Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 320 of 345
Found at i:95888536 original size:5 final size:5
Alignment explanation
Indices: 95888526--95888552 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
95888516 CTGTGTGTTC
95888526 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
95888553 CCACAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:95888999 original size:30 final size:30
Alignment explanation
Indices: 95888963--95889023 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
95888953 TCTCCATGTG
95888963 TATGGTACATATCTGATATATGACTGAAAA
1 TATGGTACATATCTGATATATGACTGAAAA
95888993 TATGGTACATATCTGATATATGACTGAAAA
1 TATGGTACATATCTGATATATGACTGAAAA
95889023 T
1 T
95889024 TTTGAAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (30 bp):
TATGGTACATATCTGATATATGACTGAAAA
Found at i:95891853 original size:25 final size:25
Alignment explanation
Indices: 95891819--95891867 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
95891809 TAAGGACTTA
95891819 GCTTGTTGGAGGTCTTGTGTTTGAC
1 GCTTGTTGGAGGTCTTGTGTTTGAC
95891844 GCTTGTTGGAGGTCTTGTGTTTGA
1 GCTTGTTGGAGGTCTTGTGTTTGA
95891868 ATCCTCGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.08, C:0.10, G:0.37, T:0.45
Consensus pattern (25 bp):
GCTTGTTGGAGGTCTTGTGTTTGAC
Found at i:95901309 original size:26 final size:27
Alignment explanation
Indices: 95901259--95901309 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
95901249 GATGGGGGTA
* *
95901259 TGATTCTGTATATTTGTCTGGATTATC
1 TGATTCTGTATATTTGTATCGATTATC
*
95901286 TGATTCTG-ATATTTGTATCTATTA
1 TGATTCTGTATATTTGTATCGATTA
95901310 AAGACTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.53
Consensus pattern (27 bp):
TGATTCTGTATATTTGTATCGATTATC
Found at i:95902680 original size:14 final size:14
Alignment explanation
Indices: 95902663--95902690 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95902653 GCAATCAATT
95902663 AAATAATAATTTAA
1 AAATAATAATTTAA
95902677 AAATAATAATTTAA
1 AAATAATAATTTAA
95902691 CCTCTAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAATAATTTAA
Found at i:95905051 original size:45 final size:45
Alignment explanation
Indices: 95904967--95905052 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
95904957 TCCTGTTTAC
* *
95904967 CATGATGCCATAACAACTTTCAGCCATTGTTTTACTCATTTATAT
1 CATGATGCCATAACAACTTTCAGCCATGGTCTTACTCATTTATAT
* * *
95905012 CATGATGCCATACCACCTTTCAGCTATGGTCTT-CTTCATTT
1 CATGATGCCATAACAACTTTCAGCCATGGTCTTAC-TCATTT
95905053 TAGGCATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 1 0.03
45 34 0.97
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (45 bp):
CATGATGCCATAACAACTTTCAGCCATGGTCTTACTCATTTATAT
Found at i:95914570 original size:27 final size:25
Alignment explanation
Indices: 95914520--95914575 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 25
95914510 TTTTCTTTTC
* *
95914520 TTTTTCTTTTCATTTTTAGTTTAGG
1 TTTTTCTTTTCATTTTTAGGTTAGA
*
95914545 TTTTCTCTTTTCTTTTTTTAGGTTAGA
1 TTTT-TCTTTTC-ATTTTTAGGTTAGA
95914572 TTTT
1 TTTT
95914576 AATTTTGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.15
26 7 0.27
27 15 0.58
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.70
Consensus pattern (25 bp):
TTTTTCTTTTCATTTTTAGGTTAGA
Found at i:95921907 original size:56 final size:56
Alignment explanation
Indices: 95921835--95921948 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
95921825 AAATGTCGAC
* *
95921835 TAATATACTCAAAATGCTTCTGTACAATTTCATACCCAATGACAAATATAATTCAA
1 TAATATACTCAAAATGCTTCTGTAAAATTTCACACCCAATGACAAATATAATTCAA
* * * *
95921891 TAATATACTCGAAATGCTTCTGTAAAATTTCACACCCAATGATAGATATAATTTAA
1 TAATATACTCAAAATGCTTCTGTAAAATTTCACACCCAATGACAAATATAATTCAA
95921947 TA
1 TA
95921949 TCATAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (56 bp):
TAATATACTCAAAATGCTTCTGTAAAATTTCACACCCAATGACAAATATAATTCAA
Found at i:95924143 original size:9 final size:9
Alignment explanation
Indices: 95924129--95924158 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
95924119 TTGTGTGTTC
95924129 TTTATTTTA
1 TTTATTTTA
95924138 TTTATTTTA
1 TTTATTTTA
95924147 TTTATTTTA
1 TTTATTTTA
95924156 TTT
1 TTT
95924159 TTCATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:95928591 original size:5 final size:5
Alignment explanation
Indices: 95928581--95928617 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
95928571 TTGTGTGTTC
95928581 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
95928618 TCACACCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:95932322 original size:19 final size:19
Alignment explanation
Indices: 95932298--95932337 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
95932288 TGTTTGGATG
95932298 ATTATAGAATGAATTTTAT
1 ATTATAGAATGAATTTTAT
95932317 ATTATAGAATGAATTTTAT
1 ATTATAGAATGAATTTTAT
95932336 AT
1 AT
95932338 AATCTATATG
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:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTATAGAATGAATTTTAT
Found at i:95941926 original size:21 final size:22
Alignment explanation
Indices: 95941897--95941937 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
95941887 GAGGTCTCTC
*
95941897 AAGTGTTCACTCAAA-TTTTGG
1 AAGTATTCACTCAAACTTTTGG
95941918 AAGTATTCACTCAAACTTTT
1 AAGTATTCACTCAAACTTTT
95941938 CCCTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (22 bp):
AAGTATTCACTCAAACTTTTGG
Found at i:95947665 original size:18 final size:18
Alignment explanation
Indices: 95947633--95947702 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
95947623 AAATGATAAT
95947633 AATAT-ATAG-ATAAAAA
1 AATATAATAGTATAAAAA
95947649 AATATAATAGTATAAAAA
1 AATATAATAGTATAAAAA
*
95947667 AATGACATAATAATATAAAATA
1 AAT---ATAATAGTATAAAA-A
*
95947689 ATTATAATA-TATAA
1 AATATAATAGTATAA
95947703 TATGAAAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
16 5 0.11
17 4 0.09
18 15 0.33
19 6 0.13
21 13 0.28
22 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
AATATAATAGTATAAAAA
Found at i:95947689 original size:13 final size:13
Alignment explanation
Indices: 95947673--95947814 Score: 59
Period size: 13 Copynumber: 10.7 Consensus size: 13
95947663 AAAAAATGAC
95947673 ATAATAATATAAA
1 ATAATAATATAAA
*
95947686 ATAAT--TATAAT
1 ATAATAATATAAA
95947697 AT-ATAATATGAAA
1 ATAATAATAT-AAA
95947710 GTATATATGTGAATATAATA
1 --ATA-A--T-AATATAA-A
95947730 TATAATACATAT-AA
1 -ATAATA-ATATAAA
*
95947744 ATAATTA-AT-AA
1 ATAATAATATAAA
*
95947755 ATATATAATA-CAA
1 ATA-ATAATATAAA
* *
95947768 GTAAAAATATAACA
1 ATAATAATATAA-A
95947782 ATAAT-ATAT-AA
1 ATAATAATATAAA
*
95947793 ATAATAATGTAAA
1 ATAATAATATAAA
95947806 ATAATAATA
1 ATAATAATA
95947815 ATTAGTGAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 38
0.67 0.07 0.26
Matches are distributed among these distances:
10 2 0.02
11 20 0.20
12 16 0.16
13 32 0.32
14 5 0.05
15 4 0.04
16 5 0.05
17 1 0.01
18 1 0.01
19 7 0.07
20 6 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (13 bp):
ATAATAATATAAA
Found at i:95947789 original size:11 final size:11
Alignment explanation
Indices: 95947769--95947888 Score: 51
Period size: 11 Copynumber: 10.8 Consensus size: 11
95947759 ATAATACAAG
95947769 TAAA-AATATA
1 TAAATAATATA
95947779 -ACAATAATATA
1 TA-AATAATATA
*
95947790 TAAATAATAATG
1 TAAATAAT-ATA
95947802 TAAAATAATA-A
1 T-AAATAATATA
* *
95947813 TAATTAGTGA-A
1 TAAATAAT-ATA
95947824 -AAATAATA-A
1 TAAATAATATA
95947833 TATAATAATATA
1 TA-AATAATATA
*
95947845 AATAATACATA-A
1 TA-AATA-ATATA
95947857 TAGAATAACTATA
1 TA-AATAA-TATA
95947870 TAATATAA-ATA
1 TAA-ATAATATA
95947881 TAAA-AATA
1 TAAATAATA
95947889 GGGTTAAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
9 5 0.06
10 15 0.17
11 29 0.33
12 21 0.24
13 17 0.20
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (11 bp):
TAAATAATATA
Found at i:95947812 original size:20 final size:20
Alignment explanation
Indices: 95947784--95947858 Score: 73
Period size: 20 Copynumber: 3.7 Consensus size: 20
95947774 ATATAACAAT
95947784 AATATATAAATAATAATGTAA
1 AATA-ATAAATAATAATGTAA
* *
95947805 AATAAT-AATAATTAGTGAAA
1 AATAATAAATAA-TAATGTAA
*
95947825 AATAATAATATAATAATAT-A
1 AATAATAA-ATAATAATGTAA
*
95947845 AATAATACATAATA
1 AATAATAAATAATA
95947859 GAATAACTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 11 0.24
20 22 0.49
21 8 0.18
22 4 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (20 bp):
AATAATAAATAATAATGTAA
Found at i:95947848 original size:17 final size:17
Alignment explanation
Indices: 95947675--95947880 Score: 72
Period size: 17 Copynumber: 12.2 Consensus size: 17
95947665 AAAATGACAT
95947675 AATAATATAA-AATA-A
1 AATAATATAATAATATA
*
95947690 TTATAATAT-ATAATATGA
1 -AATAATATAATAATAT-A
*
95947708 AAGT-ATATATGTGAATAT-
1 AA-TAATATA-AT-AATATA
95947726 AAT-ATATAATACATATA
1 AATAATATAATA-ATATA
95947743 AATAAT-TAATAAATATA
1 AATAATATAAT-AATATA
*
95947760 TAATACA-AGTAAAAATATAA
1 -AATA-ATA-TAATAATAT-A
95947780 CAATAATAT-ATAA-AT-
1 -AATAATATAATAATATA
*
95947795 AATAATGTAA-AATA-A
1 AATAATATAATAATATA
95947810 TAATAATTAGTGAA-AA-AT-
1 -AATAA-TA-T-AATAATATA
95947828 AATAATATAATAATATA
1 AATAATATAATAATATA
* *
95947845 AATAATA-CATAATA-G
1 AATAATATAATAATATA
95947860 AATAACTAT-ATAATATA
1 AATAA-TATAATAATATA
95947877 AATA
1 AATA
95947881 TAAAAATAGG
Statistics
Matches: 147, Mismatches: 12, Indels: 61
0.67 0.05 0.28
Matches are distributed among these distances:
14 11 0.07
15 12 0.08
16 39 0.27
17 42 0.29
18 16 0.11
19 13 0.09
20 14 0.10
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AATAATATAATAATATA
Found at i:95947856 original size:16 final size:17
Alignment explanation
Indices: 95947837--95947880 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
95947827 TAATAATATA
95947837 ATAATATAAATAA-TAC
1 ATAATATAAATAACTAC
* *
95947853 ATAATA-GAATAACTAT
1 ATAATATAAATAACTAC
95947869 ATAATATAAATA
1 ATAATATAAATA
95947881 TAAAAATAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAATATAAATAACTAC
Found at i:95947873 original size:40 final size:40
Alignment explanation
Indices: 95947781--95947888 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
95947771 AAAATATAAC
*
95947781 AATAATATATAA-ATAATAATGTAAAATAATAATAATTAGTG
1 AATAATATATAATATAATAATAT-AAATAATAATAATTAG-G
*
95947822 AAAAATA-ATAATATAATAATATAAATAATACATAA-TA-G
1 AATAATATATAATATAATAATATAAATAATA-ATAATTAGG
95947860 AATAACTATATAATAT-A-AATATAAA-AATA
1 AATAA-TATATAATATAATAATATAAATAATA
95947889 GGGTTAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
37 4 0.07
38 13 0.22
39 3 0.05
40 21 0.35
41 19 0.32
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (40 bp):
AATAATATATAATATAATAATATAAATAATAATAATTAGG
Found at i:95949974 original size:206 final size:206
Alignment explanation
Indices: 95949678--95950604 Score: 1372
Period size: 206 Copynumber: 4.5 Consensus size: 206
95949668 TATAGAGATG
* * * *
95949678 CTTAGATTTGCTTCAGTGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGT
1 CTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
* * * * * *
95949743 AAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTCTAATCGTCTGAAAGTTAGATCTGCT
66 AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTGGATCTGCT
* *
95949808 ATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGA
131 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGAGA
*
95949873 TGCCAAATCAC
196 TGCCAAATCAT
* *
95949884 CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCGGCTATGTCTTCGATTTGCTCCTTGT
1 CTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
*
95949949 AAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCT-AAAGGCTGGATCTGC
66 AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAA-GCTGGATCTGC
* ** * * * *
95950013 TATGTATCTGTTCTCCATCGAA-GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAG
130 TATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGAG
*
95950077 ATGTCAAATCAT
195 ATGCCAAATCAT
* *
95950089 CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGT
1 CTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
* * * *
95950154 AAGTACAAGGATACCAAACCATATTGGATCTGCTTCAGTATAAACATCTGAAGGCTGGATCTGCT
66 AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTGGATCTGCT
*
95950219 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGATA
131 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGAGA
95950284 TGCCAAATCAT
196 TGCCAAATCAT
* * * *
95950295 CTTAGATTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGTCTTTGATTTGCTCATTGT
1 CTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
* * * *
95950360 AAGCACAAGGATGCCAAACCATTTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATATGCT
66 AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTGGATCTGCT
* * * **
95950425 ATGTGTCTGCCCTTCGTCAAATATGAAGACGCCAAACTTTGATTTGTTCTCTGACAATACAGAGA
131 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGAGA
*
95950490 TGCCAAATTAT
196 TGCCAAATCAT
* ** *
95950501 TTTAGATTTGCTTCAGCGTAAGCACACGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
1 CTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
*
95950566 AAGCACAAAGATGCCAAACCATCTTGGATCTTGCTTCAG
66 AAGCACAAGGATGCCAAACCATCTTGGATC-TGCTTCAG
95950605 CCAGATCTGC
Statistics
Matches: 658, Mismatches: 59, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
205 190 0.29
206 460 0.70
207 8 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (206 bp):
CTTAGATTTGCTTCAGCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTGGATCTGCT
ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCAATTTGTTCTCTGACAATACAGAGA
TGCCAAATCAT
Found at i:95961633 original size:46 final size:44
Alignment explanation
Indices: 95961529--95961636 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
95961519 TGTCTTTGAC
** * * *
95961529 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
95961573 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
95961619 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
95961637 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:95964451 original size:25 final size:26
Alignment explanation
Indices: 95964423--95964471 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
95964413 ATAATACAAA
95964423 TAAAAAT-GATATTTAATA-ATAATTT
1 TAAAAATAG-TATTTAATATATAATTT
95964448 TAAAAATAGTATTTAATATATAAT
1 TAAAAATAGTATTTAATATATAAT
95964472 ATATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
TAAAAATAGTATTTAATATATAATTT
Found at i:95964455 original size:12 final size:13
Alignment explanation
Indices: 95964423--95964473 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
95964413 ATAATACAAA
*
95964423 TAAAAATGATATT
1 TAAAAATAATATT
*
95964436 TAATAATAAT-TT
1 TAAAAATAATATT
*
95964448 TAAAAATAGTATT
1 TAAAAATAATATT
*
95964461 TAATATATAATAT
1 TAA-AAATAATAT
95964474 ATAATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.33
13 13 0.43
14 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (13 bp):
TAAAAATAATATT
Found at i:95964487 original size:17 final size:18
Alignment explanation
Indices: 95964467--95964510 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
95964457 TATTTAATAT
95964467 ATAATATATAATA-AAAA
1 ATAATATATAATATAAAA
*
95964484 ATAATA-ATTATATAAAA
1 ATAATATATAATATAAAA
*
95964501 ATAAAATATA
1 ATAATATATA
95964511 TTGGTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAATATATAATATAAAA
Found at i:95964495 original size:21 final size:22
Alignment explanation
Indices: 95964462--95964543 Score: 68
Period size: 21 Copynumber: 3.9 Consensus size: 22
95964452 AATAGTATTT
*
95964462 AATATATAATATATAATAA-AA
1 AATATATAATATATAAAAATAA
95964483 AATA-ATAATTATATAAAAATAA
1 AATATATAA-TATATAAAAATAA
* *
95964505 AATATAT--TGGTTTAAAAATAA
1 AATATATAAT-ATATAAAAATAA
95964526 TAATATATAA-A-ATAAAAA
1 -AATATATAATATATAAAAA
95964544 GTATGTAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
20 5 0.10
21 29 0.59
22 13 0.27
23 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AATATATAATATATAAAAATAA
Found at i:95964686 original size:14 final size:13
Alignment explanation
Indices: 95964649--95964688 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
95964639 AAATGTGTAT
*
95964649 ATAATATGAGTTA
1 ATAATATGATTTA
*
95964662 AAAATATGATTTA
1 ATAATATGATTTA
95964675 ATAATAATGATTTA
1 ATAAT-ATGATTTA
95964689 CAAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (13 bp):
ATAATATGATTTA
Found at i:95964723 original size:16 final size:17
Alignment explanation
Indices: 95964696--95964731 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
95964686 TTACAAATTT
95964696 TAAAATTATAAATAATA
1 TAAAATTATAAATAATA
95964713 TAAAA-TATAAATAATA
1 TAAAATTATAAATAATA
95964729 TAA
1 TAA
95964732 TAGATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATTATAAATAATA
Found at i:95964738 original size:16 final size:16
Alignment explanation
Indices: 95964703--95964738 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
95964693 TTTTAAAATT
*
95964703 ATAAATAATATAAAAT
1 ATAAATAATATAAAAG
*
95964719 ATAAATAATATAATAG
1 ATAAATAATATAAAAG
95964735 ATAA
1 ATAA
95964739 TATACGATAT
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:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
ATAAATAATATAAAAG
Found at i:95964887 original size:24 final size:26
Alignment explanation
Indices: 95964806--95964888 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 26
95964796 TATATAGGAA
**
95964806 AATAAT-ATATGATAAATAAAATTTTT
1 AATAATAATAT-ATAAATAGTATTTTT
95964832 -AT-ATAAATATATAAATAGTATTTTT
1 AATAAT-AATATATAAATAGTATTTTT
**
95964857 AATAATAATATATGTATAGT-TTTTT
1 AATAATAATATATAAATAGTATTTTT
95964882 AA-AATAA
1 AATAATAA
95964889 ATAAATGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 7 0.14
25 22 0.45
26 18 0.37
27 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.45
Consensus pattern (26 bp):
AATAATAATATATAAATAGTATTTTT
Found at i:95964900 original size:26 final size:26
Alignment explanation
Indices: 95964846--95964900 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
95964836 AAATATATAA
*
95964846 ATAGTATTTTTAATAATAATATATGT
1 ATAGTATTTTTAATAATAATAAATGT
95964872 ATAGT-TTTTTAA-AATAAATAAATGAT
1 ATAGTATTTTTAATAAT-AATAAATG-T
95964898 ATA
1 ATA
95964901 TATAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (26 bp):
ATAGTATTTTTAATAATAATAAATGT
Found at i:95965572 original size:2 final size:2
Alignment explanation
Indices: 95965565--95965594 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
95965555 TTCGTTCGCA
95965565 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
95965595 GCATGTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95968138 original size:12 final size:12
Alignment explanation
Indices: 95968123--95968155 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
95968113 AACTGCAATC
95968123 ACAAATATAATT
1 ACAAATATAATT
*
95968135 ACAATTATAATT
1 ACAAATATAATT
95968147 ACAAA-ATAA
1 ACAAATATAA
95968156 ACATGTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (12 bp):
ACAAATATAATT
Found at i:95969875 original size:11 final size:11
Alignment explanation
Indices: 95969861--95969901 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
95969851 TGTTTTCTCC
95969861 CTATTTTGCTA
1 CTATTTTGCTA
*
95969872 CTATTTTACTA
1 CTATTTTGCTA
* *
95969883 TTATGTTGCTA
1 CTATTTTGCTA
95969894 CTATTTTG
1 CTATTTTG
95969902 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:95969976 original size:30 final size:30
Alignment explanation
Indices: 95969941--95969999 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
95969931 TATTTTATTG
95969941 TTAATTTTGTTATTATTTTAAAGATATTTA
1 TTAATTTTGTTATTATTTTAAAGATATTTA
*
95969971 TTAATTTTGTTATTATTTTAGAGATATTT
1 TTAATTTTGTTATTATTTTAAAGATATTT
95970000 GCTTGTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGATATTTA
Found at i:95970062 original size:13 final size:13
Alignment explanation
Indices: 95970044--95970078 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
95970034 GGTATATATA
*
95970044 TATTTTTAAAATT
1 TATTTTCAAAATT
95970057 TATTTTCAAAATT
1 TATTTTCAAAATT
95970070 TATTTTCAA
1 TATTTTCAA
95970079 TTTGTTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTTTCAAAATT
Found at i:95987699 original size:28 final size:29
Alignment explanation
Indices: 95987668--95987724 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
95987658 TTATAAAAAA
95987668 TAAATAGCTTTAA-AAATTTTAAAACATT
1 TAAATAGCTTTAATAAATTTTAAAACATT
*** *
95987696 TAAATTTTTTTAATAATTTTTAAAACATT
1 TAAATAGCTTTAATAAATTTTAAAACATT
95987725 CTAATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (29 bp):
TAAATAGCTTTAATAAATTTTAAAACATT
Found at i:95992756 original size:83 final size:81
Alignment explanation
Indices: 95992617--95992781 Score: 233
Period size: 83 Copynumber: 2.0 Consensus size: 81
95992607 GGATTGAAAT
* * *
95992617 AGGTTCAGTATGAGACAGTATGACATATTTGACGTACCTTGGGGTGGAGAATATGATGAGTTTGT
1 AGGTTCAGTATGAGACAATATGACATATTTGACGTACCTTGGGGTGGAAAAGATGATGAGTTTG-
*
95992682 TTTTTCCTAGTTTGAAGG
65 -TTCTCCTAGTTTGAAGG
* * *
95992700 AGGTTTAGTATGAGACAATATGACATGTTTGATGGTACCTT-GGGTGGAAAAGATGATGAGTTTG
1 AGGTTCAGTATGAGACAATATGACATATTTGA-CGTACCTTGGGGTGGAAAAGATGATGAGTTTG
95992764 TTCTCCTAGTTTGAAGG
65 TTCTCCTAGTTTGAAGG
95992781 A
1 A
95992782 ATTATTTTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 17 0.23
83 50 0.68
84 7 0.09
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.35
Consensus pattern (81 bp):
AGGTTCAGTATGAGACAATATGACATATTTGACGTACCTTGGGGTGGAAAAGATGATGAGTTTGT
TCTCCTAGTTTGAAGG
Found at i:95998938 original size:114 final size:115
Alignment explanation
Indices: 95998800--95999011 Score: 372
Period size: 114 Copynumber: 1.9 Consensus size: 115
95998790 AATTTAAAAA
95998800 AAAATAAAATCAATTAACCCACTTGATATAATTCACACTCAATTTAGCTCTTGTTTGTTAACTAA
1 AAAATAAAATCAATTAACCCACTTGATATAATTCACACTCAATTTAGCTCTTGTTTGTTAACTAA
*
95998865 AAATTAATTAAGTCCATTCGTCAATGATTTCTAATTTTTGAGAGAAATTT
66 AAATCAATTAAGTCCATTCGTCAATGATTTCTAATTTTTGAGAGAAATTT
* *
95998915 AAAA-AAAATCAATTAAGCTACTTGATATAATTCACACTCAATTTAGCTCTTGTTTGTTAACTAA
1 AAAATAAAATCAATTAACCCACTTGATATAATTCACACTCAATTTAGCTCTTGTTTGTTAACTAA
* *
95998979 AAATCAATTAAGTCCATTTGTTAATGATTTCTA
66 AAATCAATTAAGTCCATTCGTCAATGATTTCTA
95999012 TAACACCCTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
114 88 0.96
115 4 0.04
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (115 bp):
AAAATAAAATCAATTAACCCACTTGATATAATTCACACTCAATTTAGCTCTTGTTTGTTAACTAA
AAATCAATTAAGTCCATTCGTCAATGATTTCTAATTTTTGAGAGAAATTT
Found at i:95999483 original size:30 final size:30
Alignment explanation
Indices: 95999448--95999505 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
95999438 AAGACCATTT
*
95999448 CCACACGGGCTGAG-CACACGCCCGTGTGAG
1 CCACACGGGCT-AGCCACACGCCCATGTGAG
95999478 CCACACGGGCTAGCCACACGCCCATGTG
1 CCACACGGGCTAGCCACACGCCCATGTG
95999506 GTAGCCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.21, C:0.40, G:0.29, T:0.10
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACGCCCATGTGAG
Found at i:96004607 original size:3 final size:3
Alignment explanation
Indices: 96004599--96004762 Score: 197
Period size: 3 Copynumber: 53.7 Consensus size: 3
96004589 TTATTTTTCT
96004599 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* *
96004645 TTA TTA TTA TT- TTC CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
96004692 TTA TTTA TCTA TTA TCGG TTA ATA TTA TTA GTA TTC TTA TTA TTA TTA
1 TTA -TTA T-TA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
96004740 TT- TTCA TTA TTA TTC TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TT
96004763 TCTTTAAGAT
Statistics
Matches: 139, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
2 4 0.03
3 123 0.88
4 12 0.09
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:96006455 original size:12 final size:12
Alignment explanation
Indices: 96006434--96006472 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
96006424 ATTGAGTCCA
*
96006434 TTTATCTTTATG
1 TTTATCTTTATT
*
96006446 TTTATTTTTATT
1 TTTATCTTTATT
*
96006458 TTTATGTTTATT
1 TTTATCTTTATT
96006470 TTT
1 TTT
96006473 TTTCTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTATCTTTATT
Found at i:96006461 original size:18 final size:18
Alignment explanation
Indices: 96006434--96006472 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
96006424 ATTGAGTCCA
96006434 TTTATCTTTATGTTTATT
1 TTTATCTTTATGTTTATT
*
96006452 TTTATTTTTATGTTTATT
1 TTTATCTTTATGTTTATT
96006470 TTT
1 TTT
96006473 TTTCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTATCTTTATGTTTATT
Found at i:96013953 original size:23 final size:23
Alignment explanation
Indices: 96013927--96013979 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
96013917 TTTGAAAGAT
*
96013927 TTTTTTAGTTTTA-TATATTTTGA
1 TTTTTTA-TATTATTATATTTTGA
*
96013950 TTTTTTATATTATTATTTTTTGA
1 TTTTTTATATTATTATATTTTGA
*
96013973 ATTTTTA
1 TTTTTTA
96013980 AATATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (23 bp):
TTTTTTATATTATTATATTTTGA
Found at i:96014645 original size:11 final size:11
Alignment explanation
Indices: 96014629--96014659 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
96014619 TTATGTTAAT
96014629 TAATTATTATA
1 TAATTATTATA
96014640 TAATTATTATA
1 TAATTATTATA
96014651 TAATTATTA
1 TAATTATTA
96014660 CACATGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAATTATTATA
Found at i:96015592 original size:26 final size:26
Alignment explanation
Indices: 96015559--96015614 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
96015549 AATTACTTAA
96015559 AATTTAAGTTAAAATATATTTATATT
1 AATTTAAGTTAAAATATATTTATATT
96015585 AATTTAAGTTAAAATATATTTATATT
1 AATTTAAGTTAAAATATATTTATATT
96015611 AATT
1 AATT
96015615 AGTTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
AATTTAAGTTAAAATATATTTATATT
Found at i:96015684 original size:3 final size:3
Alignment explanation
Indices: 96015676--96015712 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
96015666 TTTATACTTT
96015676 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
96015713 TAAATATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:96017562 original size:3 final size:3
Alignment explanation
Indices: 96017554--96017620 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
96017544 TAAAATATAT
96017554 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
96017602 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
96017621 AAAGTATAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96018663 original size:23 final size:23
Alignment explanation
Indices: 96018630--96018690 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
96018620 CTTAGTGCCG
96018630 TTCTGGTGTGTTTGGGTGGTTTA
1 TTCTGGTGTGTTTGGGTGGTTTA
*
96018653 TTTTGGTGTGTTTGGGTGGTTTA
1 TTCTGGTGTGTTTGGGTGGTTTA
96018676 TTCTGGTGTGTTTGG
1 TTCTGGTGTGTTTGG
96018691 TTGGAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.03, C:0.03, G:0.39, T:0.54
Consensus pattern (23 bp):
TTCTGGTGTGTTTGGGTGGTTTA
Found at i:96019181 original size:24 final size:24
Alignment explanation
Indices: 96019150--96019206 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
96019140 TAAAAGTGGC
*
96019150 ATGTACTTTGGTATTGTATAAATT
1 ATGTACTTAGGTATTGTATAAATT
*
96019174 GTGTACTTAGGTATTGTATAAATT
1 ATGTACTTAGGTATTGTATAAATT
96019198 ATGTACTTA
1 ATGTACTTA
96019207 AGTTTTGAAA
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:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (24 bp):
ATGTACTTAGGTATTGTATAAATT
Found at i:96025984 original size:46 final size:46
Alignment explanation
Indices: 96025917--96026038 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
96025907 AATACTTTTA
96025917 ATGTGGTGTAATATTAGTTATGCATTTGGACAATGTTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCATTTGGACAATGTTGTTGTTATC
* *
96025963 ATGTGGTGTAATATTAGTTATGCACTTGGGCAATGTTGTTGTTATC
1 ATGTGGTGTAATATTAGTTATGCATTTGGACAATGTTGTTGTTATC
* * *
96026009 ATGTGGTGTACTACTAATTATGCATTTGGA
1 ATGTGGTGTAATATTAGTTATGCATTTGGA
96026039 TAATATTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (46 bp):
ATGTGGTGTAATATTAGTTATGCATTTGGACAATGTTGTTGTTATC
Found at i:96026480 original size:14 final size:14
Alignment explanation
Indices: 96026443--96026473 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
96026433 CCAGAAAAAT
96026443 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
96026457 AAATCATTTTTCGG
1 AAATCATTTTTCAG
96026471 AAA
1 AAA
96026474 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:96027499 original size:2 final size:2
Alignment explanation
Indices: 96027492--96027526 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
96027482 TTTCTAGCTC
96027492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96027527 CAGATCGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:96031397 original size:2 final size:2
Alignment explanation
Indices: 96031380--96031442 Score: 108
Period size: 2 Copynumber: 31.0 Consensus size: 2
96031370 CAAGACCATG
*
96031380 TC TC ATC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
96031423 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
96031443 CATGTTCCCA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 56 0.97
3 2 0.03
ACGTcount: A:0.02, C:0.51, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:96034727 original size:31 final size:31
Alignment explanation
Indices: 96034692--96034752 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
96034682 TTGGTAGTTA
96034692 AGTTTGGCTTCAATGTGT-AATTTAGTATTTG
1 AGTTTGGCTTCAATGT-TCAATTTAGTATTTG
**
96034723 AGTTTGTTTTCAATGTTCAATTTAGTATTT
1 AGTTTGGCTTCAATGTTCAATTTAGTATTT
96034753 TTGTCCCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.23, C:0.07, G:0.18, T:0.52
Consensus pattern (31 bp):
AGTTTGGCTTCAATGTTCAATTTAGTATTTG
Found at i:96037092 original size:31 final size:31
Alignment explanation
Indices: 96037057--96037217 Score: 123
Period size: 31 Copynumber: 5.3 Consensus size: 31
96037047 TAATGACTTT
*
96037057 GTGACTAAAATGTTACAACACGATAATGTTA
1 GTGACTAAAATGTTACAACACGATAATATTA
* * *** *
96037088 GTGACTAAAACGTAACATTTC-A-AATATAA
1 GTGACTAAAATGTTACAACACGATAATATTA
* * **
96037117 GTGACTAAAATATTACAACATGATAACGTTA
1 GTGACTAAAATGTTACAACACGATAATATTA
* * *** *
96037148 GTGACTAAAACGTAACATTTC-A-AATATAA
1 GTGACTAAAATGTTACAACACGATAATATTA
* *
96037177 GTGACTAAAATGTTATAACACGATAACATTA
1 GTGACTAAAATGTTACAACACGATAATATTA
96037208 GTGACTAAAA
1 GTGACTAAAA
96037218 CTTAACATTT
Statistics
Matches: 91, Mismatches: 35, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
29 38 0.42
30 4 0.04
31 49 0.54
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (31 bp):
GTGACTAAAATGTTACAACACGATAATATTA
Found at i:96037125 original size:29 final size:29
Alignment explanation
Indices: 96037087--96037252 Score: 116
Period size: 29 Copynumber: 5.6 Consensus size: 29
96037077 CGATAATGTT
96037087 AGTGACTAAAACGTAACATTTCAAATATA
1 AGTGACTAAAACGTAACATTTCAAATATA
** * ** * ** *
96037116 AGTGACTAAAATATTACAACATGATAACGTT
1 AGTGACTAAAACGTAAC-ATTTCA-AATATA
96037147 AGTGACTAAAACGTAACATTTCAAATATA
1 AGTGACTAAAACGTAACATTTCAAATATA
* * * *** * *
96037176 AGTGACTAAAATGTTATAACACGATAACATT
1 AGTGACTAAAACGTAACATTTC-A-AATATA
*
96037207 AGTGACTAAAACTTAACATTTCAAATATA
1 AGTGACTAAAACGTAACATTTCAAATATA
* *
96037236 AGTAACTAAAATGTAAC
1 AGTGACTAAAACGTAAC
96037253 CTAAGGTTCA
Statistics
Matches: 95, Mismatches: 38, Indels: 8
0.67 0.27 0.06
Matches are distributed among these distances:
29 51 0.54
30 8 0.08
31 36 0.38
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (29 bp):
AGTGACTAAAACGTAACATTTCAAATATA
Found at i:96037133 original size:60 final size:60
Alignment explanation
Indices: 96037057--96037249 Score: 323
Period size: 60 Copynumber: 3.2 Consensus size: 60
96037047 TAATGACTTT
*
96037057 GTGACTAAAATGTTACAACACGATAATGTTAGTGACTAAAACGTAACATTTCAAATATAA
1 GTGACTAAAATGTTACAACACGATAACGTTAGTGACTAAAACGTAACATTTCAAATATAA
* *
96037117 GTGACTAAAATATTACAACATGATAACGTTAGTGACTAAAACGTAACATTTCAAATATAA
1 GTGACTAAAATGTTACAACACGATAACGTTAGTGACTAAAACGTAACATTTCAAATATAA
* * *
96037177 GTGACTAAAATGTTATAACACGATAACATTAGTGACTAAAACTTAACATTTCAAATATAA
1 GTGACTAAAATGTTACAACACGATAACGTTAGTGACTAAAACGTAACATTTCAAATATAA
*
96037237 GTAACTAAAATGT
1 GTGACTAAAATGT
96037250 AACCTAAGGT
Statistics
Matches: 124, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 124 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (60 bp):
GTGACTAAAATGTTACAACACGATAACGTTAGTGACTAAAACGTAACATTTCAAATATAA
Found at i:96038897 original size:38 final size:37
Alignment explanation
Indices: 96038853--96038963 Score: 106
Period size: 38 Copynumber: 3.0 Consensus size: 37
96038843 TAATTATGTA
96038853 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* *
96038890 AAGTATATAGATATTT-ATTATTTATTATTATTTTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
96038927 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
96038964 ATTAAAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.13
36 8 0.13
37 11 0.18
38 23 0.38
39 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.58
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:96038945 original size:20 final size:19
Alignment explanation
Indices: 96038911--96038969 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
96038901 TATTTATTAT
* *
96038911 TTATTATTATTTTATTAAA
1 TTATAATTATATTATTAAA
96038930 TTATAATTTATATTATTAAA
1 TTATAA-TTATATTATTAAA
*
96038950 TTATGATTATTATTATTAAA
1 TTATAATTA-TATTATTAAA
96038970 AATAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTATAATTATATTATTAAA
Found at i:96038952 original size:25 final size:26
Alignment explanation
Indices: 96038904--96038952 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
96038894 ATATAGATAT
* **
96038904 TTATTATTTATTATTATTTTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
96038930 TTATAATTTA-TATTATTAAATTA
1 TTATAATTTATTATTATTAAATTA
96038953 TGATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:96038978 original size:20 final size:20
Alignment explanation
Indices: 96038916--96038978 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
96038906 ATTATTTATT
*
96038916 ATTATT-TTATTAAATTATAA
1 ATTATTATTATTAAA-AATAA
* * *
96038936 TTTA-TATTATT-AAATTATG
1 ATTATTATTATTAAAAATA-A
96038955 ATTATTATTATTAAAAATAA
1 ATTATTATTATTAAAAATAA
96038975 ATTA
1 ATTA
96038979 AAATAAAGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
18 2 0.06
19 6 0.19
20 19 0.59
21 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTATTATTATTAAAAATAA
Found at i:96039218 original size:3 final size:3
Alignment explanation
Indices: 96039210--96039247 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
96039200 ATTAAATAAG
96039210 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
96039248 AAAGTTAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:96039272 original size:13 final size:14
Alignment explanation
Indices: 96039254--96039291 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
96039244 TTATAAAGTT
96039254 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
96039267 AATAAAAGAAATGA
1 AATAAAATAAAAGA
96039281 AATAAAATAAA
1 AATAAAATAAA
96039292 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:96041615 original size:39 final size:39
Alignment explanation
Indices: 96041571--96041660 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
96041561 GGACCTTAAG
*
96041571 TACATGCTTTCATTACAATTTCTATAT-AGTGGCATG-CT
1 TACATGCTTTCATTACAATTTCAAT-TCAGTGGCATGTCT
* *
96041609 TCACATGCTTCCATTTCAATTTCAATTCAGTGGCATGTCT
1 T-ACATGCTTTCATTACAATTTCAATTCAGTGGCATGTCT
*
96041649 TACATACTTTCA
1 TACATGCTTTCA
96041661 ATATCTCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 39 0.89
40 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (39 bp):
TACATGCTTTCATTACAATTTCAATTCAGTGGCATGTCT
Found at i:96041804 original size:22 final size:24
Alignment explanation
Indices: 96041761--96041804 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
96041751 TGATAATATG
96041761 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
96041785 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
96041805 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:96042021 original size:23 final size:23
Alignment explanation
Indices: 96041972--96042019 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
96041962 TTTGTTTCAA
96041972 TTTACACAAAAAGTATCGATACC
1 TTTACACAAAAAGTATCGATACC
*
96041995 TTTACA-AAAAAGTATTGATACC
1 TTTACACAAAAAGTATCGATACC
96042017 TTT
1 TTT
96042020 TATATGGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (23 bp):
TTTACACAAAAAGTATCGATACC
Found at i:96046667 original size:17 final size:17
Alignment explanation
Indices: 96046645--96046679 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
96046635 AATTTCCCAA
*
96046645 AGTAATAATATAATATT
1 AGTAATAACATAATATT
*
96046662 AGTAATAACGTAATATT
1 AGTAATAACATAATATT
96046679 A
1 A
96046680 ATAGAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (17 bp):
AGTAATAACATAATATT
Found at i:96047096 original size:95 final size:90
Alignment explanation
Indices: 96046866--96047172 Score: 406
Period size: 95 Copynumber: 3.4 Consensus size: 90
96046856 TTTTTATTAA
* *
96046866 TTAATTTAAG-TTGTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
1 TTAATTTATGCTTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
* *
96046930 CTGTGGTTTAACGGACT-TTTTTTTTGT
66 CTGTAGTTTAA--GA-TACTTTTTTTGT
*
96046957 TTACTTTATGC-TATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
1 TTAATTTATGCTTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
*
96047021 CTATAGTTTAAGATACTTTTTTTGT
66 CTGTAGTTTAAGATACTTTTTTTGT
*
96047046 TTAATTTATGCTATTGTACTTGTACTATTCTATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
1 TTAATTTATGC---T-TA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
* *
96047111 TTAAAATGTAGTTTAACATACTTTTTTTGT
61 TTAAACTGTAGTTTAAGATACTTTTTTTGT
* **
96047141 TTAATTTTTGC-TGCTGTACTATTATATTAATT
1 TTAATTTATGCTTATTGTACTATTATATTAATT
96047173 AATTTTTAAT
Statistics
Matches: 193, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
88 1 0.01
89 38 0.20
90 1 0.01
91 69 0.36
94 2 0.01
95 82 0.42
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (90 bp):
TTAATTTATGCTTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA
CTGTAGTTTAAGATACTTTTTTTGT
Found at i:96051318 original size:40 final size:40
Alignment explanation
Indices: 96051273--96051352 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
96051263 ATTTCTACAA
*
96051273 TAATTCTTTATA-TACTAATCTAAGAATATAAAAGATGGTG
1 TAATTCTTTATAGAAC-AATCTAAGAATATAAAAGATGGTG
96051313 TAATTCTTTATAGAACAATCTAAGAATATAAAAGATGGTG
1 TAATTCTTTATAGAACAATCTAAGAATATAAAAGATGGTG
96051353 GGAAAATAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (40 bp):
TAATTCTTTATAGAACAATCTAAGAATATAAAAGATGGTG
Found at i:96052889 original size:20 final size:21
Alignment explanation
Indices: 96052860--96052908 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
96052850 CAACGAAATC
*
96052860 TTTCAATTAACCCTTAT-GAG
1 TTTCAGTTAACCCTTATGGAG
* *
96052880 TTTCAGTTAACCCTTTTGGGG
1 TTTCAGTTAACCCTTATGGAG
96052901 TTTCAGTT
1 TTTCAGTT
96052909 CAGCTCTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (21 bp):
TTTCAGTTAACCCTTATGGAG
Found at i:96052967 original size:39 final size:39
Alignment explanation
Indices: 96052921--96053059 Score: 188
Period size: 39 Copynumber: 3.6 Consensus size: 39
96052911 GCTCTGATAA
*
96052921 GCTTCAGTTAGCCTTCGGGATTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
96052960 GCTTCAGTTAGCCTTCGGGCTTTCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * * *
96052999 GCTTTAGTTAGCCTTCGAGCTTCCTTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * **
96053038 ACTTCAGCTAAACTTCGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
96053060 TAGATCACGA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.14, C:0.24, G:0.22, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:96062675 original size:10 final size:10
Alignment explanation
Indices: 96062660--96062688 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
96062650 AGTATCTAGG
96062660 TTTTTCTTCA
1 TTTTTCTTCA
96062670 TTTTTCTTCA
1 TTTTTCTTCA
96062680 TTTTTCTTC
1 TTTTTCTTC
96062689 TTTATCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTCTTCA
Found at i:96063603 original size:20 final size:20
Alignment explanation
Indices: 96063564--96063614 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
96063554 CGTGTTTTCT
* *
96063564 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
96063585 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
96063605 TTCAGTTAAC
1 TTCCGTTAAC
96063615 CCTTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:96065231 original size:5 final size:5
Alignment explanation
Indices: 96065221--96065252 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96065211 TATATTGTGA
96065221 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
96065253 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:96065246 original size:9 final size:9
Alignment explanation
Indices: 96065222--96065252 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
96065212 ATATTGTGAA
96065222 AAATAAAAT
1 AAATAAAAT
96065231 AAAATAAAAT
1 -AAATAAAAT
96065241 AAATAAAAT
1 AAATAAAAT
96065250 AAA
1 AAA
96065253 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:96069681 original size:5 final size:5
Alignment explanation
Indices: 96069671--96069702 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
96069661 CAATTTGTGA
96069671 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
96069703 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:96069696 original size:9 final size:9
Alignment explanation
Indices: 96069672--96069702 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
96069662 AATTTGTGAA
96069672 AAATAAAAT
1 AAATAAAAT
96069681 AAAATAAAAT
1 -AAATAAAAT
96069691 AAATAAAAT
1 AAATAAAAT
96069700 AAA
1 AAA
96069703 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:96076046 original size:17 final size:17
Alignment explanation
Indices: 96076024--96076056 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
96076014 TAACAAATAC
96076024 ATCTAGAATGAATATAT
1 ATCTAGAATGAATATAT
96076041 ATCTAGAATGAATATA
1 ATCTAGAATGAATATA
96076057 GACAAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
ATCTAGAATGAATATAT
Found at i:96076055 original size:15 final size:16
Alignment explanation
Indices: 96076018--96076056 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
96076008 ATTTATTAAC
*
96076018 AAATACATCTAGAATG
1 AAATATATCTAGAATG
96076034 AATATATATCTAGAATG
1 AA-ATATATCTAGAATG
96076051 -AATATA
1 AAATATA
96076057 GACAAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 3 0.14
17 13 0.62
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (16 bp):
AAATATATCTAGAATG
Found at i:96078930 original size:5 final size:6
Alignment explanation
Indices: 96078902--96078928 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
96078892 CTCCTTTCCT
96078902 CCCCTC CCCCTC CCCCTC CCCCTC CCC
1 CCCCTC CCCCTC CCCCTC CCCCTC CCC
96078929 TCTAATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.85, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCCTC
Found at i:96081199 original size:481 final size:480
Alignment explanation
Indices: 96079973--96081413 Score: 2810
Period size: 480 Copynumber: 3.0 Consensus size: 480
96079963 TACTTCATGC
96079973 AGAACAAGTAGGTGAAAGAGATAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAAT
1 AGAACAAGTAGGTGAAAGAGATAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAAT
*
96080038 TACAGAGGAAGTGAGGAAATAAAGGGAGAAATTGAAGAAAGGAGAAAACCCAACAAGAATCATTA
66 TACAGAGGAAGTGAGGAAATAAAGGGAGAAATAGAAGAAAGGAGAAAACCCAACAAGAATCATTA
96080103 AGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAATT
131 AGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAATT
*
96080168 AAAACTAAAATAAGAAGATATTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAATT
196 AAAACTAAAATAAGAAGATACTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAATT
96080233 TAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAAT
261 TAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAAT
96080298 AAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACATT
326 AAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACATT
*
96080363 GTTACAGCAGACTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGTAA
391 GTTACAGCAGATTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGTAA
96080428 CACTACATGCTATTTGTACAAATAA
456 CACTACATGCTATTTGTACAAATAA
96080453 AGAACAAGTAGGTGAAAGAGATAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAAT
1 AGAACAAGTAGGTGAAAGAGATAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAAT
96080518 TACAGAGGAAGTGAGGAAATAAAGGGAGAAATAGAAGAAAGGAGAAAACCCAACAAGAATCATTA
66 TACAGAGGAAGTGAGGAAATAAAGGGAGAAATAGAAGAAAGGAGAAAACCCAACAAGAATCATTA
96080583 AGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAATT
131 AGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAATT
*
96080648 AAAACTAAAATAAGAAGATACTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAAAT
196 AAAACTAAAATAAGAAGATACTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAATT
96080713 TAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAAT
261 TAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAAT
96080778 AAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACATT
326 AAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACATT
*
96080843 GTTACAGCAGATTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGCAA
391 GTTACAGCAGATTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGTAA
*
96080908 TACTACATGCTATTTGTACAAATAA
456 CACTACATGCTATTTGTACAAATAA
96080933 AGAACAAGTAGGTGAAAGAGATTAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAA
1 AGAACAAGTAGGTGAAAGAGA-TAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAA
96080998 TTACAGAGGAAGTGAGGAAATAAAGGGAGAAATAGAAGAAAGGAGAAAACCCAACAAGAATCATT
65 TTACAGAGGAAGTGAGGAAATAAAGGGAGAAATAGAAGAAAGGAGAAAACCCAACAAGAATCATT
96081063 AAGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAAT
130 AAGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAAT
96081128 TAAAACTAAAATAAGAAGATACTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAAT
195 TAAAACTAAAATAAGAAGATACTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAAT
96081193 TTAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAA
260 TTAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAA
96081258 TAAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACAT
325 TAAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACAT
96081323 TGTTACAGCAGATTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGTA
390 TGTTACAGCAGATTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGTA
*
96081388 ACACTAGATGCTATTTGTACAAATAA
455 ACACTACATGCTATTTGTACAAATAA
96081414 CAAAATTTTA
Statistics
Matches: 950, Mismatches: 10, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
480 495 0.52
481 455 0.48
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (480 bp):
AGAACAAGTAGGTGAAAGAGATAGAAAATAAGTTTATATGATAATCACAAATAGGCAGAAACAAT
TACAGAGGAAGTGAGGAAATAAAGGGAGAAATAGAAGAAAGGAGAAAACCCAACAAGAATCATTA
AGAGCGTGAGCATCTCAATAATTGATATCTCAAAATCTCAACTATTCATCATCTAAAACCTAATT
AAAACTAAAATAAGAAGATACTTATGGCTAAACCCAAAACCTTAATAAAATGCCAATACCAAATT
TAACCCTAAAACTATTTTAACCTAACCATTCTAAAATATCTCATCTATACGATGATTAAACCAAT
AAAATATAAAAGAAATTCCTAGAAAAATTAATCTCTCAACTAGCATGACTCCATTGTTCAACATT
GTTACAGCAGATTCATCCAAACATAAACAACTGCTAATTACATAGAACTACAGTAGTTTCAGTAA
CACTACATGCTATTTGTACAAATAA
Found at i:96081907 original size:15 final size:15
Alignment explanation
Indices: 96081870--96081907 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
96081860 AGTTTGTTGT
96081870 AAAAGAAAACAATGA
1 AAAAGAAAACAATGA
*
96081885 ATAAGAAAAC-ATGA
1 AAAAGAAAACAATGA
96081899 AAAATGAAA
1 AAAA-GAAA
96081908 GATACCTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (15 bp):
AAAAGAAAACAATGA
Found at i:96089838 original size:2 final size:2
Alignment explanation
Indices: 96089833--96089866 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
96089823 CACACAAAAT
96089833 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
96089867 ATCCCAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:96090006 original size:3 final size:3
Alignment explanation
Indices: 96089998--96090022 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96089988 ATAGTACTTA
96089998 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
96090023 GTTCAGCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:96090574 original size:21 final size:20
Alignment explanation
Indices: 96090544--96090597 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
96090534 TCCAAACAAT
* * *
96090544 AATAATAAAATATAACAATAT
1 AATAACAAAATACAACAA-AC
*
96090565 AATACCAAAATGACAACAAAC
1 AATAACAAAAT-ACAACAAAC
96090586 AATAACAAAATA
1 AATAACAAAATA
96090598 AGGGTGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 6 0.22
ACGTcount: A:0.67, C:0.13, G:0.02, T:0.19
Consensus pattern (20 bp):
AATAACAAAATACAACAAAC
Found at i:96092494 original size:437 final size:437
Alignment explanation
Indices: 96091680--96092552 Score: 1674
Period size: 437 Copynumber: 2.0 Consensus size: 437
96091670 GGTGTTGAAA
96091680 ACAGTAATTTCGGGACCACAATTCTAACAAATGAGTTCGTAAATATTATTAAATATGATATTATT
1 ACAGTAATTTCGGGACCACAATTCTAACAAATGAGTTCGTAAATATTATTAAATATGATATTATT
96091745 GTGAACTTCAATTTTATAAATATTATTAATTGCTCTGTTGGTCAAGGTACAAGTGATTAGTACCG
66 GTGAACTTCAATTTTATAAATATTATTAATTGCTCTGTTGGTCAAGGTACAAGTGATTAGTACCG
96091810 AAAGTTAGTGGTTTTAGAAATGGAGGTATCGAGACTTCATTTCTATAAAACTAGCACGTAAATTA
131 AAAGTTAGTGGTTTTAGAAATGGAGGTATCGAGACTTCATTTCTATAAAACTAGCACGTAAATTA
*
96091875 TAGTATTTAATATTTACGGAATTATTATATTAGTGAATTGAAGTTTAGTCCAAAAATTTTAAAGT
196 TAGTATTTAATATTTACGGAATTATTATATTAGTGAATTGAAGTTTAGTCCAAAAATTTTAAAAT
*
96091940 TTAGATAACTAATTAAGGAAAAATAATTAAATCGTAAAATTCGTAAAACTTCATCGCTGTTGATA
261 TTAGATAACTAATTAAGGAAAAATAATTAAATCGTAAAAATCGTAAAACTTCATCGCTGTTGATA
*
96092005 TTTCTTAGCAAAAAGGCTTAATTAATTAATGTGGATAACTCCTTTTAAATAAATGGGACGGTTAA
326 TTTCTTAGCAAAAAGGCTTAATTAATTAATGTAGATAACTCCTTTTAAATAAATGGGACGGTTAA
96092070 TTCTTGATAAATTAGTGAAATTATAAAGTAAAAATAAGGTTAAAATG
391 TTCTTGATAAATTAGTGAAATTATAAAGTAAAAATAAGGTTAAAATG
* * *
96092117 ACAGTAATTTCGGGACCACAATTTTGACAAATGAGTTCGTAAATTTTATTAAATATGATATTATT
1 ACAGTAATTTCGGGACCACAATTCTAACAAATGAGTTCGTAAATATTATTAAATATGATATTATT
96092182 GTGAACTTCAATTTTATAAATATTATTAATTGCTCTGTTGGTCAAGGTACAAGTGATTAGTACCG
66 GTGAACTTCAATTTTATAAATATTATTAATTGCTCTGTTGGTCAAGGTACAAGTGATTAGTACCG
96092247 AAAGTTAGTGGTTTTAGAAATGGAGGTATCGAGACTTCATTTCTATAAAACTAGCACGTAAATTA
131 AAAGTTAGTGGTTTTAGAAATGGAGGTATCGAGACTTCATTTCTATAAAACTAGCACGTAAATTA
96092312 TAGTATTTAATATTTACGGAATTATTATATTAGTGAATTGAAGTTTAGTCCAAAAATTTTAAAAT
196 TAGTATTTAATATTTACGGAATTATTATATTAGTGAATTGAAGTTTAGTCCAAAAATTTTAAAAT
* *
96092377 TTAGATAACTAATTAAGGAAAAATAATTAAATCGTAAAAATCGTAAAACTTCATCGGTTTTGATA
261 TTAGATAACTAATTAAGGAAAAATAATTAAATCGTAAAAATCGTAAAACTTCATCGCTGTTGATA
96092442 TTTCTTAGCAAAAAGGCTTAATTAATTAATGTAGATAACTCCTTTTAAATAAATGGGACGGTTAA
326 TTTCTTAGCAAAAAGGCTTAATTAATTAATGTAGATAACTCCTTTTAAATAAATGGGACGGTTAA
96092507 TTCTTGATAAATTAGTGAAATTATAAAGTAAAAATAAGGTTAAAAT
391 TTCTTGATAAATTAGTGAAATTATAAAGTAAAAATAAGGTTAAAAT
96092553 ATTAGTTAAA
Statistics
Matches: 428, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
437 428 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.36
Consensus pattern (437 bp):
ACAGTAATTTCGGGACCACAATTCTAACAAATGAGTTCGTAAATATTATTAAATATGATATTATT
GTGAACTTCAATTTTATAAATATTATTAATTGCTCTGTTGGTCAAGGTACAAGTGATTAGTACCG
AAAGTTAGTGGTTTTAGAAATGGAGGTATCGAGACTTCATTTCTATAAAACTAGCACGTAAATTA
TAGTATTTAATATTTACGGAATTATTATATTAGTGAATTGAAGTTTAGTCCAAAAATTTTAAAAT
TTAGATAACTAATTAAGGAAAAATAATTAAATCGTAAAAATCGTAAAACTTCATCGCTGTTGATA
TTTCTTAGCAAAAAGGCTTAATTAATTAATGTAGATAACTCCTTTTAAATAAATGGGACGGTTAA
TTCTTGATAAATTAGTGAAATTATAAAGTAAAAATAAGGTTAAAATG
Found at i:96094667 original size:36 final size:36
Alignment explanation
Indices: 96094626--96094698 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
96094616 TACATAGGAG
96094626 TTAATGAATGTGTTTACTTTGAATGATAATTTTGGT
1 TTAATGAATGTGTTTACTTTGAATGATAATTTTGGT
96094662 TTAATGAATGTGTTTACTTTGAATGATAATTTTGGT
1 TTAATGAATGTGTTTACTTTGAATGATAATTTTGGT
96094698 T
1 T
96094699 GAAATTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.51
Consensus pattern (36 bp):
TTAATGAATGTGTTTACTTTGAATGATAATTTTGGT
Found at i:96097407 original size:52 final size:50
Alignment explanation
Indices: 96097326--96097429 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 50
96097316 AGTATGCCCT
*
96097326 TTTTCATAAGAATCTCATATATAATGGATTACAAGGCAATTAAAATCCGG
1 TTTTCATAAGAATCTCATATATAACGGATTACAAGGCAATTAAAATCCGG
* *
96097376 TTTTCATAAGAATATCTCATATATAACGGATTACAATGCATTTAAAATCCGG
1 TTTTCATAAG-A-ATCTCATATATAACGGATTACAAGGCAATTAAAATCCGG
96097428 TT
1 TT
96097430 AAGTTCTTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 10 0.20
51 1 0.02
52 38 0.78
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (50 bp):
TTTTCATAAGAATCTCATATATAACGGATTACAAGGCAATTAAAATCCGG
Found at i:96104173 original size:20 final size:20
Alignment explanation
Indices: 96104126--96104173 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
96104116 ATATTAATAT
*
96104126 AAATTTTTAATAAAATATTA
1 AAATTATTAATAAAATATTA
96104146 AGAA-TATTACATAAAAT-TTA
1 A-AATTATTA-ATAAAATATTA
96104166 AAATTATT
1 AAATTATT
96104174 GTTAGTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
AAATTATTAATAAAATATTA
Found at i:96104240 original size:24 final size:25
Alignment explanation
Indices: 96104213--96104269 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
96104203 ATAAAATTGT
96104213 ATATTAAAAATTTT-ATATGATTAA
1 ATATTAAAAATTTTAATATGATTAA
* **
96104237 ATA-TAAATATTTTAATATTTTTAA
1 ATATTAAAAATTTTAATATGATTAA
96104261 ATATTAAAA
1 ATATTAAAA
96104270 TTATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.33
24 14 0.52
25 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATTAAAAATTTTAATATGATTAA
Found at i:96110670 original size:387 final size:387
Alignment explanation
Indices: 96109955--96110730 Score: 1390
Period size: 387 Copynumber: 2.0 Consensus size: 387
96109945 CAAAGTAAAG
96109955 CAGCTATTATACTTTTAGTTGTGTACGTTAATGATATTGTTATTACTGCTAGTAAGAATGAAGGT
1 CAGCTATTATACTTTTAGTTGTGTACGTTAATGATATTGTTATTACTGCTAGTAAGAATGAAGGT
* *
96110020 ATCTAAGCTCTCAGACCTGTTCTTCAGACATTTTCAGATGAAAGACTTGGGTATGTCAAAACATA
66 ATCTAAGCTCTCAAACCTGTTCTTCAGACATTTTCAGATGAAAGACTTGGATATGTCAAAACATA
* *
96110085 TTCTTACTTCTGGACAAATACAAAACAGTTGGGTGCTAAATCTTATAGTGTACCAGTGATAAGAT
131 TTCTTACTTCTGGACAAATACAAAACAGTTGGATGCTAAATCTTATAGTGTACCAGTGACAAGAT
**
96110150 CACAAGCGAGTCAGAAAGTAAGCAAAAGATTTGATTAAGAATATAGATGGCTTTCAAGAACATGA
196 CACAAGCGAGTCAGAAAGTAAGCAAAAGATTTGAACAAGAATATAGATGGCTTTCAAGAACATGA
*
96110215 TTATATAAACAAATGCTAATAATCACACAAGATAAACCACCAAAGAAATACTTAACGAACCACTA
261 TTATATAAACAAATGCTAAAAATCACACAAGATAAACCACCAAAGAAATACTTAACGAACCACTA
96110280 AGAACTATTATACCTACAAACACATGATTCTTCTGTCTCAAAAAGCATTCTGAAACGCATCC
326 AGAACTATTATACCTACAAACACATGATTCTTCTGTCTCAAAAAGCATTCTGAAACGCATCC
*
96110342 CAGCTATTATACTTTTAGTTGTGTATGTTAATGATATTGTTATTACTGCTAGTAAGAATGAAGGT
1 CAGCTATTATACTTTTAGTTGTGTACGTTAATGATATTGTTATTACTGCTAGTAAGAATGAAGGT
*
96110407 ATCTAAGCTCTCAAATCTGTTCTTCAGACATTTTCAGATGAAAGACTTGGATATGTCAAAACATA
66 ATCTAAGCTCTCAAACCTGTTCTTCAGACATTTTCAGATGAAAGACTTGGATATGTCAAAACATA
* * * *
96110472 TTCTTACTTTTGGACAAATACAAAACAGTTGGATGCTAAATCTTGTAGTGTACCAGTTACAAGCT
131 TTCTTACTTCTGGACAAATACAAAACAGTTGGATGCTAAATCTTATAGTGTACCAGTGACAAGAT
*
96110537 CACAAGCGAGTCAGAAAGTAAGCAAAAGATTTTAACAAGAATATAGATGGCTTTCAAGAACATGA
196 CACAAGCGAGTCAGAAAGTAAGCAAAAGATTTGAACAAGAATATAGATGGCTTTCAAGAACATGA
* *
96110602 TTATATAAACAAATGCTAAAAATCACACAAGATAAACCACCAAAGAAATACTTAATGAACCGCTA
261 TTATATAAACAAATGCTAAAAATCACACAAGATAAACCACCAAAGAAATACTTAACGAACCACTA
* *
96110667 AGAACTATTATACCTACGAACACTTGATTCTTCTGTCTCAAAAAGCATTCTGAAACGCATCC
326 AGAACTATTATACCTACAAACACATGATTCTTCTGTCTCAAAAAGCATTCTGAAACGCATCC
96110729 CA
1 CA
96110731 ACTGAAACAC
Statistics
Matches: 371, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
387 371 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (387 bp):
CAGCTATTATACTTTTAGTTGTGTACGTTAATGATATTGTTATTACTGCTAGTAAGAATGAAGGT
ATCTAAGCTCTCAAACCTGTTCTTCAGACATTTTCAGATGAAAGACTTGGATATGTCAAAACATA
TTCTTACTTCTGGACAAATACAAAACAGTTGGATGCTAAATCTTATAGTGTACCAGTGACAAGAT
CACAAGCGAGTCAGAAAGTAAGCAAAAGATTTGAACAAGAATATAGATGGCTTTCAAGAACATGA
TTATATAAACAAATGCTAAAAATCACACAAGATAAACCACCAAAGAAATACTTAACGAACCACTA
AGAACTATTATACCTACAAACACATGATTCTTCTGTCTCAAAAAGCATTCTGAAACGCATCC
Found at i:96119763 original size:27 final size:26
Alignment explanation
Indices: 96119678--96119788 Score: 150
Period size: 26 Copynumber: 4.2 Consensus size: 26
96119668 CATGTAATTC
*
96119678 TTATCATGAAACATTTACCTCACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
96119704 TTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
96119730 TTATCATGAAATATTTACCTTAATCCA
1 TTATCATGAAACATTTACC-TAACCCA
* * *
96119757 TTGTCATGAAATATTTACCTATCCCA
1 TTATCATGAAACATTTACCTAACCCA
96119783 TTATCA
1 TTATCA
96119789 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
26 51 0.68
27 24 0.32
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:96119783 original size:53 final size:52
Alignment explanation
Indices: 96119678--96119788 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 52
96119668 CATGTAATTC
* *
96119678 TTATCATGAAACATTTACCTCACCCATTATCATTAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * * * *
96119730 TTATCATGAAATATTTACCTTAATCCATTGTCATGAAATATTTACCTATCCCA
1 TTATCATGAAACATTTACC-TAACCCATTATCATGAAACATTTACCTAACCCA
96119783 TTATCA
1 TTATCA
96119789 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 18 0.35
53 33 0.65
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:96121844 original size:17 final size:16
Alignment explanation
Indices: 96121814--96121847 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
96121804 ATGAAAAAGT
*
96121814 TAAGTTCTAGTAGCTA
1 TAAGTTCTAATAGCTA
96121830 TAAGTATCTAATAGCTA
1 TAAGT-TCTAATAGCTA
96121847 T
1 T
96121848 GGAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
TAAGTTCTAATAGCTA
Found at i:96123177 original size:25 final size:25
Alignment explanation
Indices: 96123026--96123198 Score: 72
Period size: 24 Copynumber: 7.1 Consensus size: 25
96123016 TAGCTATCCG
96123026 GAGCTTCCCG-TTACATGGCTCTTTGT
1 GAGCTTCCCGATT--ATGGCTCTTTGT
** * **
96123052 GAGCTTTTCGA-TA-AGCTCTTCAT
1 GAGCTTCCCGATTATGGCTCTTTGT
** *
96123075 GAGCTTATCGA-TATGGTTCTTTGT
1 GAGCTTCCCGATTATGGCTCTTTGT
* * *
96123099 AAACTTCCCGATTATGGCTC-TTAT
1 GAGCTTCCCGATTATGGCTCTTTGT
* **** * *
96123123 GAGCTT-CCAATTATATAGCGTAGAT
1 GAGCTTCCCGATTATGGCTCTTTG-T
*
96123148 AAGCTTCCCGATTATGGCTCTTTGT
1 GAGCTTCCCGATTATGGCTCTTTGT
** *
96123173 GAGCTTCCC-AAAATGGCTCTGTGT
1 GAGCTTCCCGATTATGGCTCTTTGT
96123197 GA
1 GA
96123199 ACTCCTCGTG
Statistics
Matches: 104, Mismatches: 37, Indels: 14
0.67 0.24 0.09
Matches are distributed among these distances:
23 27 0.26
24 36 0.35
25 22 0.21
26 19 0.18
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (25 bp):
GAGCTTCCCGATTATGGCTCTTTGT
Found at i:96125348 original size:41 final size:41
Alignment explanation
Indices: 96125291--96125368 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
96125281 ACAAGCTCTA
96125291 TGTGTATAATAAGTTATCTATTAAGCATAATCTGTATAAGT
1 TGTGTATAATAAGTTATCTATTAAGCATAATCTGTATAAGT
** * **
96125332 TGTGTATAATTTGTTATCTGTTAAGCATGTTCTGTAT
1 TGTGTATAATAAGTTATCTATTAAGCATAATCTGTAT
96125369 CTATTATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (41 bp):
TGTGTATAATAAGTTATCTATTAAGCATAATCTGTATAAGT
Found at i:96128010 original size:23 final size:23
Alignment explanation
Indices: 96127970--96128013 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
96127960 GAAAGACTGC
**
96127970 AAATTAGTTTGACAAGATGGGCA
1 AAATTAGTAAGACAAGATGGGCA
*
96127993 AAATTAGTAAGACGAGATGGG
1 AAATTAGTAAGACAAGATGGG
96128014 TTGAAGCACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.23
Consensus pattern (23 bp):
AAATTAGTAAGACAAGATGGGCA
Found at i:96136845 original size:36 final size:35
Alignment explanation
Indices: 96136799--96136917 Score: 123
Period size: 36 Copynumber: 3.3 Consensus size: 35
96136789 CCCTACACTT
*
96136799 GTCGGTTAAACCGACAATGTTTTGCACCCAGCGTTG
1 GTCGGATAAACCGACAATGTTTTGC-CCCAGCGTTG
* * *
96136835 GTCGGATAAACCGACAATAGTTGTG-CCCTGCATTG
1 GTCGGATAAACCGACAAT-GTTTTGCCCCAGCGTTG
* * * * *
96136870 GCCGGATAAACCGACGATGTTTTGCGGCCAACGCTG
1 GTCGGATAAACCGACAATGTTTTGC-CCCAGCGTTG
96136906 GTCGGATAAACC
1 GTCGGATAAACC
96136918 AATGATATCA
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 5 0.07
35 24 0.36
36 33 0.49
37 5 0.07
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (35 bp):
GTCGGATAAACCGACAATGTTTTGCCCCAGCGTTG
Found at i:96136862 original size:71 final size:71
Alignment explanation
Indices: 96136775--96136917 Score: 198
Period size: 71 Copynumber: 2.0 Consensus size: 71
96136765 TCAGATATGT
* * * *
96136775 CGACAATAGTTGTGCCCTACACTT-GTCGGTTAAACCGACAATGTTTTGCACCCAGCGTTGGTCG
1 CGACAATAGTTGTGCCCTACA-TTGGCCGGATAAACCGACAATGTTTTGCACCCAACGCTGGTCG
96136839 GATAAAC
65 GATAAAC
* * **
96136846 CGACAATAGTTGTGCCCTGCATTGGCCGGATAAACCGACGATGTTTTGCGGCCAACGCTGGTCGG
1 CGACAATAGTTGTGCCCTACATTGGCCGGATAAACCGACAATGTTTTGCACCCAACGCTGGTCGG
96136911 ATAAAC
66 ATAAAC
96136917 C
1 C
96136918 AATGATATCA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 2 0.03
71 61 0.97
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (71 bp):
CGACAATAGTTGTGCCCTACATTGGCCGGATAAACCGACAATGTTTTGCACCCAACGCTGGTCGG
ATAAAC
Found at i:96136883 original size:35 final size:35
Alignment explanation
Indices: 96136775--96136884 Score: 125
Period size: 35 Copynumber: 3.1 Consensus size: 35
96136765 TCAGATATGT
* *
96136775 CGACAATAGTTGTGCCCTACACTT-GTCGGTTAAAC
1 CGACAATAGTTGTGCCCTGCA-TTGGTCGGATAAAC
* * *
96136810 CGACAAT-GTTTTGCACCCAGCGTTGGTCGGATAAAC
1 CGACAATAGTTGTG--CCCTGCATTGGTCGGATAAAC
*
96136846 CGACAATAGTTGTGCCCTGCATTGGCCGGATAAAC
1 CGACAATAGTTGTGCCCTGCATTGGTCGGATAAAC
96136881 CGAC
1 CGAC
96136885 GATGTTTTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
34 5 0.08
35 31 0.50
36 21 0.34
37 5 0.08
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (35 bp):
CGACAATAGTTGTGCCCTGCATTGGTCGGATAAAC
Found at i:96139588 original size:43 final size:43
Alignment explanation
Indices: 96139522--96139608 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
96139512 TTTCCACATT
* *
96139522 AGTCAGCAATCTCTGCTTGAACACAAGCTAAATGAAGAATCTA
1 AGTCAGCAATCTCTGCTTAAACACAAGATAAATGAAGAATCTA
96139565 AGTCAGCAATCTCTGCTTAAACACAAGATAAATGAAGAATCTA
1 AGTCAGCAATCTCTGCTTAAACACAAGATAAATGAAGAATCTA
96139608 A
1 A
96139609 CCTTTTGAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.23
Consensus pattern (43 bp):
AGTCAGCAATCTCTGCTTAAACACAAGATAAATGAAGAATCTA
Found at i:96141442 original size:18 final size:18
Alignment explanation
Indices: 96141425--96141530 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
96141415 ACTCTTTAAT
96141425 AGTCAGTTATTCAGTAA-
1 AGTCAGTTATTCAGTAAC
* * * *
96141442 TGATAAATTATTTAGTAAC
1 AG-TCAGTTATTCAGTAAC
* *
96141461 AGTCAATTATTCAGTAGC
1 AGTCAGTTATTCAGTAAC
* *
96141479 AGTCAGTTATCCATTAAC
1 AGTCAGTTATTCAGTAAC
*
96141497 AGTCAGTTATTCAGTAGC
1 AGTCAGTTATTCAGTAAC
*
96141515 AGTAAGTTATTCAGTA
1 AGTCAGTTATTCAGTA
96141531 CCTTTATTTA
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
17 1 0.01
18 69 0.97
19 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
AGTCAGTTATTCAGTAAC
Found at i:96141746 original size:45 final size:46
Alignment explanation
Indices: 96141664--96141770 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 46
96141654 CAATAATAGT
* *
96141664 AACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTA-AGGTA-ACAGAGTACCTCATCGGAACAAATCCAG
* *
96141712 AACAGTAACAGTAAGGT-ACGGAGTACCTCTTCGGAACAAATCCAG
1 AACAGTAACAGTAAGGTAACAGAGTACCTCATCGGAACAAATCCAG
96141757 AACAGTAACAGTAA
1 AACAGTAACAGTAA
96141771 AGTGACACTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
45 39 0.71
47 3 0.05
48 13 0.24
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (46 bp):
AACAGTAACAGTAAGGTAACAGAGTACCTCATCGGAACAAATCCAG
Found at i:96143086 original size:24 final size:24
Alignment explanation
Indices: 96143059--96143155 Score: 93
Period size: 24 Copynumber: 4.4 Consensus size: 24
96143049 TATATTTTTG
*
96143059 TACATTTGTACAATATCAATATCA
1 TACATTTGTACAATATCAATACCA
*
96143083 TACATTTGTACAATATCAGTACCA
1 TACATTTGTACAATATCAATACCA
*
96143107 TACAATTGT-C---AT--AT--CA
1 TACATTTGTACAATATCAATACCA
*
96143123 TACATTTGTACAATATCAGTACCA
1 TACATTTGTACAATATCAATACCA
*
96143147 TACAATTGT
1 TACATTTGT
96143156 TATACTTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
16 10 0.17
17 1 0.02
18 1 0.02
20 4 0.07
22 1 0.02
23 1 0.02
24 40 0.69
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (24 bp):
TACATTTGTACAATATCAATACCA
Found at i:96143122 original size:40 final size:40
Alignment explanation
Indices: 96143077--96143155 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
96143067 TACAATATCA
96143077 ATATCATACATTTGTACAATATCAGTACCATACAATTGTC
1 ATATCATACATTTGTACAATATCAGTACCATACAATTGTC
96143117 ATATCATACATTTGTACAATATCAGTACCATACAATTGT
1 ATATCATACATTTGTACAATATCAGTACCATACAATTGT
96143156 TATACTTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (40 bp):
ATATCATACATTTGTACAATATCAGTACCATACAATTGTC
Found at i:96143455 original size:3 final size:3
Alignment explanation
Indices: 96143447--96143498 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
96143437 AACTTATTTC
96143447 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
96143494 ATA AT
1 ATA AT
96143499 CTAAATTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:96152734 original size:26 final size:26
Alignment explanation
Indices: 96152698--96152766 Score: 111
Period size: 26 Copynumber: 2.7 Consensus size: 26
96152688 TTTACATCAA
96152698 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
96152724 TGCTCACACGAGCTGTGAAATGGGCT
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
96152750 TGCTTATACGAGCTGTG
1 TGCTCACACGAGCTGTG
96152767 GGTGTAATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:96159614 original size:14 final size:14
Alignment explanation
Indices: 96159595--96159627 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96159585 ATGATTAAGG
96159595 TTTAATTAAAC-TAA
1 TTTAATT-AACTTAA
96159609 TTTAATTAACTTAA
1 TTTAATTAACTTAA
96159623 TTTAA
1 TTTAA
96159628 CTTTAATCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAATTAACTTAA
Found at i:96160471 original size:2 final size:2
Alignment explanation
Indices: 96160466--96160497 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
96160456 CCACTATCTT
96160466 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96160498 CATGTGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96162084 original size:19 final size:20
Alignment explanation
Indices: 96162049--96162092 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
96162039 CGAAAAATAA
*
96162049 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
96162069 TTTCTGG-AAATAATTTACT
1 TTTCTGGAAAATAATTTACT
96162088 TTTCT
1 TTTCT
96162093 AATTTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:96164378 original size:21 final size:20
Alignment explanation
Indices: 96164341--96164379 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
96164331 TAAGATAAGC
* *
96164341 CAACTTTGAAATGGCTTCTT
1 CAACATTGAAATAGCTTCTT
96164361 CAACATTGAAAATAGCTTC
1 CAACATTG-AAATAGCTTC
96164380 GGTTCTCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
CAACATTGAAATAGCTTCTT
Found at i:96164422 original size:6 final size:6
Alignment explanation
Indices: 96164411--96164455 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
96164401 TTTGCAACCC
* *
96164411 AAGGGG AAGGGG AATGGG AAGGCG AAGGGG AAGGGG AAAGGGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG AA
96164456 AAGAAGAGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.38, C:0.02, G:0.58, T:0.02
Consensus pattern (6 bp):
AAGGGG
Found at i:96164461 original size:24 final size:24
Alignment explanation
Indices: 96164411--96164461 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
96164401 TTTGCAACCC
* **
96164411 AAGGGGAAGGGGAATGGGAAGGCG
1 AAGGGGAAGGGGAAGGGGAAGAAG
96164435 AAGGGGAAGGGGAAAGGGGAA-AAG
1 AAGGGGAAGGGG-AAGGGGAAGAAG
96164459 AAG
1 AAG
96164462 AGTCAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.55, T:0.02
Consensus pattern (24 bp):
AAGGGGAAGGGGAAGGGGAAGAAG
Found at i:96164619 original size:14 final size:14
Alignment explanation
Indices: 96164600--96164626 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
96164590 AAAAAAGCCT
96164600 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
96164614 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
96164627 AGGTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:96168572 original size:85 final size:84
Alignment explanation
Indices: 96168428--96168583 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
96168418 CCTTTATGGC
* * *
96168428 GTATTTTGATATGGCATTTGTGGTATTCTATAAGCCTCTATGGTATTTTGATATGGCCTTTGTGG
1 GTATTTTGATATGGCATTTGTGGCATTCTATAAGCCTCTATAGTATTCTGATATGGCCTTTGTGG
96168493 AATTCTATTAACCACTATT
66 AATTCTATTAACCACTATT
* * * *
96168512 GTATTTTGATATAGTC-TTTGTGGCATTCTGGTTAGCCTCTGTAGTATTCTGATATGGCCTTTGT
1 GTATTTTGATAT-GGCATTTGTGGCATTCT-ATAAGCCTCTATAGTATTCTGATATGGCCTTTGT
*
96168576 GGCATTCT
64 GGAATTCT
96168584 GCTAACTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 24 0.39
85 38 0.61
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.46
Consensus pattern (84 bp):
GTATTTTGATATGGCATTTGTGGCATTCTATAAGCCTCTATAGTATTCTGATATGGCCTTTGTGG
AATTCTATTAACCACTATT
Found at i:96168582 original size:22 final size:22
Alignment explanation
Indices: 96168518--96168584 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
96168508 TATTGTATTT
*
96168518 TGATATAGTCTTTGTGGCATTC
1 TGATATAGCCTTTGTGGCATTC
* * * *
96168540 TGGT-TAGCCTCTGTAGTATTC
1 TGATATAGCCTTTGTGGCATTC
*
96168561 TGATATGGCCTTTGTGGCATTC
1 TGATATAGCCTTTGTGGCATTC
96168583 TG
1 TG
96168585 CTAACTTTTG
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.43
Consensus pattern (22 bp):
TGATATAGCCTTTGTGGCATTC
Found at i:96168584 original size:43 final size:42
Alignment explanation
Indices: 96168403--96168583 Score: 191
Period size: 42 Copynumber: 4.2 Consensus size: 42
96168393 AGGTGTTTGG
* * * *
96168403 GTGGCATTCTACTAGCCTTTATGGCGTATTTTGATATGGCATTT
1 GTGGCATTCTATTAGCCTCTAT--AGTATTTTGATATGGCCTTT
* * *
96168447 GTGGTATTCTATAAGCCTCTATGGTATTTTGATATGGCCTTT
1 GTGGCATTCTATTAGCCTCTATAGTATTTTGATATGGCCTTT
* * * * * *
96168489 GTGGAATTCTATTAACCACTATTGTATTTTGATATAGTCTTT
1 GTGGCATTCTATTAGCCTCTATAGTATTTTGATATGGCCTTT
* * *
96168531 GTGGCATTCTGGTTAGCCTCTGTAGTATTCTGATATGGCCTTT
1 GTGGCATTCT-ATTAGCCTCTATAGTATTTTGATATGGCCTTT
96168574 GTGGCATTCT
1 GTGGCATTCT
96168584 GCTAACTTTT
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 62 0.54
43 34 0.30
44 18 0.16
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (42 bp):
GTGGCATTCTATTAGCCTCTATAGTATTTTGATATGGCCTTT
Found at i:96169600 original size:28 final size:28
Alignment explanation
Indices: 96169545--96169602 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
96169535 ACACACACTC
*
96169545 GTGTCTCTGCCCGTGTGGACAAAAATAG
1 GTGTCTCTACCCGTGTGGACAAAAATAG
96169573 GTGTCTCTACCCGTGTGGACAAAAATAG
1 GTGTCTCTACCCGTGTGGACAAAAATAG
96169601 GT
1 GT
96169603 CGTTTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (28 bp):
GTGTCTCTACCCGTGTGGACAAAAATAG
Found at i:96169816 original size:18 final size:18
Alignment explanation
Indices: 96169793--96169827 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96169783 GAGTTAAACA
96169793 AATCGAATTATTCGAGTT
1 AATCGAATTATTCGAGTT
* *
96169811 AATCGAGTTATTTGAGT
1 AATCGAATTATTCGAGT
96169828 CAACTCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (18 bp):
AATCGAATTATTCGAGTT
Found at i:96170215 original size:20 final size:20
Alignment explanation
Indices: 96170177--96170215 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
96170167 TACTTCCCAT
* *
96170177 AACTTTTAATTTTCCCCCTA
1 AACTTTTAATTCTCACCCTA
*
96170197 AACTTTTACTTCTCACCCT
1 AACTTTTAATTCTCACCCT
96170216 TTTCTCTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (20 bp):
AACTTTTAATTCTCACCCTA
Done.