Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 341 of 362
Found at i:113336222 original size:12 final size:12
Alignment explanation
Indices: 113336177--113336232 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
113336167 TGTTAAAATA
*
113336177 TATATATTAAAT
1 TATATATTATAT
113336189 TAT-TATTATATT
1 TATATATTATA-T
113336201 ATAGTATATTATAT
1 -TA-TATATTATAT
113336215 TATATATTATAT
1 TATATATTATAT
113336227 TATATA
1 TATATA
113336233 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:113337574 original size:18 final size:19
Alignment explanation
Indices: 113337548--113337586 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
113337538 ATATATAGAT
113337548 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
* *
113337566 ATATTTATTGATTATTTGA
1 ATATATATTGAATATTTGA
113337585 AT
1 AT
113337587 TGAATTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:113337936 original size:39 final size:39
Alignment explanation
Indices: 113337826--113337960 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
113337816 GACCTCGAGT
* * * * *
113337826 CGATGAGACACTGGATGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
113337867 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
113337905 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
113337944 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
113337961 CCATATTGGT
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:113338104 original size:18 final size:19
Alignment explanation
Indices: 113338083--113338123 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
113338073 AATGAAATGA
113338083 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
113338101 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
113338120 GAAA
1 GAAA
113338124 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:113339311 original size:25 final size:24
Alignment explanation
Indices: 113339257--113339311 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
113339247 AGCTCATGCG
* *
113339257 AGCCAATAACAGGTAGCTCCGAAA
1 AGCCATTAACAGGAAGCTCCGAAA
* * *
113339281 AACCATTAATCAGGAAGCTCCGGAT
1 AGCCATTAA-CAGGAAGCTCCGAAA
113339306 AGCCAT
1 AGCCAT
113339312 ATATCAGTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (24 bp):
AGCCATTAACAGGAAGCTCCGAAA
Found at i:113339867 original size:21 final size:21
Alignment explanation
Indices: 113339843--113339883 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
113339833 AGTAAATTTA
*
113339843 ATTCAATTTAATACAATTCAT
1 ATTCAATTCAATACAATTCAT
*
113339864 ATTCAATTCAATCCAATTCA
1 ATTCAATTCAATACAATTCA
113339884 CATCTTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTCAATTCAATACAATTCAT
Found at i:113342333 original size:40 final size:40
Alignment explanation
Indices: 113342271--113342406 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
113342261 TCGATATATA
* * * *
113342271 GCACACTAAGTGCCGTACATAGTCGGAGCTATCTTAAATC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
* * **
113342311 GCACACTAAGTGCCAAATATAGTCGAAGGTATCTCGATCTC
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTC-AAATC
* *
113342352 GCACACTAAGTGCCATATATAGTCGAAGCTATGTCAAATT
1 GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
* *
113342392 GTACATTAAGTGCCA
1 GCACACTAAGTGCCA
113342407 CAAATAATCG
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
40 44 0.56
41 35 0.44
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGTCGAAGCTATCTCAAATC
Found at i:113344122 original size:28 final size:28
Alignment explanation
Indices: 113344096--113344229 Score: 223
Period size: 28 Copynumber: 4.8 Consensus size: 28
113344086 TATTTTTTGA
* *
113344096 TAAATGACCCAATATTTTTACTTTTTGCG
1 TAAATGACCCAACATGTTTA-TTTTTGCG
*
113344125 TAAATGGCCCAACATGTTTATTTTTGCG
1 TAAATGACCCAACATGTTTATTTTTGCG
113344153 TAAATGACCCAACATGTTTATTTTTGCG
1 TAAATGACCCAACATGTTTATTTTTGCG
113344181 TAAATGACCCAACATGTTTATTTTTGCG
1 TAAATGACCCAACATGTTTATTTTTGCG
*
113344209 TAAATGACCCAATATGTTTAT
1 TAAATGACCCAACATGTTTAT
113344230 ACTTCTTTTT
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 83 0.83
29 17 0.17
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (28 bp):
TAAATGACCCAACATGTTTATTTTTGCG
Found at i:113351582 original size:21 final size:20
Alignment explanation
Indices: 113351558--113351617 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
113351548 GCAAATATTA
113351558 AAAAATAGAAAATAAATACAT
1 AAAAATAGAAAA-AAATACAT
*
113351579 AAAAAT-GCATAAAAAATATAT
1 AAAAATAG-A-AAAAAATACAT
*
113351600 AAAATTTAGAAAAAAATA
1 AAAA-ATAGAAAAAAATA
113351618 TAAATTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
20 1 0.03
21 26 0.79
22 5 0.15
23 1 0.03
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAATAGAAAAAAATACAT
Found at i:113352226 original size:18 final size:17
Alignment explanation
Indices: 113352196--113352241 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
113352186 AAATGTGTCT
*
113352196 TTTTTTTAT-TTTTTAA
1 TTTTTATATATTTTTAA
*
113352212 TTTTTATAATATTTTTCA
1 TTTTTAT-ATATTTTTAA
113352230 TTTTTATATATT
1 TTTTTATATATT
113352242 ATTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 7 0.27
18 13 0.50
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATATATTTTTAA
Found at i:113352226 original size:19 final size:18
Alignment explanation
Indices: 113352202--113352246 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
113352192 GTCTTTTTTT
113352202 TATTTTTTAATTTTTATA
1 TATTTTTTAATTTTTATA
*
113352220 -ATATTTTTCATTTTTATA
1 TAT-TTTTTAATTTTTATA
113352238 TATTATTTT
1 TATT-TTTT
113352247 GATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTTAATTTTTATA
Found at i:113361621 original size:23 final size:23
Alignment explanation
Indices: 113361539--113361625 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
113361529 CCTGATCAGT
*
113361539 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
113361561 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
113361581 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
113361604 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
113361626 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:113362022 original size:15 final size:15
Alignment explanation
Indices: 113361997--113362054 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
113361987 TCATATATAT
113361997 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
113362013 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
113362028 AATAATTTCAATCAA
1 TATAAATTCAATCAA
113362043 TATAAATTCAAT
1 TATAAATTCAAT
113362055 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:113363161 original size:5 final size:5
Alignment explanation
Indices: 113363151--113363209 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
113363141 TTACTTATTT
* *
113363151 ATATA ATATAA TATATA ATATA ATAT- A-CTA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
113363197 ATATA ATAATA AT
1 ATATA AT-ATA AT
113363210 TTCTTATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 25 0.57
6 12 0.27
7 4 0.09
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:113363192 original size:24 final size:24
Alignment explanation
Indices: 113363150--113363207 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
113363140 TTTACTTATT
113363150 TATATAATATAATATATAATATAA
1 TATATAATATAATATATAATATAA
*
113363174 TATACTAATATAATA-ATAATATCA
1 TATA-TAATATAATATATAATATAA
113363198 TATAATAATA
1 TAT-ATAATA
113363208 ATTTCTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 20 0.65
25 11 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATAATATAATATATAATATAA
Found at i:113363217 original size:16 final size:16
Alignment explanation
Indices: 113363151--113363209 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
113363141 TTACTTATTT
113363151 ATATAAT-ATAATAT-
1 ATATAATAATAATATC
*
113363165 ATA-ATATAAT-ATACTA
1 ATATA-ATAATAATA-TC
113363181 ATATAATAATAATATC
1 ATATAATAATAATATC
113363197 ATATAATAATAAT
1 ATATAATAATAAT
113363210 TTCTTATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 1 0.03
14 8 0.21
15 3 0.08
16 22 0.58
17 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATAATAATATC
Found at i:113363336 original size:21 final size:22
Alignment explanation
Indices: 113363297--113363347 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
113363287 CATACAATTG
*
113363297 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
113363319 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
113363339 ATAAAATAA
1 TTAAAATAA
113363348 ATATATAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:113363537 original size:19 final size:22
Alignment explanation
Indices: 113363513--113363559 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
113363503 ATCCTTTCCA
113363513 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
113363532 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
113363553 CTAATTA
1 CTAATTA
113363560 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:113363777 original size:46 final size:46
Alignment explanation
Indices: 113363699--113363865 Score: 228
Period size: 46 Copynumber: 3.6 Consensus size: 46
113363689 TGCTATAGTG
*
113363699 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTC-TTTTCATGTCATGTTGCCATGGTA
* *
113363745 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCTTTTCATGTCATGTTGCCATGGTA
* * * * *
113363791 TCTTTTAACCATGGTTTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCTTTTCATGTCATGTTGCCATGGTA
* *
113363837 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCTTTTCAT
113363866 TTCAGAAAAC
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 5 0.05
46 103 0.95
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCTTTTCATGTCATGTTGCCATGGTA
Found at i:113365949 original size:11 final size:11
Alignment explanation
Indices: 113365933--113365980 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
113365923 CTTTATATAC
113365933 TAATAAAATAA
1 TAATAAAATAA
*
113365944 TAATAAAATATCT
1 TAATAAAATA--A
* *
113365957 TATTAAAATAT
1 TAATAAAATAA
113365968 TAATAAAATAA
1 TAATAAAATAA
113365979 TA
1 TA
113365981 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:113367659 original size:48 final size:49
Alignment explanation
Indices: 113367607--113367699 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
113367597 GTAGCCCGAC
*
113367607 AATGATGGTTTACACTA-TTCAATATTTTACCA-TCTTGGATGGCTTGGA
1 AATGATGGTTTACACTATTTCAATATTCTACCATTC-TGGATGGCTTGGA
*
113367655 AATGATGGTTTGCACTATTTCAATATTCTACCATTCTGGATGGCT
1 AATGATGGTTTACACTATTTCAATATTCTACCATTCTGGATGGCT
113367700 CAAAAATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
48 16 0.39
49 23 0.56
50 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (49 bp):
AATGATGGTTTACACTATTTCAATATTCTACCATTCTGGATGGCTTGGA
Found at i:113367707 original size:49 final size:48
Alignment explanation
Indices: 113367607--113367710 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 48
113367597 GTAGCCCGAC
* ***
113367607 AATGATGGTTTACACTATTCAATATTTTACCATCTTGGATGGCTTGGA
1 AATGATGGTTTACACTATTCAATATTCTACCATCTTGGATGGCTCAAA
*
113367655 AATGATGGTTTGCACTATTTCAATATTCTACCAT-TCTGGATGGCTCAAA
1 AATGATGGTTTACACTA-TTCAATATTCTACCATCT-TGGATGGCTCAAA
113367704 AATGATG
1 AATGATG
113367711 ACTTTTATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 17 0.35
49 32 0.65
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (48 bp):
AATGATGGTTTACACTATTCAATATTCTACCATCTTGGATGGCTCAAA
Found at i:113371920 original size:20 final size:20
Alignment explanation
Indices: 113371865--113371927 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 20
113371855 TAAAAAAAAT
113371865 AAAAAAACTTATTTTTTGAAA
1 AAAAAAACTTA-TTTTTGAAA
*
113371886 AAAGAAACTTAATTTTTGAAA
1 AAAAAAACTT-ATTTTTGAAA
* *
113371907 AAAAAAAGTTATTTTGGAAA
1 AAAAAAACTTATTTTTGAAA
113371927 A
1 A
113371928 TTAAAAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAAAAACTTATTTTTGAAA
Found at i:113375484 original size:25 final size:23
Alignment explanation
Indices: 113375437--113375492 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
113375427 ATTACTACCG
113375437 ATCAGGATGCTCGCAGGAACTAT
1 ATCAGGATGCTCGCAGGAACTAT
**
113375460 ACATCAGGATGCTCG-AGAGGGCTAT
1 --ATCAGGATGCTCGCAG-GAACTAT
113375485 ATCAGGAT
1 ATCAGGAT
113375493 TACTCGTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.29
24 2 0.07
25 18 0.64
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (23 bp):
ATCAGGATGCTCGCAGGAACTAT
Found at i:113382361 original size:29 final size:30
Alignment explanation
Indices: 113382319--113382385 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
113382309 AGGAATGAAT
*
113382319 GTGCAAACCCTAGGTGTGTGAA-CCCTTAC
1 GTGCAAACCCTAGGTATGTGAACCCCTTAC
* * *
113382348 GTGCGAACCTTAGGTATGTGAACCCCTTAT
1 GTGCAAACCCTAGGTATGTGAACCCCTTAC
113382378 GTGCAAAC
1 GTGCAAAC
113382386 TATGTAGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.59
30 13 0.41
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (30 bp):
GTGCAAACCCTAGGTATGTGAACCCCTTAC
Found at i:113392367 original size:18 final size:18
Alignment explanation
Indices: 113392344--113392381 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
113392334 CCACAATAAA
113392344 ATGGCAAGATGTATATAT
1 ATGGCAAGATGTATATAT
113392362 ATGGCAAGATGTATATAT
1 ATGGCAAGATGTATATAT
113392380 AT
1 AT
113392382 TACTTAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (18 bp):
ATGGCAAGATGTATATAT
Found at i:113393572 original size:77 final size:77
Alignment explanation
Indices: 113393490--113393648 Score: 282
Period size: 77 Copynumber: 2.1 Consensus size: 77
113393480 TAAAATTCAA
113393490 ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
1 ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
*
113393555 CAAAATTTATGC
66 CAAAATTTATAC
* *
113393567 ATTTTCAAGCCGGTTTCACTATAGTCCTTTTAGGATCTCCTATTTCTAATTTCTACTATAAATTT
1 ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
*
113393632 CAAATTTTATAC
66 CAAAATTTATAC
113393644 ATTTT
1 ATTTT
113393649 AATCTCTATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (77 bp):
ATTTTCAAGCCAGTTTCACTATAGTCCTTTTAGGACCTCCTATTTCTAATTTCTACTATAAATTT
CAAAATTTATAC
Found at i:113402420 original size:112 final size:114
Alignment explanation
Indices: 113402264--113402502 Score: 351
Period size: 112 Copynumber: 2.1 Consensus size: 114
113402254 CTTAATACAA
* * * *
113402264 GTATGGATACATAGGGGGTATTTTAGTAACTTTTCAATTGAGTTGAT-TCTC-CATAGACTTGTG
1 GTATAGATAGATAGGGGGTATTTTAGTAACTTCTCAATTGAGTTGATAT-TCGC-TAGACTTATG
* *
113402327 ACACCAACTTAACACCAGGCATAAACTCAGTTAGGGGCTTAATATAT-TAT
64 ACACCAACTCAACACCAGGCATAAACTCAATTAGGGGCTTAATATATGTAT
*
113402377 GTATAGATAGATA-GGGGTATTTTAGTAACTTCTCAATTGAGTTGATATTCGCTAGACTTATGAT
1 GTATAGATAGATAGGGGGTATTTTAGTAACTTCTCAATTGAGTTGATATTCGCTAGACTTATGAC
* *
113402441 ACCAACTCAACATCAGGCATCAACTCAATTAGGGGCTTAATATATGTAT
66 ACCAACTCAACACCAGGCATAAACTCAATTAGGGGCTTAATATATGTAT
113402490 GTATAGATAGATA
1 GTATAGATAGATA
113402503 AATATATATT
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
112 85 0.75
113 29 0.25
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (114 bp):
GTATAGATAGATAGGGGGTATTTTAGTAACTTCTCAATTGAGTTGATATTCGCTAGACTTATGAC
ACCAACTCAACACCAGGCATAAACTCAATTAGGGGCTTAATATATGTAT
Found at i:113402956 original size:27 final size:26
Alignment explanation
Indices: 113402926--113402979 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
113402916 CTAAGGTATT
*
113402926 ATAAAATAAATATT-AAATTTATTAAAA
1 ATAAAA-AAAT-TTAAAAATTATTAAAA
*
113402953 ATAAAAATATTTAAAAATTATTAAAA
1 ATAAAAAAATTTAAAAATTATTAAAA
113402979 A
1 A
113402980 CCATGAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 16 0.67
27 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAAAAAATTTAAAAATTATTAAAA
Found at i:113403098 original size:9 final size:10
Alignment explanation
Indices: 113403065--113403111 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
113403055 TTTAGGCGTG
113403065 ATTTTTAATAA
1 ATTTTTAAT-A
113403076 ATTTTTAA-A
1 ATTTTTAATA
113403085 CATTTTTAAT-
1 -ATTTTTAATA
113403095 ATTTTTAATA
1 ATTTTTAATA
113403105 ATTTTTA
1 ATTTTTA
113403112 TTACTTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 10 0.30
10 15 0.45
11 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:113403134 original size:3 final size:3
Alignment explanation
Indices: 113403121--113403155 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
113403111 ATTACTTCTT
113403121 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
113403156 AATTTCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:113408484 original size:23 final size:22
Alignment explanation
Indices: 113408437--113408508 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
113408427 TAATTTAATT
* *
113408437 TTTTTAAAATTAT-AAAAAATAA
1 TTTTTAAAATAATGAAAATAT-A
*
113408459 TTTATTAAAATAATGAAATTATA
1 TTT-TTAAAATAATGAAAATATA
** *
113408482 TTTTTATTATCATGAAAATATA
1 TTTTTAAAATAATGAAAATATA
113408504 TTTTT
1 TTTTT
113408509 TAATTTCGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 23 0.56
23 13 0.32
24 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTTAAAATAATGAAAATATA
Found at i:113429113 original size:30 final size:30
Alignment explanation
Indices: 113429079--113429139 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
113429069 AGCAAACTGT
113429079 ATAAAGTAGTAAGGAATTGACAAAATGATC
1 ATAAAGTAGTAAGGAATTGACAAAATGATC
*
113429109 ATAAAGTAGTAAGGAATTGATAAAATGATC
1 ATAAAGTAGTAAGGAATTGACAAAATGATC
113429139 A
1 A
113429140 ATTTAGTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.25
Consensus pattern (30 bp):
ATAAAGTAGTAAGGAATTGACAAAATGATC
Found at i:113431179 original size:41 final size:41
Alignment explanation
Indices: 113431104--113431382 Score: 273
Period size: 41 Copynumber: 6.9 Consensus size: 41
113431094 GGAAAATAGG
*** *
113431104 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAA-CAAA
1 GCAATAGCGGCGTTTTAGTGAAAACGCCGCTAAAAACCAGA
* *
113431144 GCAATAACGGCGTTTTTTGTGAAAACGCCGCTAAAAA-CAGA
1 GCAATAGCGGCG-TTTTAGTGAAAACGCCGCTAAAAACCAGA
* *** *
113431185 GCAATAGTGGCGTTTTACCAAAAATGCCGCTAAAAACCAGA
1 GCAATAGCGGCGTTTTAGTGAAAACGCCGCTAAAAACCAGA
* *
113431226 GCATTAGCGGCGCTTTTGGTG-AAACGCCGCTAAAAACCAGA
1 GCAATAGCGGCG-TTTTAGTGAAAACGCCGCTAAAAACCAGA
*** *
113431267 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAAA
1 GCAATAGCGGCGTTTTAGTGAAAACGCCGCTAAAAACCAGA
* *
113431308 GCATTAGCGGCGCTTTTGGTG-AAACGCCGCT-AAAACCAGA
1 GCAATAGCGGCG-TTTTAGTGAAAACGCCGCTAAAAACCAGA
* * * *
113431348 GCATTAGCAGCGCTTTCGAT-AAAACGCCGCTAAAA
1 GCAATAGCGGCGTTTTAG-TGAAAACGCCGCTAAAA
113431383 GTCATATAAT
Statistics
Matches: 196, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.02
40 64 0.33
41 120 0.61
42 8 0.04
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (41 bp):
GCAATAGCGGCGTTTTAGTGAAAACGCCGCTAAAAACCAGA
Found at i:113431288 original size:82 final size:82
Alignment explanation
Indices: 113431104--113431382 Score: 413
Period size: 82 Copynumber: 3.4 Consensus size: 82
113431094 GGAAAATAGG
* * * *
113431104 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAA-CAAAGCAATAACGGCGTTTTTTGTGAAA
1 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTG-AA
113431168 ACGCCGCTAAAAA-CAGA
65 ACGCCGCTAAAAACCAGA
* * *
113431185 GCAATAGTGGCGTTTTACCAAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTGAAA
1 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTGAAA
113431250 CGCCGCTAAAAACCAGA
66 CGCCGCTAAAAACCAGA
113431267 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTGAAA
1 GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTGAAA
113431332 CGCCGCT-AAAACCAGA
66 CGCCGCTAAAAACCAGA
* * * *
113431348 GCATTAGCAGCGCTTT-CGATAAAACGCCGCTAAAA
1 GCAATAGCGGCGTTTTACCA-AAAACGCCGCTAAAA
113431383 GTCATATAAT
Statistics
Matches: 181, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
80 2 0.01
81 86 0.48
82 93 0.51
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (82 bp):
GCAATAGCGGCGTTTTACCAAAAACGCCGCTAAAAACCAAAGCATTAGCGGCGCTTTTGGTGAAA
CGCCGCTAAAAACCAGA
Found at i:113431459 original size:16 final size:15
Alignment explanation
Indices: 113431438--113431488 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
113431428 ACTAATCTAT
113431438 AACCCCTAAGAAACTA
1 AACCCCTAA-AAACTA
*
113431454 AACCCCTAAAACCTAAA
1 AACCCCTAAAAACT--A
*
113431471 AATCCCTAAAAACTA
1 AACCCCTAAAAACTA
113431486 AAC
1 AAC
113431489 TATAACCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 7 0.24
16 9 0.31
17 13 0.45
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.14
Consensus pattern (15 bp):
AACCCCTAAAAACTA
Found at i:113431996 original size:17 final size:18
Alignment explanation
Indices: 113431971--113432006 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
113431961 CCTAAACTCT
*
113431971 TAAACCCCTAAAC-CTAA
1 TAAAACCCTAAACACTAA
113431988 TAAAACCCTAAACACTAA
1 TAAAACCCTAAACACTAA
113432006 T
1 T
113432007 CCATAACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAACCCTAAACACTAA
Found at i:113435919 original size:22 final size:23
Alignment explanation
Indices: 113435868--113435920 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
113435858 AGAAAACCAT
113435868 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
* *
113435890 TTTA-GGTGTTAAATGTTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
113435911 TTTATGGTGT
1 TTTATGGTGT
113435921 CTGAAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:113437414 original size:43 final size:43
Alignment explanation
Indices: 113437353--113437498 Score: 238
Period size: 43 Copynumber: 3.4 Consensus size: 43
113437343 TTAATTTTTA
* *
113437353 TGACCTTTAGCGGTGTTCGTGGGAAAAGCGCCGTTAAAGGCCC
1 TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
113437396 TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
1 TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
* * * *
113437439 TGACCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAATGCCT
1 TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
113437482 TGACCTTTAGCGGCGTT
1 TGACCTTTAGCGGCGTT
113437499 GTTTTCAAAT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.25
Consensus pattern (43 bp):
TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGCCC
Found at i:113439834 original size:27 final size:28
Alignment explanation
Indices: 113439804--113439856 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
113439794 AATAATTTAA
*
113439804 AAATATAAAAATATTCA-AAAAAAAATT
1 AAATATAAAAAAATTCATAAAAAAAATT
113439831 AAATATAAAAAAATTCATAAAAAAAA
1 AAATATAAAAAAATTCATAAAAAAAA
113439857 ATTAGCATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (28 bp):
AAATATAAAAAAATTCATAAAAAAAATT
Found at i:113439854 original size:14 final size:15
Alignment explanation
Indices: 113439820--113439860 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
113439810 AAAAATATTC
113439820 AAAAAAAAATTAAAT
1 AAAAAAAAATTAAAT
* *
113439835 ATAAAAAAATT-CAT
1 AAAAAAAAATTAAAT
113439849 AAAAAAAAATTA
1 AAAAAAAAATTA
113439861 GCATGAAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAAAAAAATTAAAT
Found at i:113440558 original size:26 final size:26
Alignment explanation
Indices: 113440529--113440585 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
113440519 AAAAAAATAT
* *
113440529 AAAAT-ATTAAATTTCAATATAACAAC
1 AAAATAATTAAA-TTAAATATAACAAA
*
113440555 AAAATAATTAAATTAAATATAATAAA
1 AAAATAATTAAATTAAATATAACAAA
113440581 AAAAT
1 AAAAT
113440586 TCTTACCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (26 bp):
AAAATAATTAAATTAAATATAACAAA
Found at i:113442950 original size:51 final size:51
Alignment explanation
Indices: 113442828--113442952 Score: 121
Period size: 51 Copynumber: 2.4 Consensus size: 51
113442818 CGCGTTAGTG
* * *
113442828 AATAAATATAAATATAAATATTTATATTTATATTTATGTAAATGCACCATATCTA
1 AATAAA-ATAAAT-TAAATA--AATATTTATATTTATGTAAATACACCAAATCTA
* *
113442883 AATAAAATAAATTAAATAAATATTTATATTTATTTAAA-ACATCAAATCTGA
1 AATAAAATAAATTAAATAAATATTTATATTTATGTAAATACACCAAATCT-A
113442934 AA-AACAATTAAA-TAAATAA
1 AATAA-AA-TAAATTAAATAA
113442953 GATCTTGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
50 10 0.16
51 30 0.48
52 4 0.06
53 6 0.10
54 6 0.10
55 6 0.10
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.37
Consensus pattern (51 bp):
AATAAAATAAATTAAATAAATATTTATATTTATGTAAATACACCAAATCTA
Found at i:113444706 original size:33 final size:34
Alignment explanation
Indices: 113444644--113444709 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
113444634 GATCAAACAT
*
113444644 AACCCAGATGGCTCTGTTGAAAGGTATAAAGTCC
1 AACCCAGATGGCTCTATTGAAAGGTATAAAGTCC
113444678 AACCCAGATGGCTCTATTG-AAGGTATAAAGTC
1 AACCCAGATGGCTCTATTGAAAGGTATAAAGTC
113444710 TATCTTGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (34 bp):
AACCCAGATGGCTCTATTGAAAGGTATAAAGTCC
Found at i:113448940 original size:29 final size:31
Alignment explanation
Indices: 113448898--113448958 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
113448888 TGGCCCAAGA
*
113448898 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATACTCAAAATTTGAAGGACTAATAGT
*
113448928 GTAAATA-TGAAAATTTGAAGGACTAATAGT
1 GTAAATACTCAAAATTTGAAGGACTAATAGT
113448958 G
1 G
113448959 CAAACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.30
Consensus pattern (31 bp):
GTAAATACTCAAAATTTGAAGGACTAATAGT
Found at i:113451134 original size:46 final size:46
Alignment explanation
Indices: 113451081--113451404 Score: 443
Period size: 46 Copynumber: 7.0 Consensus size: 46
113451071 GTGTGCTCTT
* * *
113451081 TGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
113451127 TGATATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
113451173 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
113451219 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
113451265 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
113451311 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
113451357 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
113451403 TG
1 TG
113451405 TCAAAGATAA
Statistics
Matches: 254, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 253 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:113451706 original size:16 final size:17
Alignment explanation
Indices: 113451685--113451717 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113451675 ATGATGGAGC
113451685 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
113451701 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
113451718 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:113453020 original size:16 final size:17
Alignment explanation
Indices: 113452989--113453021 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113452979 TTTATAAGTA
113452989 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
113453006 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
113453022 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:113453567 original size:46 final size:46
Alignment explanation
Indices: 113453296--113453568 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
113453286 TTATCTTTGA
* * * * * *
113453296 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** ***
113453342 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
113453387 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
113453433 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
113453479 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
113453525 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
113453569 TTTAGAAAGC
Statistics
Matches: 208, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 3 0.01
45 37 0.18
46 168 0.81
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:113459414 original size:22 final size:22
Alignment explanation
Indices: 113459386--113459450 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 22
113459376 CCGATGCTAT
113459386 TACCTTCAATAATATTCACTTA
1 TACCTTCAATAATATTCACTTA
* *
113459408 TACCTTCAATGGAAATAATTTACTTT
1 TACCTTCAAT---AAT-ATTCACTTA
*
113459434 TACCTTCAATATTATTC
1 TACCTTCAATAATATTC
113459451 TCTTTAATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 13 0.37
23 2 0.06
25 3 0.09
26 17 0.49
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (22 bp):
TACCTTCAATAATATTCACTTA
Found at i:113459455 original size:22 final size:22
Alignment explanation
Indices: 113459385--113459455 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
113459375 GCCGATGCTA
* *
113459385 TTACCTTCAATAATATTCACTT
1 TTACCTTCAATATTATTCTCTT
* *
113459407 ATACCTTCAATGGAAATAATT-TACTT
1 TTACCTTCAAT----ATTATTCT-CTT
113459433 TTACCTTCAATATTATTCTCTT
1 TTACCTTCAATATTATTCTCTT
113459455 T
1 T
113459456 AATAGTAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
22 19 0.51
23 1 0.03
26 17 0.46
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (22 bp):
TTACCTTCAATATTATTCTCTT
Found at i:113459560 original size:5 final size:5
Alignment explanation
Indices: 113459550--113459574 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
113459540 GAGAATTTTA
113459550 CTTTC CTTTC CTTTC CTTTC CTTTC
1 CTTTC CTTTC CTTTC CTTTC CTTTC
113459575 ATCTCTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTC
Found at i:113461826 original size:6 final size:6
Alignment explanation
Indices: 113461815--113461847 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
113461805 ATAAAGGCAA
113461815 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
113461848 GATACCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:113471132 original size:29 final size:29
Alignment explanation
Indices: 113471090--113471146 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
113471080 CTTCTTGCCT
113471090 TTCTAGCAACAAAAACAAAAATCAATGGC
1 TTCTAGCAACAAAAACAAAAATCAATGGC
* *
113471119 TTCTAGCAGCAAAAGCAAAAATCAATGG
1 TTCTAGCAACAAAAACAAAAATCAATGG
113471147 TCCTCAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.18
Consensus pattern (29 bp):
TTCTAGCAACAAAAACAAAAATCAATGGC
Found at i:113471530 original size:18 final size:18
Alignment explanation
Indices: 113471503--113471538 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
113471493 AGAAAATATG
*
113471503 TTGCTGCAACATGCATAC
1 TTGCTACAACATGCATAC
113471521 TTGCTACAACATGCATAC
1 TTGCTACAACATGCATAC
113471539 AAGCTGTATG
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:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (18 bp):
TTGCTACAACATGCATAC
Found at i:113472985 original size:23 final size:23
Alignment explanation
Indices: 113472955--113473001 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
113472945 ACTATATACA
113472955 GATATAGTTCTAAAGAAGAGAAG
1 GATATAGTTCTAAAGAAGAGAAG
113472978 GATATAGTTCTAAAGAAGAGAAG
1 GATATAGTTCTAAAGAAGAGAAG
113473001 G
1 G
113473002 TTGACATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.28, T:0.21
Consensus pattern (23 bp):
GATATAGTTCTAAAGAAGAGAAG
Found at i:113477081 original size:29 final size:28
Alignment explanation
Indices: 113477029--113477083 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
113477019 GTAAATTTCA
*
113477029 TAATTAAAAATAAATAATATATGACAAG
1 TAATTAAAAATAAATAATAAATGACAAG
* *
113477057 TAATATAAAAATAATTGATAAATGACA
1 TAAT-TAAAAATAAATAATAAATGACA
113477084 TGATTGATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (28 bp):
TAATTAAAAATAAATAATAAATGACAAG
Found at i:113480412 original size:21 final size:20
Alignment explanation
Indices: 113480372--113480410 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
113480362 AAAGATTTAA
* *
113480372 TTGGGTTTTTATAAGAAAAT
1 TTGGATTTTTACAAGAAAAT
113480392 TTGGATTTTTACAAGAAAA
1 TTGGATTTTTACAAGAAAA
113480411 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGGATTTTTACAAGAAAAT
Found at i:113481852 original size:13 final size:13
Alignment explanation
Indices: 113481834--113481860 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113481824 ACCAAAGAAA
113481834 AGTCTTCCATATT
1 AGTCTTCCATATT
113481847 AGTCTTCCATATT
1 AGTCTTCCATATT
113481860 A
1 A
113481861 TTCTCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTCTTCCATATT
Found at i:113486732 original size:15 final size:15
Alignment explanation
Indices: 113486708--113486737 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113486698 TTTGGGCTGT
113486708 TTTGTATTAGGTTTG
1 TTTGTATTAGGTTTG
*
113486723 TTTGTTTTAGGTTTG
1 TTTGTATTAGGTTTG
113486738 GGCCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (15 bp):
TTTGTATTAGGTTTG
Found at i:113488440 original size:33 final size:33
Alignment explanation
Indices: 113488403--113488469 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
113488393 TTTGAATTTG
113488403 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
1 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
113488436 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
1 ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
113488469 A
1 A
113488470 GTTTTAGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.51
Consensus pattern (33 bp):
ATGTTCAATTTCTTTTGTGTGTAATTTAAGCTA
Found at i:113489746 original size:150 final size:150
Alignment explanation
Indices: 113489563--113489934 Score: 588
Period size: 150 Copynumber: 2.5 Consensus size: 150
113489553 TGGTTTTTTT
*
113489563 TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATTTTA
1 TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
* * *
113489628 AAAATACAAACAAA-GGGACAAAATTAGGGTTA-TTA-TTAATTAATATAAAAAACACTAAAATA
66 AAAATACAAA-AAAGGGGACAAAATCAAGGTTATTTACTAAATTAATAT-AAAAACACTAAAATA
*
113489690 ATACATTTGAAACATTATGTAC
129 ATACATTTGAAACATTATATAC
* *
113489712 TAAAATAATATAAAAAAATAAAATACAAAAATAGTATATGTTAAAAAATAAAATCCGAAAATTTT
1 TAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTT
*
113489777 AAAAATACAAAAAAGGGGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAACACTAAAATAA
65 AAAAATACAAAAAAGGGGACAAAATCAAGGTTATTTACTAAATTAATATAAAAACACTAAAATAA
*
113489842 TACATTTGAAACATTATATAT
130 TACATTTGAAACATTATATAC
* * *
113489863 TAAAATAATATAAAAAATAAAATACGAAAATAGAATATTTTAAAAAATAAGATCCGTAAATTTTA
1 TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
113489928 AAAATAC
66 AAAATAC
113489935 GAATTTTTTT
Statistics
Matches: 205, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
149 14 0.07
150 132 0.64
151 49 0.24
152 10 0.05
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (150 bp):
TAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTA
AAAATACAAAAAAGGGGACAAAATCAAGGTTATTTACTAAATTAATATAAAAACACTAAAATAAT
ACATTTGAAACATTATATAC
Found at i:113490875 original size:21 final size:19
Alignment explanation
Indices: 113490845--113490884 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
113490835 ACATATATAT
113490845 ATAAAATAAACAAAGAAAAA
1 ATAAAATAAACAAA-AAAAA
*
113490865 ATAAATATAAATAAAAAAAA
1 ATAAA-ATAAACAAAAAAAA
113490885 TACGTACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (19 bp):
ATAAAATAAACAAAAAAAA
Found at i:113491548 original size:12 final size:12
Alignment explanation
Indices: 113491531--113491582 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
113491521 ATAATATTTA
113491531 TATTATTACTAT
1 TATTATTACTAT
*
113491543 TATTATTATTAT
1 TATTATTACTAT
* *
113491555 CATTATTAGTA-
1 TATTATTACTAT
113491566 TATT-TATACTAT
1 TATTAT-TACTAT
113491578 TATTA
1 TATTA
113491583 GCTTTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 7 0.22
12 24 0.75
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:113491581 original size:3 final size:3
Alignment explanation
Indices: 113491475--113491562 Score: 52
Period size: 3 Copynumber: 27.0 Consensus size: 3
113491465 CTTTATATAT
* *
113491475 TTA TTA TTA TTA TGTGA TCTA TTG TTA TTA TTA CCTTT TTA TGTA TATA
1 TTA TTA TTA TTA T-T-A T-TA TTA TTA TTA TTA --TTA TTA T-TA T-TA
* * *
113491524 ATA TT- TATA TTA TTA CTA TTA TTA TTA TTA TCA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
113491563 GTATATTTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
2 1 0.02
3 51 0.77
4 9 0.14
5 5 0.08
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:113491715 original size:12 final size:13
Alignment explanation
Indices: 113491675--113491729 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
113491665 AATCTATGTA
*
113491675 TTATATATATGTT
1 TTATATATATATT
*
113491688 TTCA-ATATTGTATT
1 TT-ATATA-TATATT
113491702 TTATATATAT-TT
1 TTATATATATATT
*
113491714 TTATGTATATATT
1 TTATATATATATT
113491727 TTA
1 TTA
113491730 ACACTATTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 11 0.32
13 13 0.38
14 10 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (13 bp):
TTATATATATATT
Found at i:113491790 original size:19 final size:19
Alignment explanation
Indices: 113491766--113491802 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
113491756 CTATTTTATA
*
113491766 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
113491785 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
113491803 ATTATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:113492606 original size:25 final size:26
Alignment explanation
Indices: 113492569--113492626 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
113492559 AGTATTTCTA
113492569 ATATA-TATGGTATATGT-TCATTTTT
1 ATATATTATGGTATATGTATC-TTTTT
113492594 ATATATTAT-GTATATGTATCTTTTT
1 ATATATTATGGTATATGTATCTTTTT
113492619 A-ATATTAT
1 ATATATTAT
113492627 ATCTTTATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (26 bp):
ATATATTATGGTATATGTATCTTTTT
Found at i:113492839 original size:3 final size:3
Alignment explanation
Indices: 113492831--113492856 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
113492821 TATCATTGGT
113492831 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
113492857 CTCGCTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:113495016 original size:21 final size:23
Alignment explanation
Indices: 113494966--113495016 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
113494956 CCATTTTCGT
113494966 TATTAAT-TTTTGTCTTATACCA
1 TATTAATATTTTGTCTTATACCA
*
113494988 T-TTAAATATTTT-T-TTATACTA
1 TATT-AATATTTTGTCTTATACCA
113495009 TATTAATA
1 TATTAATA
113495017 ACCCCCCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.56
22 7 0.28
23 4 0.16
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTAATATTTTGTCTTATACCA
Found at i:113502297 original size:21 final size:22
Alignment explanation
Indices: 113502256--113502297 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
113502246 TACATTAACA
*
113502256 TTATAAAAAATATATTAAAAAC
1 TTATAAAAAAAATATTAAAAAC
113502278 TTATAAAAAGAAATA-TAAAA
1 TTATAAAAA-AAATATTAAAA
113502298 TTTGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
TTATAAAAAAAATATTAAAAAC
Found at i:113510501 original size:31 final size:30
Alignment explanation
Indices: 113510437--113510497 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
113510427 GTGAATATCA
*
113510437 AATTTATATATGAATTTTATTTTAATTTCT
1 AATTTATATATAAATTTTATTTTAATTTCT
113510467 AATTTAATATATAAATTTTAATTTTTAATTT
1 AATTT-ATATATAAATTTT-A-TTTTAATTT
113510498 AATTGTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.44
32 1 0.04
33 9 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
AATTTATATATAAATTTTATTTTAATTTCT
Found at i:113513501 original size:22 final size:23
Alignment explanation
Indices: 113513439--113513540 Score: 72
Period size: 25 Copynumber: 4.4 Consensus size: 23
113513429 GTACATAGGG
*
113513439 TAATATATA-TAAAA-AT-TTAA
1 TAATATATATTAAAACATATTCA
*
113513459 CTAATA-ATATTGAAAATACATGTTCA
1 -TAATATATATT--AAA-ACATATTCA
113513485 TAATATATA-TAAAACATATAT-A
1 TAATATATATTAAAACATAT-TCA
*
113513507 TAATATAATATTAAAACATTTTACA
1 TAATAT-ATATTAAAACATATT-CA
113513532 TAATATATA
1 TAATATATA
113513541 CACATATAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 21
0.73 0.03 0.23
Matches are distributed among these distances:
20 3 0.05
21 6 0.09
22 12 0.18
23 11 0.17
24 13 0.20
25 15 0.23
26 6 0.09
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (23 bp):
TAATATATATTAAAACATATTCA
Found at i:113513974 original size:12 final size:12
Alignment explanation
Indices: 113513959--113513992 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
113513949 AAAATAAGCC
113513959 TATACATAAATA
1 TATACATAAATA
* *
113513971 TATATATACATA
1 TATACATAAATA
113513983 TATACATAAA
1 TATACATAAA
113513993 ACATATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (12 bp):
TATACATAAATA
Found at i:113513985 original size:8 final size:8
Alignment explanation
Indices: 113513959--113514001 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
113513949 AAAATAAGCC
113513959 TATACATA
1 TATACATA
* *
113513967 AATATATA
1 TATACATA
113513975 TATACATA
1 TATACATA
113513983 TATACATA
1 TATACATA
*
113513991 -AAACATA
1 TATACATA
113513998 TATA
1 TATA
113514002 AACATTGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (8 bp):
TATACATA
Found at i:113515754 original size:17 final size:17
Alignment explanation
Indices: 113515716--113515756 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
113515706 ATATCCCAAA
113515716 AAAAAT-AATTAATTAC
1 AAAAATAAATTAATTAC
*
113515732 ATAAATAAATTTAATT-C
1 AAAAATAAA-TTAATTAC
113515749 AAAAATAA
1 AAAAATAA
113515757 TAACCTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 10 0.48
18 6 0.29
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATAAATTAATTAC
Found at i:113516862 original size:20 final size:21
Alignment explanation
Indices: 113516821--113516864 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
113516811 AATTATTTGT
113516821 AAAATTAAATTTAAATATATA
1 AAAATTAAATTTAAATATATA
*
113516842 AAAATTATATTTAAATA-ATA
1 AAAATTAAATTTAAATATATA
113516862 AAA
1 AAA
113516865 TATAACCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTAAATTTAAATATATA
Found at i:113530236 original size:169 final size:169
Alignment explanation
Indices: 113529957--113530298 Score: 639
Period size: 169 Copynumber: 2.0 Consensus size: 169
113529947 CACTGTCAAC
* * *
113529957 AATTACCATGAAACACAATATTGACTCATCATAGAAGTAAACTTTTACTCATCCTCATTCTAATG
1 AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
*
113530022 CATATATCATGAGATAAAAAAACCAACTCAAATACATATACTATAATTATGATAATAATAAAAAG
66 CATATATCATGAGATAAAAAAACCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAG
113530087 ATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
131 ATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
113530126 AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
1 AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
*
113530191 CATATATCATGAGATAAAAAAATCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAG
66 CATATATCATGAGATAAAAAAACCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAG
113530256 ATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
131 ATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
113530295 AATT
1 AATT
113530299 CAAACAAGTG
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
169 168 1.00
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.27
Consensus pattern (169 bp):
AATTACCATGAAACACAATATTAACTCATCATAAAAGTAAACTTTTACACATCCTCATTCTAATG
CATATATCATGAGATAAAAAAACCAACTCAAATACATATACTATAATTATGATAATAAAAAAAAG
ATAAAACAGGGCATTTGGAAATCCAAAATAAATAAAAGG
Found at i:113539909 original size:25 final size:25
Alignment explanation
Indices: 113539880--113539943 Score: 103
Period size: 24 Copynumber: 2.6 Consensus size: 25
113539870 AGCCCTCCCC
113539880 AAAAAAAACCTAACCAAAAA-AAAA
1 AAAAAAAACCTAACCAAAAAGAAAA
*
113539904 AGAAAAAACCTAACCAAAAAGAAAA
1 AAAAAAAACCTAACCAAAAAGAAAA
*
113539929 AAGAAAAACCTAACC
1 AAAAAAAACCTAACC
113539944 CCCCAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 19 0.53
25 17 0.47
ACGTcount: A:0.72, C:0.19, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAAAACCTAACCAAAAAGAAAA
Found at i:113539913 original size:19 final size:19
Alignment explanation
Indices: 113539891--113539930 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
113539881 AAAAAAACCT
113539891 AACCAAAAAAAAAAGAAAA
1 AACCAAAAAAAAAAGAAAA
* **
113539910 AACCTAACCAAAAAGAAAA
1 AACCAAAAAAAAAAGAAAA
113539929 AA
1 AA
113539931 GAAAAACCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.78, C:0.15, G:0.05, T:0.03
Consensus pattern (19 bp):
AACCAAAAAAAAAAGAAAA
Found at i:113539954 original size:26 final size:25
Alignment explanation
Indices: 113539882--113539943 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 25
113539872 CCCTCCCCAA
113539882 AAAAAACCTAACC-AAAAAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAAG
113539906 AAAAAACCTAACCAAAAAGAAAAAAG
1 AAAAAACCTAACCAAAAA-AAAAAAG
113539932 -AAAAACCTAACC
1 AAAAAACCTAACC
113539944 CCCCAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.36
25 16 0.44
26 7 0.19
ACGTcount: A:0.71, C:0.19, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCAAAAAAAAAAAG
Found at i:113540187 original size:14 final size:15
Alignment explanation
Indices: 113540168--113540201 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
113540158 CCTAAAGGTG
113540168 ATTTTA-TCTTCTTT
1 ATTTTACTCTTCTTT
*
113540182 ATTTTACTCTTTTTT
1 ATTTTACTCTTCTTT
113540197 ATTTT
1 ATTTT
113540202 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTACTCTTCTTT
Found at i:113540209 original size:15 final size:14
Alignment explanation
Indices: 113540168--113540215 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
113540158 CCTAAAGGTG
*
113540168 ATTTTATCTTCTTT
1 ATTTTATCTTTTTT
113540182 ATTTTACTCTTTTTT
1 ATTTTA-TCTTTTTT
*
113540197 ATTTTTAT-TTTTTA
1 A-TTTTATCTTTTTT
113540211 ATTTT
1 ATTTT
113540216 TTTTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 4 0.13
14 12 0.40
15 9 0.30
16 5 0.17
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTTATCTTTTTT
Found at i:113540283 original size:15 final size:14
Alignment explanation
Indices: 113540260--113540306 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
113540250 ACATCATAAT
113540260 AAAAAATATA-ATA
1 AAAAAATATATATA
* *
113540273 AAAATATATATACA
1 AAAAAATATATATA
*
113540287 AAACAA-ATATATA
1 AAAAAATATATATA
113540300 AAAAAAT
1 AAAAAAT
113540307 TTACCTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAATATATATA
Found at i:113542771 original size:12 final size:12
Alignment explanation
Indices: 113542754--113542789 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
113542744 ATTCATTTGA
113542754 CATTCATGCATT
1 CATTCATGCATT
*
113542766 CATTCATGCATC
1 CATTCATGCATT
*
113542778 CATTCATTCATT
1 CATTCATGCATT
113542790 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:113542783 original size:16 final size:17
Alignment explanation
Indices: 113542762--113542793 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
113542752 GACATTCATG
113542762 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
113542778 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
113542794 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:113551233 original size:72 final size:73
Alignment explanation
Indices: 113551037--113551599 Score: 756
Period size: 72 Copynumber: 7.7 Consensus size: 73
113551027 TCATGTTTTT
* * * *
113551037 ATTTCTG-TTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGGG
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
113551101 GTAATTTCA
65 GTAATTTCA
* * *
113551110 ATTTCTGTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTAAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
113551175 TAATTTCA
66 TAATTTCA
113551183 ATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
113551247 TAATTTCA
66 TAATTTCA
* * ** ** *
113551255 ATTTCTGTTTTC-AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
*
113551319 TATTTTCA
66 TAATTTCA
* * *
113551327 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
113551392 GGTAATTTCA
64 GGTAATTTCA
* * ** ** *
113551402 ATTTCTGTTTTC-AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
*
113551466 TATTTTCA
66 TAATTTCA
* * *
113551474 ATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTG
*
113551539 AGGTATTTTCA
63 AGGTAATTTCA
113551550 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
113551600 TTCAGATCAC
Statistics
Matches: 430, Mismatches: 51, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
72 191 0.44
73 77 0.18
74 40 0.09
75 57 0.13
76 25 0.06
77 40 0.09
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (73 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
TAATTTCA
Found at i:113551394 original size:147 final size:147
Alignment explanation
Indices: 113551037--113551599 Score: 812
Period size: 147 Copynumber: 3.8 Consensus size: 147
113551027 TCATGTTTTT
* * *
113551037 ATTTCTG-TTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGGG
1 ATTTCTGTTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
* ** **
113551101 GTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGAC
66 GTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGAC
* * *
113551166 ACGCTAAGGTAATTTCA
131 ACGTTGAGGTATTTTCA
*
113551183 ATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
*
113551246 GTAATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGAC
66 GTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGAC
113551310 ACGTTGAGGTATTTTCA
131 ACGTTGAGGTATTTTCA
* *
113551327 ATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
* * *
113551392 GGTAATTTCAATTTCTGTTTTC-AAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
65 GGTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGA
113551456 CACGTTGAGGTATTTTCA
130 CACGTTGAGGTATTTTCA
* * * *
113551474 ATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTG
* * **
113551539 AGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
64 AGGTAATTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGC
113551600 TTCAGATCAC
Statistics
Matches: 381, Mismatches: 27, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
144 59 0.15
145 71 0.19
146 51 0.13
147 139 0.36
148 26 0.07
149 4 0.01
151 31 0.08
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (147 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
GTAATTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGAC
ACGTTGAGGTATTTTCA
Found at i:113551427 original size:219 final size:220
Alignment explanation
Indices: 113551037--113551599 Score: 785
Period size: 219 Copynumber: 2.6 Consensus size: 220
113551027 TCATGTTTTT
* * * ** *
113551037 ATTTCTG-TTTCAAAAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGGG
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAG
* * *
113551101 GTAATTTCAATTTCTGT-TGTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGG
65 GTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
**
113551164 ACACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
130 ACACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
**
113551229 CCTCGGGACACGCTGAGGTAATTTCA
195 CCTCAAGACACGCTGAGGTAATTTCA
* * *
113551255 ATTTCTGTTTTC-AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
* *
113551319 TATTTTCAATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGA
66 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
* * * *
113551384 CATGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTTAACTCATATTGCGAGAAATGAGTTGAGC
131 CACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
* *
113551449 CTCAAGACACGTTGAGGTATTTTCA
196 CTCAAGACACGCTGAGGTAATTTCA
* * ** *
113551474 ATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCT
1 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGG---ACACGCT
113551538 GAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
62 GAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
113551600 TTCAGATCAC
Statistics
Matches: 303, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
217 57 0.19
218 10 0.03
219 137 0.45
220 1 0.00
221 33 0.11
223 65 0.21
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (220 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
CACGCTAAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
CTCAAGACACGCTGAGGTAATTTCA
Found at i:113551830 original size:15 final size:14
Alignment explanation
Indices: 113551794--113551826 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
113551784 CGCTGAGGTA
113551794 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
113551808 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
113551822 TTTTC
1 TTTTC
113551827 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:113551889 original size:92 final size:89
Alignment explanation
Indices: 113551667--113552050 Score: 364
Period size: 92 Copynumber: 4.2 Consensus size: 89
113551657 TTTTAATTTC
* * * * * *
113551667 TGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTG
1 TGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATG
* * *
113551730 TGTTTCAAAAAAATTAGCTCATAT
66 TTTTTCAAAAAAATCAACTCATAT
* * * * *
113551754 TGTGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT
1 TGCGAGAGGTGAGTTGAGCC-TCA-GCACACGCTGAGGTATTTTCAATTTCTGTTTTTC-AATTT
113551819 -TGTTTTTCCAAAAAAAAATCAACTCATAT
63 ATGTTTTT-C--AAAAAAATCAACTCATAT
* * * *
113551848 TGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTTTTTCTTTTCAATTT
1 TGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAA--TTTCTGT-TTTTCAATTT
*
113551913 ATGTTTGTCAAAAAAATCAACTCATAT
63 ATGTTTTTCAAAAAAATCAACTCATAT
* * * *
113551940 TGAGAGAGGTGAGTTGAGCCTCAAGCCACACGCTGAGGTATTTTCAATTGATGTTTTTTTTTAAT
1 TGCGAGAGGTGAGTTGAGCCTC-AG-CACACGCTGAGGTATTTTCAATT--T-CTGTTTTTCAAT
* * *
113552005 TTATGCTTTGC--AAAAATTAACTCATAT
61 TTATGTTTTTCAAAAAAATCAACTCATAT
*
113552032 TACGAGAGGTGAGTTGAGC
1 TGCGAGAGGTGAGTTGAGC
113552051 TTCGGGTCAC
Statistics
Matches: 248, Mismatches: 32, Indels: 29
0.80 0.10 0.09
Matches are distributed among these distances:
87 17 0.07
88 2 0.01
91 33 0.13
92 98 0.40
93 4 0.02
94 79 0.32
95 15 0.06
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (89 bp):
TGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTCTGTTTTTCAATTTATG
TTTTTCAAAAAAATCAACTCATAT
Found at i:113552771 original size:27 final size:25
Alignment explanation
Indices: 113552738--113552799 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 25
113552728 CCCTCCCCAA
113552738 AAAAAACCTAACCAAAAAAAGAAAAAG
1 AAAAAACCTAACC-AAAAAA-AAAAAG
*
113552765 AAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAACCTAACCAAAAAAAAAAAG
113552790 -AAAAACCTAA
1 AAAAAACCTAA
113552800 TCCCCCCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 10 0.29
25 6 0.18
26 5 0.15
27 13 0.38
ACGTcount: A:0.73, C:0.18, G:0.05, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCAAAAAAAAAAAG
Found at i:113553058 original size:15 final size:14
Alignment explanation
Indices: 113553029--113553087 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
113553019 CCTAAAGGTG
*
113553029 ATTTTATCTTCTTT
1 ATTTTATCTTTTTT
113553043 ATTTTACTCTTTTTT
1 ATTTTA-TCTTTTTT
*
113553058 ATTTTTATTTTTTTT
1 A-TTTTATCTTTTTT
*
113553073 ATTTTTTTCTTTTTT
1 A-TTTTATCTTTTTT
113553088 CGAATCTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
14 6 0.15
15 28 0.72
16 5 0.13
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTATCTTTTTT
Found at i:113553074 original size:30 final size:30
Alignment explanation
Indices: 113553030--113553087 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
113553020 CTAAAGGTGA
113553030 TTTTATCTTCTTTATTTTACTCTTTTTTAT
1 TTTTATCTTCTTTATTTTACTCTTTTTTAT
* * **
113553060 TTTTATTTTTTTTATTTTTTTCTTTTTT
1 TTTTATCTTCTTTATTTTACTCTTTTTT
113553088 CGAATCTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.10, C:0.09, G:0.00, T:0.81
Consensus pattern (30 bp):
TTTTATCTTCTTTATTTTACTCTTTTTTAT
Found at i:113553133 original size:12 final size:12
Alignment explanation
Indices: 113553116--113553150 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
113553106 TATATACATC
113553116 ATAATAAAAAAT
1 ATAATAAAAAAT
113553128 ATAAT-AAAAAT
1 ATAATAAAAAAT
113553139 ATATATAAAAAA
1 ATA-ATAAAAAA
113553151 CAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 7 0.33
13 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:113553144 original size:15 final size:14
Alignment explanation
Indices: 113553126--113553166 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
113553116 ATAATAAAAA
113553126 ATATAATAAAAATAT
1 ATATAA-AAAAATAT
*
113553141 ATATAAAAAACAAAT
1 ATATAAAAAA-ATAT
113553156 ATATAAAAAAA
1 ATATAAAAAAA
113553167 ATTACCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (14 bp):
ATATAAAAAAATAT
Found at i:113553150 original size:13 final size:13
Alignment explanation
Indices: 113553119--113553165 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 13
113553109 ATACATCATA
113553119 ATAAAAAATATA-
1 ATAAAAAATATAT
113553131 AT-AAAAATATAT
1 ATAAAAAATATAT
*
113553143 ATAAAAAACAAATAT
1 AT-AAAAA-ATATAT
113553158 ATAAAAAA
1 ATAAAAAA
113553166 AATTACCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 9 0.30
12 4 0.13
13 1 0.03
14 9 0.30
15 7 0.23
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAATATAT
Found at i:113553167 original size:17 final size:17
Alignment explanation
Indices: 113553135--113553167 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
113553125 AATATAATAA
*
113553135 AAATATATATAAAAAAC
1 AAATATATAAAAAAAAC
113553152 AAATATATAAAAAAAA
1 AAATATATAAAAAAAA
113553168 TTACCTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATATATAAAAAAAAC
Found at i:113553168 original size:13 final size:13
Alignment explanation
Indices: 113553116--113553168 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
113553106 TATATACATC
113553116 ATAATAAAAAATAT
1 ATAA-AAAAAATAT
*
113553130 A-ATAAAAATATAT
1 ATA-AAAAAAATAT
113553143 ATAAAAAACAAATAT
1 AT-AAAAA-AAATAT
113553158 ATAAAAAAAAT
1 ATAAAAAAAAT
113553169 TACCTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
13 14 0.42
14 11 0.33
15 8 0.24
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (13 bp):
ATAAAAAAAATAT
Found at i:113553602 original size:14 final size:14
Alignment explanation
Indices: 113553583--113553615 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
113553573 ATCATATGTG
113553583 TATATTGTATATAT-
1 TATATT-TATATATA
113553597 TATATTTATATATA
1 TATATTTATATATA
113553611 TATAT
1 TATAT
113553616 ATTCTTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATATTTATATATA
Found at i:113554719 original size:23 final size:23
Alignment explanation
Indices: 113554688--113554742 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
113554678 ATTATTATGG
113554688 ATATCATTTTTTAAGG-AATATATT
1 ATAT-ATTTTTT-AGGAAATATATT
113554712 ATATATTTTTTAGGCAAAATATATT
1 ATATATTTTTTAGG--AAATATATT
113554737 ATATAT
1 ATATAT
113554743 CTATTCTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 3 0.11
23 7 0.25
24 4 0.14
25 14 0.50
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (23 bp):
ATATATTTTTTAGGAAATATATT
Found at i:113558985 original size:19 final size:19
Alignment explanation
Indices: 113558961--113559012 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
113558951 TTATATAATC
113558961 AAAAGAAATTTAAGTTTCA
1 AAAAGAAATTTAAGTTTCA
113558980 AAAAGAAATTTAAGTTTCA
1 AAAAGAAATTTAAGTTTCA
*
113558999 CAAAGAAATATTAA
1 AAAAGAAAT-TTAA
113559013 TTATGAGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 27 0.87
20 4 0.13
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAGAAATTTAAGTTTCA
Found at i:113559975 original size:31 final size:31
Alignment explanation
Indices: 113559940--113559998 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
113559930 AAAATAATTG
113559940 TTAAACTATTCAAAA-ATTTTCATTTAAGTAA
1 TTAAACTATTCAAAAGATTTT-ATTTAAGTAA
*
113559971 TTAAACTATTTAAAAGATTTTATTTAAG
1 TTAAACTATTCAAAAGATTTTATTTAAG
113559999 GTACTAGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (31 bp):
TTAAACTATTCAAAAGATTTTATTTAAGTAA
Found at i:113562102 original size:22 final size:22
Alignment explanation
Indices: 113562077--113562121 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
113562067 TTCAAAATTT
113562077 ACTAGTGATAAGCTCAAGCTCG
1 ACTAGTGATAAGCTCAAGCTCG
113562099 ACTAGTGATAAGCTCAAGCTCG
1 ACTAGTGATAAGCTCAAGCTCG
113562121 A
1 A
113562122 GCTCGAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (22 bp):
ACTAGTGATAAGCTCAAGCTCG
Found at i:113563167 original size:21 final size:22
Alignment explanation
Indices: 113563126--113563183 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
113563116 TCATTACAAT
* * *
113563126 TTTAAAAAAGTAATTATTTTA-
1 TTTAAAAAATTATTTAATTTAG
113563147 TTTAAAAAATTATTTAATTTATG
1 TTTAAAAAATTATTTAATTTA-G
113563170 TTTAATAAAATTAT
1 TTTAA-AAAATTAT
113563184 CTTTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.58
23 5 0.16
24 8 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
TTTAAAAAATTATTTAATTTAG
Found at i:113563284 original size:30 final size:30
Alignment explanation
Indices: 113563250--113563315 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
113563240 ATATTATAAT
*
113563250 TTTTAT-AATTACATTCATAAAAATTAATTC
1 TTTTATCAA-TACATTCATAAAAATTAATTA
* * *
113563280 TTTTATCAATACATTTATAGAATTTAATTA
1 TTTTATCAATACATTCATAAAAATTAATTA
113563310 TTTTAT
1 TTTTAT
113563316 TTATAAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTTATCAATACATTCATAAAAATTAATTA
Found at i:113575229 original size:132 final size:131
Alignment explanation
Indices: 113574718--113575245 Score: 464
Period size: 131 Copynumber: 4.0 Consensus size: 131
113574708 TCACAATTAT
* ** * *
113574718 TAAAAATCCC-TT-AAACGAAGGCGATA-TGCGACATTTGGTAATTCGCAGAATCGTGCCCTAAC
1 TAAAAA-CCCTTTAAAACGAAGGCAATACT-CGATGTTTGATAATTCG-AGAATAGTGCCCTAAC
* * * * * * *
113574780 GTGCTGAGTTGCAATTTCCCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCACTCATGT
63 GTGCTGGGTTGCAATTTCTCGTTTGTTTAAAACAATCGAATATTCCTTCGAAATTTCACTCATGT
*
113574845 CTTC
128 TTTC
* * * *
113574849 TAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTCGAGAGTCA-TGCCCTATCGT
1 TAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGAAT-AGTGCCCTAACGT
** * * ** *
113574913 GCTGGGTTGTGATTTCTCGTTTGTTCAAAACAATCGAATATTCCTT-TAGGTTTTCACTCGTGTT
65 GCTGGGTTGCAATTTCTCGTTTGTTTAAAACAATCGAATATTCCTTCGA-AATTTCACTCATGTT
113574977 TAT-
129 T-TC
* * * * * *
113574980 TAAAAA-CCTTCCAAAACAAAGACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCCTAACGT
1 TAAAAACCCTT-TAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGAATAGTGCCCTAACGT
* ** * *
113575044 GTTGGGTTGTGATTTCTCGTTT-TTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGTT
65 GCTGGGTTGCAATTTCTCGTTTGTTT-AAAACAATCGAATATTCCTTCGAAATTTCACTCATGTT
113575108 TTC
129 TTC
* * ** * * *
113575111 TAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGCAATTCGGGGAATAGTACCCTATCGT
1 TAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTC-GAGAATAGTGCCCTAACGT
* * * * *
113575176 GCTGGGTTGCAATTTC-CTGTTTGTTTAAAATAATCGAATA-TCTCTTTGGAATTTCACTCGTAT
65 GCTGGGTTGCAATTTCTC-GTTTGTTTAAAACAATCGAATATTC-CTTCGAAATTTCACTCATGT
113575239 TTTC
128 TTTC
113575243 TAA
1 TAA
113575246 GGTGAGGCAA
Statistics
Matches: 322, Mismatches: 59, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
130 10 0.03
131 209 0.65
132 99 0.31
133 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (131 bp):
TAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGAGAATAGTGCCCTAACGTG
CTGGGTTGCAATTTCTCGTTTGTTTAAAACAATCGAATATTCCTTCGAAATTTCACTCATGTTTT
C
Found at i:113576846 original size:13 final size:14
Alignment explanation
Indices: 113576830--113576865 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
113576820 CAATCTCATA
113576830 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
113576843 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
113576856 TCTC-ATTTCA
1 TCTCAATTTCA
113576866 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:113576855 original size:18 final size:19
Alignment explanation
Indices: 113576817--113576857 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
113576807 TGGTTCATGT
113576817 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
113576836 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
113576854 TTTC
1 TTTC
113576858 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:113577047 original size:39 final size:40
Alignment explanation
Indices: 113577004--113577115 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
113576994 TCGGATAGTT
* *
113577004 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
* * ** ** * *
113577043 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
*
113577082 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
113577116 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:113582100 original size:46 final size:46
Alignment explanation
Indices: 113582047--113582230 Score: 296
Period size: 46 Copynumber: 4.0 Consensus size: 46
113582037 AGTGTGCTCT
*
113582047 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
113582093 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
113582139 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
113582185 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
113582231 ATGACAGAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:113582290 original size:92 final size:90
Alignment explanation
Indices: 113582052--113582278 Score: 222
Period size: 92 Copynumber: 2.4 Consensus size: 90
113582042 GCTCTCTGAT
* * * * * * * **
113582052 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCAT
1 ATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAA-GT-ACATGAAAAGAATAAGACCAT
* *
113582117 GGTTGAAAGATACCATGGCAACCTGAT
64 GGTTGAAAGATACCATGGCAACATGAC
* * *
113582144 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAA-GT-ACATGAAAAGAATAAGACCAT
113582209 GGTTGAAAGATACCATGGCAACATGAC
64 GGTTGAAAGATACCATGGCAACATGAC
* *
113582236 A-GAAAAGGAATGAGTAAGACCATAGTTGAAATACACTATGGCA
1 ATG---A--AATGAGTAAGACCATAGTTGAAAGACACCATGGCA
113582279 TCATGTCAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
91 1 0.01
92 84 0.72
94 1 0.01
96 30 0.26
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (90 bp):
ATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAGTACATGAAAAGAATAAGACCATGG
TTGAAAGATACCATGGCAACATGAC
Found at i:113591882 original size:12 final size:12
Alignment explanation
Indices: 113591865--113591898 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
113591855 TAACCCGCCC
113591865 ATATTAATTTTT
1 ATATTAATTTTT
*
113591877 ATATTATTTTTT
1 ATATTAATTTTT
113591889 ATA-TAATTTT
1 ATATTAATTTT
113591899 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:113594665 original size:26 final size:26
Alignment explanation
Indices: 113594619--113594671 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
113594609 TCAAACATGC
*
113594619 ATTTAGGTCAATTTAACCCTAGTGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
113594645 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
113594671 A
1 A
113594672 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:113603770 original size:31 final size:30
Alignment explanation
Indices: 113603710--113603779 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
113603700 GCAAATTTAT
113603710 TTAAAAATTTTGTAAAAAATAAAAAAAATA
1 TTAAAAATTTTGTAAAAAATAAAAAAAATA
* * **
113603740 TTATAAATTTTTTAAATAAATTTAAAAAATA
1 TTAAAAATTTTGTAAA-AAATAAAAAAAATA
113603771 TTAAAAATT
1 TTAAAAATT
113603780 AATTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (30 bp):
TTAAAAATTTTGTAAAAAATAAAAAAAATA
Found at i:113612025 original size:15 final size:15
Alignment explanation
Indices: 113612007--113612038 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
113611997 GTCCGACCCA
*
113612007 AAACTAAAAATAAAT
1 AAACAAAAAATAAAT
113612022 AAACAAAAAATAAAT
1 AAACAAAAAATAAAT
113612037 AA
1 AA
113612039 TAATCATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACAAAAAATAAAT
Found at i:113612551 original size:14 final size:13
Alignment explanation
Indices: 113612532--113612568 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
113612522 AGGTGATTCC
113612532 TATTTTTATTTATT
1 TATTTTTATTT-TT
113612546 TATTTTGTATTTTT
1 TATTTT-TATTTTT
113612560 TATTTTTAT
1 TATTTTTAT
113612569 ATAAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.64
15 5 0.23
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (13 bp):
TATTTTTATTTTT
Found at i:113613669 original size:16 final size:16
Alignment explanation
Indices: 113613643--113613676 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
113613633 CATCAAGACC
113613643 AAATAAAGAATAAATAA
1 AAATAAAGAATAAA-AA
113613660 AAAT-AAGAATAAAAA
1 AAATAAAGAATAAAAA
113613675 AA
1 AA
113613677 CAACAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAGAATAAAAA
Found at i:113616255 original size:130 final size:131
Alignment explanation
Indices: 113616021--113616284 Score: 390
Period size: 130 Copynumber: 2.0 Consensus size: 131
113616011 TAACTATTCA
* *
113616021 TTTAAAAATTCTTTAAAACGAAGGCAATACTTGATGTTTGGCAATTCAGAAATCGTGCCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTTGATGTTTGGCAATTCAGAAATCGTGCCCGATCG
* *
113616086 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTC-CTTTGGAATTTCATTCATG-
66 TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTCTC-TTAGAATTTCACTCATGT
113616149 TC
130 TC
* * * * *
113616151 TTTAAAAATTCTTCAAAACGAAGGTAAT-GTTCGATGTTTGGCAATTCGGGAATCGTGCTCGATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTT-GATGTTTGGCAATTCAGAAATCGTGCCCGATC
* *
113616215 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCTCTTAGAATTTCACTCATGT
65 GTGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTCTCTTAGAATTTCACTCATGT
113616280 TC
130 TC
113616282 TTT
1 TTT
113616285 GAATTCTAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
129 2 0.02
130 112 0.93
131 6 0.05
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTTGATGTTTGGCAATTCAGAAATCGTGCCCGATCG
TGCTGGGTTGCGATTTCCTGTTTGTTCAAAACAAACGAATATTCTCTTAGAATTTCACTCATGTT
C
Found at i:113628929 original size:13 final size:13
Alignment explanation
Indices: 113628913--113628938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113628903 AATTTAGGAA
113628913 AAAAATTATAAAT
1 AAAAATTATAAAT
113628926 AAAAATTATAAAT
1 AAAAATTATAAAT
113628939 TTCCAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTATAAAT
Done.