Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 116 of 173
Found at i:35874103 original size:22 final size:23
Alignment explanation
Indices: 35874045--35874103 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
35874035 ATGTAATCTT
*
35874045 AGATATGA-TTTGTAATCTTAGA
1 AGATATGATTTTGTAATATTAGA
*
35874067 AGATATGATTCTGTAATATTAG-
1 AGATATGATTTTGTAATATTAGA
* *
35874089 TGATTTGATTTTGTA
1 AGATATGATTTTGTA
35874104 GATAGCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (23 bp):
AGATATGATTTTGTAATATTAGA
Found at i:35874884 original size:9 final size:9
Alignment explanation
Indices: 35874867--35874903 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35874857 TGAGTTTTCC
35874867 AATTCGAAT
1 AATTCGAAT
*
35874876 AACTCGAAT
1 AATTCGAAT
35874885 AATTCGAAT
1 AATTCGAAT
35874894 AATTCGAAT
1 AATTCGAAT
35874903 A
1 A
35874904 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35875151 original size:30 final size:31
Alignment explanation
Indices: 35875117--35875176 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
35875107 AAACCTTTTA
*
35875117 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
35875147 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
35875177 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:35875319 original size:20 final size:20
Alignment explanation
Indices: 35875286--35875325 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35875276 TTATTCTCCA
*
35875286 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
35875306 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
35875326 TGACCCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:35875447 original size:9 final size:9
Alignment explanation
Indices: 35875433--35875461 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
35875423 AATTTCACAT
35875433 TTTATATTA
1 TTTATATTA
35875442 TTTATATTA
1 TTTATATTA
35875451 TTTATATTA
1 TTTATATTA
35875460 TT
1 TT
35875462 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:35875843 original size:5 final size:5
Alignment explanation
Indices: 35875833--35875858 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
35875823 GAACAAATAT
35875833 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
35875859 ATTCCATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:35901915 original size:26 final size:25
Alignment explanation
Indices: 35901850--35901996 Score: 97
Period size: 25 Copynumber: 5.9 Consensus size: 25
35901840 TCTTAAAGCA
35901850 TCCCGA-TATATGGCTCTTTGGAGCT
1 TCCCGACTA-ATGGCTCTTTGGAGCT
* * * *
35901875 TCCCTATTAAGGGCTCTTTATGAGCT
1 TCCCGACTAATGGCTCTTT-GGAGCT
* * *
35901901 TCCGGACTAATGGCTCTCTGAAGCT
1 TCCCGACTAATGGCTCTTTGGAGCT
* *
35901926 TCCCGA-T-ATGGCTCGATT-GAACT
1 TCCCGACTAATGGCTC-TTTGGAGCT
* * *
35901949 TCCCGA-TATATAGCTATTAGGAGCT
1 TCCCGACTA-ATGGCTCTTTGGAGCT
* *
35901974 TCCTGACTAATGGCTCTTCGGAG
1 TCCCGACTAATGGCTCTTTGGAG
35901997 GTACCTGTTA
Statistics
Matches: 91, Mismatches: 24, Indels: 14
0.71 0.19 0.11
Matches are distributed among these distances:
23 17 0.19
24 3 0.03
25 48 0.53
26 23 0.25
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (25 bp):
TCCCGACTAATGGCTCTTTGGAGCT
Found at i:35901939 original size:23 final size:22
Alignment explanation
Indices: 35901910--35901957 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
35901900 TTCCGGACTA
35901910 ATGGCTC-TCTGAAGCTTCCCGAT
1 ATGGCTCAT-TGAA-CTTCCCGAT
35901933 ATGGCTCGATTGAACTTCCCGAT
1 ATGGCTC-ATTGAACTTCCCGAT
35901956 AT
1 AT
35901958 ATAGCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 18 0.78
24 4 0.17
25 1 0.04
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (22 bp):
ATGGCTCATTGAACTTCCCGAT
Found at i:35905520 original size:27 final size:27
Alignment explanation
Indices: 35905482--35905534 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
35905472 TCAGAGAACT
35905482 TGAATTTTCTATAGATCTTGTTCTGGG
1 TGAATTTTCTATAGATCTTGTTCTGGG
35905509 TGAATTTTCTATAGATCTTGTTCTGG
1 TGAATTTTCTATAGATCTTGTTCTGG
35905535 AACAACATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (27 bp):
TGAATTTTCTATAGATCTTGTTCTGGG
Found at i:35920804 original size:29 final size:29
Alignment explanation
Indices: 35920761--35920818 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
35920751 GGCCTGTGTA
*
35920761 CGACACACTGTCATGTGATAGGCCATGTG
1 CGACACACTGGCATGTGATAGGCCATGTG
*
35920790 CGACACACTGGCATGTGATAGGGCATGTG
1 CGACACACTGGCATGTGATAGGCCATGTG
35920819 TGAGGCCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (29 bp):
CGACACACTGGCATGTGATAGGCCATGTG
Found at i:35931525 original size:18 final size:18
Alignment explanation
Indices: 35931499--35931534 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35931489 CAACCCTACA
35931499 AGGTCTATCTACAGTTTT
1 AGGTCTATCTACAGTTTT
*
35931517 AGGTTTATCTACAGTTTT
1 AGGTCTATCTACAGTTTT
35931535 TATTCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (18 bp):
AGGTCTATCTACAGTTTT
Found at i:35934079 original size:15 final size:14
Alignment explanation
Indices: 35934042--35934085 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
35934032 TTTTATTATA
35934042 ATAACTTTATAATAT
1 ATAACTTTATAAT-T
*
35934057 ATAA-TTTATTATT
1 ATAACTTTATAATT
35934070 ATAACCTTTATAATT
1 ATAA-CTTTATAATT
35934085 A
1 A
35934086 ATATAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAACTTTATAATT
Found at i:35934918 original size:21 final size:21
Alignment explanation
Indices: 35934894--35934950 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
35934884 TTTTTTATAC
35934894 TATGCATGTTTTAATTCAATA
1 TATGCATGTTTTAATTCAATA
*
35934915 TATGCATGTTTTAATTCGATA
1 TATGCATGTTTTAATTCAATA
35934936 TATGCATGTTTTAAT
1 TATGCATGTTTTAAT
35934951 CGGCCATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (21 bp):
TATGCATGTTTTAATTCAATA
Found at i:35942354 original size:19 final size:19
Alignment explanation
Indices: 35942330--35942366 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
35942320 TTCTACTGAT
35942330 AAAAAT-ATATATAGTTGAA
1 AAAAATCAT-TATAGTTGAA
35942349 AAAAATCATTATAGTTGA
1 AAAAATCATTATAGTTGA
35942367 TCATTTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAAATCATTATAGTTGAA
Found at i:35949591 original size:18 final size:19
Alignment explanation
Indices: 35949568--35949604 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
35949558 CAAAAAAAAA
35949568 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
35949586 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
35949605 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:35959948 original size:45 final size:45
Alignment explanation
Indices: 35959871--35959961 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
35959861 AGATACTCAA
* * *
35959871 TGGATTCAGCACATAGCAACCAGCTTATTAATCAATGATGTCCGG
1 TGGAATCAACACATAGCAACCACCTTATTAATCAATGATGTCCGG
*
35959916 TGGAATCAACACATAGCAACCACCTT-TCTAATCAATGATGTTCGG
1 TGGAATCAACACATAGCAACCACCTTAT-TAATCAATGATGTCCGG
35959961 T
1 T
35959962 TCACATAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
TGGAATCAACACATAGCAACCACCTTATTAATCAATGATGTCCGG
Found at i:35960025 original size:51 final size:51
Alignment explanation
Indices: 35959958--35960144 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 51
35959948 CAATGATGTT
* *
35959958 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
* * * * *
35960009 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
* * ** * **
35960060 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCTAT-CGTTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
*
35960110 CGGTACACGTAGTAGCTTGCACATAGTACTACACA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACA
35960145 CGTAACCATC
Statistics
Matches: 115, Mismatches: 21, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 35 0.30
51 80 0.70
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATC
Found at i:35960173 original size:101 final size:100
Alignment explanation
Indices: 35959964--35960152 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 100
35959954 TGTTCGGTTC
**
35959964 ACATAGTAGCCTGCACATAGTACTACACATGTGACCAATACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCAACCAATACCATCCGATACACGTAGTAGCCTGC
* * *
35960029 ACATAGTACTACACACGTGATCAAAACTATCCGGT
66 ACATAGTACTACACACGTAACCAAAACTAACCGGT
* ** * *
35960064 ACGCATAGTAGCCTGCACATAGTACTACACATGCAACCTAT-CGTTCCGGTACACGTAGTAGCTT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCAACCAATACCATCCGATACACGTAGTAGCCT
35960128 GCACATAGTACTACACACGTAACCA
64 GCACATAGTACTACACACGTAACCA
35960153 TCACTTTAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 1 0.01
101 42 0.54
102 35 0.45
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (100 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCAACCAATACCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTAACCAAAACTAACCGGT
Found at i:35963780 original size:138 final size:138
Alignment explanation
Indices: 35963617--35963897 Score: 483
Period size: 138 Copynumber: 2.0 Consensus size: 138
35963607 TAGATATAAT
*
35963617 TAATTAATATATGAATTTGATTCATACAAAATACTACTTGTATATATTTTACCGAATTTATTAAT
1 TAATTAATATATGAATTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAAT
35963682 ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
66 ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
*
35963747 AACGAATA
131 AAAGAATA
* * *
35963755 TAATTAATATATGAACTTT-ATTCATACAAAATATTAATTGTATATATTTTCCCTAATTTATTAA
1 TAATTAATATATGAA-TTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAA
*
35963819 TATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
65 TATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
*
35963884 GAAAGAATG
130 GAAAGAATA
35963893 TAATT
1 TAATT
35963898 CATTTTTCTA
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
138 132 0.98
139 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (138 bp):
TAATTAATATATGAATTTGATTCATACAAAATACTAATTGTATATATTTTACCGAATTTATTAAT
ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
AAAGAATA
Found at i:35975687 original size:63 final size:63
Alignment explanation
Indices: 35975610--35975735 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
35975600 TAAGAACTAA
*
35975610 GTTAGAATCTAATTATGTAACACCCCTTACCTGAGACCATCGCCGGAATCGAGTACGAGATGT
1 GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGCCGGAATCGAGTACGAGATGT
*
35975673 GTTAGAATCTAATTATGTAACACCCCTTACCCGATACCATCGCCGGAATCGAGTACGAGATGT
1 GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGCCGGAATCGAGTACGAGATGT
35975736 TATCTAACTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (63 bp):
GTTAGAATCTAATTATGTAACACCCCTTACCCGAGACCATCGCCGGAATCGAGTACGAGATGT
Found at i:35976960 original size:23 final size:23
Alignment explanation
Indices: 35976908--35976953 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35976898 ATAAGTGCCA
35976908 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
*
35976931 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
35976954 TATTGATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCAAAGCTAC
Found at i:35984507 original size:29 final size:28
Alignment explanation
Indices: 35984467--35984526 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
35984457 AATTTCAAAA
*
35984467 AAAAATTATAAAACTAGTTTT-AAAAATT
1 AAAAATCATAAAACTA-TTTTAAAAAATT
**
35984495 AAAAATCATTAAATTTATTTTAAAAAATT
1 AAAAATCA-TAAAACTATTTTAAAAAATT
35984524 AAA
1 AAA
35984527 TATTTTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (28 bp):
AAAAATCATAAAACTATTTTAAAAAATT
Found at i:35986909 original size:17 final size:17
Alignment explanation
Indices: 35986887--35986923 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
35986877 GGTGTAACAT
35986887 ACGCCCGTATGACCCAC
1 ACGCCCGTATGACCCAC
*
35986904 ACGCCCGTATGGCCCAC
1 ACGCCCGTATGACCCAC
35986921 ACG
1 ACG
35986924 GGCCAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.46, G:0.22, T:0.11
Consensus pattern (17 bp):
ACGCCCGTATGACCCAC
Found at i:35987784 original size:22 final size:22
Alignment explanation
Indices: 35987756--35987798 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
35987746 TGGACAAGCC
35987756 ACCACATAATTGCT-GATAAACA
1 ACCACATAATTG-TAGATAAACA
35987778 ACCACATAATTGTAGATAAAC
1 ACCACATAATTGTAGATAAAC
35987799 TGCCATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (22 bp):
ACCACATAATTGTAGATAAACA
Found at i:35988075 original size:18 final size:19
Alignment explanation
Indices: 35988045--35988081 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
35988035 TTTGCACAAA
*
35988045 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
35988064 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
35988082 ACTTTTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:35993060 original size:16 final size:16
Alignment explanation
Indices: 35993041--35993075 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35993031 TTAAATAGGA
*
35993041 TTGTAATTGAATAAAG
1 TTGTAATGGAATAAAG
*
35993057 TTGTAATGGAATAGAG
1 TTGTAATGGAATAAAG
35993073 TTG
1 TTG
35993076 CAATCAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
TTGTAATGGAATAAAG
Found at i:35993279 original size:24 final size:25
Alignment explanation
Indices: 35993252--35993309 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
35993242 TTAATATATA
35993252 TTTTAATATAATTTAAAATAAATTT
1 TTTTAATATAATTTAAAATAAATTT
* * *
35993277 TTTTAA-ATATTTTATATTAAATTT
1 TTTTAATATAATTTAAAATAAATTT
*
35993301 ATTTAATAT
1 TTTTAATAT
35993310 TTTATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTAATATAATTTAAAATAAATTT
Found at i:35993283 original size:10 final size:12
Alignment explanation
Indices: 35993270--35993322 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
35993260 TAATTTAAAA
35993270 TAAATTTT-T-T
1 TAAATTTTATAT
35993280 TAAATATTTTATAT
1 TAAAT--TTTATAT
35993294 TAAA-TTTAT-T
1 TAAATTTTATAT
35993304 TAATATTTTATAT
1 TAA-ATTTTATAT
35993317 TAAATT
1 TAAATT
35993323 GTTTCAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.25
11 6 0.17
12 11 0.31
13 5 0.14
14 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATTTTATAT
Found at i:35993296 original size:14 final size:13
Alignment explanation
Indices: 35993282--35993319 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 13
35993272 AATTTTTTTA
35993282 AATATTTTATATT
1 AATATTTTATATT
35993295 AA-A-TTTAT-TT
1 AATATTTTATATT
35993305 AATATTTTATATT
1 AATATTTTATATT
35993318 AA
1 AA
35993320 ATTGTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.18
11 6 0.27
12 6 0.27
13 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATATTTTATATT
Found at i:35993312 original size:23 final size:24
Alignment explanation
Indices: 35993270--35993322 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
35993260 TAATTTAAAA
*
35993270 TAAATTTTTTTAAATATTTTATAT
1 TAAATTTATTTAAATATTTTATAT
35993294 TAAATTTATTT-AATATTTTATAT
1 TAAATTTATTTAAATATTTTATAT
35993317 TAAATT
1 TAAATT
35993323 GTTTCAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 18 0.64
24 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TAAATTTATTTAAATATTTTATAT
Found at i:35993338 original size:24 final size:22
Alignment explanation
Indices: 35993276--35993338 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
35993266 AAAATAAATT
35993276 TTTTTAAATATTTTATATTAAA
1 TTTTTAAATATTTTATATTAAA
*
35993298 TTTATTTAATATTTTATATTAAA
1 TTT-TTAAATATTTTATATTAAA
*
35993321 TTGTTTCAAATATATTAT
1 TT-TTT-AAATATTTTAT
35993339 TTTTATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.09
23 22 0.63
24 10 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTTAAATATTTTATATTAAA
Found at i:35996355 original size:15 final size:15
Alignment explanation
Indices: 35996324--35996364 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
35996314 CATATAGTAA
35996324 TTAA-ATTTTCAAAAC
1 TTAATATTTT-AAAAC
*
35996339 TTAATATTTTAACAC
1 TTAATATTTTAAAAC
35996354 TTAAT-TTTTAA
1 TTAATATTTTAA
35996365 TTTATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (15 bp):
TTAATATTTTAAAAC
Found at i:35997644 original size:21 final size:21
Alignment explanation
Indices: 35997618--35997661 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
35997608 TTCCTTCTCC
35997618 CCGCCTTCCTTCTTCTCCCCG
1 CCGCCTTCCTTCTTCTCCCCG
35997639 CCGCCTTCCTTCTTCTCCCCG
1 CCGCCTTCCTTCTTCTCCCCG
35997660 CC
1 CC
35997662 TCCCTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.59, G:0.09, T:0.32
Consensus pattern (21 bp):
CCGCCTTCCTTCTTCTCCCCG
Found at i:35997654 original size:39 final size:39
Alignment explanation
Indices: 35997595--35997700 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 39
35997585 ATCTTGGCTT
* *
35997595 CACCACCGCCTT-CTTCCTTCTCCCCGCCTTCCTTCTTCTC
1 CACCGCCGCCTTCCTT-CTTCTCCCCGCCTCCCTTC-TCTC
35997635 C-CCGCCGCCTTCCTTCTTCTCCCCGCCTCCCTTCTCTC
1 CACCGCCGCCTTCCTTCTTCTCCCCGCCTCCCTTCTCTC
* * *
35997673 CACCTCCTCCTCCCTTCTTC-CCGCCGCC
1 CACCGCCGCCTTCCTTCTTCTCC-CCGCC
35997701 GCCTGCAGCA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.12
39 47 0.81
40 4 0.07
ACGTcount: A:0.03, C:0.59, G:0.07, T:0.31
Consensus pattern (39 bp):
CACCGCCGCCTTCCTTCTTCTCCCCGCCTCCCTTCTCTC
Found at i:35997660 original size:18 final size:18
Alignment explanation
Indices: 35997600--35997673 Score: 89
Period size: 18 Copynumber: 4.0 Consensus size: 18
35997590 GGCTTCACCA
35997600 CCGCCTT-CTTCCTTCTCC
1 CCGCCTTCCTT-CTTCTCC
35997618 CCGCCTTCCTTCTTCTCCCC
1 CCGCCTTCCTTCTTCT--CC
35997638 GCCGCCTTCCTTCTTCTCC
1 -CCGCCTTCCTTCTTCTCC
*
35997657 CCGCCTCCCTTC-TCTCC
1 CCGCCTTCCTTCTTCTCC
35997674 ACCTCCTCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
17 5 0.10
18 23 0.45
19 5 0.10
20 2 0.04
21 16 0.31
ACGTcount: A:0.00, C:0.58, G:0.07, T:0.35
Consensus pattern (18 bp):
CCGCCTTCCTTCTTCTCC
Found at i:36022602 original size:21 final size:21
Alignment explanation
Indices: 36022576--36022615 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36022566 TAACAGAGGC
36022576 TTTTTTAATTTCTAAAAATAA
1 TTTTTTAATTTCTAAAAATAA
* *
36022597 TTTTTTTATTTTTAAAAAT
1 TTTTTTAATTTCTAAAAAT
36022616 TTAAATCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTTAATTTCTAAAAATAA
Found at i:36024237 original size:30 final size:31
Alignment explanation
Indices: 36024164--36024248 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 31
36024154 TATTCGTTTT
*
36024164 ATTCGAGTT-ATTCG-AATTCGAAAATCAAA
1 ATTCGAGTTGACTCGAAATTCGAAAATCAAA
* *
36024193 ATT-GATTTGAACTCGAAATTCGAAAA-GAAA
1 ATTCGAGTTG-ACTCGAAATTCGAAAATCAAA
*
36024223 TTTCGAGTTGACTCGATTAATTCGAA
1 ATTCGAGTTGACTCGA--AATTCGAA
36024249 TAACTCGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
28 4 0.09
29 3 0.07
30 15 0.33
31 15 0.33
32 8 0.18
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (31 bp):
ATTCGAGTTGACTCGAAATTCGAAAATCAAA
Found at i:36037432 original size:44 final size:43
Alignment explanation
Indices: 36037383--36037718 Score: 335
Period size: 44 Copynumber: 7.8 Consensus size: 43
36037373 ATCTGCTATT
* * * *
36037383 TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGGTTCACGATC
1 TTCAACCTATTCCACTGCTGC-CAGGGAGATAGGATTCACAATC
* * *
36037427 TTCAACCTATTCCACTACTGACCAGGGAGATAAGA-CCTACAATC
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGGATTC-ACAATC
* * * *
36037471 TTCAATCTATTTCACTGCTGCCTAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGCC-AGGGAGATAGGATTCACAATC
* *
36037515 TTCAACCTATTCCACTGCTGATCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATC
* *
36037559 TTTAACCTATTCCACTGCTGTCCAGGGAAATAGGATT--C--T-
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATC
* * *
36037598 TT-AATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATC
* *
36037641 TTCAACCAATTCCACTGCTGACCAGGGAGATAGGATTCAAAATC
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGGATTCACAATC
* * *
36037685 TTTAACCTATTCCACTACTGACTAGGGAGATAGG
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGG
36037719 GCTGGGGTCA
Statistics
Matches: 242, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
38 30 0.12
39 2 0.01
40 2 0.01
42 2 0.01
43 5 0.02
44 198 0.82
45 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGCCAGGGAGATAGGATTCACAATC
Found at i:36037608 original size:38 final size:38
Alignment explanation
Indices: 36037557--36037635 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
36037547 GGATTCACAA
* *
36037557 TCTTTAACCTATTCCACTGCTGTCCAGGGAAATAGGAT
1 TCTTTAACCTATTCCACTGCTGCCCAGGGAAATAGAAT
* *
36037595 TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAAT
1 TCTTTAACCTATTCCACTGCTGCCCAGGGAAATAGAAT
36037633 TCT
1 TCT
36037636 CAATCTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (38 bp):
TCTTTAACCTATTCCACTGCTGCCCAGGGAAATAGAAT
Found at i:36037653 original size:82 final size:82
Alignment explanation
Indices: 36037433--36037678 Score: 235
Period size: 82 Copynumber: 2.9 Consensus size: 82
36037423 GATCTTCAAC
* * ** * * *
36037433 CTATTCCACTACTGACCAGGGAGATAAGACCT-ACAATCTTCAATCTATTTCACTGCTG-CCTAG
1 CTATTCCACTGCTGACCAAGGAGAT-AGAATTCACAATCTTCAACCAATTCCACTGCTGACC-AG
* * *
36037496 GGAGATAGAATTCTCAATCTTCAAC
64 GGAAATAGGA-T-TC--T-TT-AAT
* * * * *
36037521 CTATTCCACTGCTGATCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGTCCAGGG
1 CTATTCCACTGCTGACCAAGGAGATAGAATTCACAATCTTCAACCAATTCCACTGCTGACCAGGG
36037586 AAATAGGATTCTTTAAT
66 AAATAGGATTCTTTAAT
* * *
36037603 CTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCAATTCCACTGCTGACCAGGG
1 CTATTCCACTGCTGACCAAGGAGATAGAATTCACAATCTTCAACCAATTCCACTGCTGACCAGGG
*
36037668 AGATAGGATTC
66 AAATAGGATTC
36037679 AAAATCTTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
82 69 0.51
83 2 0.01
84 1 0.01
86 2 0.01
87 4 0.03
88 55 0.41
89 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (82 bp):
CTATTCCACTGCTGACCAAGGAGATAGAATTCACAATCTTCAACCAATTCCACTGCTGACCAGGG
AAATAGGATTCTTTAAT
Found at i:36037655 original size:126 final size:128
Alignment explanation
Indices: 36037383--36037718 Score: 460
Period size: 126 Copynumber: 2.6 Consensus size: 128
36037373 ATCTGCTATT
* * * * * *
36037383 TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGGTTCACGATCTTCAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
* * *
36037448 CCAGGGAGATAAGACCTACAATCTTCAATCTATTTCACTGCTGCCTAGGGAGATAGAATTCTCAA
66 CCAGGGAGATAGGA-CT---ATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAA
36037513 TC
127 TC
* * *
36037515 TTCAACCTATTCCACTGCTGATCAAGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGT
1 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
* *
36037580 CCAGGGAAATAGGA-T-TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
66 CCAGGGAGATAGGACTATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
* * *
36037641 TTCAACCAATTCCACTGCTGACCAGGGAGATAGGATTCAAAATCTTTAACCTATTCCACTACTGA
1 TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
*
36037706 CTAGGGAGATAGG
66 CCAGGGAGATAGG
36037719 GCTGGGGTCA
Statistics
Matches: 182, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
126 113 0.62
130 1 0.01
132 68 0.37
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (128 bp):
TTCAACCTATTCCACTGCTGATCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTACTGA
CCAGGGAGATAGGACTATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
Found at i:36037906 original size:88 final size:88
Alignment explanation
Indices: 36037718--36038391 Score: 929
Period size: 88 Copynumber: 7.7 Consensus size: 88
36037708 AGGGAGATAG
* * * * * * *
36037718 GGCTGGGGTCATCGATCTGCTTCACTGTTGGTACAGGAAGGCAAGATCTACTA-TTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* **
36037782 TCCACTACAACCCAAAGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
36037805 GG-TCGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTA
1 GGCT-GGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
**
36037869 CTCTGCTGCAACCCAGGGAGGCAA
65 CTCCACTGCAACCCAGGGAGGCAA
* * * *
36037893 GGCTGGTGCCTTCGATCTGCTTCCCTATCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
36037958 TCCGCTGCAACCTAGGGAAGAAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * * * * *
36037981 GGTTGATGTCTTCGATCTGCTTCGCTATTGGCGTAGGAAGGCAAGATCTGCTATTTTTAACCTAC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
36038046 TCCACTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
*
36038069 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
**
36038134 TCCGTTGCAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * *
36038157 GGCTGATGTCTTCGATCTGCTTCGCTGTTGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
36038222 TCCACTGCAACCCAGGAAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* * * *
36038245 GGTTGGTGTCTTTGATCTGTTTCGCTGTCGGTGCAGGAAGGCAAGATCTTCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
36038310 TCCACTACAACCCAGGGAGGCAA
66 TCCACTGCAACCCAGGGAGGCAA
* *
36038333 GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAAGCAAGATCTGCTATTTTTA
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
36038392 CCGATCTGCT
Statistics
Matches: 515, Mismatches: 69, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
86 1 0.00
87 44 0.09
88 469 0.91
89 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCACTGCAACCCAGGGAGGCAA
Found at i:36038239 original size:44 final size:44
Alignment explanation
Indices: 36038015--36038333 Score: 149
Period size: 44 Copynumber: 7.2 Consensus size: 44
36038005 CTATTGGCGT
* *
36038015 AGGAAGGCAAGATCTGCTATTTTTAACCTACTCCACTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * ** * * ****
36038059 AGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
* *
36038103 AAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGTTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * ** * * ******
36038147 AGGGAGGCAAG-GCTGATGTCTTCGATCTGCTTCGCTGTTGGTGT
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
*
36038191 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTGCAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
* * * * * * * * ****
36038235 AGGAAGGCAAGGT-TGGTGTCTTTGATCTGTTTCGCTGTCGGTGC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACCC
* * *
36038279 AGGAAGGCAAGATCTTCTATTTTTAACCTGCTCCACTACAACCC
1 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
*
36038323 AGGGAGGCAAG
1 AGGAAGGCAAG
36038334 GCTGGTGTCT
Statistics
Matches: 177, Mismatches: 92, Indels: 12
0.63 0.33 0.04
Matches are distributed among these distances:
43 49 0.28
44 80 0.45
45 48 0.27
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.27
Consensus pattern (44 bp):
AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCC
Found at i:36056576 original size:27 final size:27
Alignment explanation
Indices: 36056546--36056608 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
36056536 GCCAAAAATA
**
36056546 CTTCCATTTCTTAGATTACTGCAAAGG
1 CTTCCATTTCTTAGATTACCACAAAGG
* *
36056573 CTTCCGTTTCTTAGATTGCCACAAAGG
1 CTTCCATTTCTTAGATTACCACAAAGG
36056600 CTTCCATTT
1 CTTCCATTT
36056609 TTTGACATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.38
Consensus pattern (27 bp):
CTTCCATTTCTTAGATTACCACAAAGG
Found at i:36056816 original size:50 final size:50
Alignment explanation
Indices: 36056720--36056818 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
36056710 CTTTTAGTTA
* * * * * **
36056720 TTTCCATATGATGCCATAACCTACCAGTTCTGGTATTATATGATATGGTC
1 TTTCCATAAGAAGCCATAACCTACCAGCTATGGTATTACACAATATGGTC
* *
36056770 TTTCCATAAGAAGCCATAGCCTACCAGCTATGGTCTTACACAATATGGT
1 TTTCCATAAGAAGCCATAACCTACCAGCTATGGTATTACACAATATGGT
36056819 GCCATGGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (50 bp):
TTTCCATAAGAAGCCATAACCTACCAGCTATGGTATTACACAATATGGTC
Found at i:36058669 original size:48 final size:48
Alignment explanation
Indices: 36058613--36058708 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
36058603 ACTTTATGTT
36058613 TTTGAGGTCGTTGTAGCTTAACCTAGCTCACCCATGGACTAATTCATA
1 TTTGAGGTCGTTGTAGCTTAACCTAGCTCACCCATGGACTAATTCATA
36058661 TTTGAGGTCGTTGTAGCTTAACCTAGCTCACCCATGGACTAATTCATA
1 TTTGAGGTCGTTGTAGCTTAACCTAGCTCACCCATGGACTAATTCATA
36058709 AAACTGTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (48 bp):
TTTGAGGTCGTTGTAGCTTAACCTAGCTCACCCATGGACTAATTCATA
Found at i:36062110 original size:8 final size:8
Alignment explanation
Indices: 36062099--36062134 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
36062089 TTTTTCAACA
36062099 TTTCTAAT
1 TTTCTAAT
36062107 TTTCTAAT
1 TTTCTAAT
*
36062115 TTTCTAAA
1 TTTCTAAT
36062123 TTTCTAAGT
1 TTTCTAA-T
36062132 TTT
1 TTT
36062135 TCATTGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 22 0.88
9 3 0.12
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (8 bp):
TTTCTAAT
Found at i:36068818 original size:67 final size:67
Alignment explanation
Indices: 36068722--36068945 Score: 394
Period size: 67 Copynumber: 3.3 Consensus size: 67
36068712 ATTAGTAATA
*
36068722 AAATGTATGTATTTAATTAAATTGATTATATATATGTTATTTGAGAAAGTATGTGAATTGAGTAT
1 AAATGTATGTATTTAATTAAATTGATTATATATATGTGATTTGAGAAAGTATGTGAATTGAGTAT
36068787 TT
66 TT
*
36068789 AAATGTATGTAGTTAATTAAATTGATTATATATATGTGATTTGAGAAAGTATGTGAATTGAGTAT
1 AAATGTATGTATTTAATTAAATTGATTATATATATGTGATTTGAGAAAGTATGTGAATTGAGTAT
36068854 TT
66 TT
** * *
36068856 AAATGTATGTATTTAATTAAATCAATTATATATATATGATTTGAGAAAGTATGCGAATTGAGTAT
1 AAATGTATGTATTTAATTAAATTGATTATATATATGTGATTTGAGAAAGTATGTGAATTGAGTAT
36068921 TT
66 TT
36068923 AAATGTATGTATTTAATTAAATT
1 AAATGTATGTATTTAATTAAATT
36068946 TGAGAAGGCA
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 149 1.00
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.44
Consensus pattern (67 bp):
AAATGTATGTATTTAATTAAATTGATTATATATATGTGATTTGAGAAAGTATGTGAATTGAGTAT
TT
Found at i:36068947 original size:49 final size:49
Alignment explanation
Indices: 36068894--36068987 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
36068884 TATATATATG
*
36068894 ATTTGAGAAAGTATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
1 ATTTGAGAAAGCATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
* *
36068943 ATTTGAGAAGGCATGCGAATTGAGTATTTACATGTATGTATTTAA
1 ATTTGAGAAAGCATGCGAATTGAGTATTTAAATGTATGTATTTAA
36068988 ATGAATAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.39
Consensus pattern (49 bp):
ATTTGAGAAAGCATGCGAATTGAGTATTTAAATGTATGTATTTAATTAA
Found at i:36069273 original size:23 final size:25
Alignment explanation
Indices: 36069247--36069292 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
36069237 CTAGCTCGTT
*
36069247 AGAGCTTACCA-TT-TCAGCTCAAC
1 AGAGCCTACCATTTATCAGCTCAAC
*
36069270 AGAGCCTACTATTTATCAGCTCA
1 AGAGCCTACCATTTATCAGCTCA
36069293 GGAGGAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 2 0.11
25 8 0.42
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (25 bp):
AGAGCCTACCATTTATCAGCTCAAC
Found at i:36070339 original size:13 final size:13
Alignment explanation
Indices: 36070321--36070345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36070311 ATATGTTTGG
36070321 ATATGAAATTGAT
1 ATATGAAATTGAT
36070334 ATATGAAATTGA
1 ATATGAAATTGA
36070346 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:36070818 original size:28 final size:28
Alignment explanation
Indices: 36070764--36070818 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
36070754 GTTTTTCTAT
*
36070764 TTTCTATTTTATTTATTCATTTATATTA
1 TTTCTATTTTATTTATTAATTTATATTA
36070792 TTTCTACTTTT-TTATATTAATTT-TATT
1 TTTCTA-TTTTATT-TATTAATTTATATT
36070819 TAAGTTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (28 bp):
TTTCTATTTTATTTATTAATTTATATTA
Found at i:36073508 original size:18 final size:20
Alignment explanation
Indices: 36073470--36073509 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
36073460 AGGGGGAGGA
*
36073470 TTCTTAGGTTTTTATTCTAG
1 TTCTTAGGTTTTTACTCTAG
36073490 TTCTTA-GTTTTTACT-TAG
1 TTCTTAGGTTTTTACTCTAG
36073508 TT
1 TT
36073510 TAAGTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (20 bp):
TTCTTAGGTTTTTACTCTAG
Found at i:36075447 original size:42 final size:42
Alignment explanation
Indices: 36075376--36075487 Score: 116
Period size: 42 Copynumber: 2.7 Consensus size: 42
36075366 TTTAGCTTTC
* * * *
36075376 ACGAGCTTCTGTTCAACTCATATGAGTTTTCATTCAACTCTT
1 ACGAACTTCTGTTCAACCCTTATGGGTTTTCATTCAACTCTT
** * * * *
36075418 TTGAACTTCTGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
1 ACGAACTTCTGTTCAACCCTTATGGGTTTTCATTCAACTCTT
* *
36075460 ACGAGCTTCTGTTCAACCTTTATGGGTT
1 ACGAACTTCTGTTCAACCCTTATGGGTT
36075488 CTGTTTAGCT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (42 bp):
ACGAACTTCTGTTCAACCCTTATGGGTTTTCATTCAACTCTT
Found at i:36075507 original size:41 final size:42
Alignment explanation
Indices: 36075423--36075521 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 42
36075413 CTCTTTTGAA
* * * *
36075423 CTTCTGTTTAACCCTTATGGGTTTTCGTTTAGCTCTTACGAG
1 CTTCTGTTCAACCTTTATGGGTTCTCGTTTAGCTCTCACGAG
*
36075465 CTTCTGTTCAACCTTTATGGGTTCT-GTTTAGCTCTCATGAG
1 CTTCTGTTCAACCTTTATGGGTTCTCGTTTAGCTCTCACGAG
*
36075506 CTTCTGTTCAGCCTTT
1 CTTCTGTTCAACCTTT
36075522 GGGCTTCTGA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 29 0.57
42 22 0.43
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (42 bp):
CTTCTGTTCAACCTTTATGGGTTCTCGTTTAGCTCTCACGAG
Found at i:36077074 original size:4 final size:4
Alignment explanation
Indices: 36077065--36077092 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36077055 TTAAACTAAG
36077065 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
36077093 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:36082891 original size:21 final size:21
Alignment explanation
Indices: 36082865--36082904 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36082855 GTTTAGCTCT
36082865 TACGAGCTTCT-GTTCAACTGA
1 TACGAG-TTCTCGTTCAACTGA
*
36082886 TACGAGTTTTCGTTCAACT
1 TACGAGTTCTCGTTCAACT
36082905 CTTTTGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TACGAGTTCTCGTTCAACTGA
Found at i:36082984 original size:42 final size:42
Alignment explanation
Indices: 36082851--36083006 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
36082841 CGTGTTTACT
*** * *
36082851 TTTC-GTTTAGCTCTTACGAGCTTCTGTTCAACTGATACGAG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
* * ** * * *
36082892 TTT-TCGTTCAACTCTTTTGAGCTTTTGTTTAACCCTTATAGG
1 TTTCT-GTTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
* *
36082934 TTTTTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
* *
36082976 TTTCTGTTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTGTTTAGCTCTTACGAGCTTCTGTTCA
36083007 GCCTTCGGGC
Statistics
Matches: 88, Mismatches: 24, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
41 3 0.03
42 84 0.95
43 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGG
Found at i:36082997 original size:84 final size:84
Alignment explanation
Indices: 36082850--36083004 Score: 186
Period size: 84 Copynumber: 1.8 Consensus size: 84
36082840 TCGTGTTTAC
* ** **
36082850 TTTTCGTTTAGCTCTTACGAGCTTCTGTTCAACTGATACGAGTTTTCGTTCAACTCTTTTGAGCT
1 TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACCCATACGAGTTTTCGTTCAACTCTCATGAGCT
*
36082915 TTTGTTTAACCCTTATAGG
66 TCTGTTTAACCCTTATAGG
* * * * * *
36082934 TTTTTGTTTAGCTCTTACGAGCTTCTATTCAACCCTTATG-GGTTTCTGTTTAGCTCTCATGAGC
1 TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACCCATACGAGTTTTC-GTTCAACTCTCATGAGC
36082998 TTCTGTT
65 TTCTGTT
36083005 CAGCCTTCGG
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
83 5 0.09
84 53 0.91
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (84 bp):
TTTTCGTTTAGCTCTTACGAGCTTCTATTCAACCCATACGAGTTTTCGTTCAACTCTCATGAGCT
TCTGTTTAACCCTTATAGG
Found at i:36085808 original size:29 final size:30
Alignment explanation
Indices: 36085749--36085806 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
36085739 TCCGAGCCTT
*
36085749 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
36085779 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
36085807 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:36086036 original size:13 final size:13
Alignment explanation
Indices: 36086018--36086049 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
36086008 TTTCCAGCAA
36086018 TTATGAATTTATT
1 TTATGAATTTATT
36086031 TTATGAATTTATT
1 TTATGAATTTATT
*
36086044 TGATGA
1 TTATGA
36086050 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:36086257 original size:50 final size:50
Alignment explanation
Indices: 36086144--36086385 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
36086134 ATTTGGGTAA
* * * *
36086144 AGAGATCCCATGTACGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCCTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA--C-G
*
36086200 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
36086250 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
36086300 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
36086350 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
36086386 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 30 0.18
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:36086333 original size:100 final size:103
Alignment explanation
Indices: 36086144--36086393 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
36086134 ATTTGGGTAA
*
36086144 AGAGATCCCATGTACGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCCTGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGA--CTGAGAGGTCCC
* *
36086209 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
36086250 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGA-TGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGACTGAGAGGTCCCCTA
36086312 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
36086350 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
36086394 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 37 0.28
103 3 0.02
105 2 0.02
106 39 0.30
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGACTGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:36091860 original size:35 final size:35
Alignment explanation
Indices: 36091812--36091883 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
36091802 GTCTAAATGC
* * *
36091812 TAACAAATGATGAATTGAACA-ACTAGTTTTTAGAG
1 TAACAAATCATGAACTGAACAGA-TAGTTTTAAGAG
36091847 TAACAAATCATGAACTGAACAGATAGTTTTAAGAG
1 TAACAAATCATGAACTGAACAGATAGTTTTAAGAG
36091882 TA
1 TA
36091884 GAGTAAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (35 bp):
TAACAAATCATGAACTGAACAGATAGTTTTAAGAG
Found at i:36094999 original size:6 final size:6
Alignment explanation
Indices: 36094981--36095022 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
36094971 GTTGACAACT
* * *
36094981 AATTAA AAATAA AATT-A AATTAA AATTAA GATTAA GATTAA A
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA A
36095023 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:36095003 original size:17 final size:17
Alignment explanation
Indices: 36094981--36095022 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
36094971 GTTGACAACT
36094981 AATTAAAAATAAAATTA
1 AATTAAAAATAAAATTA
* *
36094998 AATTAAAATTAAGATTA
1 AATTAAAAATAAAATTA
36095015 AGATTAAA
1 A-ATTAAA
36095023 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
AATTAAAAATAAAATTA
Found at i:36095006 original size:11 final size:11
Alignment explanation
Indices: 36094990--36095023 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
36094980 TAATTAAAAA
36094990 TAAAATTAAAT
1 TAAAATTAAAT
36095001 TAAAATTAAGAT
1 TAAAATTAA-AT
*
36095013 TAAGATTAAAT
1 TAAAATTAAAT
36095024 AAATGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (11 bp):
TAAAATTAAAT
Found at i:36095049 original size:6 final size:6
Alignment explanation
Indices: 36095040--36095078 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
36095030 AAATAAGATG
* * *
36095040 AAAATA AAAATA AAAATA AACATA AACATA AACATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
36095079 CTTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:36095064 original size:12 final size:12
Alignment explanation
Indices: 36095040--36095078 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
36095030 AAATAAGATG
*
36095040 AAAATAAAAATA
1 AAAATAAACATA
36095052 AAAATAAACATA
1 AAAATAAACATA
*
36095064 AACATAAACATA
1 AAAATAAACATA
36095076 AAA
1 AAA
36095079 CTTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAACATA
Found at i:36101686 original size:28 final size:28
Alignment explanation
Indices: 36101649--36101702 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
36101639 ATTAATTAAA
*
36101649 CTAATTAAATTAATT-ATCCTAAAATATC
1 CTAATAAAATTAATTAAT-CTAAAATATC
36101677 CTAATAAAATTAATTAATCTAAAATA
1 CTAATAAAATTAATTAATCTAAAATA
36101703 ACTTAATGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (28 bp):
CTAATAAAATTAATTAATCTAAAATATC
Found at i:36101709 original size:28 final size:28
Alignment explanation
Indices: 36101649--36101709 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
36101639 ATTAATTAAA
* *
36101649 CTAATTAAATTAATTATCCTAAAATATC
1 CTAATAAAATTAATTATCCTAAAATAAC
36101677 CTAATAAAATTAATTAAT-CTAAAATAAC
1 CTAATAAAATTAATT-ATCCTAAAATAAC
*
36101705 TTAAT
1 CTAAT
36101710 GGAAGTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (28 bp):
CTAATAAAATTAATTATCCTAAAATAAC
Found at i:36101777 original size:19 final size:19
Alignment explanation
Indices: 36101753--36101794 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36101743 TTCTCGGCCT
*
36101753 ATTATCGATTAAATCACTA
1 ATTATCAATTAAATCACTA
* *
36101772 ATTATCAATTAAGTCGCTA
1 ATTATCAATTAAATCACTA
36101791 ATTA
1 ATTA
36101795 CCCTCAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTATCAATTAAATCACTA
Found at i:36102236 original size:18 final size:17
Alignment explanation
Indices: 36102209--36102246 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
36102199 GTATTATAAA
36102209 ATAAATTCATTTTAATT
1 ATAAATTCATTTTAATT
36102226 ATAATATTCATTTTAATT
1 ATAA-ATTCATTTTAATT
36102244 ATA
1 ATA
36102247 TAAACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAATTCATTTTAATT
Found at i:36104237 original size:6 final size:6
Alignment explanation
Indices: 36104226--36104250 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
36104216 ACGAATATAT
36104226 GAAATG GAAATG GAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG G
36104251 TTGCATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAATG
Found at i:36104929 original size:17 final size:17
Alignment explanation
Indices: 36104871--36104930 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
36104861 ATCATGTGGT
*
36104871 GGACAGTTTTGCCTAGC
1 GGACAGTATTGCCTAGC
*
36104888 AGACAGT-TTCGCCTAGC
1 GGACAGTATT-GCCTAGC
* * *
36104905 GAATAGTATTGCCTAGT
1 GGACAGTATTGCCTAGC
36104922 GGACAGTAT
1 GGACAGTAT
36104931 CTCCCATGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 2 0.06
17 30 0.88
18 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (17 bp):
GGACAGTATTGCCTAGC
Found at i:36110742 original size:19 final size:19
Alignment explanation
Indices: 36110714--36110753 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36110704 ATTAATTTTT
*
36110714 ATCAAGTAAAGTT-AAATTA
1 ATCAAATAAA-TTAAAATTA
36110733 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
36110752 AT
1 AT
36110754 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:36111237 original size:17 final size:17
Alignment explanation
Indices: 36111171--36111246 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
36111161 ATTTTAATAG
* *
36111171 TTTAATATTAAATTAAA
1 TTTAATATTTAATTTAA
36111188 TTTAATATTT-ATCTTAA
1 TTTAATATTTAAT-TTAA
* * *
36111205 --CAGTATTTTA-TTAA
1 TTTAATATTTAATTTAA
36111219 TTTAATATTTAATTTAA
1 TTTAATATTTAATTTAA
36111236 TTTAATATTTA
1 TTTAATATTTA
36111247 GCTTGTAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 10 0.21
17 27 0.57
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:36114169 original size:110 final size:110
Alignment explanation
Indices: 36114008--36114294 Score: 407
Period size: 110 Copynumber: 2.6 Consensus size: 110
36113998 CACGATGCTG
* ** * * * * * *
36114008 CTTACACAAGCTGTAGAGAATCCACAACACATGTAAGATCTCAAGCCATCGTTACGGTTTGTATC
1 CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTATGGTCTGTATC
* *
36114073 A-TCGGTACATAGTACCTACTAATTAATCCCCAGCACATGATGATA
66 ACT-AGTACATAGTACCTACTAATTAATCCCCAGCACATAATGATA
36114118 -TTCACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTATGGTCTGTAT
1 CTT-ACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTATGGTCTGTAT
* * *
36114182 CACTAGTGCATAGTACCTACTAATTAATCCCCAGCTCATAATGCTA
65 CACTAGTACATAGTACCTACTAATTAATCCCCAGCACATAATGATA
*
36114228 CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTTAAGTCATCGTTATGGTCTGTATC
1 CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTATGGTCTGTATC
36114293 AC
66 AC
36114295 CGACTCAAGA
Statistics
Matches: 159, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
109 2 0.01
110 154 0.97
111 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (110 bp):
CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTATGGTCTGTATC
ACTAGTACATAGTACCTACTAATTAATCCCCAGCACATAATGATA
Found at i:36114368 original size:23 final size:24
Alignment explanation
Indices: 36114338--36114391 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
36114328 AGCCTGCTAG
36114338 GCACAAAGCCTGATAAACACAC-C
1 GCACAAAGCCTGATAAACACACTC
* *
36114361 GCACAAAGCCTGATAAATACACTG
1 GCACAAAGCCTGATAAACACACTC
36114385 GCACAAA
1 GCACAAA
36114392 TTCTGCTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.44, C:0.30, G:0.15, T:0.11
Consensus pattern (24 bp):
GCACAAAGCCTGATAAACACACTC
Found at i:36117512 original size:22 final size:22
Alignment explanation
Indices: 36117473--36117531 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
36117463 GTAGGTATAG
*
36117473 CAAGCTGGGGTTCACCAGTCTAA
1 CAAGTTGGGG-TCACCAGTCTAA
*
36117496 CAAGTTGGGGTCACCAGTCTGA
1 CAAGTTGGGGTCACCAGTCTAA
36117518 CAAGTTGGGGTCAC
1 CAAGTTGGGGTCAC
36117532 TAGTGGGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (22 bp):
CAAGTTGGGGTCACCAGTCTAA
Found at i:36118297 original size:25 final size:25
Alignment explanation
Indices: 36118251--36118298 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36118241 ATATGTGTTT
*
36118251 TTATGAACAGTGATATGTGAGCTAA
1 TTATGAACAGTGATATGCGAGCTAA
* *
36118276 TTATGAACAGTGTTTTGCGAGCT
1 TTATGAACAGTGATATGCGAGCT
36118299 CCTCATGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (25 bp):
TTATGAACAGTGATATGCGAGCTAA
Found at i:36119025 original size:18 final size:18
Alignment explanation
Indices: 36119002--36119040 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
36118992 GGGCTTAGGT
*
36119002 TTTATGTTTCTCTTTATG
1 TTTATGTTCCTCTTTATG
36119020 TTTATGTTCCTCTTTATG
1 TTTATGTTCCTCTTTATG
36119038 TTT
1 TTT
36119041 TTTTTAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTATGTTCCTCTTTATG
Found at i:36123655 original size:22 final size:22
Alignment explanation
Indices: 36123627--36123674 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
36123617 ATACCACATG
*
36123627 AACTTACCTAGTCAAAATAACA
1 AACTTACCTAGTCAAAACAACA
36123649 AACTTACCTAGTCAAAACAACA
1 AACTTACCTAGTCAAAACAACA
36123671 AACT
1 AACT
36123675 ACCAAATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.25, G:0.04, T:0.21
Consensus pattern (22 bp):
AACTTACCTAGTCAAAACAACA
Found at i:36124608 original size:14 final size:16
Alignment explanation
Indices: 36124581--36124612 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
36124571 ACTTTAATAC
36124581 TAATATTTTAAATATT
1 TAATATTTTAAATATT
36124597 TAATA-TTT-AATATT
1 TAATATTTTAAATATT
36124611 TA
1 TA
36124613 TGGGCTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTTTAAATATT
Found at i:36125540 original size:9 final size:9
Alignment explanation
Indices: 36125528--36125572 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
36125518 AATAATTTAA
36125528 AAAATTATT
1 AAAATTATT
36125537 AAAATTATT
1 AAAATTATT
*
36125546 AAAAGATATT
1 AAAA-TTATT
36125556 AAAATTA-T
1 AAAATTATT
36125564 AATAATTAT
1 AA-AATTAT
36125573 AATATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 3 0.10
9 20 0.65
10 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:36125723 original size:17 final size:17
Alignment explanation
Indices: 36125701--36125743 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
36125691 ATATAACTTC
*
36125701 AAAATTAAA-AAGAATGA
1 AAAATTAAATAAAAAT-A
36125718 AAAATTAAATAAAAATA
1 AAAATTAAATAAAAATA
36125735 AAAA-TAAAT
1 AAAATTAAAT
36125744 TATTTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 14 0.58
18 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAATTAAATAAAAATA
Found at i:36134494 original size:15 final size:15
Alignment explanation
Indices: 36134476--36134509 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36134466 TTTAACCTTC
*
36134476 CTTTTTTTTCTTTTA
1 CTTTTCTTTCTTTTA
*
36134491 CTTTTCTTTCTTTTC
1 CTTTTCTTTCTTTTA
36134506 CTTT
1 CTTT
36134510 ACAATTATTT
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:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTCTTTCTTTTA
Found at i:36134499 original size:20 final size:20
Alignment explanation
Indices: 36134457--36134511 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
36134447 ACATATATCA
* *
36134457 TTTCCTTTCTTTAACCTTCC
1 TTTCTTTTCTTTTACCTTCC
* * *
36134477 TTTTTTTTCTTTTACTTTTC
1 TTTCTTTTCTTTTACCTTCC
*
36134497 TTTCTTTTCCTTTAC
1 TTTCTTTTCTTTTAC
36134512 AATTATTTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCTTTTCTTTTACCTTCC
Found at i:36141700 original size:32 final size:32
Alignment explanation
Indices: 36141664--36142202 Score: 708
Period size: 32 Copynumber: 16.8 Consensus size: 32
36141654 AAATATATAA
* *
36141664 ATACATATACAAATCAATTCGACAACATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
36141696 ATACATATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
***
36141728 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
36141760 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
36141792 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
36141824 ATACATATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
36141856 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* ****
36141888 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
36141920 ATACCTATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* * *
36141952 ACACATATACAATTCAATTCGGCAATATAAAT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
36141984 ATACATATACAATTCAATTC-AGAA-ATAGGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
36142014 GCATACCTATACAATTCAATTAGACAATATAAGT
1 --ATACATATACAATTCAATTCGACAATATAAGT
* * *
36142048 ATAAATATAAAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
36142080 ATGCATATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* ***
36142112 ATGCATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
36142144 ATATC-TATACAATTCAATTCGGA-TATATAAGT
1 ATA-CATATACAATTCAATTC-GACAATATAAGT
*
36142176 ATACATATACAATTCAATTCGGCAATA
1 ATACATATACAATTCAATTCGACAATA
36142203 CATAAAATAT
Statistics
Matches: 438, Mismatches: 61, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
30 4 0.01
31 4 0.01
32 419 0.96
33 6 0.01
34 5 0.01
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGACAATATAAGT
Found at i:36148343 original size:49 final size:49
Alignment explanation
Indices: 36148285--36148383 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
36148275 TGCACATTTC
36148285 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
1 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
36148334 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
1 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
36148383 A
1 A
36148384 ACTCAAAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (49 bp):
ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
Found at i:36150337 original size:32 final size:32
Alignment explanation
Indices: 36149417--36150338 Score: 1139
Period size: 32 Copynumber: 28.8 Consensus size: 32
36149407 CAATATATAA
* * *
36149417 ATACATATACAAATCAATTCGACAACATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
36149449 ATACATATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
36149481 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36149513 ATACGTATACAATTCAATTCGGGAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36149545 ATACGTATACAATTCAATTCAGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
****
36149577 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
36149609 ATACCTATACAATTCAATTCGACAATACAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
** *
36149641 ATACATATACAATTCAATTCGAAAATAGT-TGT
1 ATACATATACAATTCAATTCGGCAATA-TAAGT
*
36149673 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
****
36149705 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36149737 ATACCTATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
**
36149769 ATACATATACAATTCAATTCGAAAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * * ***
36149801 ATACATATACAATTTAATTTGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36149833 ATACCTATACAATTCAATTCAGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
36149865 ATACATATACAACTCAATTTGGTAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
36149897 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
***
36149929 ATACATATACAATTCAATTCGGC-ATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36149960 ATACCTATACAATTCAATTCGGCAATATAACT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
36149992 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
36150024 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36150056 ATACCTATACAATTCAATTCGGGAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
36150088 ATACGTATACAATTCAATTCAGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
****
36150120 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
36150152 ATACCTATACAATTCAATTCGACAATACAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
** *
36150184 ATACATATACAATTCAATTCGAAAATAGT-TGT
1 ATACATATACAATTCAATTCGGCAATA-TAAGT
*
36150216 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
36150248 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
36150280 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
36150312 ATACATATACAATTCAATTCAGCAATA
1 ATACATATACAATTCAATTCGGCAATA
36150339 CATGAAATAT
Statistics
Matches: 754, Mismatches: 131, Indels: 10
0.84 0.15 0.01
Matches are distributed among these distances:
31 29 0.04
32 725 0.96
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGGCAATATAAGT
Found at i:36159691 original size:24 final size:25
Alignment explanation
Indices: 36159659--36159707 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
36159649 TATTGTATTA
* *
36159659 TTAATAAAATTT-AAATTTTAAAAT
1 TTAAAAAAATTTAAAATATTAAAAT
36159683 TTAAAAAAATTTAAAATATTAAAAT
1 TTAAAAAAATTTAAAATATTAAAAT
36159708 ACGAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAAAAAATTTAAAATATTAAAAT
Found at i:36159811 original size:15 final size:17
Alignment explanation
Indices: 36159772--36159815 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
36159762 TTAATAATAT
36159772 AATAA-AATTTTATTTG
1 AATAATAATTTTATTTG
*
36159788 AATAATAATTTT-TTTT
1 AATAATAATTTTATTTG
36159804 AA-AATAATTTTA
1 AATAATAATTTTA
36159816 AAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 10 0.40
17 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AATAATAATTTTATTTG
Found at i:36159980 original size:17 final size:18
Alignment explanation
Indices: 36159948--36159983 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
36159938 AAAAATACTC
*
36159948 ACTATTGTTTTTTTATTA
1 ACTATTGTTTTATTATTA
36159966 ACTATT-TTTTATTATTA
1 ACTATTGTTTTATTATTA
36159983 A
1 A
36159984 ATTTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (18 bp):
ACTATTGTTTTATTATTA
Found at i:36160015 original size:17 final size:18
Alignment explanation
Indices: 36159995--36160032 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36159985 TTTATATATT
36159995 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
36160012 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
36160030 ATA
1 ATA
36160033 AATTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:36160600 original size:3 final size:3
Alignment explanation
Indices: 36160588--36160619 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
36160578 TTAATAACAC
36160588 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36160620 TATTTGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:36167100 original size:50 final size:51
Alignment explanation
Indices: 36167034--36167137 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 51
36167024 CTTCTGATTC
36167034 CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
1 CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
36167085 CATAA-TTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
1 CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
36167135 CAT
1 CAT
36167138 CAGCAGACTG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 48 0.91
51 5 0.09
ACGTcount: A:0.18, C:0.37, G:0.06, T:0.39
Consensus pattern (51 bp):
CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
Found at i:36170456 original size:26 final size:25
Alignment explanation
Indices: 36170418--36170476 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
36170408 ATTAAATTAT
*
36170418 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
36170444 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
36170470 ATATTAT
1 ATATTAT
36170477 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:36170475 original size:15 final size:15
Alignment explanation
Indices: 36170431--36170486 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
36170421 TTTTTGTTAA
*
36170431 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
36170446 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
36170457 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
36170472 ATTATATATTATAAT
1 ATTATATTTTATAAT
36170487 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:36170475 original size:120 final size:120
Alignment explanation
Indices: 36170261--36170499 Score: 451
Period size: 120 Copynumber: 2.0 Consensus size: 120
36170251 TGATACAATC
*
36170261 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
36170326 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
36170381 ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
36170446 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
36170500 CATATTTTAT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:36170535 original size:18 final size:17
Alignment explanation
Indices: 36170406--36170537 Score: 80
Period size: 18 Copynumber: 7.8 Consensus size: 17
36170396 ACTAAGAATA
36170406 TTATTAAATTATATATTT
1 TTATTAAATTATATA-TT
*
36170424 TTGTTAAA-T-TATA-T
1 TTATTAAATTATATATT
* *
36170438 TTAAT-AATAAT-TATT
1 TTATTAAATTATATATT
* * *
36170453 TTAAATTATATTTTATAATA
1 TT--ATTAAATTATAT-ATT
*
36170473 TTA-TATATTATA-ATT
1 TTATTAAATTATATATT
* *
36170488 TTAGTAAATTCACATATT
1 TTATTAAATT-ATATATT
36170506 TTATTAAATTATATATTT
1 TTATTAAATTATATA-TT
36170524 TTATTAAATTATAT
1 TTATTAAATTATAT
36170538 TTAATAATAA
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 17 0.20
18 39 0.45
19 1 0.01
20 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATATATT
Found at i:36172396 original size:24 final size:24
Alignment explanation
Indices: 36172343--36172404 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
36172333 AATTAATAAA
36172343 AAAT-GGCCGTTTTTTAATTAGGC
1 AAATAGGCCGTTTTTTAATTAGGC
*** * *
36172366 CTTTAGGCCATTTTTTAATTAGGG
1 AAATAGGCCGTTTTTTAATTAGGC
36172390 AAATAGGCCGTTTTT
1 AAATAGGCCGTTTTT
36172405 AGGAGAGAGA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (24 bp):
AAATAGGCCGTTTTTTAATTAGGC
Found at i:36176464 original size:19 final size:20
Alignment explanation
Indices: 36176427--36176465 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36176417 TATTTATAAC
*
36176427 ATAAAAAAATATTTCAAATT
1 ATAAAAAAATAATTCAAATT
36176447 ATAAAAAAATAATT-AAATT
1 ATAAAAAAATAATTCAAATT
36176466 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAAATAATTCAAATT
Found at i:36177082 original size:23 final size:21
Alignment explanation
Indices: 36177050--36177102 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
36177040 CGTATTTTCA
36177050 TTTTTAATTTATTGAAAACAAAT
1 TTTTTAATTTA-TG-AAACAAAT
* *
36177073 TTTTTTATTTATGAAACATA-
1 TTTTTAATTTATGAAACAAAT
36177093 TTTTTAATTT
1 TTTTTAATTT
36177103 CTAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 2 0.07
23 10 0.37
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTTAATTTATGAAACAAAT
Found at i:36178319 original size:6 final size:6
Alignment explanation
Indices: 36178289--36178318 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
36178279 GCAGTATTGC
*
36178289 TGCAGT TGCAGT TGCAGT TGCAGT AGCAGT
1 TGCAGT TGCAGT TGCAGT TGCAGT TGCAGT
36178319 AAAACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (6 bp):
TGCAGT
Found at i:36188289 original size:25 final size:25
Alignment explanation
Indices: 36188256--36188364 Score: 83
Period size: 25 Copynumber: 4.4 Consensus size: 25
36188246 GCATGTAAAT
* * *
36188256 GGGAGGCTCTTCCGAGCTATATAAC
1 GGGAAGCTCTTGCGAGCTAGATAAC
* * *
36188281 TGGAAGCTCATGTGAGCTAGATAAC
1 GGGAAGCTCTTGCGAGCTAGATAAC
* * *
36188306 GGGAAGCTCTTGCGAGCCAAATATC
1 GGGAAGCTCTTGCGAGCTAGATAAC
* * * * *
36188331 GGGAACCTCATACAAGCTATATAAC
1 GGGAAGCTCTTGCGAGCTAGATAAC
*
36188356 GAGAAGCTC
1 GGGAAGCTC
36188365 AAGAGAGCCA
Statistics
Matches: 63, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCTTGCGAGCTAGATAAC
Found at i:36188365 original size:25 final size:25
Alignment explanation
Indices: 36188268--36188365 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 25
36188258 GAGGCTCTTC
*
36188268 CGAGCTATATAACTGGAAGCTCATG
1 CGAGCTATATAACGGGAAGCTCATG
* * *
36188293 TGAGCTAGATAACGGGAAGCTCTTG
1 CGAGCTATATAACGGGAAGCTCATG
* * * * *
36188318 CGAGCCAAATATCGGGAACCTCATA
1 CGAGCTATATAACGGGAAGCTCATG
* *
36188343 CAAGCTATATAACGAGAAGCTCA
1 CGAGCTATATAACGGGAAGCTCA
36188366 AGAGAGCCAT
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTCATG
Found at i:36191475 original size:70 final size:69
Alignment explanation
Indices: 36191348--36191625 Score: 328
Period size: 70 Copynumber: 4.0 Consensus size: 69
36191338 GGACAACATT
* * *
36191348 TATATACCA-AATTAGA-CAGCATTTTCACACCAAAATTTGGACAGCATAAATACAACAATTTGG
1 TATATACAACAATTTGAGCAGCATTTT-ACACCAAAA-TTGGACAGCATAAATACAACAAATTGG
36191411 GCAGCA
64 GCAGCA
* * * *
36191417 TATATACAACAATTTGAGCAGCATTGTTATACCAAAATTGGACAGCATAAATTCAACAATTTAGG
1 TATATACAACAATTTGAGCAGCATT-TTACACCAAAATTGGACAGCATAAATACAACAAATTGGG
36191482 CAGCA
65 CAGCA
* *
36191487 TATATACAACAATTTGAACAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATTGGG
1 TATATACAACAATTTGAGCAGCA-TTTTACACCAAAATTGGACAGCATAAATACAACAAATTGGG
*
36191552 CAACA
65 CAGCA
* * * * * * *
36191557 TATATACAACAAATTG-GACAACATTTAAGCATCAAAATTGGACAGCATATATGCATCAAATTGG
1 TATATACAACAATTTGAG-CAGCATTTTA-CACCAAAATTGGACAGCATAAATACAACAAATTGG
36191621 GCAGC
64 GCAGC
36191626 GTTTAAGCAT
Statistics
Matches: 183, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
69 12 0.07
70 152 0.83
71 17 0.09
72 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (69 bp):
TATATACAACAATTTGAGCAGCATTTTACACCAAAATTGGACAGCATAAATACAACAAATTGGGC
AGCA
Found at i:36191533 original size:47 final size:47
Alignment explanation
Indices: 36191362--36191576 Score: 151
Period size: 47 Copynumber: 4.6 Consensus size: 47
36191352 TACCAAATTA
*
36191362 GACAGCAT-TTTCACACCAAAATTTGGACAGCATAAATACAACAATTTG
1 GACAGCATATTT-ACACCAAAA-TTGGACAGCATATATACAACAATTTG
* * * * *
36191410 GGCAGCATATATACA--ACAATTTGAGCAGCATTGTTATACCAA-AA-TTG
1 GACAGCATATTTACACCAAAATTGGA-CAGCA-T-ATATA-CAACAATTTG
* * *
36191457 GACAGCATAAATT-CAAC-AATTTAGG-CAGCATATATACAACAATTTG
1 GACAGCAT-ATTTACACCAAAATT-GGACAGCATATATACAACAATTTG
* * *
36191503 AACAGCATTTTTACACCAAAATTGGACAGCATATATACAACAAATTG
1 GACAGCATATTTACACCAAAATTGGACAGCATATATACAACAATTTG
* * * *
36191550 GGCAACATATATACAAC-AAATTGGACA
1 GACAGCATATTTACACCAAAATTGGACA
36191577 ACATTTAAGC
Statistics
Matches: 128, Mismatches: 25, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
44 3 0.02
45 12 0.09
46 34 0.27
47 53 0.41
48 20 0.16
49 6 0.05
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (47 bp):
GACAGCATATTTACACCAAAATTGGACAGCATATATACAACAATTTG
Found at i:36191606 original size:47 final size:47
Alignment explanation
Indices: 36191544--36191637 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
36191534 TATATACAAC
*
36191544 AAATTGGGCAACATATATACAACAAATTGGACAACATTTAAGCATCA
1 AAATTGGACAACATATATACAACAAATTGGACAACATTTAAGCATCA
* * * * * *
36191591 AAATTGGACAGCATATATGCATCAAATTGGGCAGCGTTTAAGCATCA
1 AAATTGGACAACATATATACAACAAATTGGACAACATTTAAGCATCA
36191638 CCTATTCGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (47 bp):
AAATTGGACAACATATATACAACAAATTGGACAACATTTAAGCATCA
Found at i:36191624 original size:140 final size:141
Alignment explanation
Indices: 36191363--36191625 Score: 361
Period size: 140 Copynumber: 1.9 Consensus size: 141
36191353 ACCAAATTAG
* *
36191363 ACAGCATTTTCACACCAAAATTTGGACAGCATAAATACAACAATTTGGGCAGCATATATACAACA
1 ACAGCATTTTCACACCAAAATTTGGACAGCATAAATACAACAAATTGGGCAACATATATACAACA
* * * * * *
36191428 ATTTGAGCAGCATTGTTATACCAAAATTGGACAGCATAAATTCAACAATTTAGGCAGCATATATA
66 ATTGGAGCAACATTGTAACACCAAAATTGGACAGCATAAATGCAACAAATTAGGCAGCATATATA
36191493 CAACAATTTGA
131 CAACAATTTGA
* *
36191504 ACAGCATTTTTACACCAAAA-TTGGACAGCATATATACAACAAATTGGGCAACATATATACAACA
1 ACAGCATTTTCACACCAAAATTTGGACAGCATAAATACAACAAATTGGGCAACATATATACAAC-
* * * *
36191568 AATTGGA-CAACATT-TAAGCATCAAAATTGGACAGCATATATGCATCAAATTGGGCAGC
65 AATTGGAGCAACATTGTAA-CACCAAAATTGGACAGCATAAATGCAACAAATTAGGCAGC
36191626 GTTTAAGCAT
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
139 2 0.02
140 79 0.75
141 25 0.24
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (141 bp):
ACAGCATTTTCACACCAAAATTTGGACAGCATAAATACAACAAATTGGGCAACATATATACAACA
ATTGGAGCAACATTGTAACACCAAAATTGGACAGCATAAATGCAACAAATTAGGCAGCATATATA
CAACAATTTGA
Found at i:36191625 original size:23 final size:23
Alignment explanation
Indices: 36191384--36191625 Score: 195
Period size: 23 Copynumber: 10.4 Consensus size: 23
36191374 ACACCAAAAT
* *
36191384 TTGGACAGCATAAATACAACAAT
1 TTGGACAGCATATATACAACAAA
*
36191407 TTGGGCAGCATATATACAAC-AA
1 TTGGACAGCATATATACAACAAA
* * *
36191429 TTTGAGCAGCATTGTTATACCA-AAA
1 TTGGA-CAGCA-T-ATATACAACAAA
* * *
36191454 TTGGACAGCATAAATTCAACAAT
1 TTGGACAGCATATATACAACAAA
*
36191477 TTAGG-CAGCATATATACAACAAT
1 TT-GGACAGCATATATACAACAAA
* * * *
36191500 TTGAACAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACAAC-AAA
36191524 TTGGACAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* *
36191547 TTGGGCAACATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * *
36191570 TTGGACAACATTTA-AGCATCAAAA
1 TTGGACAGCATATATA-CAAC-AAA
* *
36191594 TTGGACAGCATATATGCATCAAA
1 TTGGACAGCATATATACAACAAA
*
36191617 TTGGGCAGC
1 TTGGACAGC
36191626 GTTTAAGCAT
Statistics
Matches: 175, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
22 10 0.06
23 108 0.62
24 45 0.26
25 12 0.07
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:36191635 original size:23 final size:23
Alignment explanation
Indices: 36191521--36191637 Score: 94
Period size: 23 Copynumber: 5.0 Consensus size: 23
36191511 TTTTACACCA
* *
36191521 AAATTGGACAGCATATATA-CAAC
1 AAATTGGACAGCATTTA-AGCATC
* * * *
36191544 AAATTGGGCAACATATATA-CAAC
1 AAATTGGACAGCATTTA-AGCATC
*
36191567 AAATTGGACAACATTTAAGCATC
1 AAATTGGACAGCATTTAAGCATC
* *
36191590 AAAATTGGACAGCATATATGCATC
1 -AAATTGGACAGCATTTAAGCATC
* *
36191614 AAATTGGGCAGCGTTTAAGCATC
1 AAATTGGACAGCATTTAAGCATC
36191637 A
1 A
36191638 CCTATTCGGT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
22 1 0.01
23 59 0.74
24 20 0.25
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (23 bp):
AAATTGGACAGCATTTAAGCATC
Found at i:36192728 original size:43 final size:43
Alignment explanation
Indices: 36192627--36192728 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
36192617 AACTAGTACA
** * *
36192627 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATCTCATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAAACTCATATCG
36192670 ATGCC-ACTGTCCCAGACAAGGTCTTACACGTAAACGT-A-AGTCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGTAAAC-TCATA-TCG
*
36192713 ATGCCAACGTACCAGA
1 ATGCCAACGTCCCAGA
36192729 TGTGGTCTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.06
43 44 0.88
44 3 0.06
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGTAAACTCATATCG
Found at i:36205855 original size:20 final size:21
Alignment explanation
Indices: 36205825--36205864 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
36205815 GGTTATTTTG
36205825 AGTTGATAGTT-TAAATTTATA
1 AGTTGATAGTTGT-AATTTATA
36205846 AGTTGA-AGTTGTAATTTAT
1 AGTTGATAGTTGTAATTTAT
36205865 TATAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AGTTGATAGTTGTAATTTATA
Found at i:36212847 original size:24 final size:24
Alignment explanation
Indices: 36212797--36212848 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
36212787 TTTCTAGAAA
* *
36212797 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* *
36212821 ATTTAGCATTTATTAGCATTATTT
1 ATTTAGCATTTATTAGCATAATAT
36212845 ATTT
1 ATTT
36212849 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:36213861 original size:18 final size:18
Alignment explanation
Indices: 36213838--36213874 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36213828 TGAAGCTATG
36213838 TGGACCAAAATTTAAAAT
1 TGGACCAAAATTTAAAAT
36213856 TGGACCAAAATTTAAAAT
1 TGGACCAAAATTTAAAAT
36213874 T
1 T
36213875 TCATCAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
TGGACCAAAATTTAAAAT
Found at i:36220066 original size:245 final size:245
Alignment explanation
Indices: 36219630--36220089 Score: 681
Period size: 245 Copynumber: 1.9 Consensus size: 245
36219620 GATCCACTCT
* * *
36219630 ATAATGTATTTGATTGAGTTGCCGTCACAAGTTAACTCGACATCGACTCAAGATTAATGACAATA
1 ATAATGTATTTGATTGAGTTGCCGTCACAAGTTAACTCGACACCGACTCAAGATTAATAACAACA
* * *
36219695 CATTGACAAACAATTTAATCTAATTTTTTCATTTTAATAACATACATATTTCATGTGTTATTATC
66 CAGTGACAAACAATTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
36219760 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTGTGTTC
131 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTGTGTTC
* * *
36219825 TAAATTTTTGGTTTCCATATGCATACATGTGTGATTGTATTTCTATATTA
196 AAAATTTATAGTTTCCATATGCATACATGTGTGATTGTATTTCTATATTA
** * * * * *
36219875 ATAATGTATTTGATTGAGTTGGTGTCACAAGTTAGCTTGACCCCGATTCAAGATTGATAACAACA
1 ATAATGTATTTGATTGAGTTGCCGTCACAAGTTAACTCGACACCGACTCAAGATTAATAACAACA
* * ** *
36219940 CCGTGATAAACAATTTAATCCAATTTCTTCATTTTAATAATGTACATATTTCATGTGTTATTATT
66 CAGTGACAAACAATTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
* *
36220005 AATTGGTTTCAAACTATAAGTTTCATTATTTATTGTATGTTATT-TTAAA-ACACGTATTTGTGT
131 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACAC--ATTTGTGT
36220068 TCAAAATTTATAGTTTCCATAT
194 TCAAAATTTATAGTTTCCATAT
36220090 ATATATATAC
Statistics
Matches: 190, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
243 4 0.02
244 5 0.03
245 181 0.95
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (245 bp):
ATAATGTATTTGATTGAGTTGCCGTCACAAGTTAACTCGACACCGACTCAAGATTAATAACAACA
CAGTGACAAACAATTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTGTGTTC
AAAATTTATAGTTTCCATATGCATACATGTGTGATTGTATTTCTATATTA
Found at i:36241984 original size:13 final size:13
Alignment explanation
Indices: 36241968--36242018 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
36241958 TTAACCTATT
36241968 TATTTAAAATATA
1 TATTTAAAATATA
*
36241981 TATTTAAAAAATA
1 TATTTAAAATATA
36241994 TATATTATAAA-ATA
1 TAT-TTA-AAATATA
36242008 TATTTAAAATA
1 TATTTAAAATA
36242019 ATGAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 3 0.09
13 19 0.56
14 9 0.26
15 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTTAAAATATA
Found at i:36241993 original size:15 final size:14
Alignment explanation
Indices: 36241973--36242016 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
36241963 CTATTTATTT
36241973 AAAATATATATTTAA
1 AAAATATATA-TTAA
*
36241988 AAAATATATATTAT
1 AAAATATATATTAA
36242002 AAAATATAT-TTAA
1 AAAATATATATTAA
36242015 AA
1 AA
36242017 TAATGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 10 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATATATTAA
Done.