Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 12 of 126
Found at i:3404705 original size:12 final size:12
Alignment explanation
Indices: 3404688--3404714 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3404678 TATATATTTT
3404688 AAAATTATATAA
1 AAAATTATATAA
3404700 AAAATTATATAA
1 AAAATTATATAA
3404712 AAA
1 AAA
3404715 CTAATATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATTATATAA
Found at i:3421245 original size:17 final size:18
Alignment explanation
Indices: 3421206--3421240 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3421196 CAAAATGAAA
3421206 ATTTTTATAGATTAAACC
1 ATTTTTATAGATTAAACC
*
3421224 ATTTTTATAGTTTAAAC
1 ATTTTTATAGATTAAAC
3421241 TTTTTACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTTTTATAGATTAAACC
Found at i:3444987 original size:37 final size:38
Alignment explanation
Indices: 3444915--3444987 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
3444905 GTCCTAAAAT
*
3444915 TATTATTTTAAAACATTTTTTAAAATTTAACTTTTTTA
1 TATTATTTTAAAACATTTTTTAAAATATAACTTTTTTA
* *
3444953 TATTATTTTTAGA-ATTTTTTAAAAATATAA-TTTTT
1 TATTATTTTAAAACATTTTTT-AAAATATAACTTTTT
3444988 GATTTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 12 0.39
38 19 0.61
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (38 bp):
TATTATTTTAAAACATTTTTTAAAATATAACTTTTTTA
Found at i:3444994 original size:24 final size:25
Alignment explanation
Indices: 3444952--3445004 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
3444942 TAACTTTTTT
*
3444952 ATATTATTTTTAGAATTTTTTAAAA
1 ATATAATTTTTAGAATTTTTTAAAA
* *
3444977 ATATAATTTTT-GATTTTTTTATAA
1 ATATAATTTTTAGAATTTTTTAAAA
3445001 ATAT
1 ATAT
3445005 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
ATATAATTTTTAGAATTTTTTAAAA
Found at i:3445021 original size:19 final size:21
Alignment explanation
Indices: 3444984--3445033 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3444974 AAAATATAAT
* *
3444984 TTTTGATTTTTTTATAAA-TA
1 TTTTGAATTTTTGATAAATTA
3445004 TTTTGAATTTTTGA-AAATTA
1 TTTTGAATTTTTGATAAATTA
3445024 TTTT-AATTTT
1 TTTTGAATTTT
3445034 GTTTTTGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTGAATTTTTGATAAATTA
Found at i:3447253 original size:20 final size:20
Alignment explanation
Indices: 3447228--3447277 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3447218 TGGCTTAAAA
3447228 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3447248 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3447265 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3447278 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3451892 original size:20 final size:20
Alignment explanation
Indices: 3451867--3451916 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3451857 TGGCTTAAAA
3451867 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3451887 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3451904 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3451917 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3452912 original size:19 final size:18
Alignment explanation
Indices: 3452888--3452932 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
3452878 ATAAAATATG
3452888 AATTTAATCCTTACATTTT
1 AATTTAAT-CTTACATTTT
*
3452907 AATTTAAATTTTACATTTT
1 AATTT-AATCTTACATTTT
3452926 AATTTAA
1 AATTTAA
3452933 ATTTTAGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 19 0.79
20 3 0.12
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTAATCTTACATTTT
Found at i:3452933 original size:19 final size:19
Alignment explanation
Indices: 3452898--3452938 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
3452888 AATTTAATCC
3452898 TTACATTTTAATTTAAATT
1 TTACATTTTAATTTAAATT
3452917 TTACATTTTAATTTAAATT
1 TTACATTTTAATTTAAATT
3452936 TTA
1 TTA
3452939 GTCCTTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTACATTTTAATTTAAATT
Found at i:3466275 original size:14 final size:15
Alignment explanation
Indices: 3466248--3466277 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3466238 TAAAAATCAT
3466248 TAAAAATATATAAAA
1 TAAAAATATATAAAA
3466263 TAAAAATAT-TAAAA
1 TAAAAATATATAAAA
3466277 T
1 T
3466278 TGTTATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAAATATATAAAA
Found at i:3466331 original size:21 final size:21
Alignment explanation
Indices: 3466305--3466345 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3466295 ATTATAAAAA
3466305 ATAAAAAATAAAATCAATAAT
1 ATAAAAAATAAAATCAATAAT
* *
3466326 ATAAAATATAAAATTAATAA
1 ATAAAAAATAAAATCAATAA
3466346 ATATTATTTA
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:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAAAATAAAATCAATAAT
Found at i:3466333 original size:7 final size:7
Alignment explanation
Indices: 3466289--3466339 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
3466279 GTTATAAACT
3466289 TATAAAA
1 TATAAAA
3466296 TTATAAAA
1 -TATAAAA
*
3466304 AATAAAA
1 TATAAAA
*
3466311 AATAAAA
1 TATAAAA
*
3466318 TCA-ATAA
1 T-ATAAAA
3466325 TATAAAA
1 TATAAAA
3466332 TATAAAA
1 TATAAAA
3466339 T
1 T
3466340 TAATAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 1 0.03
7 28 0.76
8 8 0.22
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
TATAAAA
Found at i:3466444 original size:19 final size:18
Alignment explanation
Indices: 3466418--3466474 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
3466408 TTGTAGAAAT
3466418 TTAT-TAAAATATTAAAA
1 TTATATAAAATATTAAAA
*
3466435 TTCATATAAACATATAAAAA
1 TT-ATATAAA-ATATTAAAA
*
3466455 TTATTTAAAAATATATAAAA
1 TTATAT-AAAATAT-TAAAA
3466475 ACTTGAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 11 0.34
20 17 0.53
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
TTATATAAAATATTAAAA
Found at i:3466772 original size:13 final size:13
Alignment explanation
Indices: 3466754--3466780 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3466744 CTATTTCAAG
3466754 TTTTTATAATTTT
1 TTTTTATAATTTT
3466767 TTTTTATAATTTT
1 TTTTTATAATTTT
3466780 T
1 T
3466781 ACAAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTATAATTTT
Found at i:3469429 original size:23 final size:24
Alignment explanation
Indices: 3469402--3469446 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3469392 AGCTGGTCAT
3469402 AAAACAA-CCAAAACCCAAATTAA
1 AAAACAATCCAAAACCCAAATTAA
*
3469425 AAAACAATCCAAATCCCAAATT
1 AAAACAATCCAAAACCCAAATT
3469447 GGCAAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (24 bp):
AAAACAATCCAAAACCCAAATTAA
Found at i:3476815 original size:2 final size:2
Alignment explanation
Indices: 3476808--3476854 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
3476798 ACGCATATTT
* *
3476808 TA TA TA TA TA TA TA TA -A TA TA TA T- TT TA TA TA TA TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3476847 TA TA TA TA
1 TA TA TA TA
3476855 CAGTTTAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3476827 original size:11 final size:11
Alignment explanation
Indices: 3476808--3476854 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
3476798 ACGCATATTT
3476808 TATAT-ATATA
1 TATATAATATA
3476818 TATATAATATA
1 TATATAATATA
* *
3476829 TATTTTATATA
1 TATATAATATA
*
3476840 TATTTAATATA
1 TATATAATATA
3476851 TATA
1 TATA
3476855 CAGTTTAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 5 0.16
11 27 0.84
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TATATAATATA
Found at i:3476836 original size:26 final size:24
Alignment explanation
Indices: 3476802--3476854 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 24
3476792 ATACATACGC
3476802 ATATTTTATATATATATATATAATAT
1 ATATTTTATATATATATA-AT-ATAT
*
3476828 ATATTTTATATATATTTAATATAT
1 ATATTTTATATATATATAATATAT
3476852 ATA
1 ATA
3476855 CAGTTTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 7 0.27
25 2 0.08
26 17 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTTATATATATATAATATAT
Found at i:3476837 original size:22 final size:22
Alignment explanation
Indices: 3476812--3476853 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3476802 ATATTTTATA
3476812 TATATATATATAATATATATTT
1 TATATATATATAATATATATTT
*
3476834 TATATATATTTAATATATAT
1 TATATATATATAATATATAT
3476854 ACAGTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATATATATAATATATATTT
Found at i:3476849 original size:9 final size:10
Alignment explanation
Indices: 3476802--3476853 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
3476792 ATACATACGC
3476802 ATATTT-TAT
1 ATATTTATAT
*
3476811 ATATATATAT
1 ATATTTATAT
*
3476821 ATA-ATATAT
1 ATATTTATAT
3476830 AT-TTTATAT
1 ATATTTATAT
3476839 ATATTTAATAT
1 ATATTT-ATAT
3476850 ATAT
1 ATAT
3476854 ACAGTTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 20 0.54
10 9 0.24
11 8 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTATAT
Found at i:3476861 original size:26 final size:26
Alignment explanation
Indices: 3476806--3476861 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3476796 ATACGCATAT
* *
3476806 TTTATATATATATATATAATATATAT
1 TTTATATATATATATATAATATACAG
*
3476832 TTTATATATATTTA-ATATATATACAG
1 TTTATATATATATATATA-ATATACAG
3476858 TTTA
1 TTTA
3476862 AGCTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTATATATATATATATAATATACAG
Found at i:3479092 original size:19 final size:19
Alignment explanation
Indices: 3479064--3479142 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 19
3479054 AATTTTCGAG
3479064 GATATATAATCTTAGATAT
1 GATATATAATCTTAGATAT
* *
3479083 TATATGTAATCTTAGATAT
1 GATATATAATCTTAGATAT
3479102 GATATATACAATCTTAGAAGATAT
1 GATATAT--AATCTT---AGATAT
*
3479126 GATTTTATAATCTTAGA
1 GA-TATATAATCTTAGA
3479143 GATTTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 22 0.45
20 3 0.06
21 6 0.12
23 6 0.12
24 8 0.16
25 4 0.08
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (19 bp):
GATATATAATCTTAGATAT
Found at i:3479141 original size:23 final size:24
Alignment explanation
Indices: 3479096--3479142 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
3479086 ATGTAATCTT
3479096 AGATATGATATATACAATCTTAGA
1 AGATATGATATATACAATCTTAGA
* *
3479120 AGATATGAT-TTTATAATCTTAGA
1 AGATATGATATATACAATCTTAGA
3479143 GATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (24 bp):
AGATATGATATATACAATCTTAGA
Found at i:3479155 original size:23 final size:23
Alignment explanation
Indices: 3479111--3479153 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3479101 TGATATATAC
*
3479111 AATCTTAGAAGATATGATTTTAT
1 AATCTTAGAAGATATAATTTTAT
*
3479134 AATCTTAG-AGATTTAATTTT
1 AATCTTAGAAGATATAATTTT
3479154 TAGATACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (23 bp):
AATCTTAGAAGATATAATTTTAT
Found at i:3480356 original size:24 final size:23
Alignment explanation
Indices: 3480301--3480357 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
3480291 TAAATAATTT
* *
3480301 ATATTAATTATTTAATATATTTA
1 ATATTAATTATTAAATATATATA
3480324 ATATATAATTATTCAAATATCATATA
1 ATAT-TAATTATT-AAATAT-ATATA
3480350 A-ATTAATT
1 ATATTAATT
3480358 TAGTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 4 0.14
24 13 0.45
25 7 0.24
26 5 0.17
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATTAATTATTAAATATATATA
Found at i:3485108 original size:13 final size:13
Alignment explanation
Indices: 3485090--3485115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3485080 TAAGTAAAAT
3485090 TATTATATTATTA
1 TATTATATTATTA
3485103 TATTATATTATTA
1 TATTATATTATTA
3485116 GAAAAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:3489558 original size:129 final size:129
Alignment explanation
Indices: 3489328--3491216 Score: 3751
Period size: 129 Copynumber: 14.6 Consensus size: 129
3489318 AGGGTTGAAG
3489328 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
* *
3489393 GCTCCACCCAATGTGGAGAGAGAAATCCACTTCATTGGCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3489457 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3489522 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3489586 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3489651 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3489715 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3489780 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3489844 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3489909 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3489973 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490038 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490102 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490167 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490231 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490296 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490360 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490425 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490489 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490554 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490618 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490683 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490747 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490812 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3490876 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3490941 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3491005 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
3491070 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
66 GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
3491134 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
1 TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
*
3491199 GCCCCACCCAATGTGGAG
66 GCTCCACCCAATGTGGAG
3491217 TGAAACACCA
Statistics
Matches: 1757, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 1757 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (129 bp):
TGGGTCATCAAGGACTTCTGCGACAACCCACTACTCCATATGGTGCTGAGTTAGCCTTGACTTTG
GCTCCACCCAATGTGGAGAGAGAAATCCCCTTCATTGCCATCCCCGACGGCGGTGCAAATGCAA
Found at i:3501887 original size:3 final size:3
Alignment explanation
Indices: 3501879--3501910 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3501869 AGAAAAAGAA
3501879 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3501911 AACAAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3502536 original size:142 final size:138
Alignment explanation
Indices: 3502301--3502591 Score: 442
Period size: 142 Copynumber: 2.1 Consensus size: 138
3502291 CATATACATA
* *
3502301 TATGAAATTTCTTAAGAAAAATCTCGTCTTTCTTACCTTACTCAAATCTCTAACTTTTTTACATT
1 TATGAAATTTCTTAAGAAAAATATCGTCTTTCTTACCTTACTCAAATCTCTAACTTTTTTACACT
*
3502366 TCTAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAATGCCATGAAAATCCAT-TATATTAA
66 TCGAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAATGCCATGAAAATCCATGTATATTAA
3502430 A-AGAAATG
131 ATA-AAATG
* *
3502438 TATGAAATTTCTTAAGAAAAATATCGTCTTTCTTACCTTACTTACTCATATCCTTTAACTTTTTT
1 TATGAAATTTCTTAAGAAAAATATCGTCTTTCTTA-C---CTTACTCAAAT-CTCTAACTTTTTT
* * *
3502503 TCACTTCGAAGATGTACTCTTACTAGTTTCACCAAAAACTGATAATGCCATGAAAATTCATGTAT
61 ACACTTCGAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAATGCCATGAAAATCCATGTAT
3502568 ATTAAATAAAATG
126 ATTAAATAAAATG
3502581 TATGAAATTTC
1 TATGAAATTTC
3502592 GTTTTTCTTA
Statistics
Matches: 139, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
137 34 0.24
138 1 0.01
141 10 0.07
142 68 0.49
143 25 0.18
144 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (138 bp):
TATGAAATTTCTTAAGAAAAATATCGTCTTTCTTACCTTACTCAAATCTCTAACTTTTTTACACT
TCGAAGATGTACTCTTACTAGTTTCACCAAAAACTAATAATGCCATGAAAATCCATGTATATTAA
ATAAAATG
Found at i:3506359 original size:17 final size:17
Alignment explanation
Indices: 3506324--3506369 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
3506314 TATTATTAAA
*
3506324 TATATCAATTTAATATT
1 TATATAAATTTAATATT
3506341 TATATAAATGTTAAT-TT
1 TATATAAAT-TTAATATT
3506358 TA-ATACAATTTA
1 TATATA-AATTTA
3506370 GACTTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 15 0.58
18 5 0.19
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATAAATTTAATATT
Found at i:3511930 original size:64 final size:63
Alignment explanation
Indices: 3511827--3511945 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
3511817 CCGTAGGATC
* ** *
3511827 CTCCCACTTCGGGGTTGATCCACACACCTTCTATCCTTCTTTGTGACTCTACCAAATCCGATA
1 CTCCCACTTCGGGGTTAATCCACACACCTTCTATCCTTCTTAATGACTCGACCAAATCCGATA
* *
3511890 CTCCCACTTCGGAGGTTAATCCATACACCTTCTATTCTTCTTAATGACTCGACCAA
1 CTCCCACTTCGG-GGTTAATCCACACACCTTCTATCCTTCTTAATGACTCGACCAA
3511946 TTCCATTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 12 0.24
64 37 0.76
ACGTcount: A:0.23, C:0.34, G:0.12, T:0.32
Consensus pattern (63 bp):
CTCCCACTTCGGGGTTAATCCACACACCTTCTATCCTTCTTAATGACTCGACCAAATCCGATA
Found at i:3517652 original size:32 final size:29
Alignment explanation
Indices: 3517597--3517664 Score: 75
Period size: 32 Copynumber: 2.3 Consensus size: 29
3517587 AATAAACTAT
* *
3517597 TTAAA-AATAATTTAAATTATATTTATATGGA
1 TTAAATAATAATTAAAATCATATTTA-AT--A
*
3517628 TTAAATAATAATTAAAATCGTATTTAATA
1 TTAAATAATAATTAAAATCATATTTAATA
3517657 TTAAATAA
1 TTAAATAA
3517665 CAATATAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 9 0.27
31 7 0.21
32 17 0.52
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (29 bp):
TTAAATAATAATTAAAATCATATTTAATA
Found at i:3536305 original size:89 final size:89
Alignment explanation
Indices: 3536191--3536372 Score: 328
Period size: 89 Copynumber: 2.0 Consensus size: 89
3536181 TATCATTTGA
* * * *
3536191 TTGTCTAGGTCGATGTGGTTGTGCCTCATGCGATCTTCGACATGTCTAGATGTATGCCATTGCCA
1 TTGTCTACGTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCA
3536256 TATGTTTTATCATTTGATCATGTT
66 TATGTTTTATCATTTGATCATGTT
3536280 TTGTCTACGTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCA
1 TTGTCTACGTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCA
3536345 TATGTTTTATCATTTGATCATGTT
66 TATGTTTTATCATTTGATCATGTT
3536369 TTGT
1 TTGT
3536373 TCCAGGTGGT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (89 bp):
TTGTCTACGTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCA
TATGTTTTATCATTTGATCATGTT
Found at i:3547779 original size:38 final size:38
Alignment explanation
Indices: 3547728--3547800 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
3547718 CCCGTTAACT
* *
3547728 TTTTTAACGGTATTTTTATTAAATCTATTAAAAAAGCC
1 TTTTTAACAGTATTTTTACTAAATCTATTAAAAAAGCC
3547766 TTTTTAACAGTATTTTTACTAAATCTATTAAAAAA
1 TTTTTAACAGTATTTTTACTAAATCTATTAAAAAA
3547801 AGCAGATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (38 bp):
TTTTTAACAGTATTTTTACTAAATCTATTAAAAAAGCC
Found at i:3552046 original size:22 final size:21
Alignment explanation
Indices: 3551999--3552061 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
3551989 AACCATGCTA
3551999 AATAATAACA-CAATTATAAT
1 AATAATAACATCAATTATAAT
* *
3552019 AGTAATAACATTAATTCATAAT
1 AATAATAACATCAATT-ATAAT
*
3552041 AATAATAACATC-ATAATAAT
1 AATAATAACATCAATTATAAT
3552061 A
1 A
3552062 GCAATAGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.42
21 6 0.17
22 15 0.42
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAATAACATCAATTATAAT
Found at i:3552774 original size:37 final size:37
Alignment explanation
Indices: 3552717--3552835 Score: 163
Period size: 37 Copynumber: 3.2 Consensus size: 37
3552707 TATGATCACT
*
3552717 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCAAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAC
*
3552752 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCC-AC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAC
*
3552788 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC-AA-C
3552828 TATCACTT
1 TATCACTT
3552836 ATCACTTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
35 6 0.08
36 6 0.08
37 52 0.70
39 9 0.12
40 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAAC
Found at i:3552864 original size:52 final size:52
Alignment explanation
Indices: 3552785--3553001 Score: 293
Period size: 52 Copynumber: 4.2 Consensus size: 52
3552775 TAAGTGTAGC
* *
3552785 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
3552838 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
3552890 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
3552936 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
3552988 CACTTTGTCACTTG
1 CACTTT-TCACTTG
3553002 ATCAGAAGTA
Statistics
Matches: 145, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.59
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:3552907 original size:46 final size:46
Alignment explanation
Indices: 3552835--3553007 Score: 231
Period size: 46 Copynumber: 3.7 Consensus size: 46
3552825 AGCTATCACT
*
3552835 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
3552880 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
3552926 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
3552978 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
3553008 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
45 12 0.11
46 59 0.52
48 1 0.01
50 1 0.01
52 40 0.35
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:3552951 original size:98 final size:98
Alignment explanation
Indices: 3552784--3553007 Score: 394
Period size: 98 Copynumber: 2.3 Consensus size: 98
3552774 ATAAGTGTAG
* *
3552784 CCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
3552849 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
* *
3552882 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
*
3552947 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
3552980 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
3553008 AGTACTCAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 119 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTA
Found at i:3555145 original size:22 final size:23
Alignment explanation
Indices: 3555096--3555145 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
3555086 AAAATAAAAA
*
3555096 AAAAGTAAGTAAAGGAGTGAAATT
1 AAAA-TAAATAAAGGAGTGAAATT
*
3555120 -AAATAAATAAAGGA-TTAAATT
1 AAAATAAATAAAGGAGTGAAATT
3555141 AAAAT
1 AAAAT
3555146 TTAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 14 0.61
23 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (23 bp):
AAAATAAATAAAGGAGTGAAATT
Found at i:3557211 original size:16 final size:16
Alignment explanation
Indices: 3557192--3557229 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
3557182 TCAAAAAAAA
3557192 ATCAATTTCATAACAC-
1 ATCAATTT-ATAACACT
3557208 ATC-ATTTATAACACT
1 ATCAATTTATAACACT
3557223 ATCAATT
1 ATCAATT
3557230 CTCGTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.35
15 7 0.35
16 6 0.30
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (16 bp):
ATCAATTTATAACACT
Found at i:3558492 original size:12 final size:12
Alignment explanation
Indices: 3558477--3558501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3558467 TCATTTTCAA
3558477 TTCTATTTCATT
1 TTCTATTTCATT
3558489 TTCTATTTCATT
1 TTCTATTTCATT
3558501 T
1 T
3558502 GTTTTATTTT
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTATTTCATT
Found at i:3559289 original size:19 final size:19
Alignment explanation
Indices: 3559250--3559289 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3559240 GACACTCAAA
*
3559250 AGTGGGTATCATGACATTG
1 AGTGGGTATCATGACACTG
* *
3559269 AGTGGGTATCGTGATACTG
1 AGTGGGTATCATGACACTG
3559288 AG
1 AG
3559290 CTTTGGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.30
Consensus pattern (19 bp):
AGTGGGTATCATGACACTG
Found at i:3559937 original size:18 final size:18
Alignment explanation
Indices: 3559914--3559948 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3559904 TTATACATTA
3559914 ACATATATAAAAATATAT
1 ACATATATAAAAATATAT
*
3559932 ACATATATAAATATATA
1 ACATATATAAAAATATA
3559949 CTACTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
ACATATATAAAAATATAT
Found at i:3559943 original size:16 final size:16
Alignment explanation
Indices: 3559918--3559949 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3559908 ACATTAACAT
3559918 ATATAAAAATATATAC
1 ATATAAAAATATATAC
*
3559934 ATATATAAATATATAC
1 ATATAAAAATATATAC
3559950 TACTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAAAATATATAC
Found at i:3569084 original size:21 final size:22
Alignment explanation
Indices: 3569045--3569085 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3569035 ATTACAACAG
* *
3569045 AAAAACAAAAGTTACATGCATT
1 AAAAACAAAAGTAAAATGCATT
3569067 AAAAA-AAAAGTAAAATGCA
1 AAAAACAAAAGTAAAATGCA
3569086 AAATTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAAACAAAAGTAAAATGCATT
Found at i:3570576 original size:15 final size:14
Alignment explanation
Indices: 3570536--3570605 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 14
3570526 TTAATTATGT
*
3570536 TTAAGTTTAATTAA
1 TTAAGTATAATTAA
*
3570550 TCAAAGGT-TAATTAA
1 T-TAA-GTATAATTAA
3570565 GTTAAGTATAATTAA
1 -TTAAGTATAATTAA
* *
3570580 TTAATTAATTATTAA
1 TTAAGT-ATAATTAA
3570595 TCTAAGTATAA
1 T-TAAGTATAA
3570606 AAGATCAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
14 8 0.18
15 29 0.66
16 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.43
Consensus pattern (14 bp):
TTAAGTATAATTAA
Found at i:3576353 original size:23 final size:21
Alignment explanation
Indices: 3576327--3576371 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
3576317 TAAACCTGAT
3576327 TTGTTTAGTTT-TATTATTTATTA
1 TTGTTT-GTTTATATT-TTT-TTA
3576350 TTGTTTGTTTATATTTTTTTA
1 TTGTTTGTTTATATTTTTTTA
3576371 T
1 T
3576372 ATATATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (21 bp):
TTGTTTGTTTATATTTTTTTA
Found at i:3576911 original size:22 final size:23
Alignment explanation
Indices: 3576877--3576921 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
3576867 ATTATCATCA
3576877 TTATATTATTTTAATCCTTCTTTG
1 TTATATTATTTTAATCCTT-TTTG
*
3576901 TTAT-TTA-TTTATTCCTTTTTG
1 TTATATTATTTTAATCCTTTTTG
3576922 ATACTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 9 0.45
23 3 0.15
24 4 0.20
ACGTcount: A:0.18, C:0.11, G:0.04, T:0.67
Consensus pattern (23 bp):
TTATATTATTTTAATCCTTTTTG
Found at i:3579949 original size:34 final size:34
Alignment explanation
Indices: 3579906--3579977 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
3579896 TGACCCCTTT
* *
3579906 AACAGTAACAATATCAGTGTGGGCCTTAGCCCAA
1 AACAATAACAATATCAGTGTAGGCCTTAGCCCAA
*
3579940 AACAATAACAGTATCAGTGTAGGCCTTAGCCCAA
1 AACAATAACAATATCAGTGTAGGCCTTAGCCCAA
3579974 AACA
1 AACA
3579978 GTAATTGTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (34 bp):
AACAATAACAATATCAGTGTAGGCCTTAGCCCAA
Found at i:3580478 original size:27 final size:27
Alignment explanation
Indices: 3580441--3580519 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
3580431 GCACAAATCA
3580441 GTCA-TTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTTG
*
3580467 GTCATTTTACCCT-TCGAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTTG
*
3580494 GTCATTTTACCCTATGGGGATATTTT
1 GTCATTTTACCCTATGGGGGTATTTT
3580520 AGTAATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
26 5 0.11
27 41 0.87
28 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTTG
Found at i:3581757 original size:21 final size:21
Alignment explanation
Indices: 3581727--3581767 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3581717 AGTTTCAGTC
*
3581727 TAACTTCACTTCTCATGCTGT
1 TAACTCCACTTCTCATGCTGT
3581748 TAACTCCACTTCTCATGCTG
1 TAACTCCACTTCTCATGCTG
3581768 CAGGGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.10, T:0.39
Consensus pattern (21 bp):
TAACTCCACTTCTCATGCTGT
Found at i:3593900 original size:27 final size:27
Alignment explanation
Indices: 3593870--3594037 Score: 166
Period size: 27 Copynumber: 6.3 Consensus size: 27
3593860 TATATCAGTT
* *
3593870 ATTTTACCCTAT-GGGGGTATTTCGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGATC
* *
3593897 ATTTTATCCTTCG-GGGACATTTCGATC
1 ATTTTACCCTTCGAGGG-TATTTCGATC
* *
3593924 ATTTTACCCTTCGAGAGTATTTCTATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
3593951 ATTTTACCCTTCGAGGGTA-TT-GATC
1 ATTTTACCCTTCGAGGGTATTTCGATC
* * *
3593976 ATTTTACCTTTCGAGGGTATTTCGGTT
1 ATTTTACCCTTCGAGGGTATTTCGATC
* *
3594003 GTTTTACCCTATCG-GGGTATTTCGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGATC
*
3594030 ATTCTACC
1 ATTTTACC
3594038 TATTTTAGGG
Statistics
Matches: 118, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 21 0.18
26 8 0.07
27 84 0.71
28 5 0.04
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATC
Found at i:3596432 original size:28 final size:28
Alignment explanation
Indices: 3596347--3596433 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
3596337 ATTCAGTGAC
* *
3596347 AGTA-CAGTGAGGGCCTTAGCCCAATTT
1 AGTATCAGTGTGGGCCTTAGCCCAATAT
* *
3596374 AGAAGT-AATGTGGGCCTTAGCCCAATAT
1 AGTA-TCAGTGTGGGCCTTAGCCCAATAT
3596402 AGTATCAGTGTGGGCCTTAGCCCAATAT
1 AGTATCAGTGTGGGCCTTAGCCCAATAT
3596430 AGTA
1 AGTA
3596434 ACATTACAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.08
28 47 0.92
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (28 bp):
AGTATCAGTGTGGGCCTTAGCCCAATAT
Found at i:3596847 original size:27 final size:27
Alignment explanation
Indices: 3596817--3596886 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
3596807 CGACTCCTAA
* *
3596817 GGGTATATCAGTTATTTTACCCTAT-GG
1 GGGTATTTCAGTCATTTTACCCT-TCGG
3596844 GGGTATTTC-GATCATTTTACCCTTCGG
1 GGGTATTTCAG-TCATTTTACCCTTCGG
3596871 GGGTATTTCAGTCATT
1 GGGTATTTCAGTCATT
3596887 CTACACTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 35 0.92
28 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTTCGG
Found at i:3600666 original size:17 final size:18
Alignment explanation
Indices: 3600644--3600677 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3600634 TAAATAGGTT
3600644 ATTTTT-TAAATTTGATA
1 ATTTTTATAAATTTGATA
*
3600661 ATTTTTATAATTTTGAT
1 ATTTTTATAAATTTGAT
3600678 TTATGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
ATTTTTATAAATTTGATA
Found at i:3608167 original size:9 final size:9
Alignment explanation
Indices: 3608153--3608180 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3608143 AACCTTAAAC
3608153 ACTTTGAGT
1 ACTTTGAGT
3608162 ACTTTGAGT
1 ACTTTGAGT
3608171 ACTTTGAGT
1 ACTTTGAGT
3608180 A
1 A
3608181 AATATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.43
Consensus pattern (9 bp):
ACTTTGAGT
Found at i:3611757 original size:23 final size:21
Alignment explanation
Indices: 3611733--3611772 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3611723 ATTATTACTA
*
3611733 TTATTTT-TTTGTATATTTTT
1 TTATTTTATTTTTATATTTTT
3611753 TTATTTTATTTTTATATTTT
1 TTATTTTATTTTTATATTTT
3611773 ACTATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (21 bp):
TTATTTTATTTTTATATTTTT
Found at i:3611785 original size:21 final size:20
Alignment explanation
Indices: 3611734--3611787 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
3611724 TTATTACTAT
* **
3611734 TATTTTTTTGTATATTTTTT
1 TATTTTTTTTTATATTTTAC
3611754 TATTTTATTTTTATATTTTAC
1 TATTTT-TTTTTATATTTTAC
3611775 TATCTTTTTTTTA
1 TAT-TTTTTTTTA
3611788 AATATATAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 20 0.69
22 3 0.10
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.76
Consensus pattern (20 bp):
TATTTTTTTTTATATTTTAC
Found at i:3611866 original size:29 final size:31
Alignment explanation
Indices: 3611833--3611902 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
3611823 AAACTATCTT
* *
3611833 TATTTTTATTTT-TTT-TGTATTTCTTTTTA
1 TATTTTTATTTTCTTTCTATATTTCTATTTA
*
3611862 TATTTTCATTTTCTTTCTATATTTCTATTTA
1 TATTTTTATTTTCTTTCTATATTTCTATTTA
3611893 T-TTTATTATT
1 TATTT-TTATT
3611903 ATTACTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 11 0.32
30 6 0.18
31 17 0.50
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (31 bp):
TATTTTTATTTTCTTTCTATATTTCTATTTA
Found at i:3611886 original size:18 final size:20
Alignment explanation
Indices: 3611852--3611891 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
3611842 TTTTTTTGTA
*
3611852 TTTCTTTTTATATTTTC-AT
1 TTTCTTTCTATATTTTCTAT
3611871 TTTCTTTCTATA-TTTCTAT
1 TTTCTTTCTATATTTTCTAT
3611890 TT
1 TT
3611892 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCTTTCTATATTTTCTAT
Found at i:3614160 original size:13 final size:13
Alignment explanation
Indices: 3614144--3614168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3614134 TTTTTGAGGA
3614144 AAATTCTTTAATC
1 AAATTCTTTAATC
3614157 AAATTCTTTAAT
1 AAATTCTTTAAT
3614169 TGAAAATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:3617838 original size:14 final size:14
Alignment explanation
Indices: 3617819--3617845 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3617809 ACAGTTGTAA
3617819 CAGTTAGTAGTTAG
1 CAGTTAGTAGTTAG
3617833 CAGTTAGTAGTTA
1 CAGTTAGTAGTTA
3617846 ACAATATCAG
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:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (14 bp):
CAGTTAGTAGTTAG
Found at i:3626390 original size:45 final size:45
Alignment explanation
Indices: 3626339--3626429 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
3626329 AATTCGGAAA
3626339 CTAAAAATACACACTAATGAACGACAAACAGAGGTGTTCATGGGC
1 CTAAAAATACACACTAATGAACGACAAACAGAGGTGTTCATGGGC
3626384 CTAAAAATACACACTAATGAACGACAAACAGAGGTGTTCATGGGC
1 CTAAAAATACACACTAATGAACGACAAACAGAGGTGTTCATGGGC
3626429 C
1 C
3626430 GGGCGGCCCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.18
Consensus pattern (45 bp):
CTAAAAATACACACTAATGAACGACAAACAGAGGTGTTCATGGGC
Found at i:3626625 original size:16 final size:17
Alignment explanation
Indices: 3626604--3626636 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
3626594 AAAATATATT
3626604 TTTAAATT-TTTTAAAA
1 TTTAAATTATTTTAAAA
3626620 TTTAAATTATTTTAAAA
1 TTTAAATTATTTTAAAA
3626637 ATATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAAATTATTTTAAAA
Found at i:3626644 original size:12 final size:11
Alignment explanation
Indices: 3626620--3626683 Score: 74
Period size: 11 Copynumber: 5.6 Consensus size: 11
3626610 TTTTTTAAAA
*
3626620 TTTAAATTATT
1 TTTAAAATATT
*
3626631 TTAAAAATATT
1 TTTAAAATATT
*
3626642 TTTAAAATACT
1 TTTAAAATATT
3626653 TTTAAAATACTTT
1 TTTAAAATA--TT
*
3626666 TTTAAAATTTT
1 TTTAAAATATT
3626677 TTTAAAA
1 TTTAAAA
3626684 AAATTGGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
11 36 0.80
13 9 0.20
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:3626684 original size:12 final size:12
Alignment explanation
Indices: 3626623--3626684 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
3626613 TTTAAAATTT
*
3626623 AAATTATTTTAA
1 AAATTTTTTTAA
*
3626635 AAATATTTTT-A
1 AAATTTTTTTAA
**
3626646 AAATACTTTTAA
1 AAATTTTTTTAA
*
3626658 AATACTTTTTT-A
1 AA-ATTTTTTTAA
3626670 AAATTTTTTTAA
1 AAATTTTTTTAA
3626682 AAA
1 AAA
3626685 AATTGGTGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 17 0.43
12 18 0.45
13 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATTTTTTTAA
Found at i:3627448 original size:22 final size:21
Alignment explanation
Indices: 3627384--3627470 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
3627374 AAATATATAG
* *
3627384 AATAATACATAATAAATTTGAA
1 AATAATATATGATAAATTT-AA
* * *
3627406 GAATGATACATGA-AAACTTAA
1 -AATAATATATGATAAATTTAA
3627427 AATAATTATATGATAAATTTAA
1 AATAA-TATATGATAAATTTAA
*
3627449 AATAATATGTGATAAATTTAA
1 AATAATATATGATAAATTTAA
3627470 A
1 A
3627471 CAACATTCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 4 0.07
21 24 0.44
22 17 0.31
23 10 0.18
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.33
Consensus pattern (21 bp):
AATAATATATGATAAATTTAA
Found at i:3630886 original size:43 final size:44
Alignment explanation
Indices: 3630837--3630952 Score: 141
Period size: 43 Copynumber: 2.7 Consensus size: 44
3630827 CCAAAATTAG
3630837 TAAAGAAC-TGTACTTTTAGCGGCGTTTGTGACAAAAGCGCCGC
1 TAAAGAACATGTACTTTTAGCGGCGTTTGTGACAAAAGCGCCGC
*** *
3630880 TAAAGAACATG-A-TCTTTAGCGGCGTTTGTGGGTAAAGCGTCGC
1 TAAAGAACATGTACT-TTTAGCGGCGTTTGTGACAAAAGCGCCGC
* *
3630923 TAAAGATCATGTTC-TTTAGCGGCGTTTGTG
1 TAAAGAACATGTACTTTTAGCGGCGTTTGTG
3630953 GGTGTTCCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 60 0.95
44 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (44 bp):
TAAAGAACATGTACTTTTAGCGGCGTTTGTGACAAAAGCGCCGC
Found at i:3630953 original size:43 final size:43
Alignment explanation
Indices: 3630851--3630955 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
3630841 GAACTGTACT
***
3630851 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGAACATGATC
* * *
3630894 TTTAGCGGCGTTTGTGGGTAAAGCGTCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGAACATGATC
3630937 TTTAGCGGCGTTTGTGGGT
1 TTTAGCGGCGTTTGTGGGT
3630956 GTTCCAAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGAACATGATC
Found at i:3633415 original size:20 final size:20
Alignment explanation
Indices: 3633371--3633414 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
3633361 AAATAAAAAC
3633371 TTTTTTATATTATTTTAGTA
1 TTTTTTATATTATTTTAGTA
3633391 TTTTTTAT-TT-TTTT-GTA
1 TTTTTTATATTATTTTAGTA
3633408 TTATTTT
1 TT-TTTT
3633415 TATAAAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 8 0.35
19 2 0.09
20 8 0.35
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTTATATTATTTTAGTA
Found at i:3635128 original size:10 final size:10
Alignment explanation
Indices: 3635113--3635149 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
3635103 GGTGCTGTAG
3635113 GAAAAAGAGA
1 GAAAAAGAGA
3635123 GAAAAAGAGA
1 GAAAAAGAGA
*
3635133 GAAAGAGAAGA
1 GAAAAAG-AGA
3635144 GAAAAA
1 GAAAAA
3635150 AAATGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:3639631 original size:22 final size:21
Alignment explanation
Indices: 3639586--3639628 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3639576 ATAAAAATAT
3639586 ATTATTTCTCAATTTTTAAAA
1 ATTATTTCTCAATTTTTAAAA
* *
3639607 ATTATTTTTGAATTTTTAAAA
1 ATTATTTCTCAATTTTTAAAA
3639628 A
1 A
3639629 ATTTAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATTTCTCAATTTTTAAAA
Found at i:3640049 original size:157 final size:153
Alignment explanation
Indices: 3639606--3640080 Score: 520
Period size: 157 Copynumber: 3.0 Consensus size: 153
3639596 AATTTTTAAA
*
3639606 AATTATTTTTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTT
1 AATTATTTTT-AATTTTTAAAAAATTTAGGAAAACACTCTTACTTCGGCCATTTGTTCGTA-TTT
*
3639671 TTTCTCCGCATTTTTTTTACTTTAAAAAATATCATAATTTCTTATTTTATAATTTTACATTATTT
64 TTTCTCCGCA-TTTTTTTACTTTAAAAAATATAATAATTTC-TATTTTATAATTTTACATTATTT
3639736 CAGTGCATTATGTTTG-AA-ATTTATT
127 CAGTGCATTATGTTTGAAATATTTATT
* * * * * *
3639761 AATT-TTGTGT--TTTTTAAATTAATTTAGTGTAAAAAAAAAC-CATTA-TTCCTGCCCTTTGCT
1 AATTATT-TTTAATTTTTAAA-AAATTTAG-G----AAAACACTC-TTACTT-CGGCCATTTGTT
** * * * *
3639821 CGTATTATTTTC-CCAAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTT
57 CGTATT-TTTTCTCCGCATTTTTTTACTTT--A-AAAAATATAATAATTTC-TATTTTATAATTT
* * *
3639885 TATATTATTTCAGTACATTTTGTTTGAAATATTTGTATT
117 TACATTATTTCAGTGCATTATGTTTGAAATA-TT-TATT
*
3639924 AATTATTTTTAAATTTTTAAAAAAATTAGGAAAACACTCTTACTTCGGCCATTTGTTCGTATTTT
1 AATTATTTTT-AATTTTTAAAAAATTTAGGAAAACACTCTTACTTCGGCCATTTGTTCGTATTTT
3639989 TTCTCCGCATTTTTTTACTTTAAAAAATATAATAATTTCTAATTTTATAATTTTACATTATTTCA
65 TTCTCCGCATTTTTTTACTTTAAAAAATATAATAATTTCT-ATTTTATAATTTTACATTATTTCA
3640054 GTGCATTATGTTTG-AA-ATTTATT
129 GTGCATTATGTTTGAAATATTTATT
3640077 AATT
1 AATT
3640081 TTGTGTGTTT
Statistics
Matches: 261, Mismatches: 34, Indels: 52
0.75 0.10 0.15
Matches are distributed among these distances:
152 8 0.03
153 15 0.06
154 4 0.02
155 7 0.03
156 14 0.05
157 57 0.22
158 29 0.11
159 54 0.21
160 40 0.15
161 4 0.02
162 2 0.01
163 10 0.04
164 3 0.01
165 6 0.02
166 8 0.03
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (153 bp):
AATTATTTTTAATTTTTAAAAAATTTAGGAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTT
TCTCCGCATTTTTTTACTTTAAAAAATATAATAATTTCTATTTTATAATTTTACATTATTTCAGT
GCATTATGTTTGAAATATTTATT
Found at i:3645499 original size:17 final size:17
Alignment explanation
Indices: 3645474--3645521 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
3645464 TATTACGTTC
*
3645474 AATAAAAAATACTAAAT
1 AATAAAAAATAATAAAT
*
3645491 AATATAAAATAATAAA-
1 AATAAAAAATAATAAAT
*
3645507 ATTAAAAAAATAATA
1 AAT-AAAAAATAATA
3645522 TATTTTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 2 0.08
17 24 0.92
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAAAAAATAATAAAT
Found at i:3646927 original size:126 final size:125
Alignment explanation
Indices: 3646715--3647123 Score: 520
Period size: 127 Copynumber: 3.3 Consensus size: 125
3646705 TATCAGATGG
* * * * ** *
3646715 ATTTCTGAAGTCGCGCCCAT-GTGTACGTGCTTTTGCTACGGTAGGTCCTAGAAAAATAATTTCG
1 ATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTCACTACAGTAGGTCCTAGAAAAATAATTTCG
* *
3646779 AGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGTAGGATGCT-TTATGATAATA
65 AGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGTAGGATGCTATT-TGAGAAGA
* *
3646840 ATTTGTGAAATCGCGCCTTCGTGGACGCGCTTTCACTACAGTAGGTCCTGGAAGAAATAATTTCG
1 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTCACTACAGTAGGTCCTAGAA-AAATAATTTCG
* * * *
3646905 AGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCATGTAGGATGCTATTTAAGAAGA
65 AGTTGACGTTTCTGAGAAAATAGTAT-AAAAAACGCTTCAAGTAGGATGCTATTTGAGAAGA
** * * *
3646967 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGT-CTTGAAAAAATAATTTTG
1 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTCACTACAGTAGGTCCTAG-AAAAATAATTTCG
* * * *
3647031 AGTTGACGATTCTGAGTAAATAGTAT-AAAAACACTTCTAGTAGGATGCTATTTGAGAAGA
65 AGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGTAGGATGCTATTTGAGAAGA
*
3647091 ATTTGTGAAATCGTGCCCTCGTGGACGCGCTTT
1 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTT
3647124 TGCTATAGTA
Statistics
Matches: 250, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
124 63 0.25
125 42 0.17
126 71 0.28
127 72 0.29
128 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (125 bp):
ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTCACTACAGTAGGTCCTAGAAAAATAATTTCGA
GTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGTAGGATGCTATTTGAGAAGA
Found at i:3647110 original size:124 final size:123
Alignment explanation
Indices: 3646715--3647134 Score: 522
Period size: 124 Copynumber: 3.4 Consensus size: 123
3646705 TATCAGATGG
* * * * * *
3646715 ATTTCTGAAGTCGCGCCCAT-GTGTACGTGCTTTTGCTACGGTAGGTCCT-AGAAAAATAATTTC
1 ATTTGTGAAATCGCGCCC-TCGTGGACGCGCTTTTGCTACAGTAGGTCTTGA-AAAAATAATTTC
* *
3646778 GAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGTAGGATGCT-TTATGATAATA
64 GAGTTGACGTTTCTGAGAAAATAGTAT-AAAAACGCTTC-AGTAGGATGCTATT-TGAGAAGA
* ** * *
3646840 ATTTGTGAAATCGCGCCTTCGTGGACGCGCTTTCACTACAGTAGGTCCTGGAAGAAATAATTTCG
1 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT-CTTGAAAAAATAATTTCG
* * *
3646905 AGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTCATGTAGGATGCTATTTAAGAAGA
65 AGTTGACGTTTCTGAGAAAATAG--TATAAAAACGCTTCA-GTAGGATGCTATTTGAGAAGA
* *
3646967 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCTTGAAAAAATAATTTTGA
1 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGAAAAAATAATTTCGA
* * *
3647032 GTTGACGATTCTGAGTAAATAGTATAAAAACACTTCTAGTAGGATGCTATTTGAGAAGA
66 GTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTC-AGTAGGATGCTATTTGAGAAGA
* *
3647091 ATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTATAGTAG
1 ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
3647135 CATGTTTGGG
Statistics
Matches: 256, Mismatches: 31, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
124 74 0.29
125 37 0.14
126 72 0.28
127 69 0.27
128 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (123 bp):
ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGAAAAAATAATTTCGA
GTTGACGTTTCTGAGAAAATAGTATAAAAACGCTTCAGTAGGATGCTATTTGAGAAGA
Found at i:3648239 original size:51 final size:51
Alignment explanation
Indices: 3648178--3648277 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
3648168 AATAATTAAA
* * *
3648178 AAATAGGGATTTGAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTCACAAAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * *
3648229 AAATATGGATTTCACAAAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTCACAAAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
3648278 GGAAATTGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTCACAAAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:3648305 original size:14 final size:11
Alignment explanation
Indices: 3648255--3648301 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
3648245 AAAATTTGGA
*
3648255 AGGAATTTGAG
1 AGGAAATTGAG
*
3648266 AGCAAATTGAG
1 AGGAAATTGAG
3648277 AGGAAATTGAG
1 AGGAAATTGAG
3648288 AGGAAATTCGAG
1 AGGAAATT-GAG
3648300 AG
1 AG
3648302 AGGATTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 27 0.84
12 5 0.16
ACGTcount: A:0.43, C:0.04, G:0.34, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:3651075 original size:22 final size:24
Alignment explanation
Indices: 3651033--3651077 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
3651023 TAAGTAAGTT
3651033 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
3651057 TACTT-CTTTTCT-ACTTAATTC
1 TACTTACTTTTCTAACTTAATTC
3651078 CTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:3652433 original size:25 final size:23
Alignment explanation
Indices: 3652403--3652459 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
3652393 ATAAAATTTT
*
3652403 GATTTAATTTTTTAAAAATTATAAA
1 GATTTAATTTATTAAAAA-T-TAAA
*
3652428 GATTTAAATTATTAAAAATTAAA
1 GATTTAATTTATTAAAAATTAAA
3652451 -ATTTAATTT
1 GATTTAATTT
3652460 CAGCCCCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.28
23 4 0.14
24 1 0.03
25 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
GATTTAATTTATTAAAAATTAAA
Found at i:3655837 original size:4 final size:4
Alignment explanation
Indices: 3655830--3655861 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
3655820 ATCATCATTT
3655830 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
3655862 CGTAATCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:3658335 original size:51 final size:56
Alignment explanation
Indices: 3658255--3658404 Score: 202
Period size: 56 Copynumber: 2.8 Consensus size: 56
3658245 TGATAATAAC
* * *
3658255 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCATC-T-CGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCATCTTAAGG
* * * *
3658307 -TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCATCTTAAGG
3658362 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
3658405 TTACCCAAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 35 0.42
52 2 0.02
53 4 0.05
54 1 0.01
55 2 0.02
56 39 0.47
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (56 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCATCTTAAGG
Found at i:3663105 original size:64 final size:63
Alignment explanation
Indices: 3663014--3663132 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
3663004 CCGTAGGATC
* **
3663014 CTCCCACTTCGGGGTTGATCCACACACCTTCTATCCTTCTTTGTGACTCCACCAAATCCTATA
1 CTCCCACTTCGGGGTTAATCCACACACCTTCTATCCTTCTTAATGACTCCACCAAATCCTATA
* * *
3663077 CTCCCACTTCGGAGGTTAATCCATACACCTTCTATTCTTCTTAATGACTCGACCAA
1 CTCCCACTTCGG-GGTTAATCCACACACCTTCTATCCTTCTTAATGACTCCACCAA
3663133 TTCCATTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 12 0.24
64 37 0.76
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.32
Consensus pattern (63 bp):
CTCCCACTTCGGGGTTAATCCACACACCTTCTATCCTTCTTAATGACTCCACCAAATCCTATA
Found at i:3663562 original size:7 final size:7
Alignment explanation
Indices: 3663546--3663584 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
3663536 ATGAGTTAAA
3663546 GTTT-GG
1 GTTTAGG
3663552 GTTTAGG
1 GTTTAGG
3663559 GTTTAGG
1 GTTTAGG
*
3663566 ATTTAGG
1 GTTTAGG
*
3663573 GTTTAAG
1 GTTTAGG
3663580 GTTTA
1 GTTTA
3663585 CGGTCATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:3663572 original size:14 final size:14
Alignment explanation
Indices: 3663526--3663577 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
3663516 TTGTTTGGTG
*
3663526 TTTAGGGTTTATGA
1 TTTAGGGTTTAGGA
* ** *
3663540 GTTAAAGTTT-GGG
1 TTTAGGGTTTAGGA
3663553 TTTAGGGTTTAGGA
1 TTTAGGGTTTAGGA
3663567 TTTAGGGTTTA
1 TTTAGGGTTTA
3663578 AGGTTTACGG
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
13 8 0.29
14 20 0.71
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:3664189 original size:16 final size:16
Alignment explanation
Indices: 3664168--3664224 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
3664158 TTTGGTTCGC
*
3664168 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
3664184 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
3664200 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
3664216 TGTAATGGA
1 TGTAATGGA
3664225 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:3664491 original size:18 final size:17
Alignment explanation
Indices: 3664470--3664504 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3664460 TTATTATTAA
*
3664470 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3664488 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3664505 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3664512 original size:79 final size:79
Alignment explanation
Indices: 3664429--3664672 Score: 220
Period size: 79 Copynumber: 3.1 Consensus size: 79
3664419 TTATTATCAA
3664429 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
3664494 TTTAATAAAATTCT
66 TTTAATAAAATTCT
* * * * **** * * *
3664508 TAATAATTAGCA-TAAAT-TTGTTTTGGTA-AATTATTATT--GT-TATTGTT-ATTTAAAT-TT
1 TAATAAATA--ATTTAATCATATTTAAACATAATTATTATTAAATATATT-TTAATTAAAATATA
* * *
3664565 TAA--TAAGATTAATATCAA
63 TAATTTAATA-AAAT-TC-T
*
3664583 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
3664648 TTTAATAAAATTCT
66 TTTAATAAAATTCT
*
3664662 TAATAATTAAT
1 TAATAAATAAT
3664673 ATTCTTATAT
Statistics
Matches: 119, Mismatches: 30, Indels: 32
0.66 0.17 0.18
Matches are distributed among these distances:
72 4 0.03
73 4 0.03
74 10 0.08
75 24 0.20
76 13 0.11
78 12 0.10
79 34 0.29
80 10 0.08
81 4 0.03
82 4 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (79 bp):
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCT
Found at i:3664641 original size:16 final size:16
Alignment explanation
Indices: 3664604--3664645 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3664594 TTAATCATAT
*
3664604 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
3664620 TT-AAATATATTATAA
1 TTAAAATATATTATAA
3664635 TTAAAATATAT
1 TTAAAATATAT
3664646 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:3664643 original size:154 final size:156
Alignment explanation
Indices: 3664357--3664670 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
3664347 TAGAATACCC
3664357 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
3664422 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
3664487 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
3664514 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
3664577 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
3664642 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
3664668 TTA
1 TTA
3664671 ATATTCTTAT
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 93 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:3664652 original size:14 final size:15
Alignment explanation
Indices: 3664613--3664654 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3664603 TTTAAACATA
*
3664613 ATTATTATTAAATAT
1 ATTATAATTAAATAT
3664628 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
3664642 A-TATAATTTAATA
1 ATTATAATTAAATA
3664655 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:3664741 original size:120 final size:120
Alignment explanation
Indices: 3664607--3665031 Score: 841
Period size: 120 Copynumber: 3.5 Consensus size: 120
3664597 ATCATATTTA
3664607 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3664672 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3664727 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
3664792 TATTCTTATATGAATTTACTCAAATCATAATATATGATTCTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3664847 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3664912 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3664967 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665032 CAGAAATTTG
Statistics
Matches: 303, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 303 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:3664772 original size:14 final size:15
Alignment explanation
Indices: 3664723--3664774 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3664713 ATAAAATATA
3664723 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3664738 TATTAAATATATTAT
1 AATTAAATATATTAT
3664753 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3664766 AATTTAATA
1 AATTAAATA
3664775 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3664892 original size:14 final size:15
Alignment explanation
Indices: 3664843--3664894 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3664833 ATAAAATATA
3664843 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3664858 TATTAAATATATTAT
1 AATTAAATATATTAT
3664873 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3664886 AATTTAATA
1 AATTAAATA
3664895 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3665012 original size:14 final size:15
Alignment explanation
Indices: 3664963--3665014 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3664953 ATAAAATATA
3664963 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3664978 TATTAAATATATTAT
1 AATTAAATATATTAT
3664993 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3665006 AATTTAATA
1 AATTAAATA
3665015 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3665141 original size:157 final size:157
Alignment explanation
Indices: 3664967--3665342 Score: 734
Period size: 157 Copynumber: 2.4 Consensus size: 157
3664957 AATATAAATT
3664967 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665032 CAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
66 CAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
3665097 CAATAATAAATAATTTAATCATATTTA
131 CAATAATAAATAATTTAATCATATTTA
* *
3665124 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAG
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665189 CAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
66 CAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
3665254 CAATAATAAATAATTTAATCATATTTA
131 CAATAATAAATAATTTAATCATATTTA
3665281 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
3665343 CAATATTCTT
Statistics
Matches: 216, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 216 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (157 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
CAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
CAATAATAAATAATTTAATCATATTTA
Found at i:3665162 original size:18 final size:17
Alignment explanation
Indices: 3665141--3665175 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3665131 TTATTATTAA
*
3665141 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3665159 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3665176 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3665315 original size:16 final size:16
Alignment explanation
Indices: 3665278--3665319 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
3665268 TTAATCATAT
*
3665278 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
3665294 TT-AAATATATTATAA
1 TTAAAATATATTATAA
3665309 TTAAAATATAT
1 TTAAAATATAT
3665320 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:3665326 original size:14 final size:15
Alignment explanation
Indices: 3665287--3665328 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
3665277 TTTAAACATA
*
3665287 ATTATTATTAAATAT
1 ATTATAATTAAATAT
3665302 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
3665316 A-TATAATTTAATA
1 ATTATAATTAAATA
3665329 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:3665446 original size:14 final size:15
Alignment explanation
Indices: 3665397--3665448 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3665387 ATAAAATATA
3665397 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3665412 TATTAAATATATTAT
1 AATTAAATATATTAT
3665427 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3665440 AATTTAATA
1 AATTAAATA
3665449 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3665559 original size:18 final size:17
Alignment explanation
Indices: 3665538--3665572 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3665528 TTATTATTAA
*
3665538 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3665556 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3665573 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3665686 original size:14 final size:15
Alignment explanation
Indices: 3665637--3665688 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3665627 ATAAAATATA
3665637 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3665652 TATTAAATATATTAT
1 AATTAAATATATTAT
3665667 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3665680 AATTTAATA
1 AATTAAATA
3665689 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3665797 original size:16 final size:16
Alignment explanation
Indices: 3665753--3665799 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
3665743 TACTATAAAA
*
3665753 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
3665769 TATTATT-AAATATAT
1 TATAATTAAAATATAT
3665784 TATAATTAAAATATAT
1 TATAATTAAAATATAT
3665800 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:3665919 original size:18 final size:17
Alignment explanation
Indices: 3665898--3665932 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3665888 TTATTATTAA
*
3665898 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3665916 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3665933 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3666046 original size:14 final size:15
Alignment explanation
Indices: 3665997--3666048 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3665987 ATAAAATATA
3665997 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3666012 TATTAAATATATTAT
1 AATTAAATATATTAT
3666027 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3666040 AATTTAATA
1 AATTAAATA
3666049 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3666166 original size:14 final size:15
Alignment explanation
Indices: 3666117--3666168 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3666107 ATAAAATATA
3666117 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3666132 TATTAAATATATTAT
1 AATTAAATATATTAT
3666147 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3666160 AATTTAATA
1 AATTAAATA
3666169 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3666286 original size:14 final size:15
Alignment explanation
Indices: 3666237--3666288 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3666227 ATAAAATATA
3666237 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3666252 TATTAAATATATTAT
1 AATTAAATATATTAT
3666267 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3666280 AATTTAATA
1 AATTAAATA
3666289 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3666406 original size:14 final size:15
Alignment explanation
Indices: 3666357--3666408 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3666347 ATAAAATATA
3666357 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3666372 TATTAAATATATTAT
1 AATTAAATATATTAT
3666387 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3666400 AATTTAATA
1 AATTAAATA
3666409 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3666526 original size:14 final size:15
Alignment explanation
Indices: 3666477--3666528 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3666467 ATAAAATATA
3666477 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3666492 TATTAAATATATTAT
1 AATTAAATATATTAT
3666507 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3666520 AATTTAATA
1 AATTAAATA
3666529 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3666646 original size:14 final size:15
Alignment explanation
Indices: 3666597--3666648 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3666587 ATAAAATATA
3666597 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3666612 TATTAAATATATTAT
1 AATTAAATATATTAT
3666627 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3666640 AATTTAATA
1 AATTAAATA
3666649 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3666784 original size:120 final size:120
Alignment explanation
Indices: 3665281--3666773 Score: 2862
Period size: 120 Copynumber: 12.4 Consensus size: 120
3665271 ATCATATTTA
*
3665281 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665346 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
3665401 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
3665466 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
3665521 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665586 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3665641 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
3665706 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3665761 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665826 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
3665881 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3665946 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3666001 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3666066 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3666121 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3666186 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3666241 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3666306 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3666361 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3666426 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3666481 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
3666546 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
3666601 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
3666666 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
3666721 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
3666774 TAAAATAATT
Statistics
Matches: 1356, Mismatches: 16, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
120 1354 1.00
121 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:3666872 original size:47 final size:46
Alignment explanation
Indices: 3666821--3666964 Score: 106
Period size: 47 Copynumber: 3.1 Consensus size: 46
3666811 TTGTATAATT
3666821 TAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATAATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
3666868 TAAAAT--T-CTTGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAATAATT-ATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
*
3666912 TAAAATAATTAA-TATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAA-TAATTATT-AATATAATTTAATAATAATATATAATTTCA
3666959 TAAAAT
1 TAAAAT
3666965 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 12 0.17
45 12 0.17
46 10 0.14
47 17 0.24
48 9 0.12
49 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATAATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:3666883 original size:101 final size:93
Alignment explanation
Indices: 3666714--3666996 Score: 299
Period size: 91 Copynumber: 3.0 Consensus size: 93
3666704 ACTATAAAAG
* * * *
3666714 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATT-TAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTCT--
* * *
3666777 AATAATTATAACTAATAAATTATATTTTATGAATTTGT
63 --T-A--ATAA-T-ATAAATTTTATTATATGAATTTAT
* *
3666815 ATAATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTG
1 ATAATTTAAAATAATTAA-TATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
3666879 AT-A-ATAAATTTTCTTATATGAATTTAT
65 ATAATATAAATTTTATTATATGAATTTAT
* *
3666906 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
* *
3666971 TAATA-AAATGTTCTTATATGAATTTA
66 TAATATAAATTTTATTATATGAATTTA
3666997 CTAAAATCAA
Statistics
Matches: 161, Mismatches: 15, Indels: 21
0.82 0.08 0.11
Matches are distributed among these distances:
91 78 0.48
92 24 0.15
93 1 0.01
94 1 0.01
95 2 0.01
98 1 0.01
100 6 0.04
101 47 0.29
102 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTAA
TAATATAAATTTTATTATATGAATTTAT
Found at i:3666956 original size:44 final size:43
Alignment explanation
Indices: 3666770--3666956 Score: 112
Period size: 44 Copynumber: 4.1 Consensus size: 43
3666760 GATTTAATAA
* * * *
3666770 AATTTAAAATAATTATAACTAATAAAT-TATATTTTATGAATTTGTAT
1 AATTTAAAATAA-T-TAA-TATTAAATATA-ATTTAAT-AATATATAT
*
3666817 AATTTAAAATAA-TAATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATAAT-ATATAT
** * * * * *
3666861 AATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAT
3666908 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
3666952 AATTT
1 AATTT
3666957 CATAAAATTC
Statistics
Matches: 107, Mismatches: 21, Indels: 27
0.69 0.14 0.17
Matches are distributed among these distances:
43 6 0.06
44 48 0.45
45 9 0.08
46 7 0.07
47 32 0.30
48 5 0.05
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:3666971 original size:47 final size:47
Alignment explanation
Indices: 3666839--3666977 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
3666829 TAATTATTAC
* *
3666839 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
3666886 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
3666930 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
3666977 A
1 A
3666978 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:3670459 original size:9 final size:9
Alignment explanation
Indices: 3670445--3670469 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3670435 TCTGAACTAC
3670445 ATTTATCTT
1 ATTTATCTT
3670454 ATTTATCTT
1 ATTTATCTT
3670463 ATTTATC
1 ATTTATC
3670470 AGCAAATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTATCTT
Found at i:3677237 original size:18 final size:18
Alignment explanation
Indices: 3677204--3677256 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
3677194 ATTCACCTAA
*
3677204 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
3677223 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
3677241 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
3677257 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:3685358 original size:89 final size:89
Alignment explanation
Indices: 3685254--3685427 Score: 330
Period size: 89 Copynumber: 2.0 Consensus size: 89
3685244 GATTGTCTGG
* *
3685254 GTCGATGTGGTTCTGCCTCATGCGATCTTCGACATGTCTAGATGTATGCCATTGCCATATGTTTT
1 GTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCATATGTTTT
3685319 ATCATTTGATCATGTTTTGTCTAC
66 ATCATTTGATCATGTTTTGTCTAC
3685343 GTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCATATGTTTT
1 GTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCATATGTTTT
3685408 ATCATTTGATCATGTTTTGT
66 ATCATTTGATCATGTTTTGT
3685428 TCCAGGTGGT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (89 bp):
GTCGATGTGGCTCTGCCTCATGCGATCTTCGACATGTCGAGATGTATGCCATTGCCATATGTTTT
ATCATTTGATCATGTTTTGTCTAC
Found at i:3692535 original size:36 final size:36
Alignment explanation
Indices: 3692484--3692570 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
3692474 GGTCAGCATT
* *
3692484 AAAACAACGTCGTTTTGGGGCTTTTGAAGCGAGGCC
1 AAAACGACGTAGTTTTGGGGCTTTTGAAGCGAGGCC
* *
3692520 AAAACGACGTTGTTTTGTGGCTTTTGAAGCGAGGCC
1 AAAACGACGTAGTTTTGGGGCTTTTGAAGCGAGGCC
*
3692556 AAAATGACGTAGTTT
1 AAAACGACGTAGTTT
3692571 CATTAAACCT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (36 bp):
AAAACGACGTAGTTTTGGGGCTTTTGAAGCGAGGCC
Done.