Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 324 of 343
Found at i:104354625 original size:146 final size:146
Alignment explanation
Indices: 104354361--104354656 Score: 583
Period size: 146 Copynumber: 2.0 Consensus size: 146
104354351 ATATCTAATT
104354361 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
1 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
*
104354426 AAAAAGTCCTGATTTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
66 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
104354491 GTGATCTTTACTGTGG
131 GTGATCTTTACTGTGG
104354507 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
1 CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
104354572 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
66 AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
104354637 GTGATCTTTACTGTGG
131 GTGATCTTTACTGTGG
104354653 CTAC
1 CTAC
104354657 GTTTCCACTT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 149 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (146 bp):
CTACAAGCTCTTGTCAACAGTTTGAAATCAAGTTGACAAGGCCTACTCCTCCCCAAAGAAAAATT
AAAAAGTCCTGAATTTTTTTGAAGCTACTCATGTTTCTAATTTACTAGCTGATTATACTTATTTA
GTGATCTTTACTGTGG
Found at i:104361014 original size:31 final size:32
Alignment explanation
Indices: 104360978--104361051 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
104360968 TGTTAAGGTT
*
104360978 AGGACTAAAATTTTA-AAATTTAAAAAGTA-A
1 AGGACTAAAATTTGATAAATTTAAAAAGTATA
*
104361008 AGGGACTAAAA-TTGATCAATTTAAAAAGTATA
1 A-GGACTAAAATTTGATAAATTTAAAAAGTATA
*
104361040 AGGATTAAAATT
1 AGGACTAAAATT
104361052 AATCAAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 4 0.11
31 30 0.81
32 3 0.08
ACGTcount: A:0.53, C:0.04, G:0.14, T:0.30
Consensus pattern (32 bp):
AGGACTAAAATTTGATAAATTTAAAAAGTATA
Found at i:104361057 original size:31 final size:31
Alignment explanation
Indices: 104360994--104361077 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
104360984 AAAATTTTAA
* *
104360994 AATTTAAAAAGTA-AAGGGACTAAAATTGATC
1 AATTTAAAAAGTATAA-GGATTAAAATTAATC
104361025 AATTTAAAAAGTATAAGGATTAAAATTAATC
1 AATTTAAAAAGTATAAGGATTAAAATTAATC
**
104361056 AAACT-AAAA-TATAAGGATTAAA
1 AATTTAAAAAGTATAAGGATTAAA
104361078 TCCACAACAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.27
30 4 0.08
31 29 0.60
32 2 0.04
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (31 bp):
AATTTAAAAAGTATAAGGATTAAAATTAATC
Found at i:104365924 original size:21 final size:21
Alignment explanation
Indices: 104365898--104365941 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
104365888 ACCTTGAATC
104365898 TTAAATCTTGAG-TTCAAGGTT
1 TTAAATCTTGAGTTTCAA-GTT
* *
104365919 TTAAATTTTGGGTTTCAAGTT
1 TTAAATCTTGAGTTTCAAGTT
104365940 TT
1 TT
104365942 GGGTTTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.50
Consensus pattern (21 bp):
TTAAATCTTGAGTTTCAAGTT
Found at i:104369854 original size:28 final size:28
Alignment explanation
Indices: 104369795--104369854 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
104369785 ATTAACCGAA
* *
104369795 TTAATTAAAATTTTAAAATATTTAGTAG
1 TTAATTAAAATTTTAAAATATGTAGTAC
104369823 TTAATTAAAATTTTAAAAATATGTA-TAC
1 TTAATTAAAATTTT-AAAATATGTAGTAC
104369851 TTAA
1 TTAA
104369855 ATAATACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (28 bp):
TTAATTAAAATTTTAAAATATGTAGTAC
Found at i:104372285 original size:24 final size:27
Alignment explanation
Indices: 104372240--104372290 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 27
104372230 TTTTTTATAC
104372240 TATATATTGCTTTTATATGTATTATGTG
1 TATATATT-CTTTTATATGTATTATGTG
104372268 TATATATT-TTTT-TA-GTATTATGT
1 TATATATTCTTTTATATGTATTATGT
104372291 TTTTTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.39
25 2 0.09
26 4 0.17
28 8 0.35
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (27 bp):
TATATATTCTTTTATATGTATTATGTG
Found at i:104372334 original size:22 final size:23
Alignment explanation
Indices: 104372292--104372336 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
104372282 GTATTATGTT
104372292 TTTTATATACTATTATGTATATA
1 TTTTATATACTATTATGTATATA
*
104372315 TTTTA-ATATTATTA-GTTATATA
1 TTTTATATACTATTATG-TATATA
104372337 CCCTTTGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.70
23 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTATATACTATTATGTATATA
Found at i:104373062 original size:23 final size:23
Alignment explanation
Indices: 104372994--104373074 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
104372984 TTTATGTACC
104372994 TATACTTTTC-ATACTATATTATA
1 TATA-TTTTCAATACTATATTATA
*
104373017 TATCTATCCTTTCAATA-TCATATTGTA
1 TA--TAT--TTTCAATACT-ATATTATA
*
104373044 TATATTTTCAATACTATATTACA
1 TATATTTTCAATACTATATTATA
*
104373067 TAGATTTT
1 TATATTTT
104373075 TTTCCTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
23 23 0.49
24 2 0.04
25 5 0.11
26 5 0.11
27 12 0.26
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATTTTCAATACTATATTATA
Found at i:104377092 original size:14 final size:14
Alignment explanation
Indices: 104377073--104377123 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
104377063 TTCATCCCTA
104377073 TTATTATTTATACT
1 TTATTATTTATACT
104377087 TTATTA-TTATCAC-
1 TTATTATTTAT-ACT
104377100 TTATTATTT-TACT
1 TTATTATTTATACT
*
104377113 ATTGTTATTTA
1 -TTATTATTTA
104377124 ATCTATTATC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 18 0.58
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (14 bp):
TTATTATTTATACT
Found at i:104377426 original size:63 final size:62
Alignment explanation
Indices: 104377321--104377458 Score: 145
Period size: 63 Copynumber: 2.2 Consensus size: 62
104377311 TTCTAATATG
* * *
104377321 TATATATTATGTATATATTTTTAAATATCATACTATTCATATATTTTTATGTTATCTCATGCA
1 TATATATTATATATATATTTTTAAATAT-ATACTATTCATATATATTTATATTATCTCATGCA
* * * * *
104377384 TATATATATATATATATATTTTT-AATAT-TATTAGTTATATATATATTTATATTCTTTCATGTA
1 TATATAT-TATATATATATTTTTAAATATATACTA-TT-CATATATATTTATATTATCTCATGCA
*
104377447 TATATTTTATAT
1 TATATATTATAT
104377459 TATCCTTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
61 4 0.06
62 7 0.11
63 38 0.60
64 14 0.22
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (62 bp):
TATATATTATATATATATTTTTAAATATATACTATTCATATATATTTATATTATCTCATGCA
Found at i:104377514 original size:21 final size:22
Alignment explanation
Indices: 104377482--104377534 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
104377472 ATTAATATTA
* *
104377482 GTATATGTTTT-AT-TATATAT
1 GTATATATTTTAATATATATAG
104377502 GTATATATCTTTAATATATATAG
1 GTATATAT-TTTAATATATATAG
104377525 GTATATATTT
1 GTATATATTT
104377535 ATGTAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 3 0.11
22 4 0.14
23 14 0.50
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
GTATATATTTTAATATATATAG
Found at i:104377625 original size:24 final size:23
Alignment explanation
Indices: 104377582--104377643 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 23
104377572 TTCTAATATG
* *
104377582 TATATATTATGTAGATATTTTAA
1 TATATATTATGTATACATTTTAA
**
104377605 TATTATATTATGTATACATTTTTT
1 TA-TATATTATGTATACATTTTAA
*
104377629 TATATATTACGTATA
1 TATATATTATGTATA
104377644 TATATCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 14 0.42
24 19 0.58
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (23 bp):
TATATATTATGTATACATTTTAA
Found at i:104377642 original size:23 final size:25
Alignment explanation
Indices: 104377608--104377660 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
104377598 ATTTTAATAT
*
104377608 TATATTATGTATACAT-T-TTTTTA
1 TATATTACGTATACATATCTTTTTA
*
104377631 TATATTACGTATATATATCTTTTTA
1 TATATTACGTATACATATCTTTTTA
104377656 -ATATT
1 TATATT
104377661 GTATTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 6 0.23
25 6 0.23
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATTACGTATACATATCTTTTTA
Found at i:104377803 original size:25 final size:25
Alignment explanation
Indices: 104377736--104377804 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
104377726 TCATGTATAT
* *
104377736 ATATTTTTAATAACTATATTATGTAT
1 ATATTTTTAAT-ACTATGTTATGTAC
* * *
104377762 GTATTTTTAACATTATGTTATGTAC
1 ATATTTTTAATACTATGTTATGTAC
104377787 ATATTTTTAATACTATGT
1 ATATTTTTAATACTATGT
104377805 ATATACCTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 26 0.74
26 9 0.26
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.54
Consensus pattern (25 bp):
ATATTTTTAATACTATGTTATGTAC
Found at i:104377934 original size:45 final size:45
Alignment explanation
Indices: 104377846--104377945 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 45
104377836 ATTTTAATAC
* * *
104377846 ATATATATATCGTTATTATTAGTTTTTTATTATTATTACTGTTTT
1 ATATATATATCGTTATTATTAGTTTTTAATTAGTATTAATGTTTT
104377891 CAATATATATATCG-TA-TA-TA-TTTTTAATCTAGTATTATATGTTTT
1 --ATATATATATCGTTATTATTAGTTTTTAAT-TAGTATTA-ATGTTTT
104377936 ATATATATAT
1 ATATATATAT
104377946 GTTCCCTACT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 17 0.35
44 9 0.19
45 8 0.17
46 2 0.04
47 12 0.25
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (45 bp):
ATATATATATCGTTATTATTAGTTTTTAATTAGTATTAATGTTTT
Found at i:104380146 original size:88 final size:87
Alignment explanation
Indices: 104379981--104380139 Score: 245
Period size: 84 Copynumber: 1.9 Consensus size: 87
104379971 CGACCAATTC
* *
104379981 TTTATTGATTTAATTAGTTTTTTATTAATTTAATTCTTCTTCAATTTTATATACTAGTTAGACTA
1 TTTATCGATTTAATTAGTTTTTTACTAATTTAA-TCTTCTTCAATTTTATATACTAGTTAGACTA
104380046 TCAATTTCTAATTCGACTAACTT
65 TCAATTTCTAATTCGACTAACTT
*
104380069 TTTATCGATTTAATTAGTTTTTTACT-ATTT-A-CTTCTTCGATTTTATATACTAGTT-GAACTA
1 TTTATCGATTTAATTAGTTTTTTACTAATTTAATCTTCTTCAATTTTATATACTAGTTAG-ACTA
104380130 TCAATTTCTA
65 TCAATTTCTA
104380140 GCTAATTGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
83 1 0.01
84 37 0.55
86 1 0.01
87 4 0.06
88 24 0.36
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.53
Consensus pattern (87 bp):
TTTATCGATTTAATTAGTTTTTTACTAATTTAATCTTCTTCAATTTTATATACTAGTTAGACTAT
CAATTTCTAATTCGACTAACTT
Found at i:104380997 original size:24 final size:25
Alignment explanation
Indices: 104380970--104381018 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
104380960 TTTTTTTTAT
*
104380970 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
104380994 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
104381019 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:104381011 original size:25 final size:23
Alignment explanation
Indices: 104380982--104381046 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
104380972 AATAAAAAAC
*
104380982 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
104381007 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
104381028 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
104381047 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:104381045 original size:19 final size:20
Alignment explanation
Indices: 104381008--104381046 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
104380998 TCAAATACAT
104381008 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
104381028 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
104381047 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:104382937 original size:16 final size:16
Alignment explanation
Indices: 104382912--104382942 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104382902 CACCACTTGG
*
104382912 ATTGTTTGCCATTAAA
1 ATTGTCTGCCATTAAA
104382928 ATTGTCTGCCATTAA
1 ATTGTCTGCCATTAA
104382943 TCATAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (16 bp):
ATTGTCTGCCATTAAA
Found at i:104384879 original size:21 final size:21
Alignment explanation
Indices: 104384853--104384893 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104384843 ATCTGCTCAA
* *
104384853 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
104384874 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
104384894 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:104390117 original size:29 final size:30
Alignment explanation
Indices: 104390064--104390174 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 30
104390054 TATTAAAATT
* *
104390064 ATACATG-AACTTTGATCTAATGTGCAATTTG
1 ATACATGAAACTTTGAT-T-TTGTGCAATATG
104390095 ATACATGAAA-TTTGATTTTGTGCAATATG
1 ATACATGAAACTTTGATTTTGTGCAATATG
* * *
104390124 -CACATTAAACTTTGATTTTGGTTCAA-ATG
1 ATACATGAAACTTTGATTTT-GTGCAATATG
*
104390153 TATACATAAAACTTTGATTTTG
1 -ATACATGAAACTTTGATTTTG
104390175 ATTCAATTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
28 7 0.10
29 22 0.32
30 7 0.10
31 30 0.44
32 2 0.03
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
ATACATGAAACTTTGATTTTGTGCAATATG
Found at i:104390168 original size:31 final size:31
Alignment explanation
Indices: 104390125--104390190 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
104390115 TGCAATATGC
* *
104390125 ACATTAAACTTTGATTTTGGTTCAAATGTAT
1 ACATAAAACTTTGATTTTGATTCAAATGTAT
*
104390156 ACATAAAACTTTGATTTTGATTCAATTGTAT
1 ACATAAAACTTTGATTTTGATTCAAATGTAT
104390187 ACAT
1 ACAT
104390191 TTTAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
ACATAAAACTTTGATTTTGATTCAAATGTAT
Found at i:104390718 original size:88 final size:87
Alignment explanation
Indices: 104390608--104390866 Score: 335
Period size: 88 Copynumber: 3.0 Consensus size: 87
104390598 TTTTGTCTTT
* * *
104390608 TTTTTTTTTGCACTCATTTAAGCAATTGAACTTTTAAAATGCATCAAAAAGACCCTCAAACTTCT
1 TTTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGCATCAAAAAGACCCTCAAACTTCT
*
104390673 TCAAAAAAAGCAATTAGGCCCCC
66 TC-AAAAAAGCAATTAAGCCCCC
* * * *
104390696 TTTTTTTTTGCACTCAAATAAGCACTTGAACTTTCAAAATACTTCAAAAAGACCCTCAAACTTCT
1 TTTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGCATCAAAAAGACCCTCAAACTTCT
104390761 TCAAAAAAGCAATTAAG-CCCC
66 TCAAAAAAGCAATTAAGCCCCC
** * * * * * *
104390782 -TTTTTTTT-CACTCAATTGTGTACTTGAACTTTCAAAAATGTATAAAAAAGATCCTCAAAATTT
1 TTTTTTTTTGCACTCAATTAAGCACTTGAACTTT-AAAAATGCATCAAAAAGACCCTCAAACTTC
104390845 TTCAAAAAAGCAATTAAGCCCC
65 TTCAAAAAAGCAATTAAGCCCC
104390867 TACTTTTATT
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
84 20 0.13
85 48 0.32
86 7 0.05
87 14 0.09
88 61 0.41
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (87 bp):
TTTTTTTTTGCACTCAATTAAGCACTTGAACTTTAAAAATGCATCAAAAAGACCCTCAAACTTCT
TCAAAAAAGCAATTAAGCCCCC
Found at i:104391134 original size:19 final size:20
Alignment explanation
Indices: 104391089--104391252 Score: 67
Period size: 19 Copynumber: 8.6 Consensus size: 20
104391079 GTACAGTAAT
104391089 TTTTATA-ATTTTTTTACGA
1 TTTTATATATTTTTTTACGA
**
104391108 AATT-TATATTTTTTTAC-A
1 TTTTATATATTTTTTTACGA
* *
104391126 TTTTATATAATTTTCTTATGA
1 TTTTATAT-ATTTTTTTACGA
* * ** *
104391147 CTTTATAAAAGTTTATA--A
1 TTTTATATATTTTTTTACGA
* * * *
104391165 TTTTTTATATTTCTATA-TA
1 TTTTATATATTTTTTTACGA
104391184 TTTTATA-A-TTTTTTACGA
1 TTTTATATATTTTTTTACGA
*** *
104391202 TTTT-TATAAAATTTTACAA
1 TTTTATATATTTTTTTACGA
* * *
104391221 TTTTTTATATATTTTTATGA
1 TTTTATATATTTTTTTACGA
104391241 TTTATATATATT
1 TTT-TATATATT
104391253 CTAATTTTAA
Statistics
Matches: 104, Mismatches: 31, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
17 7 0.07
18 24 0.23
19 33 0.32
20 27 0.26
21 13 0.12
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTATATATTTTTTTACGA
Found at i:104391139 original size:48 final size:47
Alignment explanation
Indices: 104391085--104391243 Score: 128
Period size: 49 Copynumber: 3.3 Consensus size: 47
104391075 TTTGGTACAG
*
104391085 TAATTTTTATAATTTTTTTACGAAATTTATATTTTTTTACATTTTATA
1 TAATTTTTATAA-TTTTTTACGAAATTTATAATTTTTTACATTTTATA
* * * *
104391133 TAATTTTCTTATGACTTTATA--AAAGTTTATAATTTTTTATATTTCTATA
1 TAA-TTT-TTATAATTTTTTACGAAA-TTTATAATTTTTTACATTT-TATA
** ** *
104391182 T-A-TTTTATAATTTTTTACGATTTTTATAAAATTTTACAATTTTTTA
1 TAATTTTTATAATTTTTTACGAAATTTATAATTTTTTAC-ATTTTATA
*
104391228 TATATTTTTATGATTT
1 TA-ATTTTTATAATTT
104391244 ATATATATTC
Statistics
Matches: 86, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
45 10 0.12
46 18 0.21
47 8 0.09
48 22 0.26
49 23 0.27
50 5 0.06
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (47 bp):
TAATTTTTATAATTTTTTACGAAATTTATAATTTTTTACATTTTATA
Found at i:104391237 original size:10 final size:10
Alignment explanation
Indices: 104391158--104391252 Score: 60
Period size: 10 Copynumber: 10.0 Consensus size: 10
104391148 TTTATAAAAG
104391158 TTTATA-ATT
1 TTTATATATT
104391167 TTT-TATATT
1 TTTATATATT
*
104391176 TCTATATA-T
1 TTTATATATT
104391185 TTTATA-ATT
1 TTTATATATT
*
104391194 TTT-TACGATT
1 TTTATA-TATT
* *
104391204 TTTATAAAAT
1 TTTATATATT
*
104391214 TTTACA-ATTT
1 TTTATATA-TT
104391224 TTTATATATT
1 TTTATATATT
*
104391234 TTTAT-GATT
1 TTTATATATT
*
104391243 TATATATATT
1 TTTATATATT
104391253 CTAATTTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 5 0.07
9 26 0.39
10 33 0.49
11 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATATATT
Found at i:104391507 original size:90 final size:88
Alignment explanation
Indices: 104391339--104391565 Score: 293
Period size: 90 Copynumber: 2.6 Consensus size: 88
104391329 AATTTTTAAT
* * * *
104391339 AAAAGCAAGGGCTTAATT--TTTTTTT-TAAAGTTTGAAGGTCTTTTTGATGCATTTTGAAAGTT
1 AAAAGTAAGCGCTTAATTGCTTTTTTTGAAAAGTTTG-AGGGCTTTTTGATGCATTTTGAAAGTT
104391401 CAAATACCAAATTGAGTG-AAAAA
65 CAAATACCAAATTGAGTGCAAAAA
104391424 AAAAGGTAAGCGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAG
1 AAAA-GTAAGCGCTTAATTGCTTTTTTTGAAAA-GTTTGAGGG-CTTTTTGATGCATTTTGAAAG
*
104391489 TTCAAGTACCCAAA-TGAGTGCAAAAA
63 TTCAAATA-CCAAATTGAGTGCAAAAA
* *
104391515 AAAAGTACGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCTTTTTGA
1 AAAAGTAAGCGCTTAATTGC-TTTTTTTG-AAAAGTTTGAGGGCTTTTTGA
104391566 ACCCTTAAGC
Statistics
Matches: 125, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
85 4 0.03
86 12 0.10
88 7 0.06
89 6 0.05
90 61 0.49
91 31 0.25
92 4 0.03
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (88 bp):
AAAAGTAAGCGCTTAATTGCTTTTTTTGAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAGTTC
AAATACCAAATTGAGTGCAAAAA
Found at i:104392776 original size:24 final size:26
Alignment explanation
Indices: 104392729--104392777 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
104392719 GAGAAACTAT
* *
104392729 TTTATGGATTTTTTTTTATCTTATTA
1 TTTATGGATTTCTTTTTATATTATTA
104392755 TTTATGG-TTTCTTTTTA-ATTATT
1 TTTATGGATTTCTTTTTATATTATT
104392778 TAATGATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.69
Consensus pattern (26 bp):
TTTATGGATTTCTTTTTATATTATTA
Found at i:104392923 original size:21 final size:21
Alignment explanation
Indices: 104392893--104392940 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
104392883 AACTATAACC
104392893 CTAAA-CTCGAACTCT-AAACT
1 CTAAACCTCGAAC-CTAAAACT
*
104392913 CTCAACCTCGAACCTAAAACT
1 CTAAACCTCGAACCTAAAACT
104392934 CTAAACC
1 CTAAACC
104392941 ATAAACCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.40, C:0.35, G:0.04, T:0.21
Consensus pattern (21 bp):
CTAAACCTCGAACCTAAAACT
Found at i:104393412 original size:16 final size:15
Alignment explanation
Indices: 104393378--104393444 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
104393368 TAATTAATAC
* *
104393378 AAAATAATATTATTT
1 AAAATAATAATAATT
104393393 AAAATAATAAATAATT
1 AAAATAAT-AATAATT
* *
104393409 AAAAT-ATACTAAAT
1 AAAATAATAATAATT
*
104393423 ACAAAT-ATTATAA-T
1 A-AAATAATAATAATT
104393437 AAAATAAT
1 AAAATAAT
104393445 TCCTACTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
13 4 0.09
14 10 0.23
15 19 0.44
16 10 0.23
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATAATAATAATT
Found at i:104393854 original size:17 final size:18
Alignment explanation
Indices: 104393832--104393869 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
104393822 GACCATATTC
104393832 TTTTAT-TCCAAAATACA
1 TTTTATATCCAAAATACA
*
104393849 TTTTATGATTCAAAATACA
1 TTTTAT-ATCCAAAATACA
104393868 TT
1 TT
104393870 AAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (18 bp):
TTTTATATCCAAAATACA
Found at i:104409084 original size:28 final size:27
Alignment explanation
Indices: 104409053--104409109 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
104409043 TAAAATAGAA
* *
104409053 TATACACAAAGATTTAAAATAAATCATG
1 TATACA-AAAAATTTAAAATAAATAATG
*
104409081 TATATAAAAAATTTAAAATAAATAATG
1 TATACAAAAAATTTAAAATAAATAATG
104409108 TA
1 TA
104409110 AAAATAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (27 bp):
TATACAAAAAATTTAAAATAAATAATG
Found at i:104409875 original size:25 final size:23
Alignment explanation
Indices: 104409838--104409890 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
104409828 AAATATAAGA
*
104409838 AATAATAGAATAATGACAA-TAAT
1 AATAATAGAATAAT-AAAATTAAT
104409861 AATAAGTAGCAATAATAAAATTAAT
1 AATAA-TAG-AATAATAAAATTAAT
104409886 AATAA
1 AATAA
104409891 AAATAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (23 bp):
AATAATAGAATAATAAAATTAAT
Found at i:104409905 original size:22 final size:23
Alignment explanation
Indices: 104409880--104409939 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
104409870 CAATAATAAA
104409880 ATTAATAATAAAAATAAA-GTTG
1 ATTAATAATAAAAATAAAGGTTG
*
104409902 ATTAATTAATAAAAAAAAATGGTTG
1 ATTAA-TAATAAAAATAAA-GGTTG
104409927 ATTAAT--TAAAAAT
1 ATTAATAATAAAAAT
104409940 GGACTATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 11 0.33
23 12 0.36
24 1 0.03
25 9 0.27
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (23 bp):
ATTAATAATAAAAATAAAGGTTG
Found at i:104409913 original size:26 final size:25
Alignment explanation
Indices: 104409879--104409935 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
104409869 GCAATAATAA
104409879 AATTAATAATAAAAATAA-AGTTGATT
1 AATTAATAA-AAAAA-AATAGTTGATT
*
104409905 AATTAATAAAAAAAAATGGTTGATT
1 AATTAATAAAAAAAAATAGTTGATT
104409930 AATTAA
1 AATTAA
104409936 AAATGGACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 18 0.62
26 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
AATTAATAAAAAAAAATAGTTGATT
Found at i:104411903 original size:12 final size:12
Alignment explanation
Indices: 104411886--104411910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104411876 TAATGAGTTT
104411886 GTTGTGCTTGAG
1 GTTGTGCTTGAG
104411898 GTTGTGCTTGAG
1 GTTGTGCTTGAG
104411910 G
1 G
104411911 GCAAGCATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.44, T:0.40
Consensus pattern (12 bp):
GTTGTGCTTGAG
Found at i:104412247 original size:15 final size:15
Alignment explanation
Indices: 104412216--104412258 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
104412206 TTGTGGGGTT
104412216 TTTTAAAAATATTTTA
1 TTTTAAAAATA-TTTA
104412232 TTTATAAAAATA-TTA
1 TTT-TAAAAATATTTA
104412247 TTTTAATAAATA
1 TTTTAA-AAATA
104412259 AATTTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 11 0.44
16 3 0.12
17 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAAAAATATTTA
Found at i:104412255 original size:17 final size:17
Alignment explanation
Indices: 104412219--104412256 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
104412209 TGGGGTTTTT
*
104412219 TAAAAATATTTTATTTA
1 TAAAAATATTTTATTAA
104412236 TAAAAATATTATT-TTAA
1 TAAAAATATT-TTATTAA
104412253 TAAA
1 TAAA
104412257 TAAATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAAATATTTTATTAA
Found at i:104413072 original size:18 final size:17
Alignment explanation
Indices: 104413045--104413078 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
104413035 TGATTATTTG
104413045 TATGTTTGTTATACATA
1 TATGTTTGTTATACATA
104413062 TATGATTTGTTATACAT
1 TATG-TTTGTTATACAT
104413079 TTTTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
TATGTTTGTTATACATA
Found at i:104413239 original size:17 final size:17
Alignment explanation
Indices: 104413217--104413251 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
104413207 TTATGATTGC
104413217 ACTCAACATTTGTTGGT
1 ACTCAACATTTGTTGGT
104413234 ACTCAACATTTGTTGGT
1 ACTCAACATTTGTTGGT
104413251 A
1 A
104413252 TCTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (17 bp):
ACTCAACATTTGTTGGT
Found at i:104419271 original size:19 final size:19
Alignment explanation
Indices: 104419246--104419297 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
104419236 AATTACAAGA
104419246 AAAAAATCAAAATGATTT-T
1 AAAAAATCAAAAT-ATTTAT
*
104419265 CAAAAATTCAAAATATTTAT
1 -AAAAAATCAAAATATTTAT
104419285 AAAAAATCCAAAA
1 AAAAAAT-CAAAA
104419298 CTTATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATCAAAATATTTAT
Found at i:104427945 original size:19 final size:19
Alignment explanation
Indices: 104427911--104427982 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
104427901 TTATTTGTAT
104427911 TTTTTATATATTTAAAATTTA
1 TTTTTA-AT-TTTAAAATTTA
104427932 TTTTTAATTTTAAAAATTTA
1 TTTTTAATTTT-AAAATTTA
* * *
104427952 --ATTAATTTCAAAATTAA
1 TTTTTAATTTTAAAATTTA
*
104427969 TATTTAATTATTAA
1 TTTTTAATT-TTAA
104427983 CACTATTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.17
18 7 0.17
19 9 0.21
20 13 0.31
21 6 0.14
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTTAATTTTAAAATTTA
Found at i:104427947 original size:20 final size:21
Alignment explanation
Indices: 104427911--104427951 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
104427901 TTATTTGTAT
104427911 TTTTTATATATTTAAAATTTA
1 TTTTTATATATTTAAAATTTA
104427932 TTTTTA-AT-TTTAAAAATTTA
1 TTTTTATATATTT-AAAATTTA
104427952 ATTAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTATATATTTAAAATTTA
Found at i:104432854 original size:25 final size:25
Alignment explanation
Indices: 104432824--104432875 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
104432814 ATGTTGATGT
* *
104432824 ATAGAAATCAATTTTTAACAGTAAA
1 ATAGAAAACAATTTTTAACAGAAAA
* *
104432849 ATAGAAAAGAATTTTTAATAGAAAA
1 ATAGAAAACAATTTTTAACAGAAAA
104432874 AT
1 AT
104432876 TAATTTTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.31
Consensus pattern (25 bp):
ATAGAAAACAATTTTTAACAGAAAA
Found at i:104447290 original size:20 final size:20
Alignment explanation
Indices: 104447254--104447293 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
104447244 TCCTATTGTT
104447254 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
104447274 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
104447294 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:104451696 original size:23 final size:23
Alignment explanation
Indices: 104451670--104451719 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
104451660 TGGAATGTAT
104451670 AACTTTTACCAATTACAATATCA
1 AACTTTTACCAATTACAATATCA
104451693 AACTTTTACCAATTACAATATCA
1 AACTTTTACCAATTACAATATCA
104451716 AACT
1 AACT
104451720 CAAGTATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (23 bp):
AACTTTTACCAATTACAATATCA
Found at i:104451808 original size:12 final size:12
Alignment explanation
Indices: 104451791--104451819 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
104451781 ATCGAGTTGT
104451791 ATTTTTCATTTA
1 ATTTTTCATTTA
104451803 ATTTTTCATTTA
1 ATTTTTCATTTA
104451815 ATTTT
1 ATTTT
104451820 AATTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTTCATTTA
Found at i:104459548 original size:13 final size:14
Alignment explanation
Indices: 104459532--104459567 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
104459522 CAATCTCATA
104459532 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
104459545 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
104459558 TCTC-ATTTCA
1 TCTCAATTTCA
104459568 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:104459557 original size:18 final size:19
Alignment explanation
Indices: 104459519--104459559 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
104459509 TGGTTCATGT
104459519 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
104459538 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
104459556 TTTC
1 TTTC
104459560 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:104459985 original size:8 final size:10
Alignment explanation
Indices: 104459956--104459996 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
104459946 ATTCTAATAA
*
104459956 TCACATATTT
1 TCACACATTT
104459966 TCACACATTT
1 TCACACATTT
104459976 TCACA-A-TT
1 TCACACATTT
*
104459984 TCATACATTT
1 TCACACATTT
104459994 TCA
1 TCA
104459997 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:104460221 original size:15 final size:14
Alignment explanation
Indices: 104460203--104460252 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
104460193 ATATATATAT
104460203 TATAATTTCAATCAA
1 TATAATTT-AATCAA
104460218 TATAAATTTAATCAA
1 TAT-AATTTAATCAA
* *
104460233 AATGATTTTAATCAA
1 TAT-AATTTAATCAA
104460248 TATAA
1 TATAA
104460253 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 1 0.03
15 23 0.79
16 5 0.17
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (14 bp):
TATAATTTAATCAA
Found at i:104461026 original size:15 final size:15
Alignment explanation
Indices: 104460987--104461033 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
104460977 CCTGTTTATT
104460987 CTCTGTTTCGTTTCCA
1 CTCTGTTTC-TTTCCA
*
104461003 CGTTCTGTTTCTTTTCA
1 C--TCTGTTTCTTTCCA
104461020 CTCTGTTTCTTTCC
1 CTCTGTTTCTTTCC
104461034 TTTATTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 6 0.22
18 8 0.30
ACGTcount: A:0.04, C:0.30, G:0.11, T:0.55
Consensus pattern (15 bp):
CTCTGTTTCTTTCCA
Found at i:104461263 original size:21 final size:22
Alignment explanation
Indices: 104461210--104461264 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
104461200 CAATTTAAAT
*
104461210 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
104461232 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
104461253 AATAATAATAAT
1 AATAATAATAAT
104461265 TTAATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:104464321 original size:20 final size:20
Alignment explanation
Indices: 104464296--104464336 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
104464286 TTAAAAATAT
*
104464296 AAATTTAATATTTTTAAAAA
1 AAATTTAATATATTTAAAAA
*
104464316 AAATTTCATATATTTAAAAA
1 AAATTTAATATATTTAAAAA
104464336 A
1 A
104464337 TGTACCAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTTAATATATTTAAAAA
Found at i:104465168 original size:51 final size:51
Alignment explanation
Indices: 104465108--104465239 Score: 237
Period size: 51 Copynumber: 2.6 Consensus size: 51
104465098 AGCTACTAAG
* * *
104465108 GATGAGGCACCAATAGCTACCCCTGCAGCAACAGAAGCCCCTGCTGATGAT
1 GATGAGGCACCAGTAGCCACTCCTGCAGCAACAGAAGCCCCTGCTGATGAT
104465159 GATGAGGCACCAGTAGCCACTCCTGCAGCAACAGAAGCCCCTGCTGATGAT
1 GATGAGGCACCAGTAGCCACTCCTGCAGCAACAGAAGCCCCTGCTGATGAT
104465210 GATGAGGCACCAGTAGCCACTCCTGCAGCA
1 GATGAGGCACCAGTAGCCACTCCTGCAGCA
104465240 CCAGTTGCAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.15
Consensus pattern (51 bp):
GATGAGGCACCAGTAGCCACTCCTGCAGCAACAGAAGCCCCTGCTGATGAT
Found at i:104466391 original size:8 final size:8
Alignment explanation
Indices: 104466369--104466408 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 8
104466359 TTTAATCTCC
104466369 TTTAAAAA
1 TTTAAAAA
104466377 TTATAAAAA
1 TT-TAAAAA
104466386 TTTAAAAA
1 TTTAAAAA
104466394 TTATAAAAA
1 TT-TAAAAA
104466403 TTTAAA
1 TTTAAA
104466409 TTAGTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTTAAAAA
Found at i:104466391 original size:17 final size:17
Alignment explanation
Indices: 104466369--104466408 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
104466359 TTTAATCTCC
104466369 TTTAAAAATTATAAAAA
1 TTTAAAAATTATAAAAA
104466386 TTTAAAAATTATAAAAA
1 TTTAAAAATTATAAAAA
104466403 TTTAAA
1 TTTAAA
104466409 TTAGTAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAAATTATAAAAA
Found at i:104466763 original size:29 final size:29
Alignment explanation
Indices: 104466709--104466766 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
104466699 TTATAAGAAT
*
104466709 TGGATTAAATTAGTCACTCTATTATTAAA
1 TGGATTAAATTAGTCACTCTACTATTAAA
* *
104466738 TGGATTAATTTAGTC-CCCTTACTATTAAA
1 TGGATTAAATTAGTCACTC-TACTATTAAA
104466767 AATAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (29 bp):
TGGATTAAATTAGTCACTCTACTATTAAA
Found at i:104467437 original size:17 final size:17
Alignment explanation
Indices: 104467415--104467461 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
104467405 TAATTAATTA
104467415 TTTTAATGACTTT-TAAT
1 TTTTAATGA-TTTATAAT
*
104467432 TTTTAATTATTTATAAT
1 TTTTAATGATTTATAAT
*
104467449 TTTTAATTATTTA
1 TTTTAATGATTTA
104467462 ATGACTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 3 0.11
17 25 0.89
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTAATGATTTATAAT
Found at i:104467523 original size:29 final size:30
Alignment explanation
Indices: 104467491--104467555 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
104467481 TTATACTTTT
104467491 AAATTA-TTTTA-ATGACTTTTAATTTTTAA
1 AAATTACTTTTATAT-ACTTTTAATTTTTAA
**
104467520 AAATTACTTTTATATTTTTTTAATTTTTAA
1 AAATTACTTTTATATACTTTTAATTTTTAA
104467550 AAATTA
1 AAATTA
104467556 ACTAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 6 0.19
30 24 0.75
31 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (30 bp):
AAATTACTTTTATATACTTTTAATTTTTAA
Found at i:104467544 original size:20 final size:19
Alignment explanation
Indices: 104467484--104467544 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
104467474 CTTCTATTTA
*
104467484 TACTTTTAAATTATTTTAAT
1 TACTTTT-AATTTTTTTAAT
* **
104467504 GACTTTTAATTTTTAAAAAT
1 TACTTTTAATTTTT-TTAAT
104467524 TACTTTTATATTTTTTTAAT
1 TACTTTTA-ATTTTTTTAAT
104467544 T
1 T
104467545 TTTAAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 6 0.19
20 20 0.62
21 6 0.19
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TACTTTTAATTTTTTTAAT
Found at i:104467565 original size:30 final size:30
Alignment explanation
Indices: 104467507--104467565 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
104467497 TTTTAATGAC
**
104467507 TTTTAATTTTTAAAAATTACTTTTATATTT
1 TTTTAATTTTTAAAAATTACTTAAATATTT
104467537 TTTTAATTTTTAAAAATTAAC-TAAATATT
1 TTTTAATTTTTAAAAATT-ACTTAAATATT
104467566 GATGTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTAATTTTTAAAAATTACTTAAATATTT
Found at i:104469334 original size:57 final size:58
Alignment explanation
Indices: 104469257--104469407 Score: 179
Period size: 57 Copynumber: 2.7 Consensus size: 58
104469247 GGGTGGTCAG
* * * *
104469257 CAGTGGCTGCAC-CAG---CACCAGGGTTGGCAACATTGGGTCCTGTGGGAATGGGAC
1 CAGTGGCTGCACGCAGCCACACCAGGGTTGCCAACAGTAGGTCCTGTGGGAAGGGGAC
* *
104469311 CAGTGGCTGCA-GCA-CCTACACCAGGGTTCCCAACAGTAGTTCCTGTGGGAAGGGGAC
1 CAGTGGCTGCACGCAGCC-ACACCAGGGTTGCCAACAGTAGGTCCTGTGGGAAGGGGAC
104469368 CAGTGGCTGCACCTGCAGCCACACCAGGGTTGCCAACAGT
1 CAGTGGCTGCA-C-GCAGCCACACCAGGGTTGCCAACAGT
104469408 GGCTCCAGTA
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
54 13 0.16
57 44 0.54
60 22 0.27
61 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.17
Consensus pattern (58 bp):
CAGTGGCTGCACGCAGCCACACCAGGGTTGCCAACAGTAGGTCCTGTGGGAAGGGGAC
Found at i:104475068 original size:31 final size:31
Alignment explanation
Indices: 104475027--104475089 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
104475017 ATCATTGAAT
* *
104475027 TATTCTAAAGTTTTCATTTAAGTCACTAAAC
1 TATTCAAAAGTTTTCATTTAAGCCACTAAAC
*
104475058 TATTCAAAAGTTTTTATTTAAGCCACTAAAC
1 TATTCAAAAGTTTTCATTTAAGCCACTAAAC
104475089 T
1 T
104475090 GTCAGGGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
TATTCAAAAGTTTTCATTTAAGCCACTAAAC
Found at i:104478005 original size:16 final size:15
Alignment explanation
Indices: 104477965--104478014 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
104477955 AAAATTATAC
*
104477965 TTTTCATCCTTCTAA
1 TTTTCATCCTTCAAA
*
104477980 TTCTTTATCCATTCAAA
1 TT-TTCATCC-TTCAAA
*
104477997 TTTTCATCCTTCCAA
1 TTTTCATCCTTCAAA
104478012 TTT
1 TTT
104478015 CCTTTCTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 10 0.34
16 12 0.41
17 7 0.24
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTCATCCTTCAAA
Found at i:104480513 original size:2 final size:2
Alignment explanation
Indices: 104480506--104480530 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104480496 TTTCATCTTA
104480506 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 A
104480531 CACACCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104483629 original size:12 final size:12
Alignment explanation
Indices: 104483612--104483636 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104483602 GGTGTTCATT
104483612 CGGTTAACCGAC
1 CGGTTAACCGAC
104483624 CGGTTAACCGAC
1 CGGTTAACCGAC
104483636 C
1 C
104483637 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:104483809 original size:9 final size:9
Alignment explanation
Indices: 104483795--104483846 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
104483785 TTTGGTTAAA
104483795 AATTACCCG
1 AATTACCCG
104483804 AATTACCCG
1 AATTACCCG
104483813 AATTACCCG
1 AATTACCCG
*
104483822 AATTAACCG
1 AATTACCCG
*
104483831 AATTAACCG
1 AATTACCCG
104483840 AATTACC
1 AATTACC
104483847 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:104483987 original size:31 final size:31
Alignment explanation
Indices: 104483949--104484008 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
104483939 TGGGTTGTCT
104483949 TTTAGTTTTAGTTTTATTGGATTGGGTAAAC
1 TTTAGTTTTAGTTTTATTGGATTGGGTAAAC
*
104483980 TTTAGTTTTAGTTTTATTGGGTTGGGTAA
1 TTTAGTTTTAGTTTTATTGGATTGGGTAA
104484009 TTGAGTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.02, G:0.25, T:0.53
Consensus pattern (31 bp):
TTTAGTTTTAGTTTTATTGGATTGGGTAAAC
Found at i:104487864 original size:19 final size:19
Alignment explanation
Indices: 104487842--104487885 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
104487832 AATTATTGAA
104487842 TTAATTGTT-AATTTTAATT
1 TTAATTGTTAAATTTTAA-T
104487861 TTAA-TGTTAAAATTTTAAT
1 TTAATTGTT-AAATTTTAAT
104487880 TTAATT
1 TTAATT
104487886 TTTTTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTAATTGTTAAATTTTAAT
Found at i:104488030 original size:25 final size:25
Alignment explanation
Indices: 104488001--104488053 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
104487991 AAATTTTATG
* *
104488001 AATCTTATCCTAAAAATTAATA-TAA
1 AATCTAAT-CTAAAAATAAATATTAA
*
104488026 AATCTAATTTAAAAATAAATATTAA
1 AATCTAATCTAAAAATAAATATTAA
104488051 AAT
1 AAT
104488054 ATTTCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (25 bp):
AATCTAATCTAAAAATAAATATTAA
Found at i:104499733 original size:18 final size:17
Alignment explanation
Indices: 104499712--104499745 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
104499702 ATTTGATTAA
104499712 ATAAATTATTAAAAATTT
1 ATAAATT-TTAAAAATTT
104499730 ATAAATTTTAAAAATT
1 ATAAATTTTAAAAATT
104499746 ATTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAATTTTAAAAATTT
Found at i:104502143 original size:14 final size:16
Alignment explanation
Indices: 104502119--104502150 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
104502109 ATAGAAATAT
104502119 AATATAATA-TTAAAA
1 AATATAATATTTAAAA
104502134 AATA-AATATTTAAAA
1 AATATAATATTTAAAA
104502149 AA
1 AA
104502151 AGAGACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATAATATTTAAAA
Found at i:104504205 original size:20 final size:21
Alignment explanation
Indices: 104504182--104504221 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
104504172 AACAACACCC
104504182 AAACAACA-AAAATAGCAACA
1 AAACAACACAAAATAGCAACA
104504202 AAACAACACCAAAATAGCAA
1 AAACAACA-CAAAATAGCAA
104504222 GAGCAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.68, C:0.23, G:0.05, T:0.05
Consensus pattern (21 bp):
AAACAACACAAAATAGCAACA
Found at i:104504346 original size:18 final size:18
Alignment explanation
Indices: 104504325--104504361 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
104504315 GAAAATGAGT
*
104504325 CTCATTTTTTTGTTCAAA
1 CTCATTTTTTTGTCCAAA
104504343 CTCATTTTTTTGTCCAAA
1 CTCATTTTTTTGTCCAAA
104504361 C
1 C
104504362 CCTCTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (18 bp):
CTCATTTTTTTGTCCAAA
Found at i:104510926 original size:14 final size:15
Alignment explanation
Indices: 104510907--104510944 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
104510897 GTTTGCCAGT
*
104510907 AAAAT-ATTTTTCGA
1 AAAATAATTTTTAGA
104510921 AAAATAATTTTTAG-
1 AAAATAATTTTTAGA
104510935 AAAATAATTT
1 AAAATAATTT
104510945 ATTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (15 bp):
AAAATAATTTTTAGA
Found at i:104521239 original size:15 final size:14
Alignment explanation
Indices: 104521207--104521256 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
104521197 AAGTTGTGAA
104521207 TTTAATTTATATTT
1 TTTAATTTATATTT
104521221 TTTAATTTGAT-TATT
1 TTTAATTT-ATAT-TT
104521236 TTTAATTTTATACTTT
1 TTTAA-TTTATA-TTT
104521252 TTTAA
1 TTTAA
104521257 ATTTTGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.29
15 11 0.35
16 10 0.32
17 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTAATTTATATTT
Found at i:104523220 original size:4 final size:4
Alignment explanation
Indices: 104523211--104523237 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
104523201 AATATTTGGT
104523211 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
104523238 TTTGGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:104524066 original size:3 final size:3
Alignment explanation
Indices: 104524051--104524093 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
104524041 CTATAAAATA
* *
104524051 ATT ATT ATC ATT ATT ATT ATT ATT CTT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
104524094 CAAATGTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:104525685 original size:21 final size:21
Alignment explanation
Indices: 104525659--104525716 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
104525649 GTTTTCCTTT
** *
104525659 TATTTTACTGTTATTTTTTAC
1 TATTTTACTACTATTTATTAC
*
104525680 TATTTTACTACTATTTATTAT
1 TATTTTACTACTATTTATTAC
**
104525701 TATTTTGTTACTATTT
1 TATTTTACTACTATTT
104525717 TATTGTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (21 bp):
TATTTTACTACTATTTATTAC
Found at i:104525691 original size:11 final size:11
Alignment explanation
Indices: 104525670--104525720 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
104525660 ATTTTACTGT
104525670 TATTTT-TTAC
1 TATTTTATTAC
*
104525680 TATTTTACTAC
1 TATTTTATTAC
*
104525691 TA-TTTATTAT
1 TATTTTATTAC
*
104525701 TATTTTGTTAC
1 TATTTTATTAC
104525712 TATTTTATT
1 TATTTTATT
104525721 GTTATTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 14 0.42
11 19 0.58
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTTTATTAC
Found at i:104525726 original size:11 final size:11
Alignment explanation
Indices: 104525658--104525726 Score: 52
Period size: 11 Copynumber: 6.5 Consensus size: 11
104525648 TGTTTTCCTT
* *
104525658 TTATTTTACTG
1 TTATTTTATTA
104525669 TTATTTT-TTA
1 TTATTTTATTA
* *
104525679 CTATTTTACTA
1 TTATTTTATTA
*
104525690 CTA-TTTATTA
1 TTATTTTATTA
*
104525700 TTATTTTGTTA
1 TTATTTTATTA
* *
104525711 CTATTTTATTG
1 TTATTTTATTA
104525722 TTATT
1 TTATT
104525727 ATTTGAATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 15 0.33
11 30 0.67
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:104534901 original size:31 final size:31
Alignment explanation
Indices: 104534838--104534901 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
104534828 AAATTTCCAA
* *
104534838 AATTTGAAAAGTACAAAAATAAAAATTGATC
1 AATTTGAAAAATACAAAAATAAAAATTAATC
* * *
104534869 AATTTGAAAAATACAAATATTAGAATTAATC
1 AATTTGAAAAATACAAAAATAAAAATTAATC
104534900 AA
1 AA
104534902 ATAAGAGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (31 bp):
AATTTGAAAAATACAAAAATAAAAATTAATC
Found at i:104537650 original size:13 final size:13
Alignment explanation
Indices: 104537628--104537674 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
104537618 ACTTTAACAA
*
104537628 ATAATTAAAAATT
1 ATAATAAAAAATT
104537641 ATAATAAAAAATT
1 ATAATAAAAAATT
*
104537654 A-AAAACAAAAATT
1 ATAATA-AAAAATT
104537667 AT-ATAAAA
1 ATAATAAAA
104537675 TTCATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 6 0.21
13 23 0.79
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAATAAAAAATT
Found at i:104538731 original size:20 final size:22
Alignment explanation
Indices: 104538692--104538732 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
104538682 GGTTAGAATA
*
104538692 TTTTATAAGTTATTGTAATTTT
1 TTTTATAAATTATTGTAATTTT
104538714 TTTTATAAATT-TTG-AATTT
1 TTTTATAAATTATTGTAATTT
104538733 AGTACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTATAAATTATTGTAATTTT
Found at i:104544463 original size:21 final size:20
Alignment explanation
Indices: 104544429--104544481 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
104544419 TAAGTGATAC
104544429 TTTAA-TTTATTTATGCAAA
1 TTTAATTTTATTTATGCAAA
104544448 TTTAATTTTCATTTATGCAAA
1 TTTAATTTT-ATTTATGCAAA
104544469 TTTAATTTT-TTTA
1 TTTAATTTTATTTA
104544482 ATTTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 20 0.62
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAATTTTATTTATGCAAA
Found at i:104544472 original size:35 final size:35
Alignment explanation
Indices: 104544432--104544499 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
104544422 GTGATACTTT
*
104544432 AATTT-ATTTATGCAAATTTAATTTTCATTTATGCA
1 AATTTAATTT-TGCAAATTTAATTTTCAGTTATGCA
***
104544467 AATTTAATTTTTTTAATTTAATTTTCAGTTATG
1 AATTTAATTTTGCAAATTTAATTTTCAGTTATG
104544500 ATGTTTGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.86
36 4 0.14
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (35 bp):
AATTTAATTTTGCAAATTTAATTTTCAGTTATGCA
Found at i:104546071 original size:30 final size:30
Alignment explanation
Indices: 104546004--104546071 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
104545994 GACGACGACG
* * *
104546004 CAGGCCCATCAACAGTGCCCATACAATCAG
1 CAGGCCCATCAACAGCGCCCACACAATCAC
*
104546034 CAAGCCCATCAACAGCG-CCACCACAATCAC
1 CAGGCCCATCAACAGCGCCCA-CACAATCAC
*
104546064 CGGGCCCA
1 CAGGCCCA
104546072 ACAGTTCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.32, C:0.43, G:0.16, T:0.09
Consensus pattern (30 bp):
CAGGCCCATCAACAGCGCCCACACAATCAC
Found at i:104546164 original size:18 final size:18
Alignment explanation
Indices: 104546128--104546170 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
104546118 AGTCAGGTAC
*
104546128 GTATCCTATCCCTTATAT
1 GTATCCTAACCCTTATAT
* *
104546146 GTATCCTAACTCTTTTAT
1 GTATCCTAACCCTTATAT
*
104546164 GTTTCCT
1 GTATCCT
104546171 TTTCCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.49
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:104551127 original size:13 final size:13
Alignment explanation
Indices: 104551111--104551140 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
104551101 AGTACTGCAA
104551111 AAAAATGCTTATG
1 AAAAATGCTTATG
*
104551124 AAAAATGCTTTTG
1 AAAAATGCTTATG
104551137 AAAA
1 AAAA
104551141 GCTTGGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:104552689 original size:59 final size:58
Alignment explanation
Indices: 104552626--104552811 Score: 189
Period size: 59 Copynumber: 3.1 Consensus size: 58
104552616 CAAAATCAAT
104552626 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAA
1 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TATAAGAA
* * * * * ** * * *
104552685 TATTTAATACTAAGAATTTTATTA-AATTATATATTTAT-ATTAAATTATATT-TAATAATAA
1 TATTTTAGA-TTA-TATTTTA-TAGTATTATATA-TTATGATTTTAGTAAATTCT-ATAAGAA
104552745 TTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TATAAGAA
104552805 TATTTTA
1 TATTTTA
104552812 ATATTAAGAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 16 0.16
61 31 0.32
62 6 0.06
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (58 bp):
TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTATAAGAA
Found at i:104552737 original size:16 final size:18
Alignment explanation
Indices: 104552700--104552734 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
104552690 AATACTAAGA
104552700 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
104552717 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
104552735 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:104552746 original size:16 final size:17
Alignment explanation
Indices: 104552707--104552752 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
104552697 AGAATTTTAT
* *
104552707 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
104552725 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
104552742 T-AATTAT-TTTA
1 TAAATTATATTTA
104552753 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:104552748 original size:26 final size:25
Alignment explanation
Indices: 104552719--104552775 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
104552709 AATTATATAT
104552719 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
104552745 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
104552770 TTATAT
1 TTATAT
104552776 ATTATGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:104552780 original size:120 final size:121
Alignment explanation
Indices: 104552623--104552869 Score: 442
Period size: 120 Copynumber: 2.0 Consensus size: 121
104552613 CCACAAAATC
*
104552623 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATA-
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
104552687 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
104552743 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* * *
104552808 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
66 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
*
104552864 TATTAT
1 AATTAT
104552870 GTTAAAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 63 0.52
121 58 0.48
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (121 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:104552843 original size:18 final size:18
Alignment explanation
Indices: 104552822--104552857 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
104552812 ATATTAAGAA
104552822 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
104552840 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
104552858 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:104552865 original size:18 final size:18
Alignment explanation
Indices: 104552826--104552865 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
104552816 TAAGAATTTT
** *
104552826 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
104552844 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
104552862 ATTA
1 ATTA
104552866 TTATGTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:104553105 original size:45 final size:44
Alignment explanation
Indices: 104553015--104553109 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
104553005 TTACACCTCT
* *
104553015 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTAATCC
*** *
104553059 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTAATCC
104553104 ATTACA
1 ATTACA
104553110 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTAATCC
Found at i:104553109 original size:16 final size:16
Alignment explanation
Indices: 104553088--104553141 Score: 99
Period size: 16 Copynumber: 3.4 Consensus size: 16
104553078 TTGATTTGCT
104553088 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
104553104 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
104553120 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
104553136 AATACA
1 ATTACA
104553142 GCGAACCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:104553619 original size:21 final size:21
Alignment explanation
Indices: 104553581--104553628 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
104553571 ACGATTTTTC
*
104553581 TTTAAATTTGAATAGTTGATAT
1 TTTAAATTTGAATAGTTG-TAA
104553603 TTTAATATTT-AA-AGTTGTAA
1 TTTAA-ATTTGAATAGTTGTAA
104553623 TTTAAA
1 TTTAAA
104553629 ATTAATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 5 0.21
22 7 0.29
23 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTAAATTTGAATAGTTGTAA
Found at i:104553654 original size:16 final size:18
Alignment explanation
Indices: 104553633--104553667 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
104553623 TTTAAAATTA
104553633 ATATTC-AA-TTAATAAT
1 ATATTCAAATTTAATAAT
104553649 ATATTCAAATTTAATAAT
1 ATATTCAAATTTAATAAT
104553667 A
1 A
104553668 GTAAACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 2 0.12
18 9 0.53
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATTCAAATTTAATAAT
Found at i:104564364 original size:2 final size:2
Alignment explanation
Indices: 104564359--104564383 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104564349 AAAAATGAAA
104564359 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 A
104564384 GTGACTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104579038 original size:58 final size:58
Alignment explanation
Indices: 104578969--104579085 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
104578959 ACTTGAACTA
*
104578969 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCTGGGACAAATCGAAT
1 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCAGGGACAAATCGAAT
104579027 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCAGGGACAAATCGAAT
1 AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCAGGGACAAATCGAAT
104579085 A
1 A
104579086 CCGGTACATC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (58 bp):
AATCGAATCTGTTACCATATAGACAATCCATGTTATCCAAATCAGGGACAAATCGAAT
Found at i:104585976 original size:236 final size:235
Alignment explanation
Indices: 104585310--104586012 Score: 1100
Period size: 226 Copynumber: 3.0 Consensus size: 235
104585300 AAAGAGTTGT
* *
104585310 GTGCTATATATAGAGAGGTTGATATGCAGTAAGCAAGGGCCACAGAGAAGTGGAATGGTCAATGC
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTC-ATGC
* * *
104585375 TATAGTAAATAAGTCTTGGTGATTTACGAGGGTGATACTTCCCAATGATCTATATATCGACCACT
65 --TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACT
*
104585440 GGCCTCCAACATTTGTCCAGGAACTGATAATTAATGCTAATAATTACTGTCTTGAGAATTCAATA
128 GGCCTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATA
104585505 ATCGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
193 ATCGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
*
104585548 GTGCTATATATATAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGG-A-----ATG--
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTCATGCT
*
104585605 -GTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATGTATCTACAACTGGC
66 AGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACTGGC
* * * *
104585669 CTCTAACATTTGACTAGGAACTGATAACTAATGCTAATAATTTCTGTCTTGAGAATTCAATAATC
131 CTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATAATC
* *
104585734 GATAATTATCTCTTATTTACTTGTGAGGTTAAATATATCA
196 GATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
* * *
104585774 GTTCTATATATAGAGTGGTTAATATGCAGTAACCAAGGGCCACAGAGAAGTGGAATGGTCAGTGC
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTCA-TGC
*
104585839 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTAAAACTGG
65 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACTGG
* *
104585904 CCTCCAACATTTGTCCAGGAACTGATAACTAATGCTGATAATTACTGTCTTGAGACTTCAATAAT
130 CCTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATAAT
* * *
104585969 TGATAATTATCTCTTATTTACTTTTGAGGTTACATATATAA
195 CGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
104586010 GTG
1 GTG
104586013 ATTTGAGCTT
Statistics
Matches: 424, Mismatches: 31, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
226 207 0.49
227 1 0.00
231 3 0.01
232 1 0.00
233 2 0.00
236 159 0.38
237 1 0.00
238 50 0.12
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (235 bp):
GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAATGGTCATGCT
AGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATATATCTACAACTGGC
CTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGAGAATTCAATAATC
GATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
Found at i:104604584 original size:20 final size:20
Alignment explanation
Indices: 104604548--104604586 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
104604538 CAACTTTAAA
*
104604548 TAATAGAAATAGATAATTTT
1 TAATAGAAATAAATAATTTT
104604568 TAATAGAAA-AAACTAATTT
1 TAATAGAAATAAA-TAATTT
104604587 ACTACTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (20 bp):
TAATAGAAATAAATAATTTT
Found at i:104611032 original size:30 final size:31
Alignment explanation
Indices: 104610992--104611050 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
104610982 AGTGTTAGGA
* *
104610992 GTAACTGTCTTACGGTTAGT-TGGTTAGCTTT
1 GTAACTGTCTT-CAGTTAGTATAGTTAGCTTT
104611023 GTAAC-GTCTTCAGTTAGTATAGTTAGCT
1 GTAACTGTCTTCAGTTAGTATAGTTAGCT
104611051 GTTAGCTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.28
30 13 0.52
31 5 0.20
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (31 bp):
GTAACTGTCTTCAGTTAGTATAGTTAGCTTT
Found at i:104617148 original size:22 final size:21
Alignment explanation
Indices: 104617118--104617164 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
104617108 TACAAATTAA
104617118 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
104617140 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
104617161 ATCT
1 ATCT
104617165 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:104617170 original size:19 final size:19
Alignment explanation
Indices: 104617135--104617213 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
104617125 AGATTACAAG
104617135 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
104617156 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
104617173 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
104617192 ATTATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
104617211 ATC
1 ATC
104617214 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 17 0.31
19 28 0.52
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:104617190 original size:36 final size:38
Alignment explanation
Indices: 104617135--104617207 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
104617125 AGATTACAAG
104617135 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
*
104617173 ATCATATC-T-AAGATTGCATATTATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
104617208 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:104617222 original size:36 final size:35
Alignment explanation
Indices: 104617136--104617223 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
104617126 GATTACAAGA
104617136 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
*
104617172 TATCATATC-TAAGATTGCATATTATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
104617208 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
104617224 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:104620402 original size:13 final size:14
Alignment explanation
Indices: 104620386--104620423 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
104620376 ATTTATCAAA
*
104620386 CATATTTCATAT-T
1 CATAATTCATATGT
104620399 CATAATTCATATGT
1 CATAATTCATATGT
104620413 CATAATCTCAT
1 CATAAT-TCAT
104620424 GCTTCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 7 0.32
15 4 0.18
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (14 bp):
CATAATTCATATGT
Found at i:104621007 original size:48 final size:47
Alignment explanation
Indices: 104620904--104621193 Score: 287
Period size: 48 Copynumber: 6.0 Consensus size: 47
104620894 TCGTTTTCTA
* **
104620904 GATGCCATAGCCCAGCTATGGTTTTACACATAATCACATATCACATATT
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GGATCACATATCACATA-T
*
104620953 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATAACACATAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATAT
* * *
104621000 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CT
1 -GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATAT
* * * * * * *
104621047 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACA-CT
1 GATGCCATAGCCCAGCTATGGTCTTACAC-GGATCACATATCACATAT
* * * *
104621094 GATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTATT
1 GATGCCATAGCCCAGCTATGGTCTTACACGG-ATCACAT-ATCACA--TA-T
*
104621146 CGATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCACAT
1 -GATGCCATAGCCCAGCTATGGTCTTACACGG--ATCACATATCACAT
104621194 GTTGCCATGG
Statistics
Matches: 210, Mismatches: 21, Indels: 18
0.84 0.08 0.07
Matches are distributed among these distances:
46 27 0.13
47 50 0.24
48 61 0.29
49 28 0.13
51 1 0.00
52 1 0.00
53 35 0.17
54 7 0.03
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (47 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATAT
Found at i:104638477 original size:11 final size:11
Alignment explanation
Indices: 104638461--104638489 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
104638451 AGGTCTTTGG
104638461 ATGCATATGTT
1 ATGCATATGTT
104638472 ATGCATATGTT
1 ATGCATATGTT
104638483 ATGCATA
1 ATGCATA
104638490 AGTACCAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (11 bp):
ATGCATATGTT
Found at i:104655013 original size:10 final size:10
Alignment explanation
Indices: 104654977--104655014 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
104654967 TGGATTTTCT
*
104654977 AAAAATACTA
1 AAAAATATTA
*
104654987 AAAAAAATT-
1 AAAAATATTA
104654996 AAAAATATTA
1 AAAAATATTA
104655006 AAAAATATT
1 AAAAATATT
104655015 TTTTATGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATATTA
Found at i:104655026 original size:21 final size:21
Alignment explanation
Indices: 104655002--104655059 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
104654992 AATTAAAAAT
* * *
104655002 ATTAAAAAATATTTTTTATGA
1 ATTAAAAAATATATTATATAA
* *
104655023 ATTATAAATTATATTATATAA
1 ATTAAAAAATATATTATATAA
104655044 ATT-AAAAATAATATTA
1 ATTAAAAAAT-ATATTA
104655060 AAAGTACCTG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAAAAATATATTATATAA
Found at i:104660846 original size:2 final size:2
Alignment explanation
Indices: 104660839--104660875 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
104660829 CTACACATAA
* *
104660839 AT AT AT AT AT GT AT AT AT AT AT GT 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 AT A
104660876 AAGAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104660856 original size:12 final size:12
Alignment explanation
Indices: 104660839--104660872 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
104660829 CTACACATAA
104660839 ATATATATATGT
1 ATATATATATGT
104660851 ATATATATATGT
1 ATATATATATGT
104660863 ATATATATAT
1 ATATATATAT
104660873 ATAAAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (12 bp):
ATATATATATGT
Found at i:104672271 original size:33 final size:33
Alignment explanation
Indices: 104672225--104672306 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 33
104672215 GAGTGTGGCT
** *
104672225 GTGTGGGTTACACGGGGCTAAACCAGA-CTGGGC
1 GTGTGGGCCACACGGGGCTAAACCA-ATCTGGAC
* *
104672258 GTGTGGGCCACAC-GGGCTAAGCTAATCTGGAC
1 GTGTGGGCCACACGGGGCTAAACCAATCTGGAC
104672290 GTGTGGGCCTACACGGG
1 GTGTGGGCC-ACACGGG
104672307 CATGTGGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.02
32 23 0.56
33 15 0.37
34 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.39, T:0.18
Consensus pattern (33 bp):
GTGTGGGCCACACGGGGCTAAACCAATCTGGAC
Found at i:104675011 original size:12 final size:13
Alignment explanation
Indices: 104674993--104675022 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
104674983 AAACAAACTC
104674993 CATGGTGGGTTCT
1 CATGGTGGGTTCT
104675006 -ATGGTGGGTTCT
1 CATGGTGGGTTCT
104675018 CATGG
1 CATGG
104675023 AAGCCTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.10, C:0.13, G:0.40, T:0.37
Consensus pattern (13 bp):
CATGGTGGGTTCT
Done.