Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold570
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: 75937
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Found at i:8364 original size:22 final size:22
Alignment explanation
Indices: 8319--8371 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
8309 GTTGAACATG
*
8319 TGCA-TGTGCAAACCTCTTTCA
1 TGCATTGTGCAAACCTCTCTCA
8340 TGCATTGTGCAAACCTCATCT-A
1 TGCATTGTGCAAACCTC-TCTCA
*
8362 TGCGTTGTGC
1 TGCATTGTGC
8372 GAACTCTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (22 bp):
TGCATTGTGCAAACCTCTCTCA
Found at i:12145 original size:15 final size:14
Alignment explanation
Indices: 12125--12156 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
12115 TAATAATATA
12125 AATATACGATAAAAT
1 AATATACGAT-AAAT
12140 AATATACGATAAAT
1 AATATACGATAAAT
12154 AAT
1 AAT
12157 TTTTTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.28
Consensus pattern (14 bp):
AATATACGATAAAT
Found at i:12211 original size:25 final size:24
Alignment explanation
Indices: 12178--12236 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
12168 GAATAATGCT
12178 TATAGTAAAATAAATAATATATA-AAA
1 TATA-TAAAATAAATAAT-T-TAGAAA
*
12204 TATTTAAAATAAATAATTTAGAAA
1 TATATAAAATAAATAATTTAGAAA
12228 TATATAAAA
1 TATATAAAA
12237 AAGGATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 2 0.07
24 12 0.40
25 13 0.43
26 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (24 bp):
TATATAAAATAAATAATTTAGAAA
Found at i:12912 original size:18 final size:17
Alignment explanation
Indices: 12878--12919 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
12868 TGTATGTATT
*
12878 GAAAAAAAAACAGAAAC
1 GAAAAAATAACAGAAAC
*
12895 GAAAAAATAACAATAAAC
1 GAAAAAATAAC-AGAAAC
12913 -AAAAAAT
1 GAAAAAAT
12920 CATCTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (17 bp):
GAAAAAATAACAGAAAC
Found at i:13531 original size:17 final size:17
Alignment explanation
Indices: 13509--13541 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13499 TAAATGGACT
*
13509 GTTTAATTTTATTTTTC
1 GTTTAATTTCATTTTTC
13526 GTTTAATTTCATTTTT
1 GTTTAATTTCATTTTT
13542 TAATTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (17 bp):
GTTTAATTTCATTTTTC
Found at i:13857 original size:79 final size:80
Alignment explanation
Indices: 13688--13870 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 80
13678 CTCCCCGTTG
* * * * *
13688 AATACAGAGACGCCCAAATCATCTTAAATCAGCCTTGATGAAATTCAGATCTACTAATGTCTTCG
1 AATATAGAGATGCCCAAATCATCTTAAATCAGCCTCGATCAAAGTCAGATCTACTAATGTCTTCG
*
13753 ATTTGCTCTCCGTCC
66 ATTTGCTCTCCGTCA
* ** *
13768 ATTATAGAGATGCCCAAATCATCTTGGATCTGCCTCGA-CAAAGGTCAGATCTACT-ATGTCTTC
1 AATATAGAGATGCCCAAATCATCTTAAATCAGCCTCGATCAAA-GTCAGATCTACTAATGTCTTC
13831 GATTTGCTC-CCTGTCA
65 GATTTGCTCTCC-GTCA
13847 AATATAGAGATG-CCAAATCATCTT
1 AATATAGAGATGCCCAAATCATCTT
13871 CTTGGTTTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 14 0.16
79 34 0.38
80 42 0.47
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (80 bp):
AATATAGAGATGCCCAAATCATCTTAAATCAGCCTCGATCAAAGTCAGATCTACTAATGTCTTCG
ATTTGCTCTCCGTCA
Found at i:13994 original size:44 final size:43
Alignment explanation
Indices: 13854--14123 Score: 233
Period size: 44 Copynumber: 6.3 Consensus size: 43
13844 TCAAATATAG
* * * * *
13854 AGATGCCAAATCATCTTCTTGGTTTTGCTCCCCGTCAAATACGG
1 AGATGCCAAATC-TCATCTTGGATTTACTCCCCGTCGAATACGA
* * * * * *
13898 GGATGCCAAATCTGTCACCTTGAATATGCTCCCCGTCGAATACGG
1 AGATGCCAAATC--TCATCTTGGATTTACTCCCCGTCGAATACGA
* * * *
13943 GGATGCCAAATCTGCTTCTTGTATTTACTCCTCGTCGAATACGA
1 AGATGCCAAATCT-CATCTTGGATTTACTCCCCGTCGAATACGA
* * * *
13987 AAATGCCAAA--TCATCTTGGATCTACTCCCTGTTGAATACGA
1 AGATGCCAAATCTCATCTTGGATTTACTCCCCGTCGAATACGA
* * * **
14028 AGATGCCAAATCTGCTTCTTGGATTTTCTCCTCGTTAAATACGA
1 AGATGCCAAATCT-CATCTTGGATTTACTCCCCGTCGAATACGA
* *
14072 AGATGCCAAA--TCATCTTGGATCTACTCCCCGTCGAATACGG
1 AGATGCCAAATCTCATCTTGGATTTACTCCCCGTCGAATACGA
14113 AGATGCCAAAT
1 AGATGCCAAAT
14124 TTATTATCTT
Statistics
Matches: 183, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
41 66 0.36
42 2 0.01
43 2 0.01
44 76 0.42
45 37 0.20
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
AGATGCCAAATCTCATCTTGGATTTACTCCCCGTCGAATACGA
Found at i:14024 original size:41 final size:41
Alignment explanation
Indices: 13979--14123 Score: 175
Period size: 41 Copynumber: 3.5 Consensus size: 41
13969 ACTCCTCGTC
*
13979 GAATACGAAAATGCCAAATCATCTTGGATCTACTCCCTGTT
1 GAATACGAAGATGCCAAATCATCTTGGATCTACTCCCTGTT
* * *
14020 GAATACGAAGATGCCAAATCTGCTTCTTGGATTTTCT-CCTCGTT
1 GAATACGAAGATGCCAAA--T-CATCTTGGATCTACTCCCT-GTT
* * *
14064 AAATACGAAGATGCCAAATCATCTTGGATCTACTCCCCGTC
1 GAATACGAAGATGCCAAATCATCTTGGATCTACTCCCTGTT
*
14105 GAATACGGAGATGCCAAAT
1 GAATACGAAGATGCCAAAT
14124 TTATTATCTT
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 48 0.55
42 3 0.03
43 4 0.05
44 32 0.37
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (41 bp):
GAATACGAAGATGCCAAATCATCTTGGATCTACTCCCTGTT
Found at i:14043 original size:85 final size:85
Alignment explanation
Indices: 13853--14123 Score: 319
Period size: 85 Copynumber: 3.1 Consensus size: 85
13843 GTCAAATATA
* * * *** *
13853 GAGATGCCAAATCAT-CTTCTTGGTTTTGCTCCCCGTCAAATACGGGGATGCCAAATCTGTCACC
1 GAGATGCCAAATC-TGCTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAA----TCATC
* * *
13917 TTGAATATGCTCCCCGTCGAATACG
61 TTGGATCTACTCCCCGTCGAATACG
* * *
13942 GGGATGCCAAATCTGCTTCTTGTATTTACTCCTCGTCGAATACGAAAATGCCAAATCATCTTGGA
1 GAGATGCCAAATCTGCTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATCATCTTGGA
* *
14007 TCTACTCCCTGTTGAATACG
66 TCTACTCCCCGTCGAATACG
* * * *
14027 AAGATGCCAAATCTGCTTCTTGGATTTTCTCCTCGTTAAATACGAAGATGCCAAATCATCTTGGA
1 GAGATGCCAAATCTGCTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATCATCTTGGA
14092 TCTACTCCCCGTCGAATACG
66 TCTACTCCCCGTCGAATACG
14112 GAGATGCCAAAT
1 GAGATGCCAAAT
14124 TTATTATCTT
Statistics
Matches: 156, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
85 111 0.71
88 1 0.01
89 44 0.28
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (85 bp):
GAGATGCCAAATCTGCTTCTTGGATTTACTCCTCGTCAAATACGAAAATGCCAAATCATCTTGGA
TCTACTCCCCGTCGAATACG
Found at i:14160 original size:44 final size:44
Alignment explanation
Indices: 14106--14407 Score: 428
Period size: 44 Copynumber: 6.9 Consensus size: 44
14096 CTCCCCGTCG
* * ** *
14106 AATACGGAGATGCCAAATTTATTATCTTCGATCTGCTCTCTAAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
14150 AATACGGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * *
14194 AATACAGAGATGCCAAATCTTCTATCTTCGATCTGTTCTCTAAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
*
14238 AATACAGAGATGCCAAATCTGCCATCTTCGAT-TCGCTCTCTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCT-GCTCTCTGAC
** * *
14282 AATACAGAGACACGAAATCTACTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
14326 AATACAAAGATGCCAAATCTGCTATCTTCGATCTGCTCACTGAC
1 AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
14370 AATACA-ATGATGCCAAATCTGCTATCTTCGATCTGCTC
1 AATACAGA-GATGCCAAATCTGCTATCTTCGATCTGCTC
14408 CTTGTAAACG
Statistics
Matches: 232, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
43 2 0.01
44 229 0.99
45 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (44 bp):
AATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
Found at i:26489 original size:29 final size:29
Alignment explanation
Indices: 26409--26528 Score: 86
Period size: 33 Copynumber: 4.0 Consensus size: 29
26399 TGTTAAAATT
* * *
26409 ATAATAATAA-AGATA-AAGATAAACAAC
1 ATAATAATAATATATATAATATAAATAAC
26436 ATAATAAATAATATATGATAAAATATAAATAA-
1 ATAAT-AATAATATAT-AT--AATATAAATAAC
*
26468 ATAATAGATAATATATATAATAGACAACATAAC
1 ATAATA-ATAATATATATAAT--ATAA-ATAAC
*
26501 ATAATAATATAAATATATAATA-AAATAA
1 ATAATAATA-ATATATATAATATAAATAA
26529 TATACGATAA
Statistics
Matches: 76, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
27 5 0.07
28 5 0.07
29 10 0.13
30 3 0.04
31 7 0.09
32 21 0.28
33 25 0.33
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (29 bp):
ATAATAATAATATATATAATATAAATAAC
Found at i:26616 original size:25 final size:27
Alignment explanation
Indices: 26570--26634 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
26560 ATGTATATAG
* *
26570 TAAAATAAAT-ATTATATAAAAT-ATT
1 TAAAATAAATAAATAAATAAAATAATT
26595 TAAAATAAATAAATAAAT-AAATAATT
1 TAAAATAAATAAATAAATAAAATAATT
*
26621 TAGAAATATATAAA
1 TA-AAATAAATAAA
26635 AAAGGATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 14 0.41
26 10 0.29
27 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
TAAAATAAATAAATAAATAAAATAATT
Found at i:27927 original size:17 final size:17
Alignment explanation
Indices: 27905--27939 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27895 TTAAATGGAC
*
27905 TGTTTAATTTTATTTTT
1 TGTTTAATTTGATTTTT
27922 TGTTTAATTTGATTTTT
1 TGTTTAATTTGATTTTT
27939 T
1 T
27940 AATTTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
TGTTTAATTTGATTTTT
Found at i:30471 original size:19 final size:17
Alignment explanation
Indices: 30447--30481 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
30437 TTTTTTAAAA
30447 TAATTTATGAATTATTTAT
1 TAATTTAT--ATTATTTAT
30466 TAATTTATATTATTTA
1 TAATTTATATTATTTA
30482 AATTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TAATTTATATTATTTAT
Found at i:30486 original size:19 final size:20
Alignment explanation
Indices: 30434--30486 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
30424 ACAATTCGTG
* *
30434 TAATTTTTTAAAATAATTTA
1 TAATTATTTAAATTAATTTA
30454 TGAATTATTT--ATTAATTTA
1 T-AATTATTTAAATTAATTTA
30473 T-ATTATTTAAATTA
1 TAATTATTTAAATTA
30487 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.25
19 13 0.46
20 1 0.04
21 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TAATTATTTAAATTAATTTA
Found at i:31121 original size:15 final size:16
Alignment explanation
Indices: 31101--31134 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31091 TCTAAACCAA
31101 AATACCC-ATTAACCC
1 AATACCCGATTAACCC
*
31116 AATACCCGGTTAACCC
1 AATACCCGATTAACCC
31132 AAT
1 AAT
31135 CAGTCTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.38, C:0.35, G:0.06, T:0.21
Consensus pattern (16 bp):
AATACCCGATTAACCC
Found at i:31761 original size:22 final size:21
Alignment explanation
Indices: 31716--31761 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
31706 ATTGAACATG
*
31716 TGCATGTACGAACCTCTTCCA
1 TGCATGTACGAACCTCATCCA
* *
31737 TGCATTGTGCGAACCTCATCTA
1 TGCA-TGTACGAACCTCATCCA
31759 TGC
1 TGC
31762 GTTATGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCATGTACGAACCTCATCCA
Found at i:34001 original size:25 final size:27
Alignment explanation
Indices: 33964--34016 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
33954 TCAAACATGC
33964 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
33990 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
34016 A
1 A
34017 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:35532 original size:26 final size:26
Alignment explanation
Indices: 35502--35557 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
35492 TGAAATGCCC
35502 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35528 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35554 ATCA
1 ATCA
35558 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:37200 original size:14 final size:15
Alignment explanation
Indices: 37181--37234 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 15
37171 AATCTTCAAT
37181 GATATG-CAATCTTA
1 GATATGACAATCTTA
37195 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
37212 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
37230 GATAT
1 GATAT
37235 AATATGCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
17 14 0.41
18 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:37203 original size:19 final size:19
Alignment explanation
Indices: 37179--37250 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
37169 ATAATCTTCA
37179 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
37198 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
37215 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
37233 ATAATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
37251 AGATATGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 15 0.31
19 18 0.37
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:37207 original size:17 final size:17
Alignment explanation
Indices: 37187--37250 Score: 83
Period size: 17 Copynumber: 3.6 Consensus size: 17
37177 CAATGATATG
37187 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
37204 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
37222 CAATCTTAGATATAATA
1 CAATCTTAGATATGATA
37239 TGCAATCTTAGA
1 --CAATCTTAGA
37251 AGATATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 16 0.39
18 15 0.37
19 10 0.24
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:37225 original size:35 final size:37
Alignment explanation
Indices: 37179--37257 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
37169 ATAATCTTCA
*
37179 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATAATAGCAATCTTAGAT
37215 ATGAT-TGCAATCTTAGATATAATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATAATA-GCAATCTTAGAT
37251 A-GATATG
1 ATGATATG
37258 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATAATAGCAATCTTAGAT
Found at i:37503 original size:59 final size:59
Alignment explanation
Indices: 37411--37530 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
37401 ACAATAAAAA
37411 TTTTTGAGAGCTTTCACTCAAATTTCTCTCCCTCTTACGTTCTTATTTTCTACAGTTTG
1 TTTTTGAGAGCTTTCACTCAAATTTCTCTCCCTCTTACGTTCTTATTTTCTACAGTTTG
37470 TTTTTGAGAGCTTTCACTCAAATTTCTCTCCCTCTTACGTTCTTATTTTCTACAGTTTG
1 TTTTTGAGAGCTTTCACTCAAATTTCTCTCCCTCTTACGTTCTTATTTTCTACAGTTTG
37529 TT
1 TT
37531 CTTATTTTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.17, C:0.23, G:0.10, T:0.50
Consensus pattern (59 bp):
TTTTTGAGAGCTTTCACTCAAATTTCTCTCCCTCTTACGTTCTTATTTTCTACAGTTTG
Found at i:37624 original size:18 final size:17
Alignment explanation
Indices: 37601--37634 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
37591 TTTCCCTGAT
37601 TTTTTTTATATATTTTAA
1 TTTTTTTATA-ATTTTAA
37619 TTTTTTTATAATTTTA
1 TTTTTTTATAATTTTA
37635 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTTATAATTTTAA
Found at i:38375 original size:13 final size:13
Alignment explanation
Indices: 38357--38381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38347 CTTTTATCGA
38357 AATTTGAAAACTC
1 AATTTGAAAACTC
38370 AATTTGAAAACT
1 AATTTGAAAACT
38382 ATGATCTTTT
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:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTTGAAAACTC
Found at i:44771 original size:26 final size:26
Alignment explanation
Indices: 44742--44849 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
44732 TGGTACAAAT
44742 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44768 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44794 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44820 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44846 TGAT
1 TGAT
44850 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46366 original size:26 final size:26
Alignment explanation
Indices: 46337--46389 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
46327 TTTACAATTT
46337 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
46363 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
46389 T
1 T
46390 GCATGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:48068 original size:12 final size:12
Alignment explanation
Indices: 48038--48068 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48028 ACTCGGGGAA
*
48038 GAGGCCATGGTC
1 GAGGCCGTGGTC
48050 GAGGCCGTGGTC
1 GAGGCCGTGGTC
48062 GAGGCCG
1 GAGGCCG
48069 AGGTAGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.26, G:0.48, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:52971 original size:26 final size:26
Alignment explanation
Indices: 52942--53049 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52932 TGGTACAAAT
52942 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
52968 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52994 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53020 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53046 TGAT
1 TGAT
53050 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:54565 original size:26 final size:26
Alignment explanation
Indices: 54536--54588 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
54526 TTTACAGTTT
*
54536 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
54562 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
54588 T
1 T
54589 GCATGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:61020 original size:24 final size:24
Alignment explanation
Indices: 60988--61043 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
60978 CCAACTGTTC
60988 TTGCAATTGGTCTTGCATATCCTT
1 TTGCAATTGGTCTTGCATATCCTT
61012 TTGCAATTGGTCTTGCATATCCTT
1 TTGCAATTGGTCTTGCATATCCTT
61036 TTGCAATT
1 TTGCAATT
61044 ATTCGAACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (24 bp):
TTGCAATTGGTCTTGCATATCCTT
Found at i:65267 original size:28 final size:28
Alignment explanation
Indices: 65197--65296 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 28
65187 TTACAAATTT
65197 TAAAATTATAAATAATATAATGAATAATA
1 TAAAA-TATAAATAATATAATGAATAATA
** *
65226 TAAAACCTAAATAATATAATGGATAATA
1 TAAAATATAAATAATATAATGAATAATA
** * *
65254 TACGATATACATAACAT-AT-AATAA-A
1 TAAAATATAAATAATATAATGAATAATA
*
65279 -AAAATAATAAGTAATATA
1 TAAAAT-ATAAATAATATA
65297 TAATAAAAAT
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
24 3 0.06
25 9 0.17
26 4 0.07
27 2 0.04
28 31 0.57
29 5 0.09
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (28 bp):
TAAAATATAAATAATATAATGAATAATA
Found at i:65285 original size:11 final size:11
Alignment explanation
Indices: 65269--65344 Score: 64
Period size: 11 Copynumber: 6.5 Consensus size: 11
65259 TATACATAAC
65269 ATATAATAAAA
1 ATATAATAAAA
*
65280 AAATAATAAGTAA
1 ATATAATAA--AA
65293 TATATAATAAAA
1 -ATATAATAAAA
*
65305 ATATAATAAATGTT
1 ATATAATAAA---A
65319 ATATAAT-AAA
1 ATATAATAAAA
*
65329 ATATAATAAAT
1 ATATAATAAAA
65340 ATATA
1 ATATA
65345 TAGGAAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 7 0.13
11 25 0.47
12 2 0.04
13 4 0.08
14 15 0.28
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:65299 original size:25 final size:24
Alignment explanation
Indices: 65269--65346 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 24
65259 TATACATAAC
* *
65269 ATATAATAAAAAAATAATAAGTAAT
1 ATATAATAAAAATATAATAAAT-AT
*
65294 ATATAATAAAAATATAATAAATGTT
1 ATATAATAAAAATATAATAAAT-AT
65319 ATATAAT-AAAATATAATAAATAT
1 ATATAATAAAAATATAATAAATAT
65342 ATATA
1 ATATA
65347 GGAAAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.12
24 14 0.29
25 28 0.58
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (24 bp):
ATATAATAAAAATATAATAAATAT
Found at i:65406 original size:24 final size:25
Alignment explanation
Indices: 65382--65433 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
65372 ATTTTATATA
65382 AATATATAAATAGTATTTTTAATAAT
1 AATATATAAATAGT-TTTTTAATAAT
**
65408 AATATATGTATAGTTTTTTAA-AAT
1 AATATATAAATAGTTTTTTAATAAT
65432 AA
1 AA
65434 AAAAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (25 bp):
AATATATAAATAGTTTTTTAATAAT
Found at i:66591 original size:20 final size:21
Alignment explanation
Indices: 66562--66600 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
66552 GGTCTGTTTA
*
66562 GGTCTGGTTTAAGT-TGGGCT
1 GGTCTAGTTTAAGTCTGGGCT
66582 GGTCTAGTTTAAGTCTGGG
1 GGTCTAGTTTAAGTCTGGG
66601 TTTGCTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.13, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
GGTCTAGTTTAAGTCTGGGCT
Found at i:67276 original size:78 final size:78
Alignment explanation
Indices: 67162--67455 Score: 428
Period size: 78 Copynumber: 3.8 Consensus size: 78
67152 CGAAGAAACA
* * * *
67162 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
67227 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
67240 GATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAATACACAGCAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
67305 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
67318 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
67382 AGCACATCCAAGAT
65 AGCAGATCCAAGAT
* * *
67396 GATTTGGCATCTCTATATTAGATGGGGAGCAGATCGAAGACATAGTAGTTCTGACCTTCA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
67456 CGTGTTTACG
Statistics
Matches: 193, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
77 1 0.01
78 191 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:67704 original size:78 final size:78
Alignment explanation
Indices: 67527--67897 Score: 523
Period size: 78 Copynumber: 4.8 Consensus size: 78
67517 CAAAGAAACA
** * * * *
67527 GATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
67592 G-AGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
67604 GATTTGGCATCTTTGTATTAGACGGGGACCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
67669 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
67682 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACATTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
67746 AGCAAATCCAAGAT
65 AGCAGATCCAAGAT
* *
67760 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATAGAAGACATAACAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
67824 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
67838 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGTAGATCTGACCTTCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCA
67898 CGTGTTTACC
Statistics
Matches: 262, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
77 57 0.22
78 204 0.78
79 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:67721 original size:364 final size:365
Alignment explanation
Indices: 67023--67819 Score: 1289
Period size: 364 Copynumber: 2.2 Consensus size: 365
67013 ATAGAAGTAG
* ** * *
67023 ATCCAAGATGATTTGGCATC-CT-TGCGTT-GACAAGGAGCAGATCGAAGACATAGCGGATTTGG
1 ATCCAAGATGATTTGGCATCTCTAT--ATTAGACGGGGAGCAGATCGAAGACATAGCAGATTTGA
* * *
67085 CTTTCACGTGTTTACGTTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAA
64 CCTTCACGTGTTTACGCTGAAGCAGATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAA
* *
67150 ATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTG
129 ATCAAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAAATCTG
* * *
67215 ACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAATA
194 ACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGACCAGATCGAAGA
*
67280 CACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGG
259 CACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGG
* *
67345 AGCAGATCGAAGACATAACAGATTGGACCTTCATTGAAGCAC
324 AGCAGATCGAAGACATAACAGATTGGACATTCATTGAAGCAA
* *
67387 ATCCAAGATGATTTGGCATCTCTATATTAGATGGGGAGCAGATCGAAGACATAGTAG-TTCTGAC
1 ATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATT-TGAC
67451 CTTCACGTGTTTACGCTGAAGCAGATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAAA
65 CTTCACGTGTTTACGCTGAAGCAGATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAAA
**
67516 TCAAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAGACATAGCAAATCTGA
130 TCAAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAAATCTGA
*
67581 CCTTCATTGAAG-AGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGACCAGATCGAAGAC
195 CCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGACCAGATCGAAGAC
* *
67645 ACAGTAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGA
260 ACAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGA
67710 GCAGATCGAAGACATAACAGATTGGACATTCATTGAAGCAA
325 GCAGATCGAAGACATAACAGATTGGACATTCATTGAAGCAA
* * * *
67751 ATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATAGAAGACATAACAGATTAGACC
1 ATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATTTGACC
67816 TTCA
66 TTCA
67820 TTGAAGTAGA
Statistics
Matches: 399, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
364 233 0.58
365 165 0.41
366 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (365 bp):
ATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATTTGACC
TTCACGTGTTTACGCTGAAGCAGATCTAAGATAATTTGGCATCTCTGTACTGTCAGAGAACAAAT
CAAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAAATCTGAC
CTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGACCAGATCGAAGACA
CAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAG
CAGATCGAAGACATAACAGATTGGACATTCATTGAAGCAA
Found at i:67986 original size:442 final size:443
Alignment explanation
Indices: 67162--68451 Score: 1915
Period size: 442 Copynumber: 2.9 Consensus size: 443
67152 CGAAGAAACA
* * *
67162 GATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTAGACGGAGACCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* * *
67227 GTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAATACACAGCAGATCT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
67292 AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
131 AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
* *
67357 ACATAACAGATTGGACCTTCATTGAAGCACATCCAAGATGATTTGGCATCTCTATATTAGATGGG
196 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGG
* *
67422 GAGCAGATCGAAGACATAGTAGTTCTGACCTTCACGTGTTTACGCTGAAGCAGATCTAAGATAAT
261 GAGCAGATCGAAGACATAGTAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATAAT
* *
67487 TTGGCATCTCTGTACTGTCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGATGG
326 TTGGCATCTCTGTACTATCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGG
*
67552 AGAGCAGATCGAAGACATAGCAAATCTGACCTTCATTGAAG-AGATCCAAGAT
391 AGAGCAGATCAAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCCAAGAT
*** * * *
67604 GATTTGGCATCTTTGTATTAGACGGGGACCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTAGACGGAGACCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* * *
67669 GCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGAT-T
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
* * * *
67733 GGACATTCATTGAAGCAAATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATAGAA
131 -AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
* *
67798 GACATAACAGATTAGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGATGG
195 GACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGG
* *
67863 GGAGTAGATCGAAGACATAGTAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATGA
260 GGAGCAGATCGAAGACATAGTAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATAA
* *
67928 TTTGGCATCTCTGTACTATCAGTGAACAAAT-AGAAGAAACAGATTTGGCGTCTCCATATTCGAC
325 TTTGGCATCTCTGTACTATCAGAGAACAAATCA-AAGAAACAGATTTGGCATCTCCATATTCGAC
* *
67992 GGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAATAT
389 GGAGAGCAGATCAAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCCAAGAT
* * ** * *
68047 GATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAGCAAATCTGACCTTTATTGAA
1 GATTTGGCATCTCCATATTAGACGGAGACCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
68112 GCAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
66 GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
* *
68177 AACCTTCATTGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAG
131 AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
*
68242 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
196 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGG
* * * * * * *
68307 GAGCAGATCGAAAACATAGCAGATCTGACCTTCATGTGTTT-TCATCGAAGCAAATCCAAGATGA
261 GAGCAGATCGAAGACATAGTAGATCTGACCTTCACGTGTTTACCCT-GAAGCAGATCTAAGAT--
* * * * * **
68371 CAGATTTGGCATCTCTGTATTAGAT-GGGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTA
323 -A-ATTTGGCATCTCTGTACT--ATCAGAGAACAAATCAAAGA-AACAGATTTGGCATCTCCATA
* *
68435 TTAGACGGGGAGCAGAT
383 TTCGACGGAGAGCAGAT
68452 TGAAGAAGCA
Statistics
Matches: 757, Mismatches: 78, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
441 2 0.00
442 396 0.52
443 294 0.39
444 1 0.00
447 17 0.02
448 11 0.01
449 36 0.05
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (443 bp):
GATTTGGCATCTCCATATTAGACGGAGACCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
AACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGATGGG
GAGCAGATCGAAGACATAGTAGATCTGACCTTCACGTGTTTACCCTGAAGCAGATCTAAGATAAT
TTGGCATCTCTGTACTATCAGAGAACAAATCAAAGAAACAGATTTGGCATCTCCATATTCGACGG
AGAGCAGATCAAAGACATAGCAAATCTGACCTTCATTGAAGCAGATCCAAGAT
Found at i:68067 original size:78 final size:78
Alignment explanation
Indices: 67969--68341 Score: 541
Period size: 78 Copynumber: 4.8 Consensus size: 78
67959 AGAAGAAACA
* ** * *
67969 GATTTGGCGTCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
68034 GCAGATCCAATAT
66 GCAGATCCAAGAT
** * * * * *
68047 GATTTGGCATCTCCATATTCGATGGAGAGTAGATCGAAGACATAGCAAATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
68112 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
68125 GATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
68190 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
68203 AATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
68267 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
68281 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAAACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
68342 GTGTTTTCAT
Statistics
Matches: 265, Mismatches: 28, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
77 1 0.00
78 263 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:68406 original size:45 final size:45
Alignment explanation
Indices: 68355--68539 Score: 201
Period size: 45 Copynumber: 4.3 Consensus size: 45
68345 TTTTCATCGA
*
68355 AGCAAATCCAAGATGACAGATTTGGCATCTCTGTATTAGATGGGG
1 AGCAAATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
*
68400 AGCAAAT-CAGAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAAATCCA-AGATGACAGATTTGGCATCTCTGTATTAGACGGGG
* ** *
68445 AGCAGATTGAAGAAG-CAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAAATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
* *
68489 AGCAGAT-C---A--A-AGATTTGGCGTCTCTGTATTAGAC-GGG
1 AGCAAATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
* *
68526 AGCAGATCAAAGAT
1 AGCAAATCCAAGAT
68540 TGCTGATATT
Statistics
Matches: 123, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
37 10 0.08
38 23 0.19
40 1 0.01
41 1 0.01
44 38 0.31
45 49 0.40
46 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (45 bp):
AGCAAATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:68513 original size:38 final size:38
Alignment explanation
Indices: 68417--68540 Score: 169
Period size: 44 Copynumber: 3.1 Consensus size: 38
68407 CAGAGATAAC
*
68417 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGAA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGA-T---CAA
68459 GCAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
1 --AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
*
68499 AGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCAA
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
68536 AGATT
1 AGATT
68541 GCTGATATTG
Statistics
Matches: 78, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
37 18 0.23
38 23 0.29
40 2 0.03
43 1 0.01
44 34 0.44
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.27
Consensus pattern (38 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAA
Found at i:68967 original size:35 final size:37
Alignment explanation
Indices: 68896--68993 Score: 132
Period size: 35 Copynumber: 2.7 Consensus size: 37
68886 ATAATCTTCA
*
68896 ATGATATGTAATCTTAGATATGATATGCAAGCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAAGCTTAGAT
*
68934 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAAGCTTAGAT
68969 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
68994 ATTTTGTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 21 0.38
36 18 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAAGCTTAGAT
Found at i:68993 original size:17 final size:19
Alignment explanation
Indices: 68896--68986 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
68886 ATAATCTTCA
*
68896 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
68915 ATGATATGCAAGCTTAGAT
1 ATGATATGCAATCTTAGAT
68934 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
68951 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
68969 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
68987 AGATATGATT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.24
19 35 0.53
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:69012 original size:22 final size:22
Alignment explanation
Indices: 68896--69009 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 22
68886 ATAATCTTCA
*
68896 ATGATATGTAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
68915 ATGATATGCAAGCTTAG---AT
1 ATGATATGCAATCTTAGAAGAT
68934 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
68951 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
68969 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
68991 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
69010 GATTTAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
17 13 0.16
18 16 0.20
19 30 0.38
22 8 0.10
23 12 0.15
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:69298 original size:17 final size:17
Alignment explanation
Indices: 69274--69308 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
69264 TGTTTCCCTG
*
69274 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
69292 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
69309 GTATCATATC
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Done.