATATTTATAAAATATTATTAGAATTTAAATTTAATAATATTAACCAAATA
130 TTATTTGATTTTTTGATATTTATAAAATATTATTAGAATTTAAATTTAACAATATTAACCAAAGA
*
8284777 TAATAATAAAT-GTTTTCCACAGTGAAATAA
195 TAAT-ATAAATAATTTT-CACAGTG-AATAA
8284807 GTATGGACACTTTTATAAAAATGATATATACTTTTTTAAAAGTTATGTAATTTA-TTTCAATTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTAAAAGTTATGTAATTTAGTTTCAA-TTT
*
8284871 TTTTAATAGTGTTTCATGTTTTCCACCTAC-ATATTAATTTAATAATTTCATTTACACACAAAAA
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAA
8284935 -TATTTGATTGTTTTGATATTTTATAAAATATTATTAGAATTTAAATTTAACAATATTAACCAAA
130 TTATTTGATT-TTTTGATA-TTTATAAAATATTATTAGAATTTAAATTTAACAATATTAACCAAA
8284999 GATAATATAAATAATTTTCACAGTGAATAA
193 GATAATATAAATAATTTTCACAGTGAATAA
* *
8285029 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
8285063 ACAATATAAC
Statistics
Matches: 244, Mismatches: 7, Indels: 12
0.93 0.03 0.05
Matches are distributed among these distances:
222 46 0.19
223 60 0.25
224 109 0.45
225 29 0.12
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (222 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTAAAAGTTATGTAATTTAGTTTCAATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAAT
TATTTGATTTTTTGATATTTATAAAATATTATTAGAATTTAAATTTAACAATATTAACCAAAGAT
AATATAAATAATTTTCACAGTGAATAA
Found at i:8302912 original size:16 final size:17
Alignment explanation
Indices: 8302891--8302927 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
8302881 AACGTCTTTT
8302891 AAAATAATTTTAAGA-A
1 AAAATAATTTTAAGACA
*
8302907 AAAATATTTTTAAGACA
1 AAAATAATTTTAAGACA
8302924 AAAA
1 AAAA
8302928 AGATATGCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAATAATTTTAAGACA
Found at i:8303496 original size:2 final size:2
Alignment explanation
Indices: 8303489--8303560 Score: 62
Period size: 2 Copynumber: 37.0 Consensus size: 2
8303479 GTAAAACGTA
* *
8303489 AT AT AT AT AT AT TT AT AT AT A- AT A- AT -T AA AGT GA- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T -AT AT AT AT
* *
8303529 AT AT AT AT AT AT AA AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8303561 GATTAATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
1 4 0.07
2 51 0.91
4 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8305188 original size:3 final size:3
Alignment explanation
Indices: 8305180--8305221 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
8305170 TAGGCTTGTA
8305180 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
8305222 AATGTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8305203 original size:22 final size:22
Alignment explanation
Indices: 8305178--8305221 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8305168 ATTAGGCTTG
8305178 TAAATAATAATAATAATAATAA
1 TAAATAATAATAATAATAATAA
8305200 TAAATAATAATAATAATAATAA
1 TAAATAATAATAATAATAATAA
8305222 AATGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAATAATAATAATAATAATAA
Found at i:8305205 original size:19 final size:19
Alignment explanation
Indices: 8305183--8305222 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
8305173 GCTTGTAAAT
8305183 AATAATAATAATAATAATA
1 AATAATAATAATAATAATA
8305202 AATAATAATAATAATAATA
1 AATAATAATAATAATAATA
8305221 AA
1 AA
8305223 ATGTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATAATAATAATAATAATA
Found at i:8308539 original size:41 final size:41
Alignment explanation
Indices: 8308428--8308588 Score: 218
Period size: 41 Copynumber: 4.0 Consensus size: 41
8308418 TATTTCGTTT
* *
8308428 TTCAACTTGATTCGATCATGGTATCCTACAATAATTCACCA
1 TTCAACTTGATTCGATCATGGTAGCATACAATAATTCACCA
* **
8308469 TTC-ACTTTATTCGATCATGGTAGTGTACAATAATTCACCA
1 TTCAACTTGATTCGATCATGGTAGCATACAATAATTCACCA
*
8308509 TTCAACTTGATTCGATCATCGTAGCATACAATAATTCACCA
1 TTCAACTTGATTCGATCATGGTAGCATACAATAATTCACCA
* * *
8308550 TCCAACTTGATT-GAATCATGGTAGCATACATTTATTCAC
1 TTCAACTTGATTCG-ATCATGGTAGCATACAATAATTCAC
8308589 AAACCATTCA
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 37 0.35
41 69 0.65
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (41 bp):
TTCAACTTGATTCGATCATGGTAGCATACAATAATTCACCA
Found at i:8311208 original size:1 final size:1
Alignment explanation
Indices: 8311204--8311247 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
8311194 AAATTTTGGC
* * * *
8311204 TTTTTTTTTTTTTTTGTTTTATTTTTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8311248 AAAAAATAGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:8311223 original size:15 final size:15
Alignment explanation
Indices: 8311205--8311247 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
8311195 AATTTTGGCT
8311205 TTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTG
*
8311220 TTTTATTTTTTTTTG
1 TTTTTTTTTTTTTTG
8311235 TTTTTTTGTTTTT
1 TTTTTTT-TTTTT
8311248 AAAAAATAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:8311223 original size:23 final size:23
Alignment explanation
Indices: 8311203--8311246 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8311193 CAAATTTTGG
8311203 CTTTTTTTT-TTTTTTTGTTTTA
1 CTTTTTTTTGTTTTTTTGTTTTA
*
8311225 TTTTTTTTTGTTTTTTTGTTTT
1 CTTTTTTTTGTTTTTTTGTTTT
8311247 TAAAAAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (23 bp):
CTTTTTTTTGTTTTTTTGTTTTA
Found at i:8318621 original size:17 final size:17
Alignment explanation
Indices: 8318585--8318622 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8318575 GTAAATAAGG
*
8318585 AAATATAATTTAGATTA
1 AAATATAATTTAGATGA
8318602 AAATA-AATTTAGATGGA
1 AAATATAATTTAGAT-GA
8318619 AAAT
1 AAAT
8318623 GGTAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAGATGA
Found at i:8323576 original size:36 final size:34
Alignment explanation
Indices: 8323531--8323606 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
8323521 TATGTCGCTT
* *
8323531 GAGACAATTT-TCCTTAGATAAAATTTCATCTCACTC
1 GAGATAATTTCTCCTTA-A-AAAA-TTCATATCACTC
* *
8323567 GAGATAATTTCTCTTTAAAAAATTCTTATCACTC
1 GAGATAATTTCTCCTTAAAAAATTCATATCACTC
8323601 GAGATA
1 GAGATA
8323607 GTTCCTCTCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 16 0.46
35 4 0.11
36 10 0.29
37 5 0.14
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (34 bp):
GAGATAATTTCTCCTTAAAAAATTCATATCACTC
Found at i:8324367 original size:137 final size:137
Alignment explanation
Indices: 8323963--8324380 Score: 452
Period size: 137 Copynumber: 3.0 Consensus size: 137
8323953 TTTTCCATAT
* * * * * *
8323963 TTTTTAAAGACCAATTTTAAGTTCACAGCA-AAGGATATTGGGTTTAAAAGAAATTTTAAAATCA
1 TTTTTAAAGAACAATTTCAATTTCACA-AAGAAGGATATTGGGTTTAAAAGCAATTTTAAAATCG
* ** * * * * *
8324027 ATTTAACTTATAATGGAGGAGTTGTCTGCAATCTAGCTTAACTCAATAATGAGGAGTTATTTTCC
65 ACTTAACTCGTAATGGAGGAGTTGTCTACAATCTAGCTTAACTCAACAACGAAGAGCTATTTTCC
8324092 AATCAAAG
130 AATCAAAG
* * * *
8324100 TTTTTGAAGACCAATTTCAATTTCACAAAGAAGGATATTGGGTTCAAAAGC-ATTTTCAAAATTG
1 TTTTTAAAGAACAATTTCAATTTCACAAAGAAGGATATTGGGTTTAAAAGCAATTTT-AAAATCG
* * * *
8324164 ACTTAAC-CTGTAATGGATGAGTTGTCTACAATCTAGTTTAACTCAACAACGACGAGAC-ATTGT
65 ACTTAACTC-GTAATGGAGGAGTTGTCTACAATCTAGCTTAACTCAACAACGAAGAG-CTATTTT
8324227 CCAATCAAAG
128 CCAATCAAAG
* * *
8324237 TTTTTAAAGAATAATTTCAATTTCATAAAGAATGATATTGGGTTTGAAAA-CAATTTTAAAATCG
1 TTTTTAAAGAACAATTTCAATTTCACAAAGAAGGATATTGGGTTT-AAAAGCAATTTTAAAATCG
* * * * *
8324301 ACTTAACTCGCAATAGAGGA-TTCATCTACAATCTAGCTTAAGTCAACAACGAATAGCTATTTTC
65 ACTTAACTCGTAATGGAGGAGTT-GTCTACAATCTAGCTTAACTCAACAACGAAGAGCTATTTTC
*
8324365 CAATCAAGAT
129 CAATCAA-AG
8324375 TTTTTA
1 TTTTTA
8324381 GTTAAATTTC
Statistics
Matches: 235, Mismatches: 36, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
136 9 0.04
137 209 0.89
138 17 0.07
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (137 bp):
TTTTTAAAGAACAATTTCAATTTCACAAAGAAGGATATTGGGTTTAAAAGCAATTTTAAAATCGA
CTTAACTCGTAATGGAGGAGTTGTCTACAATCTAGCTTAACTCAACAACGAAGAGCTATTTTCCA
ATCAAAG
Found at i:8330594 original size:18 final size:18
Alignment explanation
Indices: 8330571--8330634 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
8330561 AACATTCCCA
*
8330571 GTAATCTTATTCCCGCCC
1 GTAATCTTATTCCCGCCG
* *
8330589 GTAATCCTATTCACGCCG
1 GTAATCTTATTCCCGCCG
* *
8330607 GTAAT-TCTATTCCCACTG
1 GTAATCT-TATTCCCGCCG
8330625 GTAATCTTAT
1 GTAATCTTAT
8330635 ATTTCGTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 36 0.97
19 1 0.03
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:8331561 original size:20 final size:19
Alignment explanation
Indices: 8331517--8331563 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
8331507 ATAACATAAT
*
8331517 TTGGTATCAATACCAAGGG
1 TTGGTATCAATAACAAGGG
* *
8331536 TGGGTATCAATAATACAGGG
1 TTGGTATCAATAACA-AGGG
8331556 TTGGTATC
1 TTGGTATC
8331564 TATATTGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGGTATCAATAACAAGGG
Found at i:8333414 original size:11 final size:11
Alignment explanation
Indices: 8333384--8333434 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
8333374 CACACATGTA
8333384 ATAT-TTTTAT
1 ATATATTTTAT
*
8333394 AAATATTTTTAT
1 ATATA-TTTTAT
*
8333406 TTATATTTTAT
1 ATATATTTTAT
8333417 ATATCA-TTTAT
1 ATAT-ATTTTAT
8333428 ATATATT
1 ATATATT
8333435 ATTAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 19 0.58
12 10 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATATTTTAT
Found at i:8333492 original size:21 final size:20
Alignment explanation
Indices: 8333468--8333515 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
8333458 TATATTATTA
*
8333468 TATTTATTATATATATCATAT
1 TATTTATTATATACAT-ATAT
*
8333489 TATTTATTATATACATATTT
1 TATTTATTATATACATATAT
8333509 TATTTAT
1 TATTTAT
8333516 CTCTATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTATTATATACATATAT
Found at i:8333501 original size:23 final size:26
Alignment explanation
Indices: 8333459--8333506 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
8333449 ATATACTTTT
*
8333459 ATATTATTATATTTATTATATATATC
1 ATATTATTATATTTATTATACATATC
8333485 ATATTATT-TA-TTA-TATACATAT
1 ATATTATTATATTTATTATACATAT
8333507 TTTATTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 2 0.10
26 8 0.38
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTATTATATTTATTATACATATC
Found at i:8333512 original size:23 final size:21
Alignment explanation
Indices: 8333458--8333512 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
8333448 TATATACTTT
8333458 TATATTATTA-TATTTATTATA
1 TATATT-TTATTATTTATTATA
**
8333479 TATATCATATTATTTATTATA
1 TATATTTTATTATTTATTATA
8333500 TACATATTTTATT
1 T--ATATTTTATT
8333513 TATCTCTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 17 0.63
23 8 0.30
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATTTTATTATTTATTATA
Found at i:8333515 original size:17 final size:18
Alignment explanation
Indices: 8333456--8333515 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
8333446 AGTATATACT
*
8333456 TTTATATTATTATA-TTTA
1 TTTATA-TATCATATTTTA
8333474 TTATATATATCATA--TTA
1 TT-TATATATCATATTTTA
8333491 TTTATTATATACATATTTTA
1 TTTA-TATAT-CATATTTTA
8333511 TTTAT
1 TTTAT
8333516 CTCTATTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 2 0.06
17 10 0.28
18 12 0.33
19 5 0.14
20 7 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATATATCATATTTTA
Found at i:8335261 original size:17 final size:17
Alignment explanation
Indices: 8335236--8335269 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8335226 CTTTATCCCA
*
8335236 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
8335253 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
8335270 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:8335381 original size:17 final size:17
Alignment explanation
Indices: 8335340--8335383 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
8335330 TAATTCATTA
*
8335340 TTTATTATTTTCTTATT
1 TTTATTATTTTCTAATT
*
8335357 TTTCTTATTTT-TAATT
1 TTTATTATTTTCTAATT
8335373 TTTAATTATTT
1 TTT-ATTATTT
8335384 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTATTTTCTAATT
Found at i:8340910 original size:5 final size:5
Alignment explanation
Indices: 8340900--8340980 Score: 67
Period size: 5 Copynumber: 15.8 Consensus size: 5
8340890 TCGTTCTATT
** * *
8340900 TTTTA TTTTA TTTTCA TTTTA TTTT- TTGCAAA CTTTA TTTTCA TTCTA
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TT--TTA TTTTA TTTT-A TTTTA
*
8340948 -TTTA TTTTA ATTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
8340981 TCTCTGAACA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
4 5 0.08
5 45 0.75
6 9 0.15
7 1 0.02
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:8342770 original size:82 final size:75
Alignment explanation
Indices: 8342666--8342823 Score: 192
Period size: 75 Copynumber: 2.0 Consensus size: 75
8342656 GATTAAACTC
* *
8342666 AAGTTTTAGGATAATATTTTAAACATTATATTTTATCTTTGTTTTAGGTATTTTAGTTTAAAAAG
1 AAGTTTTAGAATAATATTTT-AA-A-TAT-TCTTA--TTT-TTTTAGGTATTTTAGTTTAAAAA-
8342731 GTTTT-AGTATTTTAATT
58 GTTTTAAGTATTTTAATT
* *
8342748 AAGTTTTAGAATATTATTTTAAATATTCTTATTTTTTTAGGTATTTTAGTTTAAATAGTTTTAAG
1 AAGTTTTAGAATAATATTTTAAATATTCTTATTTTTTTAGGTATTTTAGTTTAAAAAGTTTTAAG
*
8342813 TGTTTTAATT
66 TATTTTAATT
8342823 A
1 A
8342824 GGATTTAAGA
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
74 5 0.07
75 34 0.49
76 3 0.04
78 4 0.06
79 3 0.04
80 1 0.01
81 2 0.03
82 18 0.26
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (75 bp):
AAGTTTTAGAATAATATTTTAAATATTCTTATTTTTTTAGGTATTTTAGTTTAAAAAGTTTTAAG
TATTTTAATT
Found at i:8343400 original size:4 final size:4
Alignment explanation
Indices: 8343391--8343435 Score: 65
Period size: 4 Copynumber: 11.2 Consensus size: 4
8343381 CTTTATCCCA
*
8343391 ATTT ATTT ATTT ATTTT ATTT ATTT ATTT ATTT A-TT GTTT ATTT A
1 ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
8343436 ATTTTTATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 31 0.84
5 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:8344249 original size:19 final size:20
Alignment explanation
Indices: 8344215--8344290 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
8344205 ACATTTATGA
*
8344215 TTTGGGTTTAGGATTTAAGG
1 TTTGAGTTTAGGATTTAAGG
*
8344235 TTTGAGTTT-GGATTTGAGG
1 TTTGAGTTTAGGATTTAAGG
* *
8344254 TTTAAGCTTTAGGGTTT-AGAG
1 TTTGAG-TTTAGGATTTAAG-G
*
8344275 TTTGAGATTTAAGATT
1 TTTGAG-TTTAGGATT
8344291 GGGGTAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
19 14 0.31
20 13 0.29
21 18 0.40
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (20 bp):
TTTGAGTTTAGGATTTAAGG
Found at i:8344466 original size:12 final size:11
Alignment explanation
Indices: 8344449--8344481 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
8344439 CATGTCCCAT
8344449 ATATATATATGA
1 ATATATATAT-A
8344461 ATATATATA-A
1 ATATATATATA
8344471 ATATATATATA
1 ATATATATATA
8344482 TGAGATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 1 0.05
12 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
ATATATATATA
Found at i:8350010 original size:13 final size:13
Alignment explanation
Indices: 8349992--8350017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8349982 AAATTTCTCT
8349992 TCAACATCTTGAA
1 TCAACATCTTGAA
8350005 TCAACATCTTGAA
1 TCAACATCTTGAA
8350018 ATTTCCTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TCAACATCTTGAA
Found at i:8362713 original size:19 final size:20
Alignment explanation
Indices: 8362691--8362738 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
8362681 TTCAAATTTT
8362691 TTTCTATTTTTTAGT-TTAG
1 TTTCTATTTTTTAGTGTTAG
* * *
8362710 TTTCAATTTCTTATTGTTAG
1 TTTCTATTTTTTAGTGTTAG
8362730 TTT-TATTTT
1 TTTCTATTTT
8362739 AAATCAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.17, C:0.06, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTCTATTTTTTAGTGTTAG
Found at i:8364164 original size:21 final size:21
Alignment explanation
Indices: 8364140--8364241 Score: 141
Period size: 21 Copynumber: 4.9 Consensus size: 21
8364130 TCAGAGACAC
*
8364140 TTACCATGGTACTTCATCTAT
1 TTACCAAGGTACTTCATCTAT
*
8364161 TTACTAAGGTACTTCATCTAT
1 TTACCAAGGTACTTCATCTAT
*
8364182 TTACTAAGGTACTTCATCTAT
1 TTACCAAGGTACTTCATCTAT
* * *
8364203 TTACCAAGGTACTTCTTCAAC
1 TTACCAAGGTACTTCATCTAT
*
8364224 TTACCAAGGTAATTCATC
1 TTACCAAGGTACTTCATC
8364242 GAATTCCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (21 bp):
TTACCAAGGTACTTCATCTAT
Found at i:8372622 original size:13 final size:13
Alignment explanation
Indices: 8372606--8372650 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
8372596 AATGAACATT
*
8372606 ATAAATGCGCGTC
1 ATAAATGCGTGTC
*
8372619 ATAAATGTGTGTC
1 ATAAATGCGTGTC
8372632 ATAAATGCGTGTC
1 ATAAATGCGTGTC
8372645 ATAAAT
1 ATAAAT
8372651 TTATGACACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (13 bp):
ATAAATGCGTGTC
Found at i:8376858 original size:15 final size:15
Alignment explanation
Indices: 8376838--8376871 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8376828 TTGGATCGGG
* *
8376838 TTTGGGTTGGGTCAT
1 TTTGGGTTGAGTAAT
8376853 TTTGGGTTGAGTAAT
1 TTTGGGTTGAGTAAT
8376868 TTTG
1 TTTG
8376872 AGTCTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.35, T:0.50
Consensus pattern (15 bp):
TTTGGGTTGAGTAAT
Found at i:8377471 original size:19 final size:19
Alignment explanation
Indices: 8377421--8377471 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
8377411 GATAAAGAAA
8377421 TAATTTTTTATTAAGAATT
1 TAATTTTTTATTAAGAATT
* ***
8377440 TTATTTCCAATTATA-AATT
1 TAATTTTTTATTA-AGAATT
8377459 TAATTTTTTATTA
1 TAATTTTTTATTA
8377472 GCTTTTAAAA
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
TAATTTTTTATTAAGAATT
Found at i:8377727 original size:19 final size:19
Alignment explanation
Indices: 8377700--8377757 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 19
8377690 TCTTAAACTT
*
8377700 TCTATTATTTTATTATAAA
1 TCTAATATTTTATTATAAA
8377719 TCTAATATTTTA--ATAAA
1 TCTAATATTTTATTATAAA
* *
8377736 TATCA-ATTTTATT-TAAA
1 TCTAATATTTTATTATAAA
8377753 T-TAAT
1 TCTAAT
8377758 TTATTATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 8 0.25
17 13 0.41
19 11 0.34
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TCTAATATTTTATTATAAA
Found at i:8377903 original size:16 final size:16
Alignment explanation
Indices: 8377866--8377908 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
8377856 TGTTTTAGGT
*
8377866 TTCTTTCGGTTCAAGC
1 TTCTTTCGGTTCAAGG
8377882 TTCTTTCGGTTC-AGG
1 TTCTTTCGGTTCAAGG
*
8377897 TTGCTTTTGGTT
1 TT-CTTTCGGTT
8377909 TGAGTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.07, C:0.19, G:0.23, T:0.51
Consensus pattern (16 bp):
TTCTTTCGGTTCAAGG
Found at i:8379894 original size:30 final size:30
Alignment explanation
Indices: 8379858--8379931 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
8379848 CCTGAAGGAC
8379858 CTATCCAGAGGTCCTAAAGATCCTCGGTAA
1 CTATCCAGAGGTCCTAAAGATCCTCGGTAA
*
8379888 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCCTAAAGATCCTCGGTAA
* *
8379918 CTGTCCATAGGTCC
1 CTATCCAGAGGTCC
8379932 CGAAGAACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCCTAAAGATCCTCGGTAA
Found at i:8379954 original size:31 final size:31
Alignment explanation
Indices: 8379916--8379980 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
8379906 GATCCTCGGT
*
8379916 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
* * **
8379947 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
8379978 AAC
1 AAC
8379981 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACATAGGTA
Found at i:8380144 original size:17 final size:19
Alignment explanation
Indices: 8380112--8380147 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
8380102 CATATATCTC
8380112 ATATCATATCACATGTATT
1 ATATCATATCACATGTATT
8380131 ATAT-ATAT-ACATGTATT
1 ATATCATATCACATGTATT
8380148 CATGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATCATATCACATGTATT
Found at i:8383389 original size:30 final size:30
Alignment explanation
Indices: 8383353--8383442 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
8383343 CCCGAATGAC
*
8383353 CTATCCAGAGGTCCTAAAGATCCTCGGTAA
1 CTATCCAGAGGTCCTAAAGATCCTAGGTAA
*
8383383 CTATCCAGAGGTCATAAAGATCCTAGGTAA
1 CTATCCAGAGGTCCTAAAGATCCTAGGTAA
* * ** *
8383413 CTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 CTATCCAGAGGTCCTAAAGATCCTAGGTAA
8383443 ATTATCCATA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCCTAAAGATCCTAGGTAA
Found at i:8384281 original size:64 final size:62
Alignment explanation
Indices: 8384129--8384288 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 62
8384119 CAATGAAGGT
* * * *
8384129 ATGCATCGATGCACTACT-TGTGCATCGGTGCATAAAATGCATTCGATGTTTTTATTTTAAAAGG
1 ATGCATCGATGCATTA-TATGTGCATCGATGCATAAAAGGCATTCGATG--TTTATTTTAAAAGA
* * * *
8384193 ATGCATCGATGCATTATCTATGCATCGATGCATCAAAGGCATTCGATG-TTCTTTT-AAAGAA
1 ATGCATCGATGCATTATATGTGCATCGATGCATAAAAGGCATTCGATGTTTATTTTAAAAG-A
8384254 ATGCATCGATGCACTTATGAATGTGCATCGATGCA
1 ATGCATCGATGCA-TTAT--ATGTGCATCGATGCA
8384289 CCTTGTCCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
60 4 0.05
61 19 0.23
62 4 0.05
63 1 0.01
64 54 0.66
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATTATATGTGCATCGATGCATAAAAGGCATTCGATGTTTATTTTAAAAGA
Found at i:8389348 original size:3 final size:3
Alignment explanation
Indices: 8389340--8389390 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
8389330 TCTTTTTTAT
* *
8389340 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8389388 TTA
1 TTA
8389391 ATAGTAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8389888 original size:17 final size:18
Alignment explanation
Indices: 8389855--8389890 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
8389845 TTGGGCGGGT
8389855 GAAAAAAAAATGAGAGAGA
1 GAAAAAAAAAT-AGAGAGA
8389874 GAAAAAAAAAT-GAGAGA
1 GAAAAAAAAATAGAGAGA
8389891 ATCGGTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (18 bp):
GAAAAAAAAATAGAGAGA
Found at i:8390749 original size:28 final size:28
Alignment explanation
Indices: 8390717--8390786 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
8390707 GATGTTTCAG
8390717 TTTTTTATTTTAG-CCCTAAATTTTCTA
1 TTTTTTATTTTAGACCCTAAATTTTCTA
* *
8390744 TTTTTTA-TTTAGATCCTTTAATTTTCTA
1 TTTTTTATTTTAGA-CCCTAAATTTTCTA
8390772 TTTTTGTCATTTTAG
1 TTTTT-T-ATTTTAG
8390787 TCCTTTAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 5 0.14
27 7 0.19
28 17 0.47
29 1 0.03
30 1 0.03
31 5 0.14
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (28 bp):
TTTTTTATTTTAGACCCTAAATTTTCTA
Found at i:8390793 original size:30 final size:28
Alignment explanation
Indices: 8390735--8390805 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 28
8390725 TTTAGCCCTA
8390735 AATTTTCTATTTTTTATTTAGATCCTTT
1 AATTTTCTATTTTTTATTTAGATCCTTT
8390763 AATTTTCTATTTTTGTCATTTTAG-TCCTTT
1 AATTTTCTATTTTT-T-A-TTTAGATCCTTT
**
8390793 AAACTTCTATTTT
1 AATTTTCTATTTT
8390806 AGCTATGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 14 0.37
29 1 0.03
30 18 0.47
31 5 0.13
ACGTcount: A:0.21, C:0.13, G:0.04, T:0.62
Consensus pattern (28 bp):
AATTTTCTATTTTTTATTTAGATCCTTT
Found at i:8391088 original size:24 final size:26
Alignment explanation
Indices: 8391055--8391103 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
8391045 ATTTCTTTTT
8391055 TTTTTCATGT-A-TGTATATTCATATA
1 TTTTTCATGTAAGTGTATATT-ATATA
8391080 TTTTT-ATGTAAGTGTATATTATAT
1 TTTTTCATGTAAGTGTATATTATAT
8391104 TAGATTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (26 bp):
TTTTTCATGTAAGTGTATATTATATA
Found at i:8393101 original size:30 final size:30
Alignment explanation
Indices: 8393067--8393124 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
8393057 ATCTTGCTTG
*
8393067 TACTAACTCGTTTTTCTGTTTTGTTTGTTT
1 TACTAACTCGTTTTTCTCTTTTGTTTGTTT
8393097 TACTAACTCGTTTTTCTCTTTTGTTTGT
1 TACTAACTCGTTTTTCTCTTTTGTTTGT
8393125 GTCATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.16, G:0.12, T:0.62
Consensus pattern (30 bp):
TACTAACTCGTTTTTCTCTTTTGTTTGTTT
Found at i:8394956 original size:11 final size:11
Alignment explanation
Indices: 8394916--8394963 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
8394906 TGCAGAGTAC
**
8394916 AAAGAAAAATC
1 AAAGAAAAAGA
8394927 AAAGAAAATTAGCA
1 AAAGAAAA--AG-A
8394941 AAAGAAAAAGA
1 AAAGAAAAAGA
8394952 AAAGAAAAAGA
1 AAAGAAAAAGA
8394963 A
1 A
8394964 GACAAAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 21 0.66
12 2 0.06
13 1 0.03
14 8 0.25
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.06
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:8396168 original size:4 final size:4
Alignment explanation
Indices: 8396159--8397291 Score: 2012
Period size: 4 Copynumber: 284.8 Consensus size: 4
8396149 ATACATCAAC
8396159 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
8396207 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAG ACAG ACAG ACAG ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * * * * *
8396255 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG AC-- ACAG ACAG ACAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
8396301 ACAG ACAG ACAG ACAG ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396349 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396397 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396445 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396493 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396541 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396589 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396637 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396685 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396733 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396781 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396829 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396877 ACAT ACAT ACAT ACAT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396923 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8396971 ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397017 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397063 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397111 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397159 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397207 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397255 ACAT ACAT ACAT ACAT ACAT ACAT ACACGT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA--T ACAT ACA
8397292 CGATACATAA
Statistics
Matches: 1117, Mismatches: 2, Indels: 20
0.98 0.00 0.02
Matches are distributed among these distances:
2 8 0.01
4 1105 0.99
6 4 0.00
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:8397415 original size:4 final size:4
Alignment explanation
Indices: 8397406--8397452 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
8397396 TTTTCCTTTG
8397406 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
8397453 GACAGACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:8397593 original size:4 final size:4
Alignment explanation
Indices: 8397584--8397648 Score: 112
Period size: 4 Copynumber: 15.8 Consensus size: 4
8397574 TTTTCCTTTG
8397584 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
8397632 ACAT ACACGT ACAT ACA
1 ACAT ACA--T ACAT ACA
8397649 CGATACATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
4 55 0.93
6 4 0.07
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:8398204 original size:105 final size:104
Alignment explanation
Indices: 8398041--8398339 Score: 295
Period size: 101 Copynumber: 2.9 Consensus size: 104
8398031 ATTGTTCTAA
* * * *
8398041 AAAATAAACTTCGTCTCGCTTAAGACATTTTTTTCCTTTGAGATATAAATTTCGAATTTGATTCA
1 AAAACAAATTTCGTCTCGCTTGAGACA--TTTTTCCTTTGA-ATAAAAATTTCGAATTTGATTCA
*
8398106 CTTGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
63 CTTGAAACAAAATTAATCTCACTTGAGATTGTTATTTATTTC
* * ** * *
8398148 AAAACACATTTCGTTTCGCTTGAGACATTTTTCCTTTGATATACGAATTTTGAATTTGCTTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGA-ATAAAAATTTCGAATTTGATTCACT
* *
8398213 TG----AAAATTAAT-TCCACTCGAGATTGTTGTTTATTTC
65 TGAAACAAAATTAATCT-CACTTGAGATTGTTATTTATTTC
* * * * ** * * * *
8398249 AAGACAAATTTCGTCTCACTTGATACATTTCT-CTCCGAATAAAAATTTCCAAGTTGTTTTACTT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAATAAAAATTTCGAATTTGATTCACTT
*
8398313 GAAACAAAAGTAATCTCACTTGAGATT
66 GAAACAAAATTAATCTCACTTGAGATT
8398340 TTCAAAACCG
Statistics
Matches: 156, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
99 20 0.13
100 5 0.03
101 55 0.35
103 18 0.12
104 1 0.01
105 35 0.22
107 22 0.14
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (104 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAATAAAAATTTCGAATTTGATTCACTT
GAAACAAAATTAATCTCACTTGAGATTGTTATTTATTTC
Found at i:8399172 original size:120 final size:123
Alignment explanation
Indices: 8398999--8399226 Score: 266
Period size: 120 Copynumber: 1.9 Consensus size: 123
8398989 TAACAAAATC
* * * * *
8398999 ATCTTTGAGTCTATTTCTATTAAAACAAATTGTGTCTCTCTTGAGACATTTTCTAAT-G-AAAAA
1 ATCTTTGAGTCTATTTCTATTAAAACAAAATATGTATCTCTTAAGACAATTTCTAATAGAAAAAA
** *
8399062 CCAACCTTTGAGATTGTTTCCTTTGAAAC-AAATTTGGTCTCACTTAAGATGTAATTT
66 AAAACATTTGAGATTGTTTCCTTTGAAACAAAATTTGGTCTCACTTAAGATGTAATTT
* * * **
8399119 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATAT-TATCTCTTAAAGACAATTTCTTTTGAGAAAA
1 ATCTTTGAGTCTATTTCTATTAAAACAAAATATGTATCTCTT-AAGACAATTTCTAAT-AGAAAA
* * *
8399183 AAAAAATATTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
64 AAAAAACATTTGAGATTGTTTCCTTTGAAACAAAATTTGGTCTC
8399227 TTGAGACAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
119 7 0.08
120 39 0.45
122 1 0.01
123 29 0.33
124 11 0.13
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (123 bp):
ATCTTTGAGTCTATTTCTATTAAAACAAAATATGTATCTCTTAAGACAATTTCTAATAGAAAAAA
AAAACATTTGAGATTGTTTCCTTTGAAACAAAATTTGGTCTCACTTAAGATGTAATTT
Found at i:8399368 original size:31 final size:31
Alignment explanation
Indices: 8399302--8399376 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
8399292 CCTTGAGGCA
* *
8399302 GTTTCTCTAGAAATACAAAATCTTTGAGTTT
1 GTTTCTCTTGAAATACAAAATCTTTGAGTTC
*
8399333 GTTTCTCTTGAAATACAACTATCTTTGAG-TC
1 GTTTCTCTTGAAATACAA-AATCTTTGAGTTC
*
8399364 GTTTCCCTTGAAA
1 GTTTCTCTTGAAA
8399377 CGAATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 30 0.77
32 9 0.23
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (31 bp):
GTTTCTCTTGAAATACAAAATCTTTGAGTTC
Found at i:8399611 original size:63 final size:64
Alignment explanation
Indices: 8399543--8399680 Score: 174
Period size: 64 Copynumber: 2.2 Consensus size: 64
8399533 ATTTTCTGAA
*
8399543 AAACAAAGTTTTGTCTCT-TATGACA-ACGTCT-TTTGAAAAAAATCATTGAATTTGTTTCTTTG
1 AAACAAAATTTTGTCTCTCT-TGACATA-GTCTCTTTGAAAAAAATCATTGAATTTGTTTCTTTG
8399605 G
64 G
* * * * * *
8399606 AAACAAAATTTTGTTTCTCTTGAGATAGTTTCTTTGAGAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAACAAAATTTTGTCTCTCTTGACATAGTCTCTTTGAAAAAAATCATTGAATTTGTTTCTTTGG
8399670 AAACAAAATTT
1 AAACAAAATTT
8399681 ACCATCTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
63 23 0.35
64 42 0.65
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (64 bp):
AAACAAAATTTTGTCTCTCTTGACATAGTCTCTTTGAAAAAAATCATTGAATTTGTTTCTTTGG
Found at i:8399764 original size:28 final size:28
Alignment explanation
Indices: 8399715--8399803 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
8399705 GAAACAAAAC
* * *
8399715 AAACAAAACCTTTTAGTTTGTTTTTCTTG
1 AAAC-AAATCTTTGAGTCTGTTTTTCTTG
8399744 AAACAAATCTTTGAGTCTGTTTCTT-TTG
1 AAACAAATCTTTGAGTCTGTTT-TTCTTG
* **
8399772 AAACAAATCTTTGAGTCGGTTTCCCTTG
1 AAACAAATCTTTGAGTCTGTTTTTCTTG
8399800 AAAC
1 AAAC
8399804 CATAATCACT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
28 46 0.88
29 6 0.12
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (28 bp):
AAACAAATCTTTGAGTCTGTTTTTCTTG
Found at i:8400052 original size:134 final size:134
Alignment explanation
Indices: 8399812--8400169 Score: 445
Period size: 134 Copynumber: 2.7 Consensus size: 134
8399802 ACCATAATCA
* * * * * * *
8399812 CTAAAGATGGCCAGAACTCTTCATCAAGTATGAGCCGTGTCATTCACCAAACAGACCTCCTCATC
1 CTAAAGATGACTAGAACTCTTCATCAAGTATGAGCTGTGTCATCCACCGACCAGATCTCCTCATC
* * * * * * *
8399877 ATGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCATGTAAGAACCGTGTTATCGCC
66 ACGTAGGAGCCGTGTCACCCTTAGATAACCACCCGTCCTCATCACGTAAGAACCGAGTTATCACC
8399942 ATTC
131 ATTC
*
8399946 CTAAAGATGACTAGAACTCTTCAT-AACGTATGAGCTGTGTCATCCACCGACCAGATCTCTTCAT
1 CTAAAGATGACTAGAACTCTTCATCAA-GTATGAGCTGTGTCATCCACCGACCAGATCTCCTCAT
* * *
8400010 CACGTAGGATCCGTGTCACCCTTAGATAACCACCCGTCCTCATCGCGTAGGAACCGAGTTATCAC
65 CACGTAGGAGCCGTGTCACCCTTAGATAACCACCCGTCCTCATCACGTAAGAACCGAGTTATCAC
*
8400075 CCTTC
130 CATTC
** *
8400080 CTAAAGATGACTAGAACTCTTCATCATTTTATGAG-TAGT-TCATCC-CTCGACCAGATTTCCTC
1 CTAAAGATGACTAGAACTCTTCATCA-AGTATGAGCT-GTGTCATCCAC-CGACCAGATCTCCTC
*
8400142 ATCACGTAGGAGCTGTGTCACCCTTAGA
63 ATCACGTAGGAGCCGTGTCACCCTTAGA
8400170 AGACCCTAAC
Statistics
Matches: 194, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
133 3 0.02
134 182 0.94
135 9 0.05
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (134 bp):
CTAAAGATGACTAGAACTCTTCATCAAGTATGAGCTGTGTCATCCACCGACCAGATCTCCTCATC
ACGTAGGAGCCGTGTCACCCTTAGATAACCACCCGTCCTCATCACGTAAGAACCGAGTTATCACC
ATTC
Found at i:8400370 original size:3 final size:3
Alignment explanation
Indices: 8400353--8400394 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
8400343 CGGGTCTTTT
* *
8400353 TTA TT- TTA TTTA TTA TTA TTA TTA TTA TTG TTA TTT TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8400395 ATAATAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:8401693 original size:27 final size:28
Alignment explanation
Indices: 8401658--8401740 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 28
8401648 TATTTGTTCA
* *
8401658 TTAGTCCCT-GATGTTTCTGTTTTTTATT
1 TTAGTCCCTAAAT-TTTCTATTTTTTATT
8401686 TTAG-CCCTAAATTTTCTATTTTTTA-T
1 TTAGTCCCTAAATTTTCTATTTTTTATT
* *
8401712 TTAGATCCTTTAATTTTCT-TTTTTT-TT
1 TTAG-TCCCTAAATTTTCTATTTTTTATT
8401739 TT
1 TT
8401741 CATTTTAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.11
27 25 0.53
28 17 0.36
ACGTcount: A:0.16, C:0.13, G:0.07, T:0.64
Consensus pattern (28 bp):
TTAGTCCCTAAATTTTCTATTTTTTATT
Found at i:8402057 original size:26 final size:24
Alignment explanation
Indices: 8402016--8402064 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
8402006 AATTTCTTAT
8402016 TTTTTCATGTAAGTATATTCATATA
1 TTTTTCATGTAAGTATATT-ATATA
8402041 TTTTT-ATGTAAGTGTATATTATAT
1 TTTTTCATGTAA--GTATATTATAT
8402065 TAGATTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.27
25 9 0.41
26 7 0.32
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTTTCATGTAAGTATATTATATA
Found at i:8406253 original size:36 final size:36
Alignment explanation
Indices: 8406178--8406279 Score: 132
Period size: 36 Copynumber: 2.8 Consensus size: 36
8406168 TAAAAAGTTA
**
8406178 TCTCGCTTGAGATTGTTTCTCTTAAAATCAAATTTTG
1 TCTCGCTTGAGACAGTTTCTCTTAAAA-CAAATTTTG
* *
8406215 TCTCGCTTGAGAGAGTTTCTCTTTAAACAAATTTTG
1 TCTCGCTTGAGACAGTTTCTCTTAAAACAAATTTTG
* * *
8406251 TCTCACTTGAGACAATTTCTCTTGAAACA
1 TCTCGCTTGAGACAGTTTCTCTTAAAACA
8406280 TGAACTTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 34 0.59
37 24 0.41
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (36 bp):
TCTCGCTTGAGACAGTTTCTCTTAAAACAAATTTTG
Found at i:8406555 original size:63 final size:64
Alignment explanation
Indices: 8406403--8406565 Score: 181
Period size: 64 Copynumber: 2.6 Consensus size: 64
8406393 ATTGTTTCTC
* * * * * *
8406403 TCAAAACAAATTTTGTCAT-GCTTGTGACATTCTTCCTTAAGACATTAACACTTAATTGTTTTTA
1 TCAAAACAAATTTTATC-TCGCTTGAGAAAGTCTTCCTTAAGACATAAACACTTAATTGTTATTA
*
8406467 TCAAAACAAATTTTATTTCGCTTGAGAAAGTCTTCCTTAAGACATAAACACTTGAGATTG-TATT
1 TCAAAACAAATTTTATCTCGCTTGAGAAAGTCTTCCTTAAGACATAAACACTT-A-ATTGTTATT
8406531 -
64 A
* * *
8406531 T-AAAACAAGTTTTATCTCGCTTGAGACAGTTTTCC
1 TCAAAACAAATTTTATCTCGCTTGAGAAAGTCTTCC
8406566 CTCGGAACAC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
63 31 0.36
64 46 0.54
65 4 0.05
66 4 0.05
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (64 bp):
TCAAAACAAATTTTATCTCGCTTGAGAAAGTCTTCCTTAAGACATAAACACTTAATTGTTATTA
Found at i:8406812 original size:102 final size:101
Alignment explanation
Indices: 8406545--8406812 Score: 331
Period size: 102 Copynumber: 2.6 Consensus size: 101
8406535 ACAAGTTTTA
* * * *
8406545 TCTCGCTTGAGACAGTTTTCCCTCGGAACACAAATTGTGAAATTGTTTCACTCAAAACAAATTTG
1 TCTCGCTTGAGATAGTTTTCCCTC-GAACACAAATTTTGAAATTGTTTCACTCGAAACAAAATTG
* * *
8406610 TTCTCCCTTGAGATTGTTTTCCTAAAAACAAAGTTCG
65 ATCTCACTTGAGATTGTTTGCCTAAAAACAAAGTTCG
** * *
8406647 TCGAGCTTGAGATGGTTTTCCCTCGTAACACAAATTTTGAAATTGTTTCACTTGATAAC-AAATT
1 TCTCGCTTGAGATAGTTTTCCCTCG-AACACAAATTTTGAAATTGTTTCACTCGA-AACAAAATT
* * *
8406711 GATCTCACTTGAGTTTGTTTGCCTCAAAACAAATTTCG
64 GATCTCACTTGAGATTGTTTGCCTAAAAACAAAGTTCG
* * * *
8406749 TCTCGCTTGAGATAATTTTCCCTTGAAAAGCAAATTTTGAAATTCTTTCACTCGAAACAAAATT
1 TCTCGCTTGAGATAGTTTTCCCTCGAACA-CAAATTTTGAAATTGTTTCACTCGAAACAAAATT
8406813 TTATTTCACC
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
101 7 0.05
102 130 0.93
103 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (101 bp):
TCTCGCTTGAGATAGTTTTCCCTCGAACACAAATTTTGAAATTGTTTCACTCGAAACAAAATTGA
TCTCACTTGAGATTGTTTGCCTAAAAACAAAGTTCG
Found at i:8407185 original size:21 final size:21
Alignment explanation
Indices: 8407159--8407206 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
8407149 AGTAGTGTCA
8407159 TCATCATACAATCAAACTTCC
1 TCATCATACAATCAAACTTCC
8407180 TCATCATACAATCAAACTTCC
1 TCATCATACAATCAAACTTCC
8407201 TCATCA
1 TCATCA
8407207 CAAAGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (21 bp):
TCATCATACAATCAAACTTCC
Found at i:8407437 original size:139 final size:139
Alignment explanation
Indices: 8407187--8407580 Score: 482
Period size: 139 Copynumber: 2.8 Consensus size: 139
8407177 TCCTCATCAT
* * * ***
8407187 ACAATCAAACTTCCTCATCACAAAGAAAATGTGTTGTCTCCAAATTATCCCTAAAGTTGGCTAGA
1 ACAATCAAACTTCATCATCACGAAGAAACTGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGA
* * * * * *
8407252 CGTCCTCAACACGAAGGAACAATGTTATCCACCGACTAGATCTCCTCAATGCAAAGAAGCACTGT
66 CGTCCTCATCACAAAGGAACAATGTTGTCCACCGACCAGATCTCCTCAACGCAAAGAAGCAATGT
8407317 CATCCTCAG
131 CATCCTCAG
* * ** **
8407326 ACAATCAAAATTCTTCATCACGAAGAAACCATGTTGTCTTGAAATTATCCCTAAAGACAGCTAGA
1 ACAATCAAACTTCATCATCACGAAGAAACTGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGA
* * * * * *
8407391 CGTTCTTATCACAAAGGAACAATGTCGTCCACCGACCATATCTCCTCAACGCGAAGGAGCAATGT
66 CGTCCTCATCACAAAGGAACAATGTTGTCCACCGACCAGATCTCCTCAACGCAAAGAAGCAATGT
*
8407456 TATCCTCAG
131 CATCCTCAG
* * * * * *
8407465 ACAATTAGACTTCATCAACGCGAAGAAACTGTGTTGTCTCCATATTATCCCTAAAGACAGCTTGA
1 ACAATCAAACTTCATCATCACGAAGAAACTGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGA
* * *
8407530 CATCCTCATCACAAAAGAACAATGTTGTCCACTGACCAGATCTCCTCAACG
66 CGTCCTCATCACAAAGGAACAATGTTGTCCACCGACCAGATCTCCTCAACG
8407581 TGAAGGAGCA
Statistics
Matches: 212, Mismatches: 43, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
139 212 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.24
Consensus pattern (139 bp):
ACAATCAAACTTCATCATCACGAAGAAACTGTGTTGTCTCCAAATTATCCCTAAAGACAGCTAGA
CGTCCTCATCACAAAGGAACAATGTTGTCCACCGACCAGATCTCCTCAACGCAAAGAAGCAATGT
CATCCTCAG
Found at i:8408151 original size:19 final size:19
Alignment explanation
Indices: 8408129--8408172 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
8408119 CTCTTCATGT
8408129 TTTTTTTCTTTCTTTCATA
1 TTTTTTTCTTTCTTTCATA
8408148 TTTTTTTCTTTCTTTCATA
1 TTTTTTTCTTTCTTTCATA
8408167 TTTTTT
1 TTTTTT
8408173 AAGCATCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTCTTTCTTTCATA
Found at i:8408151 original size:20 final size:20
Alignment explanation
Indices: 8408122--8408172 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
8408112 CTATCTCCTC
*
8408122 TTCATGTTTTTTTTCTTTCT
1 TTCATATTTTTTTTCTTTCT
8408142 TTCATA-TTTTTTTCTTTCT
1 TTCATATTTTTTTTCTTTCT
8408161 TTCATATTTTTT
1 TTCATATTTTTT
8408173 AAGCATCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.10, C:0.14, G:0.02, T:0.75
Consensus pattern (20 bp):
TTCATATTTTTTTTCTTTCT
Found at i:8409076 original size:130 final size:130
Alignment explanation
Indices: 8408928--8409163 Score: 339
Period size: 130 Copynumber: 1.8 Consensus size: 130
8408918 TTTTTTATAT
* * ** * *
8408928 TGTTATTTATTTATTTATTGTTTCTAATATTCAATTTGACCTTGTGGTGATTCGATCTGGGGTAT
1 TGTTATTTATTTATTTATTATTTCTAATATTCAATTCGACCTTGTGGTGACCCGATCCGAGGTAT
**
8408993 GATCAACATTATTATGGTCCGGACTCTGCTAA-TCACTAACTTTTATTTTATTGTACTCTAACCA
66 GATCAACATTATTATGGTCCACACTCTGCTAACT-ACTAACTTTTATTTTATTGTACTCTAACCA
8409057 C
130 C
* * *
8409058 TGTTATTTATTTATTTATTATTTTTAATATTCGATTCGACCTTGTGGTGACCCTATCCGAGGTAT
1 TGTTATTTATTTATTTATTATTTCTAATATTCAATTCGACCTTGTGGTGACCCGATCCGAGGTAT
* *
8409123 GATCCACATTATTATGGTCTACACTCTGCTAACTACTAACT
66 GATCAACATTATTATGGTCCACACTCTGCTAACTACTAACT
8409164 ATTCTAATAG
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 91 0.99
131 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (130 bp):
TGTTATTTATTTATTTATTATTTCTAATATTCAATTCGACCTTGTGGTGACCCGATCCGAGGTAT
GATCAACATTATTATGGTCCACACTCTGCTAACTACTAACTTTTATTTTATTGTACTCTAACCAC
Found at i:8409384 original size:16 final size:16
Alignment explanation
Indices: 8409359--8409394 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8409349 TATTTTGTTA
*
8409359 TTTAACTTTATGCAGT
1 TTTAAATTTATGCAGT
*
8409375 TTTAAATTTATGCATT
1 TTTAAATTTATGCAGT
8409391 TTTA
1 TTTA
8409395 GTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCAGT
Found at i:8413368 original size:104 final size:103
Alignment explanation
Indices: 8413219--8413504 Score: 299
Period size: 104 Copynumber: 2.8 Consensus size: 103
8413209 ATGAAATATT
** * *
8413219 TCAAAATTTT-TGTTTCAAGGGAAAACTGTCTCAAGAGAGACGAAATTTGTTTTTAAGAAAAACA
1 TCAAAATTTTGTGTTTTGAGGGAAAACTATCTCAAG-TAGACGAAATTTGTTTTTAAGAAAAACA
* *
8413283 ATCTCAAATGTTATCATTTTTGTTTCGAGTGAAACAATA
65 ATCTCAAATGTTATCAATTTTGTTTCAAGTGAAACAATA
* * * *
8413322 TCCAAATTTTGTGTTTTGAGGGAAAACTATCTCAAGTATGATGAAATTTGTTTCTTTAGGAAAAC
1 TCAAAATTTTGTGTTTTGAGGGAAAACTATCTCAAGTA-GACGAAATTTGTTT-TTAAGAAAAAC
* * ** * *
8413387 TATCTCAAGTGAGATCAATTTTGTTTCAAGTGAAATAATT
64 AATCTCAAATGTTATCAATTTTGTTTCAAGTGAAACAATA
** * * * *
8413427 TCAAAATTCAG-GGTTTGAGGGAAAATTATCTCAAGTGAGACGAAATTTG-TTTTGAGATAAACA
1 TCAAAATTTTGTGTTTTGAGGGAAAACTATCTCAAGT-AGACGAAATTTGTTTTTAAGAAAAACA
*
8413490 ATATCAAATGCTTAT
65 ATCTCAAATG-TTAT
8413505 GGTTAAAAGA
Statistics
Matches: 148, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
102 16 0.11
103 14 0.09
104 68 0.46
105 50 0.34
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (103 bp):
TCAAAATTTTGTGTTTTGAGGGAAAACTATCTCAAGTAGACGAAATTTGTTTTTAAGAAAAACAA
TCTCAAATGTTATCAATTTTGTTTCAAGTGAAACAATA
Found at i:8413608 original size:66 final size:65
Alignment explanation
Indices: 8413449--8413627 Score: 189
Period size: 65 Copynumber: 2.7 Consensus size: 65
8413439 GTTTGAGGGA
* * * * * * *
8413449 AAATTATCTCAAGTGAGACGAAATTTGTTTTGAGATAAACAATATCAAATGCTTATGGTTAAAAG
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTAGAGAGAAACAATCTCAAAGGCTTATGGTTAAAAG
* * * * * * *
8413514 AAACTGTCTTAAACGAGATAAAATTTGTTTAGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGA
1 AAATTGTCTCAAGCGAGACAAAATTTGTTTAGAGAGAAACAATCTCAAAGGCTTATGGTT-AAAA
8413579 G
65 G
**
8413580 AAATTGTCTCAAGCGAGACAAAATTTGTTTCA-AGAGAAATTATCTCAA
1 AAATTGTCTCAAGCGAGACAAAATTTGTTT-AGAGAGAAACAATCTCAA
8413628 GCGAGACAAA
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
65 47 0.51
66 44 0.48
67 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (65 bp):
AAATTGTCTCAAGCGAGACAAAATTTGTTTAGAGAGAAACAATCTCAAAGGCTTATGGTTAAAAG
Found at i:8413609 original size:36 final size:36
Alignment explanation
Indices: 8413569--8413640 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
8413559 CAAAGGTTTA
*
8413569 TGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAATTATCTCAAGCGAGACAAAATT
8413605 TGTTTCAAGAGAAATTATCTCAAGCGAGACAAAATT
1 TGTTTCAAGAGAAATTATCTCAAGCGAGACAAAATT
8413641 ATCTAGTTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAATTATCTCAAGCGAGACAAAATT
Found at i:8413641 original size:20 final size:20
Alignment explanation
Indices: 8413580--8413644 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
8413570 GTTTCAAGAG
*
8413580 AAATTGTCTCAAGCGAGACA
1 AAATTATCTCAAGCGAGACA
* *
8413600 AAATTTGTTTCAA--GAG---
1 AAA-TTATCTCAAGCGAGACA
8413616 AAATTATCTCAAGCGAGACA
1 AAATTATCTCAAGCGAGACA
8413636 AAATTATCT
1 AAATTATCT
8413645 AGTTGCCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
15 7 0.19
16 3 0.08
17 3 0.08
19 3 0.08
20 12 0.33
21 8 0.22
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
AAATTATCTCAAGCGAGACA
Found at i:8415570 original size:19 final size:19
Alignment explanation
Indices: 8415546--8415594 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
8415536 ATGTAGAATG
8415546 GGTATCGATACTCAAGTAT
1 GGTATCGATACTCAAGTAT
8415565 GGTATCGATACTCAAGTAT
1 GGTATCGATACTCAAGTAT
*
8415584 AGTATCGATAC
1 GGTATCGATAC
8415595 CATAGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (19 bp):
GGTATCGATACTCAAGTAT
Found at i:8416212 original size:45 final size:45
Alignment explanation
Indices: 8415989--8416211 Score: 302
Period size: 45 Copynumber: 5.0 Consensus size: 45
8415979 GATGTATGAT
* *
8415989 ATTGGCCTATGTGATTACATGAAAATGTGATATAGGCTATGTGGC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGGC
* * * *
8416034 GTTGACCTATGTGATTACATGAGAATTTGATATAAGCTATATGGC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGGC
* *
8416079 ATTGAACTATGTGATTACATGAAAATGTGATATAAGCTATGTGGG
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGGC
* * *
8416124 ATTGACCTATGTGATTACATGAAAATATGATATAACCTATGTGAC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGGC
* * ***
8416169 AATGACCTATGTGATTATATGTCTATGTGATATAAGCTATGTG
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTG
8416212 AAATGCTATA
Statistics
Matches: 154, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 154 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (45 bp):
ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGGC
Found at i:8416371 original size:24 final size:24
Alignment explanation
Indices: 8416344--8416389 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8416334 TTTCTTTGTG
* *
8416344 GCACTTCAGTGTAATTTCTACGCA
1 GCACTTCAGTGCAATTTATACGCA
*
8416368 GCACTTCTGTGCAATTTATACG
1 GCACTTCAGTGCAATTTATACG
8416390 AGCTATGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (24 bp):
GCACTTCAGTGCAATTTATACGCA
Found at i:8422713 original size:45 final size:45
Alignment explanation
Indices: 8422662--8422885 Score: 304
Period size: 45 Copynumber: 5.0 Consensus size: 45
8422652 GATGTATGGT
**
8422662 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGCAAC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGAC
** *
8422707 ATTGACCTATGTGATTACATGAAAATGTGATATAAGAAATGTGGC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGAC
* *
8422752 ATTGACCTATGTGATTACATGAAAATGTGATATAAACTATGTGGC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGAC
* * * *
8422797 ATTAACTTATTTGATTACATGAAAATATGATATAAGCTATGTGAC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGAC
* * ***
8422842 AATGACCTATGTGATTATATGTCTATGTGATATAAGCTATGTGA
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGA
8422886 AATGTTATAA
Statistics
Matches: 156, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 156 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (45 bp):
ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATGTGAC
Found at i:8422994 original size:23 final size:22
Alignment explanation
Indices: 8422962--8423037 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
8422952 GAGTCGAGGG
* *
8422962 TTCTACGCGGTCCTTCGGGACAA
1 TTCTATGCGGTCCTTCGGAAC-A
*
8422985 TTCTATGCGGTCCTTCAGAACA
1 TTCTATGCGGTCCTTCGGAACA
* *
8423007 TATCTATGTGGTCCTTCGAAACA
1 T-TCTATGCGGTCCTTCGGAACA
8423030 TTTCTATG
1 -TTCTATG
8423038 TGGCAATTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 2 0.04
23 42 0.93
24 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (22 bp):
TTCTATGCGGTCCTTCGGAACA
Found at i:8423038 original size:23 final size:23
Alignment explanation
Indices: 8422970--8423040 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
8422960 GGTTCTACGC
** * *
8422970 GGTCCTTCGGGACAATTCTATGC
1 GGTCCTTCGAAACATTTCTATGT
*
8422993 GGTCCTTC-AGAACATATCTATGT
1 GGTCCTTCGA-AACATTTCTATGT
8423016 GGTCCTTCGAAACATTTCTATGT
1 GGTCCTTCGAAACATTTCTATGT
8423039 GG
1 GG
8423041 CAATTCAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 39 0.98
24 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (23 bp):
GGTCCTTCGAAACATTTCTATGT
Found at i:8423064 original size:24 final size:24
Alignment explanation
Indices: 8423029--8423085 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
8423019 CCTTCGAAAC
*
8423029 ATTTCTATGTGGCAATTCAGTGCA
1 ATTTCTACGTGGCAATTCAGTGCA
*
8423053 ATTTCTACGTGGCACTTCAGTGCA
1 ATTTCTACGTGGCAATTCAGTGCA
*
8423077 ATTTATACG
1 ATTTCTACG
8423086 AGCTGTGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (24 bp):
ATTTCTACGTGGCAATTCAGTGCA
Found at i:8430880 original size:2 final size:2
Alignment explanation
Indices: 8430873--8430912 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8430863 ACAGTGCACG
8430873 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8430913 GTATGCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8435445 original size:167 final size:168
Alignment explanation
Indices: 8435167--8435500 Score: 517
Period size: 167 Copynumber: 2.0 Consensus size: 168
8435157 TTGGCAGAAA
** * * * ** *
8435167 TTTTAACACATTTGATAACATGAATTAAAGTATTAGTATGACAGTTTTAAAAAATAAATTAGAAA
1 TTTTAACACAGCTGAAAACATGAATTAAAGCATTAATATGACAAATTCAAAAAATAAATTA-AAA
*
8435232 AAGCTTCAATAAATGGATCATAAGCTAATTATAGACTCGAACTTATAATTTCCACCACTACGACT
65 AAGCTTCAATAAATGGATCATAAGCTAATTATAGACTCGAACTTATAATTTCCACCACTACGACA
* * *
8435297 ATGTGTAAGCGACTTACAATCTGACTCTCTAAAAAAAAG
130 AAGTGTAAGCGACTAACAACCTGACTCTCTAAAAAAAAG
8435336 TTTTAACACAGCTGAAAACATGAATTAAAGCATTAATATGACAAATTCAAAAAATAAATT-AAAA
1 TTTTAACACAGCTGAAAACATGAATTAAAGCATTAATATGACAAATTCAAAAAATAAATTAAAAA
* *
8435400 AGCTTCAATAAATGGATCATAAGCTAATTATAGACTCGAACTTATAATTTCTACCACTATGACAA
66 AGCTTCAATAAATGGATCATAAGCTAATTATAGACTCGAACTTATAATTTCCACCACTACGACAA
*
8435465 AGTGTAAGCGACTAACAGCCTGACTCTCTAAAAAAA
131 AGTGTAAGCGACTAACAACCTGACTCTCTAAAAAAA
8435501 GTCCCCATCA
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
167 98 0.65
169 52 0.35
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (168 bp):
TTTTAACACAGCTGAAAACATGAATTAAAGCATTAATATGACAAATTCAAAAAATAAATTAAAAA
AGCTTCAATAAATGGATCATAAGCTAATTATAGACTCGAACTTATAATTTCCACCACTACGACAA
AGTGTAAGCGACTAACAACCTGACTCTCTAAAAAAAAG
Found at i:8440402 original size:2 final size:2
Alignment explanation
Indices: 8440395--8440438 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
8440385 ATTTATTTTA
*
8440395 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8440437 AT
1 AT
8440439 TTAAAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Done.