Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 132 of 343
Found at i:44466951 original size:32 final size:32
Alignment explanation
Indices: 44466914--44466977 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
44466904 AGATAATAGT
*
44466914 TAATTATAGAT-TTATAATAATTATATATTAAA
1 TAATTATAGATATTATAA-AATTATATAGTAAA
**
44466946 TAATTATATTTATTATAAAATTATATAGTAAA
1 TAATTATAGATATTATAAAATTATATAGTAAA
44466978 AATAAGGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
TAATTATAGATATTATAAAATTATATAGTAAA
Found at i:44467035 original size:23 final size:23
Alignment explanation
Indices: 44467000--44467065 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
44466990 AATATATTAT
* *
44467000 TATAAAAAATAAAAAATAAATAA
1 TATATAAATTAAAAAATAAATAA
**
44467023 TATATAAATTAAAAAAATTTATAA
1 TATATAAATT-AAAAAATAAATAA
* *
44467047 AAT-TAAATTATAAAATAAA
1 TATATAAATTAAAAAATAAA
44467066 AAATTAAAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
22 7 0.21
23 14 0.41
24 13 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TATATAAATTAAAAAATAAATAA
Found at i:44467037 original size:24 final size:22
Alignment explanation
Indices: 44467009--44467073 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 22
44466999 TTATAAAAAA
*
44467009 TAAAAAATAAATAATATATAAAT
1 TAAAAAATAAATAAAAT-TAAAT
**
44467032 TAAAAAAATTTATAAAATTAAAT
1 T-AAAAAATAAATAAAATTAAAT
*
44467055 TATAAAAT-AA-AAAATTAAA
1 TAAAAAATAAATAAAATTAAA
44467074 AGAATAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.25
21 1 0.03
22 6 0.17
23 7 0.19
24 13 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAAATAAATAAAATTAAAT
Found at i:44467066 original size:28 final size:27
Alignment explanation
Indices: 44467033--44467113 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 27
44467023 TATATAAATT
44467033 AAAAAAATTTATAAAATTAAATTATAA
1 AAAAAAATTTATAAAATTAAATTATAA
* *
44467060 AATAAAAAATTA-AAAGAATAAA-TATTAA
1 AA-AAAAATTTATAAA-ATTAAATTA-TAA
* *
44467088 AAAAATATATT-TAAAATTTAATTATA
1 AAAAAAAT-TTATAAAATTAAATTATA
44467114 TATATAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
27 17 0.40
28 25 0.60
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAAAAATTTATAAAATTAAATTATAA
Found at i:44467087 original size:53 final size:55
Alignment explanation
Indices: 44467005--44467113 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 55
44466995 ATTATTATAA
44467005 AAAATAAAAAATAAATAATATATAAATTAAAAAAAT-T-TATAAAATTAAATTAT
1 AAAATAAAAAATAAATAATATATAAATTAAAAAAATATATATAAAATTAAATTAT
* *
44467058 AAAATAAAAAATTAAA-AGA-ATA-AATATTAAAAAAATATATTTAAAATTTAATTAT
1 AAAATAAAAAA-TAAATA-ATATATAA-ATTAAAAAAATATATATAAAATTAAATTAT
44467113 A
1 A
44467114 TATATAATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
52 2 0.04
53 26 0.53
54 6 0.12
55 15 0.31
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (55 bp):
AAAATAAAAAATAAATAATATATAAATTAAAAAAATATATATAAAATTAAATTAT
Found at i:44467179 original size:13 final size:14
Alignment explanation
Indices: 44467161--44467241 Score: 53
Period size: 13 Copynumber: 5.7 Consensus size: 14
44467151 AATAAAATAT
44467161 TTATAATTAT-TAA
1 TTATAATTATATAA
44467174 TTATAA-TATATAA
1 TTATAATTATATAA
* *
44467187 TATATAA-TA-AGAT
1 T-TATAATTATATAA
*
44467200 TTATAATATATACAAA
1 TTATAAT-TATA-TAA
*
44467216 TTATATTTATATAGA
1 TTATAATTATATA-A
44467231 TTATATATTAT
1 TTATA-ATTAT
44467242 TATATTTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
12 8 0.15
13 13 0.25
14 10 0.19
15 11 0.21
16 11 0.21
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (14 bp):
TTATAATTATATAA
Found at i:44467479 original size:24 final size:25
Alignment explanation
Indices: 44467422--44467479 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
44467412 TAATTATTAT
* *
44467422 AATAATATAATATATAAAATATTAA
1 AATAAAATAATATATAAAATAATAA
* * *
44467447 AAGATAATATTATAT-AAATAATAA
1 AATAAAATAATATATAAAATAATAA
44467471 AATAAAATA
1 AATAAAATA
44467480 GGATATAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AATAAAATAATATATAAAATAATAA
Found at i:44467605 original size:39 final size:42
Alignment explanation
Indices: 44467538--44467633 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 42
44467528 TATAAGATAT
*
44467538 ATTAAAAA-ATT-ATAAATATAAATAATAATATA-ATAATTAAA
1 ATTAAAAATATTAAT-AATATAAATAATAATA-AGAAAATTAAA
44467579 A-TAAAAATATTAATAATAT-AAT-ATAATAAGAAAATTAAA
1 ATTAAAAATATTAATAATATAAATAATAATAAGAAAATTAAA
* *
44467618 ATTAAATATATAAATA
1 ATTAAAAATATTAATA
44467634 CCTAAAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
38 1 0.02
39 15 0.31
40 21 0.44
41 9 0.19
42 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (42 bp):
ATTAAAAATATTAATAATATAAATAATAATAAGAAAATTAAA
Found at i:44467618 original size:34 final size:31
Alignment explanation
Indices: 44467534--44467630 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 31
44467524 ATTATATAAG
* *
44467534 ATATATTAAAAAATTATAAATATAAATAATA
1 ATATAATAAAAAATTAAAAATATAAATAATA
*
44467565 ATATAATAATTAAAA-TAAAAATATTAATAATATA
1 ATATAATAA--AAAATTAAAAATATAAAT-A-ATA
44467599 ATATAATAAGAAAATT-AAAAT-TAAATATATA
1 ATATAATAA-AAAATTAAAAATATAAATA-ATA
44467630 A
1 A
44467631 ATACCTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 14 0.25
32 15 0.27
33 14 0.25
34 13 0.23
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (31 bp):
ATATAATAAAAAATTAAAAATATAAATAATA
Found at i:44467783 original size:18 final size:19
Alignment explanation
Indices: 44467733--44467783 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
44467723 TTAAATATAT
*
44467733 ATAATATATATATTATTTTA
1 ATAAT-TATATATTATTCTA
*
44467753 ATTATTA-ATATTATTCTA
1 ATAATTATATATTATTCTA
44467771 ATAATTATA-ATTA
1 ATAATTATATATTA
44467784 ATATAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 20 0.74
19 3 0.11
20 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTATATATTATTCTA
Found at i:44467912 original size:9 final size:9
Alignment explanation
Indices: 44467898--44467927 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
44467888 GTTAATAGTA
44467898 ATTAATAAT
1 ATTAATAAT
44467907 ATTAATAAAT
1 ATTAAT-AAT
44467917 ATTAATAAT
1 ATTAATAAT
44467926 AT
1 AT
44467928 GGAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAATAAT
Found at i:44467925 original size:13 final size:13
Alignment explanation
Indices: 44467909--44468042 Score: 51
Period size: 13 Copynumber: 10.8 Consensus size: 13
44467899 TTAATAATAT
44467909 TAATAAATATTAA
1 TAATAAATATTAA
44467922 TAATATGGAATATTAA
1 TAATA---AATATTAA
*
44467938 TATTAAAT-TTATA
1 TAATAAATATTA-A
44467951 TAATAAAT-TT-A
1 TAATAAATATTAA
*
44467962 TCAGT-AAT-TT-A
1 T-AATAAATATTAA
* *
44467973 TTATATATA-TAA
1 TAATAAATATTAA
*
44467985 TAATAAATA-AAA
1 TAATAAATATTAA
*
44467997 TTATAAATA-TAA
1 TAATAAATATTAA
*
44468009 TATATTAA-ATTAA
1 TA-ATAAATATTAA
44468022 T-AT-AAT-TTAA
1 TAATAAATATTAA
44468032 TAATTAAATAT
1 TAA-TAAATAT
44468043 ATATATATAA
Statistics
Matches: 93, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
10 8 0.09
11 15 0.16
12 28 0.30
13 29 0.31
14 1 0.01
16 12 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (13 bp):
TAATAAATATTAA
Found at i:44468012 original size:31 final size:33
Alignment explanation
Indices: 44467974--44468058 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 33
44467964 AGTAATTTAT
*
44467974 TATATATATAATAATAAATAAAATTA-TAAATA
1 TATATATATAATAATAAATAAAATAATTAAATA
**
44468006 TA-ATATATTAAATTAATATAATTTAATAATTAAATA
1 TATATATA-T-AA-TAATA-AATAAAATAATTAAATA
44468042 TATATATATAAT-ATAAA
1 TATATATATAATAATAAA
44468059 GTTTAATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
31 5 0.11
32 5 0.11
33 5 0.11
34 6 0.14
35 9 0.20
36 9 0.20
37 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TATATATATAATAATAAATAAAATAATTAAATA
Found at i:44468017 original size:26 final size:25
Alignment explanation
Indices: 44467972--44468041 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
44467962 TCAGTAATTT
*
44467972 ATTATATATATAATAA-TAAATAAA
1 ATTATAAATATAATAATTAAATAAA
*
44467996 ATTATAAATATAATATATTAAAT-TA
1 ATTATAAATATAATA-ATTAAATAAA
*
44468021 A-TAT-AATTTAATAATTAAATA
1 ATTATAAATATAATAATTAAATA
44468042 TATATATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.17
23 8 0.20
24 17 0.43
25 3 0.08
26 5 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTATAAATATAATAATTAAATAAA
Found at i:44468023 original size:18 final size:18
Alignment explanation
Indices: 44468000--44468091 Score: 66
Period size: 18 Copynumber: 5.0 Consensus size: 18
44467990 AATAAAATTA
44468000 TAAATATAATATATTAAAT
1 TAAATATAATATATT-AAT
* *
44468019 T-AATATAATTTAATAAT
1 TAAATATAATATATTAAT
44468036 TAAATAT-ATATATATAAT
1 TAAATATAATATAT-TAAT
*
44468054 ATAAAGTTTAATATTATT-AT
1 -TAAA-TATAATA-TATTAAT
*
44468074 TAAA-ATATGTATATTAAT
1 TAAATATA-ATATATTAAT
44468092 ATATATAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
17 14 0.24
18 24 0.41
19 9 0.16
20 4 0.07
21 4 0.07
22 3 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATATAATATATTAAT
Found at i:44468167 original size:12 final size:12
Alignment explanation
Indices: 44468152--44468216 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
44468142 AGGATTATAT
44468152 ATATAATTATTA
1 ATATAATTATTA
44468164 ATATAATTATTA
1 ATATAATTATTA
* *
44468176 AAATAACTATATA
1 ATATAATTAT-TA
*
44468189 AT-TATATGA-TA
1 ATATA-ATTATTA
44468200 AT-TAATATATTA
1 ATATAAT-TATTA
44468212 ATATA
1 ATATA
44468217 TAAATATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
10 2 0.05
11 7 0.17
12 26 0.62
13 7 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (12 bp):
ATATAATTATTA
Found at i:44468195 original size:28 final size:30
Alignment explanation
Indices: 44468183--44468357 Score: 83
Period size: 28 Copynumber: 6.1 Consensus size: 30
44468173 TTAAAATAAC
* *
44468183 TATATAATTATATGATAATTAATATATTAA
1 TATATAAATATATAATAATTAATATATTAA
44468213 TATATAAATATATAATAA-T-ATATATATAGA
1 TATATAAATATATAATAATTAATATAT-TA-A
* ** *
44468243 AAT-TAAATATA-ATATGTTTAATAT-TAAA
1 TATATAAATATATA-ATAATTAATATATTAA
*
44468271 TATATAAA-A-A-AAT-ATAAATATATTAA
1 TATATAAATATATAATAATTAATATATTAA
* *
44468297 -ATATAGGATTTA-AATAA-TAATATA-TAA
1 TATATA-AATATATAATAATTAATATATTAA
*
44468324 TATAGGAAAAAATATATAATAA-TAATATA-TAA
1 TAT----ATAAATATATAATAATTAATATATTAA
44468356 TA
1 TA
44468358 ATTAATAAGT
Statistics
Matches: 112, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
25 11 0.10
26 6 0.05
27 5 0.04
28 23 0.21
29 19 0.17
30 21 0.19
31 8 0.07
32 19 0.17
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (30 bp):
TATATAAATATATAATAATTAATATATTAA
Found at i:44468207 original size:20 final size:18
Alignment explanation
Indices: 44468164--44468236 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 18
44468154 ATAATTATTA
* *
44468164 ATATAATTATTAAAATAACT
1 ATATAATTA-T-ATATAATT
44468184 ATATAATTATATGATAATT
1 ATATAATTATAT-ATAATT
*
44468203 A-ATATATTAATATATAAAT
1 ATATA-ATT-ATATATAATT
*
44468222 ATATAATAATATATA
1 ATATAATTATATATA
44468237 TATAGAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.24
19 18 0.40
20 16 0.36
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTATATATAATT
Found at i:44468296 original size:48 final size:50
Alignment explanation
Indices: 44468152--44468325 Score: 129
Period size: 50 Copynumber: 3.6 Consensus size: 50
44468142 AGGATTATAT
* * *
44468152 ATATAAT-TATT-A-ATATAATTAT-TAA-AATAACTATATAATTATATGATA
1 ATATAATATATTAATATATAAATATATAATAATAA--ATATAAATATATTA-A
* * * *
44468200 AT-TAATATATTAATATATAAATATATAATAATATATATATAGAAATTAA
1 ATATAATATATTAATATATAAATATATAATAATAAATATAAATATATTAA
*
44468249 ATATAATATGTTTAATAT-TAAATATATAA-AA-AAATATAAATATATTAA
1 ATATAATAT-ATTAATATATAAATATATAATAATAAATATAAATATATTAA
**
44468297 ATATAGGAT-TTAA-ATA-ATAATATATAATA
1 ATATAATATATTAATATATA-AATATATAATA
44468326 TAGGAAAAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 21
0.74 0.10 0.15
Matches are distributed among these distances:
45 3 0.03
46 13 0.13
47 5 0.05
48 26 0.25
49 6 0.06
50 35 0.34
51 10 0.10
52 4 0.04
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.41
Consensus pattern (50 bp):
ATATAATATATTAATATATAAATATATAATAATAAATATAAATATATTAA
Found at i:44468376 original size:13 final size:11
Alignment explanation
Indices: 44468337--44468377 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
44468327 AGGAAAAAAT
44468337 ATATAATAATA
1 ATATAATAATA
44468348 ATAT-ATAATA
1 ATATAATAATA
44468358 AT-TAATAAGTTA
1 ATATAATAA--TA
44468370 ATATAATA
1 ATATAATA
44468378 TTATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 12 0.46
11 4 0.15
12 4 0.15
13 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATATAATAATA
Found at i:44468554 original size:25 final size:25
Alignment explanation
Indices: 44468526--44468911 Score: 64
Period size: 25 Copynumber: 15.9 Consensus size: 25
44468516 AATAAGGGGT
44468526 ATATATTATAAATATATATATATAA
1 ATATATTATAAATATATATATATAA
* *
44468551 ATATTTTATATAATAATTTATATATTAA
1 ATATATTATA-AAT-ATATATATA-TAA
** *
44468579 A-ATAAAATAAATATTAATATTTTATAA
1 ATATATTATAAATA-T-ATA-TATATAA
* * *
44468606 TAAATTTTATAAATAT-TAAATCATAA
1 -ATATATTATAAATATATATAT-ATAA
* *
44468632 GTAAATTAT--ATA-A-ATA-ATAA
1 ATATATTATAAATATATATATATAA
* *
44468652 AT-TATTA-AAA-AAATATAGA-AA
1 ATATATTATAAATATATATATATAA
* *
44468673 ATAT-TTAT-ATTATA-AAAT-TAA
1 ATATATTATAAATATATATATATAA
* * *
44468694 GT-TAATATAGATATA-ATATATAA
1 ATATATTATAAATATATATATATAA
* *
44468717 TTAGCA-TATATAATATA-AT-TAT-A
1 ATA-TATTATA-AATATATATATATAA
* *
44468740 AT-TATTA-ATATATAT-TAAATAA
1 ATATATTATAAATATATATATATAA
* *
44468762 A-ATA-AATATAATATTATAATCTATATA
1 ATATATTATA-AATA-TAT-ATATATA-A
44468789 ATA-ATATATAAATATATA-ATATATA
1 ATATAT-TATAAATATATATATATA-A
*
44468814 TTATATTAT--AT-TATATATATAA
1 ATATATTATAAATATATATATATAA
* * * *
44468836 ATAAATTATTAGATATATATATTTAT
1 ATATATTA-TAAATATATATATATAA
* *
44468862 ATA-AATATAAAT-TATATAATTAAAAA
1 ATATATTATAAATATATAT-A-T-ATAA
* *
44468888 ATAAATTCTAAAATATATATATAT
1 ATATATTAT-AAATATATATATAT
44468912 TTAATAATAT
Statistics
Matches: 256, Mismatches: 54, Indels: 101
0.62 0.13 0.25
Matches are distributed among these distances:
19 5 0.02
20 14 0.05
21 24 0.09
22 31 0.12
23 25 0.10
24 15 0.06
25 41 0.16
26 37 0.14
27 28 0.11
28 19 0.07
29 17 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATATTATAAATATATATATATAA
Found at i:44468644 original size:27 final size:26
Alignment explanation
Indices: 44468602--44468653 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
44468592 TTAATATTTT
* *
44468602 ATAATAAATTTTATAAATATTAAATC
1 ATAATAAATTATATAAATAATAAATC
44468628 ATAAGTAAATTATATAAATAATAAAT
1 ATAA-TAAATTATATAAATAATAAAT
44468654 TATTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAATAAATTATATAAATAATAAATC
Found at i:44468652 original size:16 final size:16
Alignment explanation
Indices: 44468628--44468660 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44468618 ATATTAAATC
44468628 ATAAGTAAATTATATAA
1 ATAAGTAAATTAT-TAA
44468645 ATAA-TAAATTATTAA
1 ATAAGTAAATTATTAA
44468660 A
1 A
44468661 AAAATATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAGTAAATTATTAA
Found at i:44468752 original size:20 final size:21
Alignment explanation
Indices: 44468707--44469588 Score: 77
Period size: 20 Copynumber: 41.9 Consensus size: 21
44468697 AATATAGATA
**
44468707 TAATATATAATTAGCATATA-
1 TAATATATAATTATAATATAT
44468727 T-A-ATATAATTATAAT-TAT
1 TAATATATAATTATAATATAT
* *
44468745 TAATATAT-ATTA-AATAAAA
1 TAATATATAATTATAATATAT
44468764 TAA-ATATAATATTATAATCTATAT
1 TAATATAT-A-ATTATAA--TATAT
44468788 AATAATATATAAATATATAATATA-
1 --TAATATAT-AAT-TATAATATAT
*
44468812 TATTATATTATATTAT-ATATAT
1 TAATATA-TA-ATTATAATATAT
* * *
44468834 AAATAAATTATTAGATATATATATT
1 TAATATATAATT--ATA-ATATA-T
44468859 TATATAAATATAAATTAT-ATA-AT
1 TA-AT--ATAT-AATTATAATATAT
* * * *
44468882 TAAAAAATAAATTCTAAAATA-
1 TAATATAT-AATTATAATATAT
* *
44468903 T-ATATATATTTAATAATATTAGG
1 TAATATATAATT-ATAATA-TA-T
* *
44468926 TAGTGTATAATTATAATTAGATAT
1 TAATATATAATTATAA-T--ATAT
*
44468950 TAATTAAATGTAATTATATATATAAT
1 TAA-T--ATATAATTATA-ATAT-AT
*
44468976 TAATTAATAATAATTA-AGA-AAAT
1 TAA-T-AT-ATAATTATA-ATATAT
44468999 T-A-ATAT-ATTATAATATAT
1 TAATATATAATTATAATATAT
* * * *
44469017 AAATAATATTATACATAATGTAT
1 TAAT-ATATAAT-TATAATATAT
* *
44469040 TAA-A-ATAATTATAATAAAA
1 TAATATATAATTATAATATAT
* *
44469059 TAATA-ATTATTATTATTATTAT
1 TAATATATAATTA-TAATA-TAT
*
44469081 TATATATATATATAATAATATAATT
1 TA-ATATATA-ATTATAATAT-A-T
*
44469106 TAA-AAATAATTAATATATAATAT
1 TAATATATAATT-ATA-AT-ATAT
* *
44469129 T--TATATAA--ATACTATAA
1 TAATATATAATTATAATATAT
* *
44469146 GAATATAT-ATTAT-ATATAA
1 TAATATATAATTATAATATAT
* *
44469165 TAATATATTATT-TTATA-AT
1 TAATATATAATTATAATATAT
*
44469184 TAATAT-TTATTA-AATATA-
1 TAATATATAATTATAATATAT
*
44469202 TAATATATAA-AATTAATA-AT
1 TAATATATAATTA-TAATATAT
44469222 T-ATA-A-AATTA-AGGA-ATAT
1 TAATATATAATTATA--ATATAT
*
44469240 TAAT-TAATATTTAT-ATATAT
1 TAATAT-ATAATTATAATATAT
* *
44469260 ATAATATTTAATATATATATATAG
1 -TAATATATAAT-TATA-ATATAT
* * *
44469284 T-ATATTTTATATAGAATATAAT
1 TAATATATAAT-TATAATAT-AT
*
44469306 ATAATA-ATATATTA-AAAATA-
1 -TAATATATA-ATTATAATATAT
44469326 TAATATATATATTATAATA-AT
1 TAATATATA-ATTATAATATAT
44469347 ATAATAT-TAA-TATAATATA-
1 -TAATATATAATTATAATATAT
*
44469366 -AA-ATA-AA-TATAATAGAT
1 TAATATATAATTATAATATAT
* * *
44469383 AAATA-ATTATTTAAAATTAATAT
1 TAATATA-TAATTATAA-T-ATAT
*
44469406 TAAATATAATAATTATATTAATAT
1 T-AATAT-ATAATTATAAT-ATAT
* * * *
44469430 TTATAAATATATTATAAGATAA
1 TAATATATA-ATTATAATATAT
44469452 TAATA-ATATATTATAA-ATTAT
1 TAATATATA-ATTATAATA-TAT
* * *
44469473 TAA-ATATAATAAGAA-ATAAA
1 TAATATATAATTATAATAT-AT
44469493 TAA-ATATAATATATAATAATAT
1 TAATATATAAT-TATAAT-ATAT
*
44469515 TTATAT-TAATAATATAA-A-AT
1 TAATATATAAT--TATAATATAT
* * *
44469535 T-ATTTATTATTAT-ATA-AA
1 TAATATATAATTATAATATAT
*
44469553 TAA-ATAT-ATTATAA-A-AA
1 TAATATATAATTATAATATAT
44469570 TAATATATAAATTATAATA
1 TAATATAT-AATTATAATA
44469589 ATAATAGGGT
Statistics
Matches: 636, Mismatches: 100, Indels: 251
0.64 0.10 0.25
Matches are distributed among these distances:
16 13 0.02
17 27 0.04
18 65 0.10
19 81 0.13
20 98 0.15
21 73 0.11
22 78 0.12
23 64 0.10
24 52 0.08
25 33 0.05
26 22 0.03
27 23 0.04
28 4 0.01
29 3 0.00
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATATATAATTATAATATAT
Found at i:44468789 original size:17 final size:16
Alignment explanation
Indices: 44468734--44468881 Score: 80
Period size: 14 Copynumber: 10.0 Consensus size: 16
44468724 ATATAATATA
44468734 ATTATAATTAT-TAAT
1 ATTATAATTATATAAT
*
44468749 A-TAT-ATTAAATAA-
1 ATTATAATTATATAAT
44468762 A--ATAA--ATATAAT
1 ATTATAATTATATAAT
44468774 ATTATAATCTATATAAT
1 ATTATAAT-TATATAAT
*
44468791 AATATATAAATATATAAT
1 -AT-TATAATTATATAAT
*
44468809 A-TAT-ATTATATTAT
1 ATTATAATTATATAAT
44468823 ATTAT-A-TATATAA-
1 ATTATAATTATATAAT
44468836 A-TA-AATTAT-TAGAT
1 ATTATAATTATATA-AT
*
44468850 ATATATATTTATATAA-
1 AT-TATAATTATATAAT
44468866 A-TATAAATTATATAAT
1 ATTAT-AATTATATAAT
44468882 TAAAAAATAA
Statistics
Matches: 104, Mismatches: 8, Indels: 41
0.68 0.05 0.27
Matches are distributed among these distances:
11 5 0.05
12 8 0.08
13 11 0.11
14 29 0.28
15 17 0.16
16 3 0.03
17 14 0.13
18 12 0.12
19 5 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
ATTATAATTATATAAT
Found at i:44468792 original size:12 final size:12
Alignment explanation
Indices: 44468722--44468835 Score: 51
Period size: 12 Copynumber: 10.5 Consensus size: 12
44468712 TATAATTAGC
44468722 ATAT-ATAATAT
1 ATATAATAATAT
*
44468733 A-ATTATAAT-T
1 ATATAATAATAT
44468743 AT-TAAT-ATAT
1 ATATAATAATAT
44468753 AT-TAAATAA-A-
1 ATAT-AATAATAT
44468763 ATA-AAT-ATA-
1 ATATAATAATAT
* *
44468772 ATATTATAATCT
1 ATATAATAATAT
44468784 ATATAATAATAT
1 ATATAATAATAT
44468796 ATA-AAT-ATAT
1 ATATAATAATAT
*
44468806 A-ATATATATTAT
1 ATATA-ATAATAT
*
44468818 AT-TATATTATAT
1 ATATA-ATAATAT
44468830 ATATAA
1 ATATAA
44468836 ATAAATTATT
Statistics
Matches: 80, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
8 1 0.01
9 10 0.12
10 21 0.26
11 17 0.21
12 29 0.36
13 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:44468797 original size:2 final size:2
Alignment explanation
Indices: 44468767--44468879 Score: 70
Period size: 2 Copynumber: 62.5 Consensus size: 2
44468757 AATAAAATAA
* *
44468767 AT AT A- AT AT -T AT A- AT CT AT AT A- AT A- AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
44468804 AT A- AT AT AT AT -T AT AT -T AT AT -T AT AT AT AT AA AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
44468842 -T AT -T AG AT AT AT AT AT TT AT AT AA AT AT AA AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44468880 ATTAAAAAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
1 12 0.14
2 71 0.86
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:44468829 original size:32 final size:32
Alignment explanation
Indices: 44468704--44468879 Score: 100
Period size: 32 Copynumber: 5.4 Consensus size: 32
44468694 GTTAATATAG
* *
44468704 ATATAATATATAATTAGCA-TATATAATAT-AAT
1 ATATAATATAT-ATTA-TATTATATTATATAAAT
* *
44468736 -TATAAT-TAT-TAATA-TATATTAAATAAAAT
1 ATATAATATATATTATATTATATTATAT-AAAT
* *
44468765 AAATATAATATTATAATCTATATAATAATATATAAAT
1 --ATATAATA-TAT-AT-TATATTATATTATATAAAT
*
44468802 ATATAATATATATTATATTATATTATATATAT
1 ATATAATATATATTATATTATATTATATAAAT
*
44468834 AAATAA-AT-TATTAGATATATATATTTATATAAAT
1 ATATAATATATATT--ATAT-TATA-TTATATAAAT
44468868 ATA-AATTATATA
1 ATATAA-TATATA
44468880 ATTAAAAAAT
Statistics
Matches: 112, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
27 9 0.08
28 2 0.02
29 3 0.03
30 7 0.06
31 8 0.07
32 31 0.28
33 8 0.07
34 17 0.15
35 10 0.09
36 3 0.03
37 7 0.06
38 7 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATAATATATATTATATTATATTATATAAAT
Found at i:44468862 original size:6 final size:6
Alignment explanation
Indices: 44468767--44468879 Score: 70
Period size: 5 Copynumber: 20.8 Consensus size: 6
44468757 AATAAAATAA
* *
44468767 ATATA- ATAT-T ATA-AT CTATAT A-ATA- ATATAT AAATAT ATA-AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * *
44468809 ATATAT -TATAT -TATAT -TATAT ATATAA ATAAAT -TAT-T AGATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * *
44468852 ATATAT TTATAT AAATAT AAAT-T ATATA
1 ATATAT ATATAT ATATAT ATATAT ATATA
44468880 ATTAAAAAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
4 2 0.02
5 44 0.52
6 38 0.45
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:44468990 original size:14 final size:16
Alignment explanation
Indices: 44468960--44468992 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
44468950 TAATTAAATG
44468960 TAATTATATATATAAT
1 TAATTATATATATAAT
44468976 TAATTA-ATA-ATAAT
1 TAATTATATATATAAT
44468990 TAA
1 TAA
44468993 GAAAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 3 0.18
16 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTATATATATAAT
Found at i:44469034 original size:23 final size:22
Alignment explanation
Indices: 44468999--44469349 Score: 75
Period size: 23 Copynumber: 15.8 Consensus size: 22
44468989 TTAAGAAAAT
*
44468999 TAATA-TATTATAATATATAAA
1 TAATATTATAATAATATATAAA
* *
44469020 TAATATTATACATAATGTATTAA
1 TAATATTATA-ATAATATATAAA
* *
44469043 -AATAATTATAATAAAATAATAAT
1 TAAT-ATTATAATAATAT-ATAAA
* * * *
44469066 TATTATTATTATTAT-TATATA
1 TAATATTATAATAATATATAAA
44469087 T-ATA-TATAATAATATAATTTAAA
1 TAATATTATAATAATAT-A--TAAA
* *
44469110 -AATAATTAATATATAATATTTATA
1 TAAT-ATT-ATA-ATAATATATAAA
* *
44469134 TAAATACTATAAGAATATAT--A
1 T-AATATTATAATAATATATAAA
*
44469155 TTATA-TATAATAATATAT---
1 TAATATTATAATAATATATAAA
* * *
44469173 T-ATTTTATAATTAATAT-TTAT
1 TAATATTATAA-TAATATATAAA
44469194 TAA-A-TAT-ATAATATATAAAA
1 TAATATTATAATAATATAT-AAA
44469214 TTAATAATTATAA-AAT-TA-AGGAA
1 -TAAT-ATTATAATAATATATA--AA
* * * *
44469237 TATTAATTAATATTTATATATATA
1 TAAT-ATT-ATAATAATATATAAA
*
44469261 TAATATT-TAATATATATATATAG
1 TAATATTATAATA-ATATATA-AA
* *
44469284 TATATTTTATATAGAATATAATATAA
1 TA-ATATTATA-ATAATAT-ATA-AA
44469310 TAATA-TATTAA-AA-ATATAATA
1 TAATATTA-TAATAATATATAA-A
44469331 TATATATTATAATAATATA
1 TA-ATATTATAATAATATA
44469350 ATATTAATAT
Statistics
Matches: 242, Mismatches: 41, Indels: 91
0.65 0.11 0.24
Matches are distributed among these distances:
17 2 0.01
18 13 0.05
19 27 0.11
20 11 0.05
21 26 0.11
22 35 0.14
23 58 0.24
24 31 0.13
25 16 0.07
26 16 0.07
27 7 0.03
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (22 bp):
TAATATTATAATAATATATAAA
Found at i:44469163 original size:39 final size:37
Alignment explanation
Indices: 44469078--44469769 Score: 117
Period size: 37 Copynumber: 19.8 Consensus size: 37
44469068 TTATTATTAT
*
44469078 TATTATATAT-ATATATAATAATATAATTTAAAAATA
1 TATTATATATAATATATAATAATATAATATAAAAATA
* *
44469114 -ATTAATATATAATATTTATATAA-ATACTATAAGAATATA
1 TATT-ATATATAATATATA-ATAATATAATATAA-AA-ATA
* ** *
44469153 TATTATATATAATA-AT-ATATTATTTTATAATTAATA
1 TATTATATATAATATATAATAATATAATATAA-AAATA
* *
44469189 T-TTAT-TA-AATATATAAT-ATATAAAATTAATAAT-
1 TATTATATATAATATATAATAATATAATA-TAAAAATA
* * * * *
44469222 TATAAAAT-TAAGGA-ATATTAAT-TAATAT-T---TA
1 TATTATATATAA-TATATAATAATATAATATAAAAATA
* **
44469253 TA-TATATATAATATTTAAT-ATAT-ATATATAGTATA
1 TATTATATATAATATATAATAATATAATATA-AAAATA
* *
44469288 TTTTATATAGAATATA-ATATAATA-ATATATTAAAAATA
1 TATTATATATAATATATA-ATAATATA-ATA-TAAAAATA
* * *
44469326 TAATATATAT-AT-TATAATAATATAATATTAATATAA
1 TATTATATATAATATATAATAATATAATATAAAAAT-A
* * *
44469362 TATAAAATA-AATATAATAGATAA-ATAATTATTTAAAAT-
1 TATTATATATAATAT-ATA-ATAATATAA-TA-TAAAAATA
* * *
44469400 TAATAT-TA-AATATAATAATTATATTAATATTTATAAATA
1 TATTATATATAATAT-ATAATAATA-TAATA--TAAAAATA
* *
44469439 TATTATA-A-GATA-ATAATAATAT-AT-TATAAAT-
1 TATTATATATAATATATAATAATATAATATAAAAATA
* * *
44469470 TATTAAATATAATA-AGAAATAA-ATAA-AT-ATAATA
1 TATTATATATAATATA-TAATAATATAATATAAAAATA
* * * *
44469504 TATAATA-AT-ATTTATATTAATA--ATATAAAATTATT
1 TATTATATATAATATATAATAATATAATATAAAA--ATA
44469539 TATTATTATATAA-ATA-AAT-ATAT--TATAAAAATA
1 TATTA-TATATAATATATAATAATATAATATAAAAATA
* *
44469572 -A-TATATA-AAT-TATAATAATAATAGGGT-TAGAAATA
1 TATTATATATAATATATAATAAT-ATA--ATATAAAAATA
* * **
44469607 TA-TATATAAAAT-TATAAAAATAT-ATATTATTTAATA
1 TATTATATATAATATATAATAATATAATA-TA-AAAATA
* * **
44469643 TA-TACATATTAATATATAA-AATATAAGATTATTAATA
1 TATTATATA-TAATATATAATAATATAATA-TAAAAATA
* *
44469680 TA-TA-A-ATAATA-AAAAGAATA-AGATAT-AAAAT-
1 TATTATATATAATATATAATAATATA-ATATAAAAATA
* *
44469711 TATT-T-TAT-ATATAT-ATAA-A-AATATATATATA
1 TATTATATATAATATATAATAATATAATATAAAAATA
44469742 TATTAT-TA-AATATATAAATAATATAATA
1 TATTATATATAATATAT-AATAATATAATA
44469770 ATTAAATAAT
Statistics
Matches: 486, Mismatches: 80, Indels: 180
0.65 0.11 0.24
Matches are distributed among these distances:
29 8 0.02
30 23 0.05
31 32 0.07
32 35 0.07
33 28 0.06
34 42 0.09
35 61 0.13
36 83 0.17
37 84 0.17
38 51 0.10
39 30 0.06
40 9 0.02
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (37 bp):
TATTATATATAATATATAATAATATAATATAAAAATA
Found at i:44469180 original size:22 final size:22
Alignment explanation
Indices: 44469155--44469210 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 22
44469145 AGAATATATA
44469155 TTATATATAATAATATATTATT
1 TTATATATAATAATATATTATT
44469177 TTATA-AT--TAATAT-TTATT
1 TTATATATAATAATATATTATT
**
44469195 AAATATATAAT-ATATA
1 TTATATATAATAATATA
44469211 AAATTAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 4 0.14
21 3 0.11
22 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATATAATAATATATTATT
Found at i:44469221 original size:38 final size:38
Alignment explanation
Indices: 44468983--44469527 Score: 129
Period size: 38 Copynumber: 14.2 Consensus size: 38
44468973 AATTAATTAA
* * *
44468983 TAATAATTAAGA-AAATTAATATATTATAATATATAAA-
1 TAATAATTAATATATATTAA-ATATAATAATATATAAAT
* * * *
44469020 TAATATTATACATAATGTATTAAA-ATAATTATA-ATAAAA
1 TAATAAT-TA-AT-ATATATTAAATATAATAATATATAAAT
* * *
44469059 TAATAATTATTAT-TATT-ATTATTATATATATATATAAT
1 TAATAATTAATATATATTAAATATAATA-ATATATA-AAT
* * *
44469097 AATATAATTTAA-AAATAATTAATATATAATATTTATATAAA-
1 TA-ATAA-TTAATATAT-ATTAA-ATATAATA-ATATATAAAT
* * * *
44469138 TACTATAA-GAATATATATTATATATAATAATATATTATT
1 TA--ATAATTAATATATATTAAATATAATAATATATAAAT
* *
44469177 TTATAATTAATATTTATTAAATAT-ATAATATATAAAAT
1 TAATAATTAATATATATTAAATATAATAATATAT-AAAT
*
44469215 TAATAATT-ATA-AAATTAAGGAATATTAATTAATATTTATATATAT
1 TAATAATTAATATATATT-A--AATA-TAA-TAATA--TATA-A-AT
* * **
44469260 ATAATATTTAATATATA-TATATAGTATATTTTATATAGAA-
1 -TAATAATTAATATATATTAAATA-TA-ATAATATATA-AAT
* *
44469300 T-ATAATATAATAATATATTAAAAAT-ATAATATATATAT
1 TAATAAT-TAAT-ATATATTAAATATAATAATATATAAAT
*
44469338 T-ATAA-TAATATAATATT-AATATAAT-ATAAAATAAAT
1 TAATAATTAATAT-ATATTAAATATAATAAT-ATATAAAT
*
44469374 ATAATAGATAAATA-ATTATTTAAA-AT--TAATAT-TAAAT
1 -TAATA-ATTAATATA-TA-TTAAATATAATAATATATAAAT
*
44469411 ATAATAATT-ATATTAATATT-TATA-AAT-ATATTATAAGA-
1 -TAATAATTAATA-T-ATATTAAATATAATAATA-TATAA-AT
*
44469449 TAATAA-TAATATAT-TATAAAT-TATTAA-ATAT-AA-
1 TAATAATTAATATATAT-TAAATATAATAATATATAAAT
* * * * *
44469482 TAAGAAATAAATAAATA-TAATATATAATAATATTTATAT
1 TAA-TAATTAATATATATTAA-ATATAATAATATATAAAT
44469521 TAATAAT
1 TAATAAT
44469528 ATAAAATTAT
Statistics
Matches: 374, Mismatches: 63, Indels: 141
0.65 0.11 0.24
Matches are distributed among these distances:
33 4 0.01
34 8 0.02
35 34 0.09
36 45 0.12
37 57 0.15
38 72 0.19
39 46 0.12
40 27 0.07
41 20 0.05
42 18 0.05
43 14 0.04
44 12 0.03
45 3 0.01
46 8 0.02
47 4 0.01
48 2 0.01
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (38 bp):
TAATAATTAATATATATTAAATATAATAATATATAAAT
Found at i:44469258 original size:2 final size:2
Alignment explanation
Indices: 44469246--44469365 Score: 65
Period size: 2 Copynumber: 67.5 Consensus size: 2
44469236 ATATTAATTA
* *
44469246 AT AT TT AT AT AT AT AT A- AT AT TT A- AT AT AT AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
44469287 AT -T TT AT AT AG A- AT AT A- AT AT A- AT A- AT AT AT -T AA AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44469323 AT AT A- AT AT AT AT AT -T AT A- AT A- AT AT A- AT AT -T A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44469358 AT A- AT AT A
1 AT AT AT AT A
44469366 AAATAAATAT
Statistics
Matches: 93, Mismatches: 8, Indels: 34
0.69 0.06 0.25
Matches are distributed among these distances:
1 16 0.17
2 75 0.81
3 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:44469389 original size:46 final size:45
Alignment explanation
Indices: 44469298--44469422 Score: 112
Period size: 46 Copynumber: 2.7 Consensus size: 45
44469288 TTTTATATAG
* * *
44469298 AATATAATATAATAATATATTA-AAAATATAATAT-ATATATTATAAT
1 AATATAATAT--TAATATAATATAAAATA-AATATAATAGATAATAAT
44469344 AATATAATATTAATATAATATAAAATAAATATAATAGATAAATAAT
1 AATATAATATTAATATAATATAAAATAAATATAATAGAT-AATAAT
* * * * *
44469390 TATTTAAAATTAATATTAA-ATATAATAATTATA
1 AATATAATATTAATA-TAATATAAAATAAATATA
44469423 TTAATATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
44 14 0.21
45 11 0.16
46 39 0.58
47 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (45 bp):
AATATAATATTAATATAATATAAAATAAATATAATAGATAATAAT
Found at i:44469405 original size:30 final size:30
Alignment explanation
Indices: 44469321--44469512 Score: 86
Period size: 30 Copynumber: 6.4 Consensus size: 30
44469311 AATATATTAA
*
44469321 AAATATAAT-ATATATATTATAAT-AATA-T
1 AAATATAATAAT-TATATTAAAATAAATATT
*
44469349 -AATATTAAT-ATAATA-TAAAATAAATA-T
1 AAATA-TAATAATTATATTAAAATAAATATT
* *
44469376 AATAGATAAATAATTAT-TTAAAATTAATATT
1 AA-ATAT-AATAATTATATTAAAATAAATATT
44469407 AAATATAATAATTATATTAATATTTATAAATATATT
1 AAATATAATAATTATATTAA-A---AT-AA-ATATT
* * **
44469443 ATAAGATAATAATAATA-TATTATAAATTATT
1 A-AATATAATAATTATATTAAAATAAA-TATT
* *
44469474 AAATATAATAA-GA-AAT-AAATAAATA-T
1 AAATATAATAATTATATTAAAATAAATATT
44469500 AATATATAATAAT
1 AA-ATATAATAAT
44469513 ATTTATATTA
Statistics
Matches: 129, Mismatches: 15, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
26 8 0.06
27 23 0.18
28 14 0.11
29 16 0.12
30 31 0.24
31 11 0.09
32 2 0.02
34 2 0.02
35 1 0.01
36 8 0.06
37 13 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (30 bp):
AAATATAATAATTATATTAAAATAAATATT
Found at i:44469529 original size:23 final size:23
Alignment explanation
Indices: 44469301--44469594 Score: 82
Period size: 20 Copynumber: 13.3 Consensus size: 23
44469291 TATATAGAAT
44469301 ATAATATAATAATA--TAT--TA
1 ATAATATAATAATATTTATAATA
*
44469320 AAAATATAATATATATATTATAATA
1 ATAATATAATA-ATAT-TTATAATA
* *
44469345 AT-ATAATATTAATATAATATAA-A
1 ATAAT-ATAATAATAT-TTATAATA
**
44469368 ATAA-AT-ATAATAGATA-AATA
1 ATAATATAATAATATTTATAATA
* * *
44469388 ATTATTTAA-AATTAATATTAAATATA
1 ATAATATAATAA-T-AT-TTATA-ATA
*
44469414 ATAATTATATTAATATTTAT-A-A
1 ATAA-TATAATAATATTTATAATA
* * *
44469436 AT-ATATTATAAGA-TAATAATA
1 ATAATATAATAATATTTATAATA
* *
44469457 AT-ATATTATAA-ATTATTAAATATA
1 ATAATATAATAATA-T-TTATA-ATA
* **
44469481 ATAAGA-AATAA-ATAAAT-ATA
1 ATAATATAATAATATTTATAATA
*
44469501 AT-ATATAATAATATTTATATTA
1 ATAATATAATAATATTTATAATA
* *
44469523 ATAATATAA-AATTATTTATTATT
1 ATAATATAATAA-TATTTATAATA
*
44469546 AT-ATA-AATAAATATATTATAAAA
1 ATAATATAAT-AATAT-TTATAATA
44469569 ATAATAT-ATAA-A-TTATAATA
1 ATAATATAATAATATTTATAATA
44469589 ATAATA
1 ATAATA
44469595 GGGTTAGAAA
Statistics
Matches: 204, Mismatches: 36, Indels: 69
0.66 0.12 0.22
Matches are distributed among these distances:
19 17 0.08
20 42 0.21
21 27 0.13
22 21 0.10
23 39 0.19
24 30 0.15
25 14 0.07
26 8 0.04
27 4 0.02
28 2 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
ATAATATAATAATATTTATAATA
Found at i:44469631 original size:20 final size:20
Alignment explanation
Indices: 44469560--44469633 Score: 57
Period size: 20 Copynumber: 3.9 Consensus size: 20
44469550 AAATAAATAT
44469560 ATTATAAAAATA-ATATATAA
1 ATTATAAAAATATATATA-AA
* **
44469580 ATTAT-AATA-ATA-ATAGG
1 ATTATAAAAATATATATAAA
* * *
44469597 GTTAGAAATATATATATAAA
1 ATTATAAAAATATATATAAA
44469617 ATTATAAAAATATATAT
1 ATTATAAAAATATATAT
44469634 TATTTAATAT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
17 3 0.08
18 8 0.20
19 7 0.17
20 22 0.55
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTATAAAAATATATATAAA
Found at i:44469667 original size:23 final size:23
Alignment explanation
Indices: 44469608--44469685 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 23
44469598 TTAGAAATAT
* *
44469608 ATATATAAAATTATAAAAATATATA
1 ATATATAAAA-TATAACATTAT-TA
* * *
44469633 TTATTTAATATAT-ACA-TATTA
1 ATATATAAAATATAACATTATTA
*
44469654 ATATATAAAATATAAGATTATTA
1 ATATATAAAATATAACATTATTA
44469677 ATATATAAA
1 ATATATAAA
44469686 TAATAAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
21 12 0.28
22 5 0.12
23 16 0.37
24 3 0.07
25 7 0.16
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (23 bp):
ATATATAAAATATAACATTATTA
Found at i:44469723 original size:2 final size:2
Alignment explanation
Indices: 44469716--44469819 Score: 54
Period size: 2 Copynumber: 58.5 Consensus size: 2
44469706 AAAATTATTT
* * *
44469716 TA TA TA TA TA TA AA AA TA TA TA TA TA TA T- TA T- TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
44469756 TA AA TA -A TA TA -A TA -A T- TA AA TA -A TA -A AA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
44469790 TA TA TA TA TA TA T- TT TA TA T- TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44469820 TTAATATTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 26
0.69 0.09 0.23
Matches are distributed among these distances:
1 13 0.16
2 66 0.84
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:44469737 original size:16 final size:16
Alignment explanation
Indices: 44469716--44469801 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 16
44469706 AAAATTATTT
44469716 TATATATATATAAAAA
1 TATATATATATAAAAA
**
44469732 TATATATATAT-ATTA
1 TATATATATATAAAAA
*
44469747 T-TAAATATATAAATAA
1 TATATATATATAAA-AA
*
44469763 TATA-ATA-AT-TAAA
1 TATATATATATAAAAA
* *
44469776 TA-ATA-AAATAATAA
1 TATATATATATAAAAA
44469790 TATATATATATA
1 TATATATATATA
44469802 TTTTATATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 13 0.25
15 9 0.17
16 20 0.38
17 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATATATATAAAAA
Found at i:44469742 original size:8 final size:8
Alignment explanation
Indices: 44469716--44469819 Score: 54
Period size: 7 Copynumber: 14.6 Consensus size: 8
44469706 AAAATTATTT
44469716 TATATATA
1 TATATATA
* *
44469724 TATAAAAA
1 TATATATA
44469732 TATATATA
1 TATATATA
44469740 TATAT-TA
1 TATATATA
*
44469747 T-TAAATA
1 TATATATA
*
44469754 TATAAATA
1 TATATATA
44469762 -ATATA-A
1 TATATATA
44469768 TA-AT-TA
1 TATATATA
*
44469774 AATA-ATA
1 TATATATA
*
44469781 -AAATA-A
1 TATATATA
44469787 TA-ATATA
1 TATATATA
44469794 TATATATA
1 TATATATA
*
44469802 T-TTTATA
1 TATATATA
44469809 T-TATAT-
1 TATATATA
44469815 TATAT
1 TATAT
44469820 TTAATATTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
6 14 0.19
7 32 0.43
8 29 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:44469818 original size:17 final size:18
Alignment explanation
Indices: 44469787--44469828 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
44469777 AATAAAATAA
44469787 TAATA-TATATATATATT
1 TAATATTATATATATATT
*
44469804 TTATATTATAT-TATATT
1 TAATATTATATATATATT
44469821 TAATATTA
1 TAATATTA
44469829 AATTTTAAAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATATTATATATATATT
Found at i:44474741 original size:52 final size:52
Alignment explanation
Indices: 44474672--44474920 Score: 344
Period size: 52 Copynumber: 5.0 Consensus size: 52
44474662 TGAATGAAGG
44474672 TGTATATATGT-AGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TGTATATATGTGA-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
44474724 TGTATATATGTGAATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--
1 TGTATATATGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
44474772 TGTATATATGTGAGTAAGGCCTAATGGCCGATGTG-TAGAATGTGAAAGTGTA
1 TGTATATATGTGAATAAGGCCTAATGGCCGATGTGAT-GAATGTGAAAGTGTA
44474824 TGTATATATGTG-ATAAGG-CTAATGGCCGATGTGATGAATGTG-AAG-G-A
1 TGTATATATGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * *
44474871 TGTATATAT-TGTATAAGGCCTAATAGCC-ACGTGATGAATGTGAAAGTGTA
1 TGTATATATGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
44474921 AGTTGTAAGG
Statistics
Matches: 179, Mismatches: 6, Indels: 26
0.85 0.03 0.12
Matches are distributed among these distances:
46 2 0.01
47 30 0.17
48 55 0.31
49 4 0.02
50 25 0.14
51 6 0.03
52 56 0.31
53 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (52 bp):
TGTATATATGTGAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:44474790 original size:100 final size:97
Alignment explanation
Indices: 44474581--44474920 Score: 479
Period size: 100 Copynumber: 3.5 Consensus size: 97
44474571 CAGCCAAGAG
44474581 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA--TA-ATATG-G
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTG
*
44474642 ATAAGGCCT-ATGCCGA-ATGATGAA--TGAA
66 ATAAGGCCTAATGCCGATGTGATGAATGTGAA
*
44474670 GGTGTATATATGTAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGT
1 AGTGTATATATGT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGT
44474735 GAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
65 G-ATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
44474770 AGTGTATATATGTGAGTAAGGCCTAATGGCCGATGTG-TAGAATGTGAAAGTGTATGTATATATG
1 AGTGTATATATGTGA-TAAGGCCTAATGGCCGATGTGAT-GAATGTGAAAGTGTATGTATATATG
44474834 TGATAAGG-CTAATGGCCGATGTGATGAATGTGAA
64 TGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
* * *
44474868 GGATGTATATAT-TGTATAAGGCCTAATAGCC-ACGTGATGAATGTGAAAGTGTA
1 AG-TGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
44474921 AGTTGTAAGG
Statistics
Matches: 228, Mismatches: 7, Indels: 24
0.88 0.03 0.09
Matches are distributed among these distances:
89 12 0.05
90 40 0.18
92 2 0.01
93 5 0.02
94 1 0.00
95 9 0.04
96 2 0.01
97 24 0.11
98 50 0.22
99 19 0.08
100 64 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (97 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTG
ATAAGGCCTAATGCCGATGTGATGAATGTGAA
Found at i:44474795 original size:48 final size:47
Alignment explanation
Indices: 44474581--44474920 Score: 421
Period size: 48 Copynumber: 7.1 Consensus size: 47
44474571 CAGCCAAGAG
44474581 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44474628 AGTGTATAATATG-GATAAGGCCT-AT-GCCGA-ATGATGAA--TGAA
1 AGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44474670 GGTGTATATATGTAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGT-GATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44474718 AGTGTATGTATATATGTGAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44474770 AGTGTATATATGTGAGTAAGGCCTAATGGCCGATGTG-TAGAATGTGAA
1 AGTGTATATATGTGA-TAAGGCCTAATGGCCGATGTGAT-GAATGTGAA
44474818 AGTGTATGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
44474868 GGATGTATATAT-TGTATAAGGCCTAATAGCC-ACGTGATGAATGTGAA
1 AG-TGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44474915 AGTGTA
1 AGTGTA
44474921 AGTTGTAAGG
Statistics
Matches: 261, Mismatches: 10, Indels: 45
0.83 0.03 0.14
Matches are distributed among these distances:
41 5 0.02
42 10 0.04
43 10 0.04
44 9 0.03
45 10 0.04
46 15 0.06
47 51 0.20
48 60 0.23
50 27 0.10
51 7 0.03
52 57 0.22
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44475045 original size:113 final size:113
Alignment explanation
Indices: 44474824--44475117 Score: 259
Period size: 113 Copynumber: 2.6 Consensus size: 113
44474814 TGAAAGTGTA
*
44474824 TGTATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAGGATGTATATATTGTATAAGG
1 TGTATATATGTGAT-AGGCTAAT--CCGATGTGATGAATGTGAAAG-TGTATATATTG-ATAAGG
*** *
44474889 CCTAATAGCCACGTGATGAATGTGAAAGTGTAAGTTGTAAGGCCTAAT-AGCCAG
61 CCTAATAGCCACGTGATGAATGTGAAAGTGTAAGCCCTAAGGCC--ATCAGACAG
*
44474943 TGTATATGTGTGATAGGCTAATCCGA-GTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCTA
1 TGTATATATGTGATAGGCTAATCCGATGTGATGAATGTGAAAGTGTATATAT-TGATAAGGCCTA
* * * *
44475006 ATAGCCATGAT-ATGAAAGTGTTATA-TG-ATAGCCCT-AGGCCATCAGAGAG
65 ATAGCCACG-TGATG-AA-TGTGAAAGTGTA-AGCCCTAAGGCCATCAGACAG
* * *
44475055 TGTATGTATAGT-ATAGGCTATAGCCGATGTGATG-ATGTGAAA-TG-ATATGTTTGATAAGGCC
1 TGTATATAT-GTGATAGGCTA-ATCCGATGTGATGAATGTGAAAGTGTATAT-ATTGATAAGGCC
44475116 TA
63 TA
44475118 TGCCGACTGT
Statistics
Matches: 151, Mismatches: 13, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
111 6 0.04
112 33 0.22
113 44 0.29
114 23 0.15
115 20 0.13
116 4 0.03
118 8 0.05
119 13 0.09
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.31
Consensus pattern (113 bp):
TGTATATATGTGATAGGCTAATCCGATGTGATGAATGTGAAAGTGTATATATTGATAAGGCCTAA
TAGCCACGTGATGAATGTGAAAGTGTAAGCCCTAAGGCCATCAGACAG
Found at i:44475255 original size:45 final size:44
Alignment explanation
Indices: 44475157--44475257 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
44475147 AAACGATGTG
* * * * *
44475157 ATGAATGTGAAAGTGTATATATGTGATAAGGCCAATGGCGATGTG
1 ATGAATGTG-AAGTGTATATACGTGACAAGGCCAATGGCAACGTA
**
44475202 ATGAATGTGAAGTGTATATACGTGACAAGGCCGGTGGCCAACGTA
1 ATGAATGTGAAGTGTATATACGTGACAAGGCCAATGG-CAACGTA
*
44475247 ATGGATGTGAA
1 ATGAATGTGAA
44475258 AGTGCATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 24 0.51
45 23 0.49
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.26
Consensus pattern (44 bp):
ATGAATGTGAAGTGTATATACGTGACAAGGCCAATGGCAACGTA
Found at i:44475470 original size:37 final size:37
Alignment explanation
Indices: 44475390--44475470 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 37
44475380 ATCCGAGCTC
* *
44475390 TAAAGACCCGATGATTACGTGTGGGAATTTTGTCCGGG
1 TAAAGACCCGATAATTA-GTGTGGGAATTATGTCCGGG
44475428 T-AAGACCCGATAACTT-GTGT-GGAGATTATGTCCGGG
1 TAAAGACCCGATAA-TTAGTGTGGGA-ATTATGTCCGGG
44475464 TAAAGAC
1 TAAAGAC
44475471 TGTAATTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 3 0.08
36 16 0.42
37 16 0.42
38 3 0.08
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (37 bp):
TAAAGACCCGATAATTAGTGTGGGAATTATGTCCGGG
Found at i:44489226 original size:39 final size:39
Alignment explanation
Indices: 44489180--44489355 Score: 152
Period size: 39 Copynumber: 4.6 Consensus size: 39
44489170 CAGCATGGAT
* *
44489180 TGCTCTTCGGACCTAGCCCGGACATAACACCAGCACGAA
1 TGCTCTTCGGACTTAGCCCGGACATAACACTAGCACGAA
** * * *
44489219 TGCTCTTCGGGGTTAGCACGGATATATCACTAGC-CGAA
1 TGCTCTTCGGACTTAGCCCGGACATAACACTAGCACGAA
44489257 TGCTC-TCGGAACTTAGCCCGGAACAT--CACTAGCA-GAA
1 TGCTCTTCGG-ACTTAGCCCGG-ACATAACACTAGCACGAA
* * *
44489294 TGCTCCTCGGGAC-TAGCCCGATACATCAA-A-TAGCATGAA
1 TGCTCTTC-GGACTTAGCCCG-GACAT-AACACTAGCACGAA
44489333 TGCTCTTCGAGACTTAGCCCGGA
1 TGCTCTTCG-GACTTAGCCCGGA
44489356 TTTAGTAACT
Statistics
Matches: 111, Mismatches: 14, Indels: 24
0.74 0.09 0.16
Matches are distributed among these distances:
37 30 0.27
38 27 0.24
39 47 0.42
40 7 0.06
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (39 bp):
TGCTCTTCGGACTTAGCCCGGACATAACACTAGCACGAA
Found at i:44489262 original size:38 final size:36
Alignment explanation
Indices: 44489215--44489304 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 36
44489205 AACACCAGCA
* *
44489215 CGAATGCTCTTCGGGGTTAGCACGGATATATCACTAGC
1 CGAATGCTC-TCGGGCTTAGCACGGA-ACATCACTAGC
* *
44489253 CGAATGCTCTCGGAACTTAGCCCGGAACATCACTAGC
1 CGAATGCTCTCGG-GCTTAGCACGGAACATCACTAGC
*
44489290 AGAATGCTCCTCGGG
1 CGAATGCT-CTCGGG
44489305 ACTAGCCCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 21 0.48
38 23 0.52
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (36 bp):
CGAATGCTCTCGGGCTTAGCACGGAACATCACTAGC
Found at i:44489295 original size:37 final size:38
Alignment explanation
Indices: 44489231--44489356 Score: 134
Period size: 37 Copynumber: 3.3 Consensus size: 38
44489221 CTCTTCGGGG
* * *
44489231 TTAGCACGGATATATCACTAGCCGAATGCTCTCGGAAC
1 TTAGCCCGGATACATCACTAGCAGAATGCTCTCGGAAC
*
44489269 TTAGCCCGGA-ACATCACTAGCAGAATGCTCCTCGGGAC
1 TTAGCCCGGATACATCACTAGCAGAATGCT-CTCGGAAC
*
44489307 -TAGCCC-GATACATCAAATAGCATGAATGCTCTTC-GAGAC
1 TTAGCCCGGATACATC-ACTAGCA-GAATGCTC-TCGGA-AC
44489346 TTAGCCCGGAT
1 TTAGCCCGGAT
44489357 TTAGTAACTC
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
36 2 0.03
37 28 0.38
38 24 0.32
39 11 0.15
40 6 0.08
41 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (38 bp):
TTAGCCCGGATACATCACTAGCAGAATGCTCTCGGAAC
Found at i:44489783 original size:28 final size:28
Alignment explanation
Indices: 44489752--44489823 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
44489742 TAATCAACCA
*
44489752 CGCACACTTAGTGCCATGTATTT-AAAC
1 CGCACACTTAGTGCCATGCATTTCAAAC
*
44489779 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
44489808 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
44489824 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 38 0.93
29 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:44489963 original size:43 final size:43
Alignment explanation
Indices: 44489807--44489951 Score: 272
Period size: 43 Copynumber: 3.3 Consensus size: 43
44489797 GCATTTCAAG
44489807 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
*
44489850 CCGCACACTTAGTGCCAATCTCACAACCGCGAACACTTATTGC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
44489893 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGGC
1 CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT-GC
44489937 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44489952 TGAAAACCAA
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
43 82 0.83
44 17 0.17
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (43 bp):
CCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
Found at i:44491843 original size:36 final size:37
Alignment explanation
Indices: 44491796--44491873 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
44491786 TTATTACGAA
* * *
44491796 GTCTTACCCGGACATAATCTCCACAC-AAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44491832 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44491869 GTCTT
1 GTCTT
44491874 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44492122 original size:47 final size:47
Alignment explanation
Indices: 44491992--44492487 Score: 682
Period size: 51 Copynumber: 10.4 Consensus size: 47
44491982 CCTTTCGGGA
* * * * * * * *
44491992 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44492039 CTTGTCACATATATA-ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44492085 CTTATCACATATATACACTTTCACATTCATCACATCGG-CTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44492131 CTTATCACACATATACACTTTCACATTCAT--CATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44492176 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44492222 CTTA-CACATATACATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
44492269 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44492320 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44492367 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
44492418 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
44492469 CTTATCACATATATACACT
1 CTTATCACATATATACACT
44492488 CTCTTGGCTG
Statistics
Matches: 413, Mismatches: 19, Indels: 34
0.89 0.04 0.07
Matches are distributed among these distances:
44 26 0.06
45 19 0.05
46 96 0.23
47 90 0.22
48 30 0.07
49 16 0.04
50 33 0.08
51 103 0.25
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44492486 original size:98 final size:94
Alignment explanation
Indices: 44491992--44492487 Score: 682
Period size: 98 Copynumber: 5.2 Consensus size: 94
44491982 CCTTTCGGGA
* * * * * * * * *
44491992 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCTTGTCACATATATA-AC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
44492056 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
44492085 CTTATCACATATATACACTTTCACATTCATCACATCGG-CTTTAGGCCTTATCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
44492149 TTTCACATTCAT--CATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
44492176 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA-CACATATACATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT--ATAC
44492239 ACTTTCACATTCATCACATCGG-CATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
44492269 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
44492334 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
44492367 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
44492432 ACATACACTTTCACATTCATCACATCGGCCATTAGGC
60 --ATACACTTTCACATTCATCACATCGGCCATTAGGC
44492469 CTTATCACATATATACACT
1 CTTATCACATATATACACT
44492488 CTCTTGGCTG
Statistics
Matches: 363, Mismatches: 21, Indels: 33
0.87 0.05 0.08
Matches are distributed among these distances:
90 34 0.09
91 33 0.09
92 36 0.10
93 61 0.17
94 6 0.02
95 1 0.00
96 2 0.01
97 26 0.07
98 105 0.29
99 8 0.02
100 12 0.03
101 1 0.00
102 38 0.10
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:44492512 original size:149 final size:146
Alignment explanation
Indices: 44492007--44492487 Score: 686
Period size: 149 Copynumber: 3.3 Consensus size: 146
44491997 CACATTTATG
* * * * * * *
44492007 CACTTTCACATCCATTACGTTGGCCACTCGGCCTTGTCACATATATA-ACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
* *
44492071 ATCGGCCATTAGGCCTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCTTTAGGCC
66 AT--GCTATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGGCATTAGGCC
*
44492132 TTATCAC--ACAT--ATA
129 TTATCACATATATACATA
*
44492146 CACTTTCACATTCAT--CATCGGCTATTAGGCCTTATCACA-ATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
44492208 ATCGGCTATTAGGCC---TTACACATATACATACACTTTCACATTCATCACATCGGCATTAGGCC
66 AT--GCTATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGGCATTAGGCC
44492270 TTATCACATATATACATA
129 TTATCACATATATACATA
44492288 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
44492353 ATCGGCTATTAGGCCTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
66 AT--GCTATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGG-CATTAGGC
44492418 CTTATCACATATATACATA
128 CTTATCACATATATACATA
44492437 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
44492488 CTCTTGGCTG
Statistics
Matches: 314, Mismatches: 12, Indels: 22
0.90 0.03 0.06
Matches are distributed among these distances:
135 1 0.00
136 12 0.04
137 49 0.16
138 41 0.13
139 14 0.04
140 3 0.01
142 18 0.06
144 23 0.07
145 38 0.12
148 37 0.12
149 78 0.25
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (146 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATGCTATTAGGCCTTATTACACATATACATACACTTTCACATTCATCACATCGGCATTAGGCCTT
ATCACATATATACATA
Found at i:44499789 original size:37 final size:37
Alignment explanation
Indices: 44499739--44499813 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
44499729 ACTCTGATAG
*
44499739 ACATAGGTTCTACGCACTCCTACGTAGCTAGTATTGT
1 ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
44499776 ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
1 ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
44499813 A
1 A
44499814 TCTGAACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (37 bp):
ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
Found at i:44501205 original size:40 final size:40
Alignment explanation
Indices: 44501150--44501234 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
44501140 CTTTGAAAAG
* *
44501150 CTGAAGTCTGTTCTGACTCAGGCACCTGTTCTGATACAGT
1 CTGAAGTCTATTCTGACTCAGGCACCTGTTCTGATACAAT
* * *
44501190 CTGAAGTCTATTCTGACTCAGGCTCTTGTTCTGATATAAT
1 CTGAAGTCTATTCTGACTCAGGCACCTGTTCTGATACAAT
44501230 CTGAA
1 CTGAA
44501235 TCTGGTATGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (40 bp):
CTGAAGTCTATTCTGACTCAGGCACCTGTTCTGATACAAT
Found at i:44520808 original size:42 final size:42
Alignment explanation
Indices: 44520756--44520857 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 42
44520746 TAGAATGGGT
*
44520756 CTGCTAACACAAGCTGTCGGTC-AGAATGTAAGCTAAACAATG
1 CTGCTCACACAAGCTGTCGGTCGA-AATGTAAGCTAAACAATG
* **
44520798 CTGCTCACACAAGCTGTCGGTCGAAATGTAAGCTACATGATG
1 CTGCTCACACAAGCTGTCGGTCGAAATGTAAGCTAAACAATG
44520840 CTGCTCACACAAGCTGTC
1 CTGCTCACACAAGCTGTC
44520858 TAGTATCTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 54 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (42 bp):
CTGCTCACACAAGCTGTCGGTCGAAATGTAAGCTAAACAATG
Found at i:44523509 original size:117 final size:117
Alignment explanation
Indices: 44523293--44523625 Score: 477
Period size: 117 Copynumber: 2.8 Consensus size: 117
44523283 ACAAAGCATG
* * *
44523293 CGGGACTTTAAGCCCTGATATAATACTAGCACGAATGCCTTCAGGACTTAGCCTGGATATAACAG
1 CGGGAC-TT-AGCCCGGATATAATACTAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACAC
* *
44523358 CAGCACGAATGCCTTCGGGACTTAGCCCAGATATAGCACCAACACGAATGCCTT
64 CAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
* * * * *
44523412 TGGGACTTAGCCCGGACATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGAATATAGCACCA
1 CGGGACTTAGCCCGGATATAATACTAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCA
* * * *
44523477 GCGCGAATGCCTTTGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
66 GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
* * * *
44523529 CAGGACTTAGCCTGGATATAATACTAGTACGAATGCCTTCAGGAATTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACTAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCA
*
44523594 GCACGAATGCCATCGGGACTTAGCCCGGATAT
66 GCACGAATGCCTTCGGGACTTAGCCCGGATAT
44523626 TTTTCCAGCA
Statistics
Matches: 188, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
117 181 0.96
118 2 0.01
119 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATAATACTAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
Found at i:44523636 original size:39 final size:39
Alignment explanation
Indices: 44523303--44523625 Score: 412
Period size: 39 Copynumber: 8.3 Consensus size: 39
44523293 CGGGACTTTA
* * *
44523303 AGCCCTGATATAATACTAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
* * *
44523342 AGCCTGGATATAACAGCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
* * * **
44523381 AGCCCAGATATAGCACCAACACGAATGCCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
* *
44523420 AGCCCGGACATAATACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
* * * **
44523459 AGCCCGAATATAGCACCAGCGCGAATGCCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
*
44523498 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
* * * * *
44523537 AGCCTGGATATAATACTAGTACGAATGCCTTCAGGAATT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
* *
44523576 AGCCCGGATATAACACCAGCACGAATGCCATCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
44523615 AGCCCGGATAT
1 AGCCCGGATAT
44523626 TTTTCCAGCA
Statistics
Matches: 241, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 241 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
Found at i:44529607 original size:16 final size:16
Alignment explanation
Indices: 44529586--44529618 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44529576 TGGGCCCTAG
44529586 AGCTATTCAATTTCAA
1 AGCTATTCAATTTCAA
44529602 AGCTATTCAATTTCAA
1 AGCTATTCAATTTCAA
44529618 A
1 A
44529619 CATTTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (16 bp):
AGCTATTCAATTTCAA
Found at i:44534515 original size:30 final size:30
Alignment explanation
Indices: 44534481--44534537 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
44534471 TGAGCCTAGA
44534481 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
44534511 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
44534538 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Found at i:44536683 original size:17 final size:19
Alignment explanation
Indices: 44536661--44536695 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
44536651 GCTAAAGATA
44536661 TTTGGTA-AAATG-ATAAT
1 TTTGGTATAAATGTATAAT
44536678 TTTGGTATAAATGTATAA
1 TTTGGTATAAATGTATAA
44536696 GTGGTACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (19 bp):
TTTGGTATAAATGTATAAT
Found at i:44544008 original size:12 final size:13
Alignment explanation
Indices: 44543991--44544019 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44543981 GCAATTTAAA
44543991 TTTTATT-CTAAT
1 TTTTATTACTAAT
44544003 TTTTATTACTAAT
1 TTTTATTACTAAT
44544016 TTTT
1 TTTT
44544020 CTTTTTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTACTAAT
Found at i:44550011 original size:61 final size:55
Alignment explanation
Indices: 44549900--44550080 Score: 263
Period size: 55 Copynumber: 3.2 Consensus size: 55
44549890 ACTGCCAAAA
* *
44549900 TAACACGGGCGTGCAACACGCCCGTGTTTTGAAATTGTGGGTGAACCTGTCAATT
1 TAACACGGGCGTGTAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATT
44549955 TAACACGGGCGTGTAACACGGGCACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATT
1 TAACACGGGCGTGT-A-A----CACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATT
* * *
44550016 TAACACGGGTGTGTAACACGCCCGTGTTTTGAAACCGTAGGTGAACCTGTCAATT
1 TAACACGGGCGTGTAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATT
44550071 TAACACGGGC
1 TAACACGGGC
44550081 ATGGGAGAAG
Statistics
Matches: 114, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
55 59 0.52
56 1 0.01
57 1 0.01
59 1 0.01
60 1 0.01
61 51 0.45
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (55 bp):
TAACACGGGCGTGTAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATT
Found at i:44554764 original size:25 final size:25
Alignment explanation
Indices: 44554733--44554793 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
44554723 TCAAAATGTG
*
44554733 AATCAGAATCAAAATCAGGTGACAA
1 AATCAGAATCAAAATCAGGTAACAA
* ** *
44554758 AATCAGAATTAGTATCAGGTAACAG
1 AATCAGAATCAAAATCAGGTAACAA
44554783 AATCAGAATCA
1 AATCAGAATCA
44554794 GAATGTGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAAAATCAGGTAACAA
Found at i:44555441 original size:27 final size:27
Alignment explanation
Indices: 44555411--44555481 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
44555401 GGGGCAAAAT
44555411 GGTAATTTTACCCTACAAAGCTATCTC
1 GGTAATTTTACCCTACAAAGCTATCTC
* * * *
44555438 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTTTACCCTACAAAGCTATCTC
44555464 GGT-ATTTCTACCCTACAA
1 GGTAATTT-TACCCTACAA
44555482 GGGTATTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.08
26 18 0.49
27 16 0.43
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAAGCTATCTC
Found at i:44555472 original size:26 final size:27
Alignment explanation
Indices: 44555411--44555490 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
44555401 GGGGCAAAAT
* * * *
44555411 GGTAATTTTACCCTACAAAGCTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
44555438 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
44555464 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
44555491 AATAATTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:44562520 original size:40 final size:39
Alignment explanation
Indices: 44562433--44562653 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 39
44562423 TATTCGGATG
* * *
44562433 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCGTTGTGCTATTGACT
44562472 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGC-GTTGTGCTATTGACT
* * *
44562512 ATACCCGGGCTAAGTCCCAAAGGCGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCG-TTGTGCTA-TTGACT
* *
44562552 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGC-GTTGTGCTATTGACT
* *
44562592 ATATCCGGGCTAAGACCCGAAGGCGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCG-TTGTGCTA-TTGACT
* *
44562632 ATATCC-GGATAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44562654 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 40 0.25
40 112 0.71
41 5 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCGTTGTGCTATTGACT
Found at i:44562569 original size:80 final size:80
Alignment explanation
Indices: 44562437--44562653 Score: 305
Period size: 80 Copynumber: 2.7 Consensus size: 80
44562427 CGGATGATAT
* * *
44562437 CCGGGCTAAGTCCCGAAGGC-ATGGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGGCAGTT
1 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGCAGTT
*
44562500 GTGCTATTGACTATAC
65 GTGCTAGTGACTATAC
* **
44562516 CCGGGCTAAGTCCCAAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCTTTTG
1 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAGTTG
*
44562581 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
44562596 CCGGGCTAAGACCCGAAGGCGTTTGTGCGAGTTGCTATATCC-GGATAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
44562654 TACTTGGGTT
Statistics
Matches: 124, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
79 33 0.27
80 89 0.72
81 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCAGTTG
TGCTAGTGACTATAC
Found at i:44567057 original size:46 final size:45
Alignment explanation
Indices: 44567001--44567176 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
44566991 TGTTTGGGCA
44567001 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
44567047 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
44567092 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTCATGGATGGAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGG-AATG
* * *
44567140 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44567177 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:44567156 original size:93 final size:93
Alignment explanation
Indices: 44566997--44567169 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
44566987 AGGATGTTTG
* * *
44566997 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
44567062 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
44567090 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTCATGGATG-GAAACGCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCG-AACGCCCGAACTCGTTGA
44567154 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
44567170 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44573791 original size:40 final size:39
Alignment explanation
Indices: 44573704--44573924 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 39
44573694 TATTCGGATG
* * *
44573704 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCGTTGTGCTATTGACT
44573743 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGC-GTTGTGCTATTGACT
* * * *
44573783 ATACCCGGGCTAAGTCCCAAAGGCGTTTGTCCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCG-TTGTGCTA-TTGACT
* *
44573823 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGC-GTTGTGCTATTGACT
* *
44573863 ATATCCGGGCTAAGACCCGAAGGCGTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCG-TTGTGCTA-TTGACT
*
44573903 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44573925 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 41 0.26
40 110 0.71
41 5 0.03
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCGTTGTGCTATTGACT
Found at i:44573840 original size:80 final size:80
Alignment explanation
Indices: 44573741--44573924 Score: 289
Period size: 80 Copynumber: 2.3 Consensus size: 80
44573731 GTGCTAGTGA
* *
44573741 CTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACTATACCCGGGCTAAGTCCCAAAGG
1 CTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATACCCGGGCTAAGACCCAAAGG
44573806 CGTTTGTCCGAGTTG
66 CGTTTGTCCGAGTTG
** * *
44573821 CTATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGG
1 CTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATACCCGGGCTAAGACCCAAAGG
*
44573886 CGTTTGTGCGAGTTG
66 CGTTTGTCCGAGTTG
*
44573901 CTATATCC-GGCTAAATCCCGAAGG
1 CTATATCCGGGCTAAGTCCCGAAGG
44573925 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 15 0.16
80 81 0.84
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CTATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATACCCGGGCTAAGACCCAAAGG
CGTTTGTCCGAGTTG
Found at i:44581646 original size:32 final size:31
Alignment explanation
Indices: 44581610--44581671 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
44581600 ACGAAGTCAC
* *
44581610 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATA-TGTGGCAAAGCCACCAGAA
* *
44581642 CAGATATATATATGTGGCAAAGCCACCAGA
1 CAGATACAGATATGTGGCAAAGCCACCAGA
44581672 TTGCAGCGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (31 bp):
CAGATACAGATATGTGGCAAAGCCACCAGAA
Found at i:44591503 original size:15 final size:15
Alignment explanation
Indices: 44591475--44591508 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44591465 TGGACCCACT
44591475 ACATAATAAAAATTA
1 ACATAATAAAAATTA
* *
44591490 ACATATTAATAATTA
1 ACATAATAAAAATTA
44591505 ACAT
1 ACAT
44591509 GAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (15 bp):
ACATAATAAAAATTA
Found at i:44598794 original size:15 final size:15
Alignment explanation
Indices: 44598774--44598812 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
44598764 TCAAGATAAG
44598774 GAAATCCAAAATAGA
1 GAAATCCAAAATAGA
* *
44598789 GAAATCCAGAATATA
1 GAAATCCAAAATAGA
44598804 GAAATCCAA
1 GAAATCCAA
44598813 CATAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
GAAATCCAAAATAGA
Found at i:44599612 original size:46 final size:45
Alignment explanation
Indices: 44599545--44599714 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 45
44599535 AAGGACAATA
* *
44599545 CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGTA-GC
1 CGATGCATGTCCCAAACATGTCTTACACTGACT-TCGTCTCG-AGGC
* *
44599591 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAAACATGTCTTACACTGACTT-CGTCTCGAGGC
*
44599637 CGATGCATGTCCCAAACATGTCTTACACTAGTACTT-GTCTCGATGC
1 CGATGCATGTCCCAAACATGTCTTACACT-G-ACTTCGTCTCGAGGC
*
44599683 CAATGCCATGTCCCAAACATGGTCTTACACTG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTG
44599715 GTCCTCATAA
Statistics
Matches: 112, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
45 2 0.02
46 81 0.72
47 16 0.14
48 13 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGTCTTACACTGACTTCGTCTCGAGGC
Found at i:44604955 original size:15 final size:16
Alignment explanation
Indices: 44604935--44604964 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44604925 GAAAATTGCC
44604935 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
44604950 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
44604965 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:44609657 original size:25 final size:25
Alignment explanation
Indices: 44609587--44609660 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
44609577 TCATTAGGGT
* *
44609587 TACCGATTTATAGCTCGTGAAAGCA
1 TACCGATTTATAGCTCATGAGAGCA
44609612 TACCGATTTATAGCTCATGAGAGCA
1 TACCGATTTATAGCTCATGAGAGCA
* *
44609637 TACTGATTGATAGCTCATGAGAGC
1 TACCGATTTATAGCTCATGAGAGC
44609661 GTACGGATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
TACCGATTTATAGCTCATGAGAGCA
Found at i:44609678 original size:25 final size:24
Alignment explanation
Indices: 44609594--44609668 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
44609584 GGTTACCGAT
* * *
44609594 TTATAGCTCGTGAAAGCATACCGA
1 TTATAGCTCATGAGAGCATACGGA
*
44609618 TTTATAGCTCATGAGAGCATACTGA
1 -TTATAGCTCATGAGAGCATACGGA
*
44609643 TTGATAGCTCATGAGAGCGTACGGA
1 TT-ATAGCTCATGAGAGCATACGGA
44609668 T
1 T
44609669 CTTCAGCTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 2 0.05
25 42 0.95
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (24 bp):
TTATAGCTCATGAGAGCATACGGA
Found at i:44611143 original size:30 final size:30
Alignment explanation
Indices: 44611107--44611174 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
44611097 CCTAAGACAT
* *
44611107 GGGCATGTCTATTGGTCGTGTGAGTCACAC
1 GGGCATGTCTATTGGTCGTGTGAGGCACAA
*
44611137 GGGCATGTCTCTTGGTCGTGTGAGGCACAA
1 GGGCATGTCTATTGGTCGTGTGAGGCACAA
*
44611167 GGCCATGT
1 GGGCATGT
44611175 GACCCCTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.35, T:0.28
Consensus pattern (30 bp):
GGGCATGTCTATTGGTCGTGTGAGGCACAA
Found at i:44616368 original size:27 final size:27
Alignment explanation
Indices: 44616344--44616490 Score: 120
Period size: 27 Copynumber: 5.4 Consensus size: 27
44616334 TAGTGGCATT
44616344 TCAGTCATTTTACCACATAAGGGCAAA
1 TCAGTCATTTTACCACATAAGGGCAAA
** * * *
44616371 TTTGTCATTTTACCTCAAAAGGGTAGAA
1 TCAGTCATTTTACCACATAAGGGCA-AA
* * * *
44616399 T-AGTCATTTTATCATATAGGGGCGAGA
1 TCAGTCATTTTACCACATAAGGGC-AAA
* *
44616426 -CTGTCATTTTACCACATAAAGGCAAA
1 TCAGTCATTTTACCACATAAGGGCAAA
* * *
44616452 ACAGTCATTTTACCTCATAAGGGGAAAA
1 TCAGTCATTTTACCACATAA-GGGCAAA
44616480 T-AGTCATTTTA
1 TCAGTCATTTTA
44616491 TCGATTAAGG
Statistics
Matches: 91, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
26 2 0.02
27 80 0.88
28 9 0.10
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (27 bp):
TCAGTCATTTTACCACATAAGGGCAAA
Found at i:44616404 original size:54 final size:53
Alignment explanation
Indices: 44616345--44616490 Score: 141
Period size: 54 Copynumber: 2.7 Consensus size: 53
44616335 AGTGGCATTT
* * *
44616345 CAGTCATTTTACCACATAAGGGCAAATTTGTCATTTTACCTCA-AAAGGGTAGAA
1 CAGTCATTTTACCACATAAGGGCAAA-TTGTCATTTTACCACATAAA-GGCAAAA
* * * * * *
44616399 TAGTCATTTTATCATATAGGGGCGAGACTGTCATTTTACCACATAAAGGCAAAA
1 CAGTCATTTTACCACATAAGGGC-AAATTGTCATTTTACCACATAAAGGCAAAA
* * *
44616453 CAGTCATTTTACCTCATAAGGGGAAAATAGTCATTTTA
1 CAGTCATTTTACCACATAA-GGGCAAATTGTCATTTTA
44616491 TCGATTAAGG
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
54 63 0.89
55 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (53 bp):
CAGTCATTTTACCACATAAGGGCAAATTGTCATTTTACCACATAAAGGCAAAA
Found at i:44620079 original size:27 final size:27
Alignment explanation
Indices: 44620048--44620219 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
44620038 AGGGCATTTT
*
44620048 AGTCATTTTAGCATATAAGGGCAAAAC
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
44620075 CGTCATTTTACC-TCATAAGGGCAAAAT
1 AGTCATTTTACCAT-ATAAGGGCAAAAC
*
44620102 AGTCATTTTACCATATAAGGGCAAGAC
1 AGTCATTTTACCATATAAGGGCAAAAC
* *
44620129 TGTCATTTTACCACATAAGGGCAAAAC
1 AGTCATTTTACCATATAAGGGCAAAAC
* * *
44620156 AATCATTTCACC-TCATAAGGCCAAAAC
1 AGTCATTTTACCAT-ATAAGGGCAAAAC
* * *
44620183 AATTATTTTACC-TCATAAGGGCAAAAT
1 AGTCATTTTACCAT-ATAAGGGCAAAAC
44620210 AGTCATTTTA
1 AGTCATTTTA
44620220 TCGATTAAGG
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 120 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (27 bp):
AGTCATTTTACCATATAAGGGCAAAAC
Found at i:44620095 original size:54 final size:54
Alignment explanation
Indices: 44620047--44620219 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 54
44620037 AAGGGCATTT
* *
44620047 TAGTCATTTTAGCATATAAGGGCAAAACCGTCATTTTACCTCATAAGGGCAAAA
1 TAGTCATTTTACCATATAAGGGCAAAACCGTCATTTTACCACATAAGGGCAAAA
* *
44620101 TAGTCATTTTACCATATAAGGGCAAGACTGTCATTTTACCACATAAGGGCAAAA
1 TAGTCATTTTACCATATAAGGGCAAAACCGTCATTTTACCACATAAGGGCAAAA
* * * * ** * *
44620155 CAATCATTTCACC-TCATAAGGCCAAAACAATTATTTTACCTCATAAGGGCAAAA
1 TAGTCATTTTACCAT-ATAAGGGCAAAACCGTCATTTTACCACATAAGGGCAAAA
44620209 TAGTCATTTTA
1 TAGTCATTTTA
44620220 TCGATTAAGG
Statistics
Matches: 102, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 1 0.01
54 101 0.99
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (54 bp):
TAGTCATTTTACCATATAAGGGCAAAACCGTCATTTTACCACATAAGGGCAAAA
Found at i:44620171 original size:81 final size:81
Alignment explanation
Indices: 44620047--44620219 Score: 224
Period size: 81 Copynumber: 2.1 Consensus size: 81
44620037 AAGGGCATTT
* * ** * * * *
44620047 TAGTCATTTTAGCATATAAGGGCAAAACCGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTA
1 TAGTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATCATTTTA
*
44620112 CCAT-ATAAGGGCAAGAC
66 CC-TCATAAGGGCAA-AA
*
44620129 T-GTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATTATTTTA
1 TAGTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATCATTTTA
44620193 CCTCATAAGGGCAAAA
66 CCTCATAAGGGCAAAA
44620209 TAGTCATTTTA
1 TAGTCATTTTA
44620220 TCGATTAAGG
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.04
81 75 0.95
82 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (81 bp):
TAGTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATCATTTTA
CCTCATAAGGGCAAAA
Found at i:44623476 original size:18 final size:18
Alignment explanation
Indices: 44623443--44623477 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44623433 ATGATATGCT
**
44623443 AAACTATTTTTGTGCTTG
1 AAACTATTTTAATGCTTG
44623461 AAACTATTTTAATGCTT
1 AAACTATTTTAATGCTT
44623478 CCTGTTCTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
AAACTATTTTAATGCTTG
Found at i:44626326 original size:39 final size:39
Alignment explanation
Indices: 44626272--44626428 Score: 244
Period size: 39 Copynumber: 4.0 Consensus size: 39
44626262 CAAGACACTA
44626272 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
44626311 GAAATGTATCCGGGCTAAAGTC-CTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCTC-GCAGGCTTCGTGCTG
** *
44626350 GAAATGTATCCGGGCTAAAGTCTCATAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
* * *
44626389 GAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
44626428 G
1 G
44626429 TAATATAATA
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 107 0.98
40 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
Found at i:44629166 original size:12 final size:12
Alignment explanation
Indices: 44629149--44629178 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44629139 CCACAAATGC
*
44629149 CCATGTGCTAGG
1 CCATGTGCGAGG
44629161 CCATGTGCGAGG
1 CCATGTGCGAGG
44629173 CCATGT
1 CCATGT
44629179 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (12 bp):
CCATGTGCGAGG
Found at i:44638076 original size:45 final size:45
Alignment explanation
Indices: 44637960--44638063 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
44637950 ATCTAATACG
* * * *
44637960 ATGCCAGTGTCCCAGACATGGTCTTACACATAACCACATATATCA
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAAACACATATATCA
*
44638005 ATGCCAACGTCCCAAACATGGTCTTACACAAAAACACATATATCA
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAAACACATATATCA
44638050 ATGCCAATGTCCCA
1 ATGCCAATGTCCCA
44638064 TATGTGGTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.22
Consensus pattern (45 bp):
ATGCCAATGTCCCAAACATGGTCTTACACAAAAACACATATATCA
Found at i:44639901 original size:27 final size:26
Alignment explanation
Indices: 44639844--44639955 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
44639834 CAGCATGGCT
* * *
44639844 ACCAGAATAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
44639870 ACCAGAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
*
44639897 ACCAGAATAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
44639924 ACTAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
44639951 ACCAG
1 ACCAG
44639956 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:44639935 original size:54 final size:53
Alignment explanation
Indices: 44639844--44639955 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
44639834 CAGCATGGCT
*
44639844 ACCAGAATAGATAATGTGACAGAGTCACCAGAACAGATAATCGTGGCAGAGCC
1 ACCAGAATAGATAATGTGACAGAGCCACCAGAACAGATAATCGTGGCAGAGCC
* * * * *
44639897 ACCAGAATAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCC
1 ACCAGAATAGATA-ATGTGACAGAGCCACCAGAACAGATAATCGTGGCAGAGCC
44639951 ACCAG
1 ACCAG
44639956 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 13 0.25
54 39 0.75
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (53 bp):
ACCAGAATAGATAATGTGACAGAGCCACCAGAACAGATAATCGTGGCAGAGCC
Found at i:44643977 original size:6 final size:6
Alignment explanation
Indices: 44643959--44644046 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
44643949 AAGAAACATT
* *
44643959 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
44644008 ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
44644047 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:44644004 original size:31 final size:31
Alignment explanation
Indices: 44643968--44644046 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
44643958 TATCAGAACT
* *
44643968 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
44643999 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
44644030 CGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
44644047 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:44644506 original size:27 final size:27
Alignment explanation
Indices: 44644466--44644669 Score: 273
Period size: 27 Copynumber: 7.6 Consensus size: 27
44644456 TACCTCACAA
* *
44644466 GGTATCTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
44644493 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
44644520 GGTATTTTGGTATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
44644547 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
44644574 GGTATTTAAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
44644601 GGTATTGCCATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
44644628 GGTATTTCGGTAATTCTACCCTATAGA
1 GGTATTTCGGTAATTCTACCCTACAGG
*
44644655 GGTGTTTCGGTAATT
1 GGTATTTCGGTAATT
44644670 TTACAAGTCA
Statistics
Matches: 156, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 156 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:44644696 original size:81 final size:81
Alignment explanation
Indices: 44644449--44644696 Score: 279
Period size: 81 Copynumber: 3.1 Consensus size: 81
44644439 GGGAAAAATG
* * *
44644449 GTAATTTTA-CCTCACAA-GGTATCTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
1 GTAATTCTACCCT-ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC
*
44644512 CCTACAGGGGTATTTTG
65 CCTACAGGGGTATTTTA
* * *
44644529 GTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTAAGTAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
**
44644594 CTACAGGGGTATTGCCA
66 CTACAGGGGTATT-TTA
* * * * * *
44644611 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGAGGTGTTTCGGTAATTTTACA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTAC-
** *
44644675 AGT-CAAGGGTATTTTA
65 CCTACAGGGGTATTTTA
44644691 GTAATT
1 GTAATT
44644697 TTACAAACTA
Statistics
Matches: 140, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
80 12 0.09
81 127 0.91
82 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTTA
Found at i:44644722 original size:54 final size:54
Alignment explanation
Indices: 44644659--44644779 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
44644649 TATAGAGGTG
* ** *
44644659 TTTCGGTAATTTTACAAGTCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTA
1 TTTCAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTA
* * * **
44644713 TTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTA
1 TTTCAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTA
*
44644767 TTTCAATAATTTT
1 TTTCAGTAATTTT
44644780 GTAAATCGAG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTCAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTA
Found at i:44644784 original size:27 final size:27
Alignment explanation
Indices: 44644664--44644779 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
44644654 AGGTGTTTCG
*
44644664 GTAATTTTAC-AAGTCAAGGGTATTTTA
1 GTAATTTTACAAACT-AAGGGTATTTTA
*
44644691 GTAATTTTACAAACTAGGGGTATTTTA
1 GTAATTTTACAAACTAAGGGTATTTTA
* * *
44644718 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACTAAGGGTATTTTA
** *
44644745 GTAATTTTGTAAACTAAGGGTATTTCA
1 GTAATTTTACAAACTAAGGGTATTTTA
*
44644772 ATAATTTT
1 GTAATTTT
44644780 GTAAATCGAG
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 74 0.96
28 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTTA
Found at i:44644800 original size:27 final size:27
Alignment explanation
Indices: 44644773--44645022 Score: 311
Period size: 27 Copynumber: 9.3 Consensus size: 27
44644763 GGTATTTCAA
* * **
44644773 TAATTTTGTAAATCGAGGATAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
44644800 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
44644827 TAATTTTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
44644854 TAATTTTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* **
44644881 TAATTCTGTAAATCGAGGGTATAATAG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* * *
44644908 TAATTCTATAAGTTGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
* **
44644935 TAATTTTGTAAATCGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGG
44644962 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGG
*
44644989 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGG
44645016 TAATTCT
1 TAATTCT
44645023 ATCTTATTTT
Statistics
Matches: 196, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGG
Found at i:44645067 original size:27 final size:25
Alignment explanation
Indices: 44645037--44645121 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
44645027 TATTTTAGTG
44645037 ATTTTACAAATCGAGGATATTTGGGTA
1 ATTTTACAAATCGAGG-TATTT-GGTA
* *
44645064 ATTTTATAAATCGGGGGTACTTTGGTA
1 ATTTTACAAATC-GAGGTA-TTTGGTA
* *
44645091 ATTTTACAAGTCGAAGGTATTTCAGTA
1 ATTTTACAAATCG-AGGTATTT-GGTA
44645118 ATTT
1 ATTT
44645122 GGTAAACTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.08
27 38 0.79
28 6 0.12
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (25 bp):
ATTTTACAAATCGAGGTATTTGGTA
Found at i:44651596 original size:27 final size:27
Alignment explanation
Indices: 44651517--44651627 Score: 86
Period size: 27 Copynumber: 4.1 Consensus size: 27
44651507 AGCATGGCTT
* *
44651517 CCAGAACA-ACTAA-TGTGACAGAGTCA
1 CCAGAACAGA-TAATTGTGGCAGAGCCA
* * * *
44651543 CCAGGACTGAT-ATTCATGGCAGTGCCA
1 CCAGAACAGATAATT-GTGGCAGAGCCA
*
44651570 CCAGAACAGAT-ATATGTGGTAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
44651597 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
44651624 CCAG
1 CCAG
44651628 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
25 1 0.02
26 8 0.12
27 54 0.82
28 3 0.05
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:44653059 original size:24 final size:24
Alignment explanation
Indices: 44653021--44653121 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
44653011 CCAACACCGT
* *
44653021 TCTCCCTAATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
44653045 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
44653069 TCTCCCTTATCAGCTTCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
44653093 TCTCCCTTATTAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
44653117 TCTCC
1 TCTCC
44653122 TGACAGCCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.21, C:0.39, G:0.04, T:0.37
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:44662648 original size:12 final size:12
Alignment explanation
Indices: 44662631--44662655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44662621 ATGTAAGTGA
44662631 TCTTGATGATTT
1 TCTTGATGATTT
44662643 TCTTGATGATTT
1 TCTTGATGATTT
44662655 T
1 T
44662656 TACATTTTTG
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:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:44667442 original size:40 final size:40
Alignment explanation
Indices: 44667383--44667601 Score: 329
Period size: 40 Copynumber: 5.5 Consensus size: 40
44667373 TTCGGATGAC
44667383 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44667423 ATCTGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * *
44667462 ATCCAGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44667502 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44667542 ATCCGGGCTAAGTCCCAAAGGCATTTGTG-TGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACTAT
*
44667582 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
44667602 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 51 0.31
40 112 0.68
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:44667519 original size:79 final size:80
Alignment explanation
Indices: 44667383--44667601 Score: 329
Period size: 79 Copynumber: 2.8 Consensus size: 80
44667373 TTCGGATGAC
* *
44667383 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCA-T
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
44667447 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
* *
44667462 ATCCAGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
44667527 TGTGCTATTGACTAT
66 TGTGCTAGTGACTAT
* *
44667542 ATCCGGGCTAAGTCCCAAAGGCATTTGTG-TGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-A-TTGACTATATCCGGGCTAAGTCCCGAAGG
44667602 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 75 0.59
80 50 0.39
81 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:44667598 original size:119 final size:119
Alignment explanation
Indices: 44667383--44667601 Score: 345
Period size: 119 Copynumber: 1.8 Consensus size: 119
44667373 TTCGGATGAC
* *
44667383 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATT
*
44667448 GTGCTAGTGACTATATCCAGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTAT
66 GTGCTAGTGACTATATCCAGGCTAAACCCCGAAGGCATTTGTGCTATTGACTAT
*
44667502 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCAAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCA-T
*
44667567 TGTG-TGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
65 TGTGCT-AG-TGACTATATCCAGGCTAAACCCCGAAGG
44667602 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
119 75 0.82
120 15 0.16
121 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (119 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCAAAGGCATT
GTGCTAGTGACTATATCCAGGCTAAACCCCGAAGGCATTTGTGCTATTGACTAT
Found at i:44675915 original size:39 final size:40
Alignment explanation
Indices: 44675837--44676053 Score: 354
Period size: 39 Copynumber: 5.5 Consensus size: 40
44675827 TTCGGATGAC
44675837 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
44675877 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44675916 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44675955 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
44675995 ATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
44676034 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
44676054 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 4, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
38 17 0.10
39 87 0.51
40 65 0.38
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:44676050 original size:118 final size:118
Alignment explanation
Indices: 44675837--44676053 Score: 359
Period size: 118 Copynumber: 1.8 Consensus size: 118
44675827 TTCGGATGAC
44675837 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
44675902 GTGCTAGTGACTATATCCGGGCTAAGCCCGAAGGCATTTGTGCTATTGACTAT
66 GTGCGAGTGACTATATCCGGGCTAAGCCCGAAGGCATTTGTGCTATTGACTAT
*
44675955 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGT-CCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-T
*
44676019 TGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
65 TGTGCGAG-TGACTATATCCGGGCT-AAGCCCGAAGG
44676054 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
117 13 0.14
118 78 0.84
119 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (118 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
GTGCGAGTGACTATATCCGGGCTAAGCCCGAAGGCATTTGTGCTATTGACTAT
Found at i:44681102 original size:3 final size:3
Alignment explanation
Indices: 44681094--44681125 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44681084 GGTTAGGAAA
44681094 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44681126 GAGGTTATAG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:44694839 original size:42 final size:43
Alignment explanation
Indices: 44694792--44694909 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 43
44694782 TGTGGTATCA
* * **
44694792 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTC-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATGACAG
* * * *
44694834 TGTAAGACCCTATCTAGGACAATGGCATCGATATTTAATGACAG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAATGACAG
* * *
44694878 T-TAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
44694910 GAGCTTTCTG
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 28 0.47
43 29 0.49
44 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATGACAG
Found at i:44698946 original size:40 final size:40
Alignment explanation
Indices: 44698891--44699059 Score: 257
Period size: 40 Copynumber: 4.2 Consensus size: 40
44698881 TATGTGCACA
*
44698891 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
44698931 GCATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* * * *
44698971 GCATTCGTGTGGGTTATTATAACCAGGATAAGTCCTGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
44699011 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
44699051 GCATTCGTG
1 GCATTCGTG
44699060 TTGGTTGTTA
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:44703888 original size:46 final size:46
Alignment explanation
Indices: 44703834--44704009 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
44703824 TGGTTGAGCA
* *
44703834 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
44703880 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
44703927 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
44703973 -CCTGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44704010 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.55
47 27 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:44703990 original size:93 final size:93
Alignment explanation
Indices: 44703831--44704002 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
44703821 GGATGGTTGA
* *
44703831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCAAACTCGTTGAGT
44703896 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** * *
44703924 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGTGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-AAACTCGTTGAG
*
44703988 TTGAGTTCGAGTTCG
65 TTGAGTCCGAGTTCG
44704003 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44707166 original size:36 final size:36
Alignment explanation
Indices: 44707119--44707192 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
44707109 GTGATTTTTG
*
44707119 TTGTTTAATGGTGAAATATGAAAGACATGTTTTAGA
1 TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
44707155 TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
1 TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
44707191 TT
1 TT
44707193 AACATATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (36 bp):
TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
Found at i:44719072 original size:68 final size:68
Alignment explanation
Indices: 44718922--44719079 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
44718912 CTAGCCAATT
* * *
44718922 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
**
44718987 TTTA
65 CATA
* * *
44718991 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTA
44719053 CTACATA
63 C-ACATA
*
44719060 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
44719080 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 36 0.49
69 8 0.11
70 5 0.07
71 25 0.34
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAC
ATA
Done.