Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 28 of 133
Found at i:6696762 original size:51 final size:51
Alignment explanation
Indices: 6696661--6696762 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
6696651 CATCTAATAA
* * * *
6696661 GTAATAAAGCCACTTTTAATCATGGTCAACTTGTCTATCTTTTTATTAAAT
1 GTAATAAAGCCACCTTTAATCATGGTCAACTTGTCTATCATTCTACTAAAT
* * *
6696712 GTAATAATGCCACCTTTAATCATGGTTAAGTTGTCTATCATTCTACTAAAT
1 GTAATAAAGCCACCTTTAATCATGGTCAACTTGTCTATCATTCTACTAAAT
6696763 AAAATATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (51 bp):
GTAATAAAGCCACCTTTAATCATGGTCAACTTGTCTATCATTCTACTAAAT
Found at i:6703140 original size:163 final size:159
Alignment explanation
Indices: 6702827--6703148 Score: 509
Period size: 159 Copynumber: 2.0 Consensus size: 159
6702817 CTTAATCAAA
*
6702827 GATGGTTTCAATCATGCAAATAAATCAATTCCAATCCCTTTATTTATTTACACCACATTGTCATA
1 GATGGTTTCAATCATGCAAATAAATCAATTCCAATCCCTTTATTTATTTACACCACATTGTCAGA
* **
6702892 CAAAAATTCTATCATAAATCAAATCATGCAATCATGCAAATATATAAAAAAAAAATCATGCCAGC
66 CAAAAATTCTATCATAAATCAAATCATGCAATCATGCAAATATAAAAAAAAAAAATCATGCCAAA
*
6702957 ATATCAAGCAATCATGTAAAATATATCAT
131 ATATCAAACAATCATGTAAAATATATCAT
* * * *
6702986 GATGGTTTCAATCATGCAAATAAATCAATTCTAGTCCTTTTATTTATTTACACCACATTGTTAGA
1 GATGGTTTCAATCATGCAAATAAATCAATTCCAATCCCTTTATTTATTTACACCACATTGTCAGA
* *
6703051 CAAAAATTCTATCATAAATCAAATCATGTAATCATGCAATCATGTAAACATAAAAAAAATCATGC
66 CAAAAATTCTATCATAAATCAAATCATGCAATCATGCAA--ATATAAA-A-AAAAAAAATCATGC
6703116 CAAAATATCAAACAATCATGTAAAATATATCAT
127 CAAAATATCAAACAATCATGTAAAATATATCAT
6703149 ACCAAAAATA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
159 98 0.66
161 5 0.03
162 1 0.01
163 44 0.30
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (159 bp):
GATGGTTTCAATCATGCAAATAAATCAATTCCAATCCCTTTATTTATTTACACCACATTGTCAGA
CAAAAATTCTATCATAAATCAAATCATGCAATCATGCAAATATAAAAAAAAAAAATCATGCCAAA
ATATCAAACAATCATGTAAAATATATCAT
Found at i:6703142 original size:20 final size:20
Alignment explanation
Indices: 6703087--6703144 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
6703077 TGTAATCATG
6703087 CAATCATGTAAACATA-AAAA
1 CAATCATGTAAA-ATATAAAA
* * *
6703107 AAATCATGCCAAAATATCAAA
1 CAATCATG-TAAAATATAAAA
6703128 CAATCATGTAAAATATA
1 CAATCATGTAAAATATA
6703145 TCATACCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.57, C:0.16, G:0.05, T:0.22
Consensus pattern (20 bp):
CAATCATGTAAAATATAAAA
Found at i:6703240 original size:20 final size:20
Alignment explanation
Indices: 6703215--6703288 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
6703205 CACGCAAGTA
* *
6703215 AATCATGCAAATAAATCAAT
1 AATCATGCAAATATATAAAT
*
6703235 AATCATGTAAATATATAAAT
1 AATCATGCAAATATATAAAT
* *
6703255 AATCATACAAGTATATAAAT
1 AATCATGCAAATATATAAAT
6703275 AATCATGCAAATAT
1 AATCATGCAAATAT
6703289 TACAGTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (20 bp):
AATCATGCAAATATATAAAT
Found at i:6703276 original size:24 final size:24
Alignment explanation
Indices: 6703223--6703276 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
6703213 TAAATCATGC
*
6703223 AAATAAATCAATAATCATGTAAAT
1 AAATAAATCAATAATCAAGTAAAT
* * *
6703247 ATATAAAT-AATCATACAAGTATAT
1 AAATAAATCAATAAT-CAAGTAAAT
6703271 AAATAA
1 AAATAA
6703277 TCATGCAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATAAATCAATAATCAAGTAAAT
Found at i:6703338 original size:20 final size:20
Alignment explanation
Indices: 6703295--6703338 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6703285 ATATTACAGT
*
6703295 TAAATAAATAATCATGCAAT
1 TAAATAAATAATCATGCAAA
* **
6703315 TAAATACATAATTGTGCAAA
1 TAAATAAATAATCATGCAAA
6703335 TAAA
1 TAAA
6703339 ACTATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (20 bp):
TAAATAAATAATCATGCAAA
Found at i:6703416 original size:19 final size:18
Alignment explanation
Indices: 6703394--6703429 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6703384 AATTCAATCA
*
6703394 ACAATAAATAATAAATAAC
1 ACAATAAA-AAAAAATAAC
6703413 ACAATAAAAAAAAATAA
1 ACAATAAAAAAAAATAA
6703430 TGAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (18 bp):
ACAATAAAAAAAAATAAC
Found at i:6705248 original size:41 final size:43
Alignment explanation
Indices: 6705159--6705253 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
6705149 AGCTCCCCAC
* *
6705159 AATTGAGGCTTTGAAACTTTTGAAAAATAAATTGCTCCTCTGT
1 AATTGAGGCTTTGAAACTTTTGAAAAATAAAGTACTCCTCTGT
* *
6705202 AATTGAGGCTTTGAAACTTTTGAAATATAAAAGTATTCCT-T-T
1 AATTGAGGCTTTGAAACTTTTGAAAAAT-AAAGTACTCCTCTGT
6705244 -ATTGAGGCTT
1 AATTGAGGCTT
6705254 CAATTTTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 10 0.21
42 1 0.02
43 28 0.60
44 8 0.17
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.39
Consensus pattern (43 bp):
AATTGAGGCTTTGAAACTTTTGAAAAATAAAGTACTCCTCTGT
Found at i:6705290 original size:39 final size:38
Alignment explanation
Indices: 6705247--6705537 Score: 202
Period size: 37 Copynumber: 7.7 Consensus size: 38
6705237 TTCCTTTATT
* *
6705247 GAGGCTTCAATTTTGAAAAAAATAAAGTATTCATCCATC
1 GAGGCTTCAACTTTG-AAAAAATAAAGTACTCATCCATC
*
6705286 GAGGCTTCAACTTT-AAAAAATAAAAG-ACTCATCCACC
1 GAGGCTTCAACTTTGAAAAAAT-AAAGTACTCATCCATC
* * * * * * *
6705323 GAGGTTTTAACTTTGATAAAATAAAATTCTCCTCTA-C
1 GAGGCTTCAACTTTGAAAAAATAAAGTACTCATCCATC
* * * * *
6705360 TGAGACTTTAATTTTGAAAAAACTAAAGTACTCCTCCATT
1 -GAGGCTTCAACTTTGAAAAAA-TAAAGTACTCATCCATC
* * * * *
6705400 GAAGCTTTAACTTTGAAAAAAAATAAAGTACTCCTTCATG
1 GAGGCTTCAACTTTG--AAAAAATAAAGTACTCATCCATC
* * * * *
6705440 GAGACTTCAACTTTG-GAAAATAAA-AACCCCTCCATC
1 GAGGCTTCAACTTTGAAAAAATAAAGTACTCATCCATC
*
6705476 GAGGCTTCAA-TTTGGAAAAATAAAGTACTCATTCGC-T-
1 GAGGCTTCAACTTTGAAAAAATAAAGTACTCA-TC-CATC
* *
6705513 GAGGCTTTAACTTTTAAAAAATAAA
1 GAGGCTTCAACTTTGAAAAAATAAA
6705538 ATCATGTCTA
Statistics
Matches: 200, Mismatches: 39, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
35 4 0.02
36 25 0.12
37 52 0.26
38 48 0.24
39 38 0.19
40 27 0.14
41 6 0.03
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (38 bp):
GAGGCTTCAACTTTGAAAAAATAAAGTACTCATCCATC
Found at i:6705318 original size:37 final size:39
Alignment explanation
Indices: 6705220--6705538 Score: 207
Period size: 38 Copynumber: 8.4 Consensus size: 39
6705210 CTTTGAAACT
* * ** * *
6705220 TTTG-AAATATAAAAGTATTCCTTTATTGAGGCTTCAAT
1 TTTGAAAAAATAAAAGTACTCCTCCATCGAGGCTTCAAC
* *
6705258 TTTGAAAAAA-ATAAAGTATTCATCCATCGAGGCTTCAAC
1 TTTGAAAAAATA-AAAGTACTCCTCCATCGAGGCTTCAAC
* * * *
6705297 TTT-AAAAAATAAAAG-ACTCATCCACCGAGGTTTTAAC
1 TTTGAAAAAATAAAAGTACTCCTCCATCGAGGCTTCAAC
* * * * * *
6705334 TTTGATAAAATAAAA-TTCTCCTCTA-CTGAGACTTTAAT
1 TTTGAAAAAATAAAAGTACTCCTCCATC-GAGGCTTCAAC
* * *
6705372 TTTGAAAAAACT-AAAGTACTCCTCCATTGAAGCTTTAAC
1 TTTGAAAAAA-TAAAAGTACTCCTCCATCGAGGCTTCAAC
* * * *
6705411 TTTGAAAAAAAATAAAGTACTCCTTCATGGAGACTTCAAC
1 TTTGAAAAAATA-AAAGTACTCCTCCATCGAGGCTTCAAC
* *
6705451 TTTG-GAAAATAAAA--ACCCCTCCATCGAGGCTTCAA-
1 TTTGAAAAAATAAAAGTACTCCTCCATCGAGGCTTCAAC
* * *
6705486 TTTGGAAAAAT-AAAGTACTCATTCGC-T-GAGGCTTTAAC
1 TTTGAAAAAATAAAAGTACTC-CTC-CATCGAGGCTTCAAC
*
6705524 TTTTAAAAAATAAAA
1 TTTGAAAAAATAAAA
6705539 TCATGTCTAG
Statistics
Matches: 221, Mismatches: 42, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
35 7 0.03
36 22 0.10
37 34 0.15
38 66 0.30
39 66 0.30
40 26 0.12
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (39 bp):
TTTGAAAAAATAAAAGTACTCCTCCATCGAGGCTTCAAC
Found at i:6705452 original size:40 final size:40
Alignment explanation
Indices: 6705258--6705464 Score: 135
Period size: 39 Copynumber: 5.3 Consensus size: 40
6705248 AGGCTTCAAT
* * * * *
6705258 TTTG-AAAAAAATAAAGTATTCATCCATCGAGGCTTCAAC
1 TTTGAAAAAAAATAAAGTACTCCTCCATGGAGACTTTAAC
* * ** **
6705297 TTT-AAAAAATA-AAAG-ACTCATCCACCGAGGTTTTAAC
1 TTTGAAAAAAAATAAAGTACTCCTCCATGGAGACTTTAAC
* * * * *
6705334 TTTG--ATAAAATAAAATTCTCCTCTACT-GAGACTTTAAT
1 TTTGAAAAAAAATAAAGTACTCCTCCA-TGGAGACTTTAAC
* *
6705372 TTTG-AAAAAACTAAAGTACTCCTCCATTGA-AGCTTTAAC
1 TTTGAAAAAAAATAAAGTACTCCTCCATGGAGA-CTTTAAC
* *
6705411 TTTGAAAAAAAATAAAGTACTCCTTCATGGAGACTTCAAC
1 TTTGAAAAAAAATAAAGTACTCCTCCATGGAGACTTTAAC
6705451 TTTGGAAAATAAAA
1 TTT-GAAAA-AAAA
6705465 ACCCCTCCAT
Statistics
Matches: 131, Mismatches: 25, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
36 4 0.03
37 24 0.18
38 24 0.18
39 37 0.28
40 32 0.24
41 6 0.05
42 4 0.03
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (40 bp):
TTTGAAAAAAAATAAAGTACTCCTCCATGGAGACTTTAAC
Found at i:6705622 original size:48 final size:48
Alignment explanation
Indices: 6705547--6705730 Score: 217
Period size: 48 Copynumber: 3.8 Consensus size: 48
6705537 AATCATGTCT
* * * * *
6705547 AGGAAAGCTCTTTTTCAAGAAATGCTTGAAACTTTAACATTCTTATTC
1 AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTC
** * * * *
6705595 AGGAAAGCTTTTTCTAAACAAAGGCTTGAAACTTAAAAATTCTCATAC
1 AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTC
* *
6705643 AGGATAGCTCATTCTCAACAAAGGCTTGAAATTTTAAAATTCTTA-TC
1 AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTC
* *
6705690 TAGGAAAGCTCATTCTTAACAAAGGCTTAAAACTTTAAAAT
1 -AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAAT
6705731 AAATAAACAT
Statistics
Matches: 114, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
47 1 0.01
48 113 0.99
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (48 bp):
AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTC
Found at i:6705716 original size:96 final size:96
Alignment explanation
Indices: 6705547--6705730 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 96
6705537 AATCATGTCT
* * * * * **
6705547 AGGAAAGCTCTTTTTCAAGAAATGCTTGAAACTTTAACATTCTTATTCAGGAAAGCTTTTTCTAA
1 AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTCAGGAAAGCTCATTCTAA
*
6705612 ACAAAGGCTTGAAACTTAAAAATTCTCATAC
66 ACAAAGGCTTAAAACTTAAAAATTCTCATAC
* * *
6705643 AGGATAGCTCATTCTCAACAAAGGCTTGAAATTTTAAAATTCTTA-TCTAGGAAAGCTCATTCTT
1 AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTC-AGGAAAGCTCATTCTA
*
6705707 AACAAAGGCTTAAAACTTTAAAAT
65 AACAAAGGCTTAAAACTTAAAAAT
6705731 AAATAAACAT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
95 2 0.03
96 73 0.97
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (96 bp):
AGGAAAGCTCATTCTCAACAAAGGCTTGAAACTTTAAAATTCTTATTCAGGAAAGCTCATTCTAA
ACAAAGGCTTAAAACTTAAAAATTCTCATAC
Found at i:6710808 original size:62 final size:62
Alignment explanation
Indices: 6710711--6710834 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
6710701 AAGAATAGGT
* * * *
6710711 TCTGGCCTACATTATCAAAATTAAGGTTCAGGAGTCGAAGATATGCTGGGAAGGTTTTAGCA
1 TCTGGCCTACATTATCAAAATTAAGGTTCAAGAGTCAAAGATATGCAGGAAAGGTTTTAGCA
* * *
6710773 TCTGGCCTATATTATTAAAATTAAGGTTCAAGAGTCAAATATATGCAGGAAAGGTTTTAGCA
1 TCTGGCCTACATTATCAAAATTAAGGTTCAAGAGTCAAAGATATGCAGGAAAGGTTTTAGCA
6710835 CCCAATTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (62 bp):
TCTGGCCTACATTATCAAAATTAAGGTTCAAGAGTCAAAGATATGCAGGAAAGGTTTTAGCA
Found at i:6711115 original size:12 final size:12
Alignment explanation
Indices: 6711098--6711162 Score: 57
Period size: 12 Copynumber: 5.5 Consensus size: 12
6711088 CATATAACAA
6711098 AAATCATGCAAT
1 AAATCATGCAAT
*
6711110 AAATCAT--AAA
1 AAATCATGCAAT
*
6711120 AACATCATGTAAT
1 AA-ATCATGCAAT
6711133 AAATCATGCAA-
1 AAATCATGCAAT
6711144 ATAA-CATGCAAAT
1 A-AATCATGC-AAT
6711157 AAATCA
1 AAATCA
6711163 ATAATCATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
10 4 0.09
11 11 0.26
12 21 0.49
13 7 0.16
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.23
Consensus pattern (12 bp):
AAATCATGCAAT
Found at i:6711133 original size:23 final size:22
Alignment explanation
Indices: 6711096--6711162 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
6711086 ATCATATAAC
6711096 AAAAATCATGCAATAAATCATA
1 AAAAATCATGCAATAAATCATA
*
6711118 AAAACATCATGTAATAAATCATGCA
1 AAAA-ATCATGCAATAAATCAT--A
*
6711143 AATAA-CATGCAAATAAATCA
1 AAAAATCATGC-AATAAATCA
6711163 ATAATCATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
22 4 0.11
23 20 0.53
24 10 0.26
25 4 0.11
ACGTcount: A:0.57, C:0.15, G:0.06, T:0.22
Consensus pattern (22 bp):
AAAAATCATGCAATAAATCATA
Found at i:6711171 original size:20 final size:20
Alignment explanation
Indices: 6711142--6711211 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
6711132 TAAATCATGC
6711142 AAATAA-CATGCAAATAAAT
1 AAATAATCATGCAAATAAAT
* * * *
6711161 CAATAATCATGTATATATAT
1 AAATAATCATGCAAATAAAT
*
6711181 AAATAATCATGCAATTAATAT
1 AAATAATCATGCAAATAA-AT
*
6711202 TAATAATCAT
1 AAATAATCAT
6711212 ACTTAATCAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 5 0.13
20 23 0.59
21 11 0.28
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATAATCATGCAAATAAAT
Found at i:6711193 original size:51 final size:51
Alignment explanation
Indices: 6711134--6711288 Score: 155
Period size: 51 Copynumber: 3.1 Consensus size: 51
6711124 TCATGTAATA
*
6711134 AATCATGCAAATAACATGCAAATAAATCA-ATAATCATGTATA-TATATAAAT
1 AATCATGCAAATAA-ATGCAAATAAATCATATAATCATGCA-AGTATATAAAT
* *
6711185 AATCATGCAATTAATAT--TAAT-AATCATACTTAATCATGCAAGTATATAAAT
1 AATCATGCAAATAA-ATGCAAATAAATCATA--TAATCATGCAAGTATATAAAT
* * *
6711236 AATCATGCAAAT-AATGCAATTAAAT-ATATAATCATGCAATTA-ATAATT
1 AATCATGCAAATAAATGCAAATAAATCATATAATCATGCAAGTATATAAAT
6711284 AATCA
1 AATCA
6711289 CATAATTAAG
Statistics
Matches: 88, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
48 15 0.17
49 19 0.22
50 2 0.02
51 49 0.56
52 3 0.03
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (51 bp):
AATCATGCAAATAAATGCAAATAAATCATATAATCATGCAAGTATATAAAT
Found at i:6711239 original size:30 final size:31
Alignment explanation
Indices: 6711184--6711241 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
6711174 TATATATAAA
* *
6711184 TAATCATGCAATTAATATTAATAATCATACT
1 TAATCATGCAAGTAATATAAATAATCATACT
6711215 TAATCATGCAAGT-ATATAAATAATCAT
1 TAATCATGCAAGTAATATAAATAATCAT
6711242 GCAAATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (31 bp):
TAATCATGCAAGTAATATAAATAATCATACT
Found at i:6711266 original size:29 final size:29
Alignment explanation
Indices: 6711189--6711279 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
6711179 ATAAATAATC
* * *
6711189 ATGCAATT-AATATTAATAATCATACTTAATC
1 ATGCAATTAAATA-T-ATAATCATGC-AAATA
* * *
6711220 ATGCAAGTATATAAATAATCATGCAAATA
1 ATGCAATTAAATATATAATCATGCAAATA
*
6711249 ATGCAATTAAATATATAATCATGCAATTA
1 ATGCAATTAAATATATAATCATGCAAATA
6711278 AT
1 AT
6711280 AATTAATCAC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
29 30 0.61
30 9 0.18
31 7 0.14
32 3 0.06
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (29 bp):
ATGCAATTAAATATATAATCATGCAAATA
Found at i:6711286 original size:19 final size:20
Alignment explanation
Indices: 6711249--6711309 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
6711239 CATGCAAATA
6711249 ATGCAATTAAATATATAATC
1 ATGCAATTAAATATATAATC
6711269 ATGCAATT-AATA-ATTAATC
1 ATGCAATTAAATATA-TAATC
*** *
6711288 ACATAATTAAGTATATAATC
1 ATGCAATTAAATATATAATC
6711308 AT
1 AT
6711310 ACAAATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.42
20 17 0.52
21 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (20 bp):
ATGCAATTAAATATATAATC
Found at i:6721193 original size:43 final size:44
Alignment explanation
Indices: 6721135--6721228 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 44
6721125 TAACGTAAGA
* *
6721135 TTGATAAGTTAACAAAAACCACTTTTTTTACTTTCAAAACGTGG
1 TTGATAAGATAACAAAAACCACATTTTTTACTTTCAAAACGTGG
* * * *
6721179 TTGATAA-ATAACAAAGACCACATTTTTTAGTTTCTAAATGTGG
1 TTGATAAGATAACAAAAACCACATTTTTTACTTTCAAAACGTGG
*
6721222 TTTATAA
1 TTGATAA
6721229 TGAATAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 36 0.84
44 7 0.16
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (44 bp):
TTGATAAGATAACAAAAACCACATTTTTTACTTTCAAAACGTGG
Found at i:6723657 original size:23 final size:23
Alignment explanation
Indices: 6723624--6723770 Score: 127
Period size: 24 Copynumber: 6.3 Consensus size: 23
6723614 CGTGACTGTC
* *
6723624 AATTTGGACTTTTATTAATGAAA
1 AATTTGAACTTGTATTAATGAAA
*
6723647 AATTTGAACTTGTATAAATGAAA
1 AATTTGAACTTGTATTAATGAAA
* * *
6723670 CAATTTGGACTTGTATTCATAAAAA
1 -AATTTGAACTTGTATTAAT-GAAA
* * *
6723695 AATTGGAA-TTATATTCATGAAA
1 AATTTGAACTTGTATTAATGAAA
*
6723717 AATTT-AGACTTGTATAAATGAAA
1 AATTTGA-ACTTGTATTAATGAAA
* *
6723740 AATTTTGGACTTGTATTAACGAAA
1 AA-TTTGAACTTGTATTAATGAAA
6723764 CAATTTG
1 -AATTTG
6723771 GAGTTCTATA
Statistics
Matches: 99, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.01
22 8 0.08
23 42 0.42
24 43 0.43
25 5 0.05
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (23 bp):
AATTTGAACTTGTATTAATGAAA
Found at i:6723676 original size:47 final size:47
Alignment explanation
Indices: 6723623--6723772 Score: 169
Period size: 47 Copynumber: 3.2 Consensus size: 47
6723613 TCGTGACTGT
* *
6723623 CAATTTGGACTTTTATTAATGAAAAATTTGAACTTGTATAAATGAAA
1 CAATTTGGACTTGTATTAATGAAAAATTTGAACTTGTATTAATGAAA
* * * * *
6723670 CAATTTGGACTTGTATTCATAAAAAAATTGGAA-TTATATTCATGAAA
1 CAATTTGGACTTGTATTAAT-GAAAAATTTGAACTTGTATTAATGAAA
* * * *
6723717 -AATTTAGACTTGTATAAATGAAAAATTTTGGACTTGTATTAACGAAA
1 CAATTTGGACTTGTATTAATGAAAAA-TTTGAACTTGTATTAATGAAA
6723764 CAATTTGGA
1 CAATTTGGA
6723773 GTTCTATACA
Statistics
Matches: 82, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
45 5 0.06
46 20 0.24
47 40 0.49
48 17 0.21
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (47 bp):
CAATTTGGACTTGTATTAATGAAAAATTTGAACTTGTATTAATGAAA
Found at i:6725903 original size:25 final size:25
Alignment explanation
Indices: 6725874--6725931 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6725864 AATTTTTTAC
6725874 AACAAACAAATTTAAGAACACATGA
1 AACAAACAAATTTAAGAACACATGA
* * *
6725899 AACAAACAATTTTAATAATACATGA
1 AACAAACAAATTTAAGAACACATGA
*
6725924 AATAAACA
1 AACAAACA
6725932 TCCCTACTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.60, C:0.14, G:0.05, T:0.21
Consensus pattern (25 bp):
AACAAACAAATTTAAGAACACATGA
Found at i:6727153 original size:78 final size:79
Alignment explanation
Indices: 6727062--6727642 Score: 537
Period size: 78 Copynumber: 7.5 Consensus size: 79
6727052 TAGTGTTTAT
* * *
6727062 AAATTTTTCTTTTTCATTCAAACACTATATTTTTAAAGGAGGAAACATCATATTTAATTCCATAA
1 AAATTATT-TTTTTCATTCAAACACTACATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAA
6727127 ACATAGTGCTTGTAA
65 ACATAGTGCTTGTAA
* *
6727142 AAATTA-TTTTTTCATTGAAACACTACATTTTTAAAGAAGGAAACATCATCTTTAA-TCACATAA
1 AAATTATTTTTTTCATTCAAACACTACATTTTTAAAGGAGGAAACATCATCTTTAATTC-CATAA
* * *
6727205 ACACAATGTTTGTAA
65 ACATAGTGCTTGTAA
* * **
6727220 AAATTATTTTTTTTATTC-AACTACTACATTTTTAAAGGAAGAAACATTGTCTTTAATTCCATAA
1 AAATTATTTTTTTCATTCAAAC-ACTACATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAA
*
6727284 ACTTAGTGCTTGT--
65 ACATAGTGCTTGTAA
* * ** ** ** *
6727297 AAATTTTTTTTTTCATTTAAACACTATGTTTTTTAAAGGAATAAATGTCATCTTTAATTCCATGA
1 AAATTATTTTTTTCATTCAAACACTA-CATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAA
****
6727362 TTGCAGTGCTTGT--
65 ACATAGTGCTTGTAA
* * * * * * *
6727375 AAA-T-TTTTTTTCATTCAAATACTATATTTTTAAAAGAGGAAACGT--TGTTT--TT-GAT--T
1 AAATTATTTTTTTCATTCAAACACTACATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAAA
*
6727431 CATAGTGATTGTAA
66 CATAGTGCTTGTAA
* * ** * ** * *
6727445 AAATTATTTTTTTCATCCAAATACTATGTTTTTAAAGGAAGAAACATTGTCTTTAACTCTATAAA
1 AAATTATTTTTTTCATTCAAACACTACATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAAA
* *
6727510 CTTAGTGATTGTAA
66 CATAGTGCTTGTAA
* * * * *
6727524 AAATTATTTTTTTCCATTCAAATACTACGTTTTTAAAAGAGGAAGCGTCATCTTTAATTCCATAA
1 AAATTATTTTTTT-CATTCAAACACTACATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAA
*
6727589 ACATAATGCTTGTAA
65 ACATAGTGCTTGTAA
*
6727604 AAATTATTTTTTTCATTCAAACACTACAATTTTAAAGGA
1 AAATTATTTTTTTCATTCAAACACTACATTTTTAAAGGA
6727643 AACGTTGTCT
Statistics
Matches: 409, Mismatches: 74, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
68 9 0.02
70 5 0.01
71 3 0.01
72 36 0.09
73 4 0.01
74 4 0.01
75 15 0.04
76 19 0.05
77 24 0.06
78 115 0.28
79 102 0.25
80 73 0.18
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (79 bp):
AAATTATTTTTTTCATTCAAACACTACATTTTTAAAGGAGGAAACATCATCTTTAATTCCATAAA
CATAGTGCTTGTAA
Found at i:6730842 original size:19 final size:21
Alignment explanation
Indices: 6730820--6730865 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
6730810 TAACTTTAAA
*
6730820 ATTATTT-TTTAA-AACTAAT
1 ATTATTTATGTAAGAACTAAT
*
6730839 ATTAATTTATGTAAGCACTAAT
1 ATT-ATTTATGTAAGAACTAAT
6730861 ATTAT
1 ATTAT
6730866 CATTTTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 4 0.18
21 6 0.27
22 9 0.41
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (21 bp):
ATTATTTATGTAAGAACTAAT
Found at i:6735723 original size:3 final size:3
Alignment explanation
Indices: 6735680--6735705 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6735670 GTTTAGTTTA
6735680 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6735706 ATTTTGAAAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6739306 original size:23 final size:23
Alignment explanation
Indices: 6739280--6739324 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6739270 AATACCATTT
6739280 TTTTTAATTATTTTT-TTTTTTCG
1 TTTTT-ATTATTTTTATTTTTTCG
*
6739303 TTTTTATTTTTTTTATTTTTTC
1 TTTTTATTATTTTTATTTTTTC
6739325 TTTCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTATTATTTTTATTTTTTCG
Found at i:6739322 original size:16 final size:16
Alignment explanation
Indices: 6739276--6739323 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
6739266 CGTAAATACC
*
6739276 ATTTTTTTTAATTATTT
1 ATTTTTTTT-ATTTTTT
**
6739293 -TTTTTTTTCGTTTTT
1 ATTTTTTTTATTTTTT
6739308 ATTTTTTTTATTTTTT
1 ATTTTTTTTATTTTTT
6739324 CTTTCTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (16 bp):
ATTTTTTTTATTTTTT
Found at i:6746762 original size:23 final size:23
Alignment explanation
Indices: 6746736--6746789 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
6746726 TTAAAAAGTA
***
6746736 TAAATTAATAAAAATTTTTATTT
1 TAAATTAATAAAAATAAGTATTT
6746759 TAAAATT-ATAAAAATAAGTATTT
1 T-AAATTAATAAAAATAAGTATTT
6746782 TAAATTAA
1 TAAATTAA
6746790 AGAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 5 0.19
23 16 0.62
24 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATTAATAAAAATAAGTATTT
Found at i:6749045 original size:13 final size:13
Alignment explanation
Indices: 6749027--6749051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6749017 TCAGTTTTAT
6749027 ATATATATATATA
1 ATATATATATATA
6749040 ATATATATATAT
1 ATATATATATAT
6749052 CTATTATAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATATATATATA
Found at i:6751725 original size:14 final size:16
Alignment explanation
Indices: 6751702--6751734 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6751692 GATCCTCTAA
6751702 TTAAATAAAAA-GAAT
1 TTAAATAAAAATGAAT
6751717 TTAAA-AAAAATGAAT
1 TTAAATAAAAATGAAT
6751732 TTA
1 TTA
6751735 CTCATGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
TTAAATAAAAATGAAT
Found at i:6752531 original size:2 final size:2
Alignment explanation
Indices: 6752524--6752555 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6752514 CAGTCTTTAC
6752524 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6752556 TGATAACATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6754656 original size:13 final size:13
Alignment explanation
Indices: 6754625--6754656 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6754615 TTATCTAATT
*
6754625 AAAAAATAAAAAC
1 AAAAAATAAAAAA
6754638 AAAAAATAAAAAA
1 AAAAAATAAAAAA
6754651 AAAAAA
1 AAAAAA
6754657 AATTATAAAT
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:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (13 bp):
AAAAAATAAAAAA
Found at i:6755088 original size:27 final size:27
Alignment explanation
Indices: 6755051--6755102 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
6755041 ATAAAATATA
*
6755051 ATAATTTTATTTAATCTAATCTTATTT
1 ATAATATTATTTAATCTAATCTTATTT
* *
6755078 ATAATATTATTTTATCTTATCTTAT
1 ATAATATTATTTAATCTAATCTTAT
6755103 CATATCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.60
Consensus pattern (27 bp):
ATAATATTATTTAATCTAATCTTATTT
Found at i:6755507 original size:23 final size:22
Alignment explanation
Indices: 6755480--6755544 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
6755470 TTTAACTTCA
6755480 AAAAACCATAAAAAAATGAAAAAC
1 AAAAA-CA-AAAAAAATGAAAAAC
*
6755504 AAAAACAAAAAAAATTAAAAA-
1 AAAAACAAAAAAAATGAAAAAC
*
6755525 AAAGAAAAAAAGAAAATGAA
1 AAA-AACAAAA-AAAATGAA
6755545 GCTCATTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 19 0.53
23 9 0.25
24 5 0.14
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAACAAAAAAAATGAAAAAC
Found at i:6755609 original size:13 final size:13
Alignment explanation
Indices: 6755587--6755632 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
6755577 AGTTTAAAAT
*
6755587 ATTAATATATTAA
1 ATTAAAATATTAA
6755600 ATTAAAATATTAA
1 ATTAAAATATTAA
*
6755613 A-TAACAATTTTAA
1 ATTAA-AATATTAA
6755626 ATTAAAA
1 ATTAAAA
6755633 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 3 0.10
13 23 0.79
14 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAAAATATTAA
Found at i:6755625 original size:21 final size:21
Alignment explanation
Indices: 6755579--6755627 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6755569 TCTAAATGAG
**
6755579 TTTAAAATATTAATATATTAA
1 TTTAAAATATTAATATAACAA
*
6755600 ATTAAAATATTAA-ATAACAA
1 TTTAAAATATTAATATAACAA
*
6755620 TTTTAAAT
1 TTTAAAAT
6755628 TAAAAATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAAATATTAATATAACAA
Found at i:6755646 original size:21 final size:22
Alignment explanation
Indices: 6755593--6755661 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 22
6755583 AAATATTAAT
6755593 ATATTAAATTAAAATATTAAATAACA
1 ATATTAAATTAAAA-A-TAAA-AA-A
*
6755619 ATTTTAAATTAAAAATAAAAAA
1 ATATTAAATTAAAAATAAAAAA
*
6755641 A-ATTAAGA-GAAAAATAAAAAA
1 ATATTAA-ATTAAAAATAAAAAA
6755662 TAAACAAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 16 0.41
22 3 0.08
23 2 0.05
24 4 0.10
25 1 0.03
26 13 0.33
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (22 bp):
ATATTAAATTAAAAATAAAAAA
Found at i:6755662 original size:28 final size:30
Alignment explanation
Indices: 6755624--6755684 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
6755614 TAACAATTTT
* **
6755624 AAATTAAAAATAAA-AAA-AATTAAGAGAA
1 AAATAAAAAATAAACAAAGAAAAAAGAGAA
6755652 AAATAAAAAATAAACAAAGAAAAAAGAGAA
1 AAATAAAAAATAAACAAAGAAAAAAGAGAA
6755682 AAA
1 AAA
6755685 AGAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 3 0.11
30 12 0.43
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (30 bp):
AAATAAAAAATAAACAAAGAAAAAAGAGAA
Found at i:6755671 original size:23 final size:20
Alignment explanation
Indices: 6755629--6755695 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 20
6755619 ATTTTAAATT
**
6755629 AAAAATAAAAAAAATTAAGA
1 AAAAATAAAAAAAACAAAGA
6755649 GAAAAATAAAAAATAAACAAAGA
1 -AAAAAT-AAAAA-AAACAAAGA
*
6755672 AAAAAGAGAAAAAAGA-AAAGA
1 AAAAATA-AAAAAA-ACAAAGA
6755693 AAA
1 AAA
6755696 GGGAAAAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 17 0.44
22 15 0.38
23 7 0.18
ACGTcount: A:0.81, C:0.01, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAAATAAAAAAAACAAAGA
Found at i:6755672 original size:21 final size:21
Alignment explanation
Indices: 6755629--6755675 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6755619 ATTTTAAATT
**
6755629 AAAAATAAAAAAAATTAAGAG
1 AAAAATAAAAAAAAACAAGAG
6755650 AAAAATAAAAAATAAACAA-AG
1 AAAAATAAAAAA-AAACAAGAG
6755671 AAAAA
1 AAAAA
6755676 AGAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (21 bp):
AAAAATAAAAAAAAACAAGAG
Found at i:6755686 original size:16 final size:16
Alignment explanation
Indices: 6755645--6755690 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
6755635 AAAAAAAATT
*
6755645 AAGAG-AAAAATAAAA
1 AAGAGAAAAAAGAAAA
* *
6755660 AATA-AACAAAGAAAA
1 AAGAGAAAAAAGAAAA
6755675 AAGAGAAAAAAGAAAA
1 AAGAGAAAAAAGAAAA
6755691 GAAAAGGGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.04
Consensus pattern (16 bp):
AAGAGAAAAAAGAAAA
Found at i:6756072 original size:16 final size:16
Alignment explanation
Indices: 6756051--6756084 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6756041 TTAAATATAT
6756051 AAAAAATAACAAAA-TA
1 AAAAAATAA-AAAAGTA
6756067 AAAAAATAAAAAAGTA
1 AAAAAATAAAAAAGTA
6756083 AA
1 AA
6756085 TATGTGGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAAAGTA
Found at i:6756484 original size:17 final size:18
Alignment explanation
Indices: 6756462--6756495 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6756452 AAATATATTT
6756462 ATAAAATTTTT-TAAAAA
1 ATAAAATTTTTATAAAAA
6756479 ATAAAATTTTTATAAAA
1 ATAAAATTTTTATAAAA
6756496 TTTGAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAATTTTTATAAAAA
Found at i:6758878 original size:19 final size:19
Alignment explanation
Indices: 6758849--6758903 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
6758839 ATTTTTTTAA
*
6758849 AAAATAATTAGATAAATTTT
1 AAAA-AATTAGATAAATTAT
6758869 AAAAAATTAGATAAA-TAT
1 AAAAAATTAGATAAATTAT
*
6758887 AAGAAAATTAAATAAAT
1 AA-AAAATTAGATAAAT
6758904 ACAATTAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.13
19 23 0.74
20 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAAATTAGATAAATTAT
Found at i:6758973 original size:19 final size:19
Alignment explanation
Indices: 6758949--6758988 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6758939 GTAATAAAAT
*
6758949 AAAATAAAAAGATAAATAA
1 AAAATAAAAAGATAAACAA
* *
6758968 AAAATATATAGATAAACAA
1 AAAATAAAAAGATAAACAA
6758987 AA
1 AA
6758989 TAAAAATATA
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:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAATAAAAAGATAAACAA
Found at i:6759970 original size:34 final size:34
Alignment explanation
Indices: 6759927--6759993 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
6759917 CTTCAAAGTC
*
6759927 ATGCCTGTCTCTTGTCTGATTTACTTCGTTAGTG
1 ATGCCTGTCTCTTGTCTGATTTACTTCATTAGTG
6759961 ATGCCTGTCTCTTGTCTGATTTACTTCATTAGT
1 ATGCCTGTCTCTTGTCTGATTTACTTCATTAGT
6759994 CACTAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.48
Consensus pattern (34 bp):
ATGCCTGTCTCTTGTCTGATTTACTTCATTAGTG
Found at i:6760125 original size:2 final size:2
Alignment explanation
Indices: 6760118--6760149 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6760108 TTCGAGGGTA
6760118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6760150 TTTGGTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6760368 original size:2 final size:2
Alignment explanation
Indices: 6760361--6760386 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6760351 TTAGTAAGGG
6760361 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6760387 CACACACACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6768174 original size:26 final size:26
Alignment explanation
Indices: 6768144--6768200 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
6768134 CATCATCTGT
6768144 ATCATAACCAAA-ACATTCACACTTGC
1 ATCATAA-CAAAGACATTCACACTTGC
* * *
6768170 ATCATAAGAAAGACATTTACATTTGC
1 ATCATAACAAAGACATTCACACTTGC
6768196 ATCAT
1 ATCAT
6768201 TGCATTCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (26 bp):
ATCATAACAAAGACATTCACACTTGC
Found at i:6768594 original size:35 final size:35
Alignment explanation
Indices: 6768528--6768632 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 35
6768518 TTATTGGTGC
* *
6768528 TATCCTGGTCATCTTTATTTTTTTGATCATTGGTAT
1 TATCCTAGTCATCTTTA-TTTTTTGACCATTGGTAT
*
6768564 TATCCTAGTCA-CTTCTATTTTTTGACCATTGGTGT
1 TATCCTAGTCATCTT-TATTTTTTGACCATTGGTAT
* * *
6768599 TAT-TTCAATCATCTTTTATTTTTTAACCATTGGT
1 TATCCT-AGTCATC-TTTATTTTTTGACCATTGGT
6768633 GTTGTCTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
34 1 0.02
35 26 0.44
36 30 0.51
37 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.53
Consensus pattern (35 bp):
TATCCTAGTCATCTTTATTTTTTGACCATTGGTAT
Found at i:6768797 original size:71 final size:70
Alignment explanation
Indices: 6768697--6768936 Score: 211
Period size: 71 Copynumber: 3.4 Consensus size: 70
6768687 GTTTTTTATT
* * * * *
6768697 GTCATCTTTATCTTCTTAATTATTGGTGTTATCTCGATCATTTTATCTTCTTGATCATTGGTGTT
1 GTCATCTTTATTTTTTTGACTATTAGTGTTATCTCGATCATTTTATCTTCTTGATCATTGGTGTT
6768762 GTCTTA
66 GTC-TA
* * * * *
6768768 GTCATCTTTATTTTTTTGA-TCGTTAGTGTTATCCCGATCATCTTA-CTTCTCGACCATTGGTGT
1 GTCATCTTTATTTTTTTGACT-ATTAGTGTTATCTCGATCATTTTATCTTCTTGATCATTGGTGT
* *
6768831 TATCCCA
65 TGT-CTA
* * * * *
6768838 GTCAT-TTTATCTTTTTGACTATTGGTGTTGTCTCGATAATCTTTATCTT-TTCGATTATTGGTG
1 GTCATCTTTATTTTTTTGACTATTAGTGTTATCTCGATCAT-TTTATCTTCTT-GATCATTGGTG
*
6768901 TTGTCTC
64 TTGTCTA
* *
6768908 GATCATCTTTA-CTTTTTGACTATTGGTGT
1 G-TCATCTTTATTTTTTTGACTATTAGTGT
6768937 GGTTTTAGTC
Statistics
Matches: 137, Mismatches: 24, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
69 27 0.20
70 32 0.23
71 74 0.54
72 4 0.03
ACGTcount: A:0.16, C:0.17, G:0.15, T:0.51
Consensus pattern (70 bp):
GTCATCTTTATTTTTTTGACTATTAGTGTTATCTCGATCATTTTATCTTCTTGATCATTGGTGTT
GTCTA
Found at i:6768853 original size:70 final size:71
Alignment explanation
Indices: 6768722--6768855 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 71
6768712 TTAATTATTG
* * * * * **
6768722 GTGTTATCTCGATCATTTTATCTTCTTGATCATTGGTGTTGTCTTAGTCATCTTTATTTTTTTGA
1 GTGTTATCCCGATCATCTTATCTTCTCGACCATTGGTGTTATCCCAGTCATCTTTATTTTTTTGA
6768787 TCGTTA
66 TCGTTA
*
6768793 GTGTTATCCCGATCATCTTA-CTTCTCGACCATTGGTGTTATCCCAGTCAT-TTTATCTTTTTGA
1 GTGTTATCCCGATCATCTTATCTTCTCGACCATTGGTGTTATCCCAGTCATCTTTATTTTTTTGA
6768856 CTATTGGTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 12 0.22
70 25 0.45
71 18 0.33
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (71 bp):
GTGTTATCCCGATCATCTTATCTTCTCGACCATTGGTGTTATCCCAGTCATCTTTATTTTTTTGA
TCGTTA
Found at i:6768902 original size:105 final size:106
Alignment explanation
Indices: 6768718--6768936 Score: 257
Period size: 105 Copynumber: 2.1 Consensus size: 106
6768708 CTTCTTAATT
* * * *
6768718 ATTGGTGTTATCTCGATCATTTTATCTTCTTGATCATTGGTGTTGTCTTAGTCATCTTTATTTTT
1 ATTGGTGTTATCCCGATCATTTTATCTTCTTGATCATTGGTGTTGTCTGAGTAATCTTTATCTTT
* *
6768783 TTGATCGTTAGTGTTATCCCGATCATC-TTACTTCTCGACC
66 TCGATCATTAGTGTTATCCCGATCATCTTTACTTCTCGACC
*
6768823 ATTGGTGTTATCCC-AGTCATTTTATCTTTTTGA-CTATTGGTGTTGTCTCGA-TAATCTTTATC
1 ATTGGTGTTATCCCGA-TCATTTTATCTTCTTGATC-ATTGGTGTTGTCT-GAGTAATCTTTATC
* * * * * * *
6768885 TTTTCGATTATTGGTGTTGTCTCGATCATCTTTACTTTTTGACT
63 TTTTCGATCATTAGTGTTATCCCGATCATCTTTACTTCTCGACC
6768929 ATTGGTGT
1 ATTGGTGT
6768937 GGTTTTAGTC
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
104 2 0.02
105 75 0.78
106 19 0.20
ACGTcount: A:0.16, C:0.17, G:0.16, T:0.51
Consensus pattern (106 bp):
ATTGGTGTTATCCCGATCATTTTATCTTCTTGATCATTGGTGTTGTCTGAGTAATCTTTATCTTT
TCGATCATTAGTGTTATCCCGATCATCTTTACTTCTCGACC
Found at i:6769018 original size:36 final size:36
Alignment explanation
Indices: 6768978--6769046 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
6768968 GAAGGAGGTC
* *
6768978 TCAGTTAACTTTAT-TTTCTCAACTGTTAGTGTTATT
1 TCAGTCAACTTTATCTTCCT-AACTGTTAGTGTTATT
* *
6769014 TCAGTCATCTTTATCTTCCTAACTGTTGGTGTT
1 TCAGTCAACTTTATCTTCCTAACTGTTAGTGTT
6769047 GTCCTAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 24 0.86
37 4 0.14
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.51
Consensus pattern (36 bp):
TCAGTCAACTTTATCTTCCTAACTGTTAGTGTTATT
Found at i:6769058 original size:36 final size:36
Alignment explanation
Indices: 6769018--6769115 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 36
6769008 GTTATTTCAG
6769018 TCATCTTTATCTTCCTAACTGTTGGTGTTGTCCTAA
1 TCATCTTTATCTTCCTAACTGTTGGTGTTGTCCTAA
* * * ** *
6769054 TCATCTTTATCTT-TTCGATTGTTGGTGTTGTTTTGA
1 TCATCTTTATCTTCCT-AACTGTTGGTGTTGTCCTAA
* *
6769090 TTATCTTTATCTTCCTTACTGTTGGT
1 TCATCTTTATCTTCCTAACTGTTGGT
6769116 TCCCGACTAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
35 1 0.02
36 48 0.96
37 1 0.02
ACGTcount: A:0.13, C:0.17, G:0.15, T:0.54
Consensus pattern (36 bp):
TCATCTTTATCTTCCTAACTGTTGGTGTTGTCCTAA
Found at i:6769187 original size:36 final size:36
Alignment explanation
Indices: 6769145--6769219 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
6769135 CTCAATCATC
* * *
6769145 TTATCTT-TCTGATCGTTGGTGTTGTCTTAGTCATTT
1 TTATCTTCTC-GACCGTTGGTATTATCTTAGTCATTT
*
6769181 TTATCTTCTCGACCGTTGGTATTATCTTGGTCATTT
1 TTATCTTCTCGACCGTTGGTATTATCTTAGTCATTT
6769217 TTA
1 TTA
6769220 CCTCATAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 32 0.94
37 2 0.06
ACGTcount: A:0.13, C:0.16, G:0.17, T:0.53
Consensus pattern (36 bp):
TTATCTTCTCGACCGTTGGTATTATCTTAGTCATTT
Found at i:6769199 original size:85 final size:86
Alignment explanation
Indices: 6769039--6769200 Score: 190
Period size: 85 Copynumber: 1.9 Consensus size: 86
6769029 TTCCTAACTG
* * * *
6769039 TTGGTGTTGTCCTAATCATCTTTATCTTTTCGATTGTTGGTGTTGTTTTGATTATCTTTATCTTC
1 TTGGCGTTGTCCTAATCATCTTTATCTTTTCGATCGTTGGTGTTGTTTAGATCATCTTTATCTTC
* *
6769104 CTTACTGTTGGTTCCCGACTA
66 CTGACCGTTGGTTCCCGACTA
*
6769125 TTGGCGTTGT-CTCAATCATC-TTATC-TTTCTGATCGTTGGTGTTGTCTTAG-TCATTTTTATC
1 TTGGCGTTGTCCT-AATCATCTTTATCTTTTC-GATCGTTGGTGTTGT-TTAGATCATCTTTATC
6769186 TT-CTCGACCGTTGGT
63 TTCCT-GACCGTTGGT
6769201 ATTATCTTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
84 6 0.09
85 40 0.62
86 19 0.29
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.51
Consensus pattern (86 bp):
TTGGCGTTGTCCTAATCATCTTTATCTTTTCGATCGTTGGTGTTGTTTAGATCATCTTTATCTTC
CTGACCGTTGGTTCCCGACTA
Found at i:6769427 original size:36 final size:35
Alignment explanation
Indices: 6769378--6769477 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 35
6769368 CGACCTATAA
* * *
6769378 TGTTGCCTCGATCATATTTATTTTTTCGATCATTG-G
1 TGTTGTCTTGATCATATTTATTTTTT-GAAC-TTGAG
* *
6769414 TGTTGTCTTGATCATCTTTATTTTTTTAACTTGCAG
1 TGTTGTCTTGATCATATTTATTTTTTGAACTTG-AG
*
6769450 TGTTGTCTTGATCATTTTTATTTTTTGA
1 TGTTGTCTTGATCATATTTATTTTTTGA
6769478 CCTGCGATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 3 0.05
35 2 0.04
36 50 0.91
ACGTcount: A:0.16, C:0.13, G:0.15, T:0.56
Consensus pattern (35 bp):
TGTTGTCTTGATCATATTTATTTTTTGAACTTGAG
Found at i:6769480 original size:107 final size:106
Alignment explanation
Indices: 6769244--6769480 Score: 235
Period size: 107 Copynumber: 2.2 Consensus size: 106
6769234 ATGTTATCAC
* * * * * * * *
6769244 GATCATTTTTTTTTTTTTTACTTATGATGTTGTCTCACTCATATTTGTTTTTTCAACTGTTGTTG
1 GATCA-TTTTTATTTTTTGACCTATAATGTTGCCTCACTCATATTTATTTTTTCAACTATTGGTG
* * *
6769309 TTATCTTGGTCATCTTTATTTTTTTGACCTATAGTGTTGTCT
65 TTATCTTGATCATCTTTATTTTTTTAACCTACAGTGTTGTCT
* * * * * *
6769351 CAGTTACTTTTATTTATCGACCTATAATGTTGCCTCGA-TCATATTTATTTTTTCGA-TCATTGG
1 GA-TCATTTTTATTTTTTGACCTATAATGTTGCCTC-ACTCATATTTATTTTTTCAACT-ATTGG
* * *
6769414 TGTTGTCTTGATCATCTTTATTTTTTTAACTTGCAGTGTTGTCTT
63 TGTTATCTTGATCATCTTTATTTTTTTAACCTACAGTGTTGTC-T
6769459 GATCATTTTTATTTTTTGACCT
1 GATCATTTTTATTTTTTGACCT
6769481 GCGATGTTTT
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
106 1 0.01
107 95 0.94
108 5 0.05
ACGTcount: A:0.17, C:0.14, G:0.13, T:0.56
Consensus pattern (106 bp):
GATCATTTTTATTTTTTGACCTATAATGTTGCCTCACTCATATTTATTTTTTCAACTATTGGTGT
TATCTTGATCATCTTTATTTTTTTAACCTACAGTGTTGTCT
Found at i:6769770 original size:36 final size:36
Alignment explanation
Indices: 6769727--6769926 Score: 131
Period size: 36 Copynumber: 5.6 Consensus size: 36
6769717 TTTTAGCCTG
*
6769727 TGGTGTTGTCCTGATCATTTTTATCTCCTCGACTAT
1 TGGTGTTGTCCTGATCATCTTTATCTCCTCGACTAT
* * * * *
6769763 TGGTGTTGTTCTGATCATCTTTA-CT-TTCTAGTTGT
1 TGGTGTTGTCCTGATCATCTTTATCTCCTCGA-CTAT
* * * * * * *
6769798 TGGTGTTATCATAATCGTATTTATCTTCTCGACCAT
1 TGGTGTTGTCCTGATCATCTTTATCTCCTCGACTAT
* * * *
6769834 TGGTGTTGTCCTGACCATTTTTATCTTCCT--AATCGT
1 TGGTGTTGTCCTGATCATCTTTATC-TCCTCGACT-AT
* * *
6769870 TAGTGTTGTTCT-AGTCATCTTTATCTTCTCGACTAT
1 TGGTGTTGTCCTGA-TCATCTTTATCTCCTCGACTAT
**
6769906 TGGTGTTGTCCCAATCATCTT
1 TGGTGTTGTCCTGATCATCTT
6769927 ATTTTATTGA
Statistics
Matches: 118, Mismatches: 37, Indels: 18
0.68 0.21 0.10
Matches are distributed among these distances:
34 3 0.03
35 26 0.22
36 80 0.68
37 9 0.08
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (36 bp):
TGGTGTTGTCCTGATCATCTTTATCTCCTCGACTAT
Found at i:6769785 original size:71 final size:70
Alignment explanation
Indices: 6769710--6769931 Score: 198
Period size: 71 Copynumber: 3.1 Consensus size: 70
6769700 TTCAGGTTAA
* * * *
6769710 CTTTATTTTTTAGCCTG-TGGTGTTGTCCTGATCATTTTTATCTCCTCGACTATTGGTGTTGTTC
1 CTTTATTTTCTAG-CTGTTGGTGTTGTCCT-ATCATATTTATCTTCTCGACTATTGGTGTTGTCC
6769774 TGATCAT
64 TGATCAT
* * * * * *
6769781 CTTTACTTTCTAGTTGTTGGTGTTATCATAATCGTATTTATCTTCTCGACCATTGGTGTTGTCCT
1 CTTTATTTTCTAGCTGTTGGTGTTGTCCT-ATCATATTTATCTTCTCGACTATTGGTGTTGTCCT
*
6769846 GACCAT
65 GATCAT
* * * * * *
6769852 TTTTATCTTCCTA-ATCGTTAGTGTTGTTCTAGTCATCTTTATCTTCTCGACTATTGGTGTTGTC
1 CTTTAT-TTTCTAGCT-GTTGGTGTTGTCCTA-TCATATTTATCTTCTCGACTATTGGTGTTGTC
**
6769916 CCAATCAT
63 CTGATCAT
6769924 C-TTATTTT
1 CTTTATTTT
6769932 ATTGATTATT
Statistics
Matches: 119, Mismatches: 28, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
70 4 0.03
71 66 0.55
72 49 0.41
ACGTcount: A:0.15, C:0.19, G:0.16, T:0.50
Consensus pattern (70 bp):
CTTTATTTTCTAGCTGTTGGTGTTGTCCTATCATATTTATCTTCTCGACTATTGGTGTTGTCCTG
ATCAT
Found at i:6769900 original size:72 final size:71
Alignment explanation
Indices: 6769740--6769916 Score: 203
Period size: 72 Copynumber: 2.5 Consensus size: 71
6769730 TGTTGTCCTG
* * * * * * * *
6769740 ATCATTTTTATCTCCTCGACTATTGGTGTTGTTCTGATCATCTTTACTTTCTAGTTGTTGGTGTT
1 ATCATATTTATCTTCTCGACTATTGGTGTTGTCCTGACCATCTTTACTTCCTAATCGTTAGTGTT
6769805 ATCATA
66 ATCATA
* * *
6769811 ATCGTATTTATCTTCTCGACCATTGGTGTTGTCCTGACCATTTTTATCTTCCTAATCGTTAGTGT
1 ATCATATTTATCTTCTCGACTATTGGTGTTGTCCTGACCATCTTTA-CTTCCTAATCGTTAGTGT
*
6769876 TGTTC-TA
65 T-ATCATA
* *
6769883 GTCATCTTTATCTTCTCGACTATTGGTGTTGTCC
1 ATCATATTTATCTTCTCGACTATTGGTGTTGTCC
6769917 CAATCATCTT
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
71 39 0.44
72 47 0.53
73 2 0.02
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.49
Consensus pattern (71 bp):
ATCATATTTATCTTCTCGACTATTGGTGTTGTCCTGACCATCTTTACTTCCTAATCGTTAGTGTT
ATCATA
Found at i:6770011 original size:30 final size:35
Alignment explanation
Indices: 6769977--6770068 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 35
6769967 CTTGACAGTA
6769977 GATGTTGTCTTGGT-A-A-TT-TTTTTG-ACTTGT
1 GATGTTGTCTTGGTCATATTTATTTTTGAACTTGT
6770007 GATGTTGTCTTGGTCATATTTATTTTTGAACTTGT
1 GATGTTGTCTTGGTCATATTTATTTTTGAACTTGT
* * **
6770042 GGTGTTGTCCTAATCATATTTATTTTT
1 GATGTTGTCTTGGTCATATTTATTTTT
6770069 TTGACTATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
30 14 0.26
31 1 0.02
32 1 0.02
33 2 0.04
34 6 0.11
35 29 0.55
ACGTcount: A:0.16, C:0.09, G:0.20, T:0.55
Consensus pattern (35 bp):
GATGTTGTCTTGGTCATATTTATTTTTGAACTTGT
Found at i:6770040 original size:35 final size:34
Alignment explanation
Indices: 6769946--6770068 Score: 112
Period size: 35 Copynumber: 3.7 Consensus size: 34
6769936 ATTATTGTTA
* * * *
6769946 TTGTCTTGGTCATCTTTACCTCTTGAC-AGTAGATG
1 TTGTCTTGGTCATATTTA-TTTTTGACTTGT-GATG
6769981 TTGTCTTGGT-A-A-TT-TTTTTGACTTGTGATG
1 TTGTCTTGGTCATATTTATTTTTGACTTGTGATG
*
6770011 TTGTCTTGGTCATATTTATTTTTGAACTTGTGGTG
1 TTGTCTTGGTCATATTTATTTTTG-ACTTGTGATG
* **
6770046 TTGTCCTAATCATATTTATTTTT
1 TTGTCTTGGTCATATTTATTTTT
6770069 TTGACTATTG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
30 20 0.27
31 3 0.04
32 3 0.04
33 2 0.03
34 7 0.09
35 39 0.53
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (34 bp):
TTGTCTTGGTCATATTTATTTTTGACTTGTGATG
Found at i:6770081 original size:36 final size:35
Alignment explanation
Indices: 6769992--6770176 Score: 135
Period size: 36 Copynumber: 5.2 Consensus size: 35
6769982 TGTCTTGGTA
* ***
6769992 ATTTTTTTGACTTGTGATGTTGTCTTGGTCATATTT
1 ATTTTTTTGACTTGTGGTGTTGTC-CAATCATATTT
6770028 A--TTTTTGAACTTGTGGTGTTGTCCTAATCATATTT
1 ATTTTTTTG-ACTTGTGGTGTTGTCC-AATCATATTT
* *
6770063 ATTTTTTTGACTAT-TGGTGTTGTACCAGTCATCTTT
1 ATTTTTTTGACT-TGTGGTGTTGT-CCAATCATATTT
* * * * *
6770099 A-ATTTTTAACTTGTGTTATTGTCCCATCCATATTT
1 ATTTTTTTGACTTGTGGTGTTGTCCAAT-CATATTT
* * * * *
6770134 ATTTTTTTGACTTGTAGTATTGTTTCGATCATCTTT
1 ATTTTTTTGACTTGTGGTGTTG-TCCAATCATATTT
6770170 ATTTTTT
1 ATTTTTT
6770177 CAACTTGTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
34 10 0.08
35 45 0.38
36 51 0.43
37 13 0.11
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (35 bp):
ATTTTTTTGACTTGTGGTGTTGTCCAATCATATTT
Found at i:6770166 original size:71 final size:71
Alignment explanation
Indices: 6769992--6770184 Score: 191
Period size: 71 Copynumber: 2.7 Consensus size: 71
6769982 TGTCTTGGTA
* * * *
6769992 ATTTTTTTGACTTGTGATGTTGTCTT-GGTCATATTT-ATTTTTGAACTTGTGGTGTTGTCCTAA
1 ATTTTTTTGACTTGTG-TGTTGT-TTCGATCATCTTTAATTTTTCAACTTGTGGTATTGTCCTAA
6770055 TCATATTT
64 TCATATTT
* * * *
6770063 ATTTTTTTGACTAT-TGGTGTTG-TACCAGTCATCTTTAATTTTT-AACTTGTGTTATTGTCC-C
1 ATTTTTTTGACT-TGT-GTGTTGTTTCGA-TCATCTTTAATTTTTCAACTTGTGGTATTGTCCTA
6770124 ATCCATATTT
63 AT-CATATTT
* *
6770134 ATTTTTTTGACTTGTAGTATTGTTTCGATCATCTTTATTTTTTCAACTTGT
1 ATTTTTTTGACTTGT-GTGTTGTTTCGATCATCTTTAATTTTTCAACTTGT
6770185 AATGATGTCC
Statistics
Matches: 101, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
69 1 0.01
70 3 0.03
71 79 0.78
72 18 0.18
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.55
Consensus pattern (71 bp):
ATTTTTTTGACTTGTGTGTTGTTTCGATCATCTTTAATTTTTCAACTTGTGGTATTGTCCTAATC
ATATTT
Found at i:6770298 original size:36 final size:35
Alignment explanation
Indices: 6770257--6770352 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 35
6770247 TCGTCCGTTA
* *
6770257 GTGTTGTCCTAGTCATCTTTATTTTTTTTA-TCATT
1 GTGTTGTCCTGGTCATCTTTATTTTTTTGACT-ATT
** *
6770292 GATGTTGTTTTGGTCATC-TTATTTTCTTGACTATT
1 G-TGTTGTCCTGGTCATCTTTATTTTTTTGACTATT
*
6770327 GTGTTGTCCTGGTCAT-TTTATCTTTT
1 GTGTTGTCCTGGTCATCTTTATTTTTT
6770353 CGATCGTTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
34 20 0.41
35 15 0.31
36 14 0.29
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (35 bp):
GTGTTGTCCTGGTCATCTTTATTTTTTTGACTATT
Found at i:6770430 original size:35 final size:35
Alignment explanation
Indices: 6770374--6770452 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
6770364 TTTGTCACAA
* *
6770374 TCATCTTTATCTTTTTACCGTTGGTGTTAT-TTCAG
1 TCATCTTTACCTTTTAACCGTTGGTGTTATCTT-AG
*
6770409 TCATTTTTACCTTTTAACCGTTGGTGTTATCTTAG
1 TCATCTTTACCTTTTAACCGTTGGTGTTATCTTAG
6770444 TCATCTTTA
1 TCATCTTTA
6770453 TTTTTTCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 37 0.95
36 2 0.05
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (35 bp):
TCATCTTTACCTTTTAACCGTTGGTGTTATCTTAG
Found at i:6770660 original size:36 final size:35
Alignment explanation
Indices: 6770620--6770687 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
6770610 TGTTATTCCG
*
6770620 ATCATATTTATCTTTTCGACCATTGGTGTTGTCTCA
1 ATCATATTTATCTTCT-GACCATTGGTGTTGTCTCA
* * **
6770656 ATCATCTTTTTCTTCTGATTATTGGTGTTGTC
1 ATCATATTTATCTTCTGACCATTGGTGTTGTC
6770688 CTGGTCATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 14 0.52
36 13 0.48
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (35 bp):
ATCATATTTATCTTCTGACCATTGGTGTTGTCTCA
Found at i:6770714 original size:33 final size:33
Alignment explanation
Indices: 6770657--6770766 Score: 112
Period size: 35 Copynumber: 3.2 Consensus size: 33
6770647 GTTGTCTCAA
* *
6770657 TCATCTTTTTCTTCTGATTATTGGTGTTGTCCTGG
1 TCATCTTATT-TT-TGATTGTTGGTGTTGTCCTGG
* *
6770692 TCATCTTATTTTTGATTGTTGGTGTTATCCTAG
1 TCATCTTATTTTTGATTGTTGGTGTTGTCCTGG
* * * *
6770725 TTATCTTATTTTTTCGACTGTTGATGTTGTCTTGG
1 TCATCTTA-TTTTT-GATTGTTGGTGTTGTCCTGG
6770760 TCATCTT
1 TCATCTT
6770767 TATCTTCTCG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 25 0.40
34 7 0.11
35 30 0.48
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (33 bp):
TCATCTTATTTTTGATTGTTGGTGTTGTCCTGG
Found at i:6770785 original size:36 final size:36
Alignment explanation
Indices: 6770621--6770805 Score: 139
Period size: 36 Copynumber: 5.3 Consensus size: 36
6770611 GTTATTCCGA
* * * *
6770621 TCATATTTATCTTTTCGACCATTGGTGTTGT-CTCAA
1 TCATCTTTATCTTCTCGACTATTGGTGTTGTCCT-AG
* * *
6770657 TCATCTTTTTCTTCT-GATTATTGGTGTTGTCCTGG
1 TCATCTTTATCTTCTCGACTATTGGTGTTGTCCTAG
* * * *
6770692 TCATC-TTAT-TT-TTGATTGTTGGTGTTATCCTAG
1 TCATCTTTATCTTCTCGACTATTGGTGTTGTCCTAG
* * * * * * *
6770725 TTATC-TTATTTTTTCGACTGTTGATGTTGTCTTGG
1 TCATCTTTATCTTCTCGACTATTGGTGTTGTCCTAG
* *
6770760 TCATCTTTATCTTCTCGACTATTGATATTGTCCTAG
1 TCATCTTTATCTTCTCGACTATTGGTGTTGTCCTAG
6770796 TCATCTTTAT
1 TCATCTTTAT
6770806 ATTTTTGGCT
Statistics
Matches: 119, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
32 1 0.01
33 27 0.23
34 5 0.04
35 38 0.32
36 48 0.40
ACGTcount: A:0.15, C:0.17, G:0.16, T:0.52
Consensus pattern (36 bp):
TCATCTTTATCTTCTCGACTATTGGTGTTGTCCTAG
Found at i:6773897 original size:196 final size:200
Alignment explanation
Indices: 6773547--6773924 Score: 446
Period size: 196 Copynumber: 1.9 Consensus size: 200
6773537 ATAATATGAC
* * * * * *
6773547 AATTATTTTTATTGAAATTTCATTTAAATTATTCTACAATTTGAGACAAATTTAAAGAAAATTTC
1 AATTATTGTTATTAAAATTTCATCTAAATTATTCAACAATTCGAGACAAATTTAAACAAAATTTC
* * * * * * *
6773612 TCACCTAGAGATTTCTTAAAAATTTACCATTTGAAATTTCTACGAATCTCATCCTTGGATAATTA
66 TCACATAGAAATTTCATAAAAATTTACCATTTGAAATTTCAACAAATCTCATCATTAGATAATTA
** * *
6773677 TCAAATATTTTCAACCCAATTTTTA-TTT-TTTTA-TATTTT-ATATTTTTTGGATTGAAAATAA
131 TCAAATATTCCCAAACCAATTTTTATTTTATTTTATTATTTTAAAATTTTTTGGATTGAAAATAA
6773738 ATATT
196 ATATT
* *
6773743 AATTATTGTTATTAAAACTTT-ATCTAAATTATTCAATAATTCGGGACAAATTTAAACAAAATTT
1 AATTATTGTTATTAAAA-TTTCATCTAAATTATTCAACAATTCGAGACAAATTTAAACAAAATTT
* *
6773807 CTCACATAGGAAATTT-ATAAAAATTTACCATTTGAAATTTCAATAAATTTCATCATTAGATAAT
65 CTCACATA-GAAATTTCATAAAAATTTACCATTTGAAATTTCAACAAATCTCATCATTAGATAAT
** ***
6773871 TAAT-ATTTATTCCCAAATTTATTTTTATTTTATTTTATTATTTTAAAATTTTTT
129 T-ATCAAATATTCCCAAACCAATTTTTATTTTATTTTATTATTTTAAAATTTTTT
6773925 TATTATTTTT
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
196 116 0.78
197 14 0.09
198 5 0.03
199 6 0.04
200 8 0.05
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (200 bp):
AATTATTGTTATTAAAATTTCATCTAAATTATTCAACAATTCGAGACAAATTTAAACAAAATTTC
TCACATAGAAATTTCATAAAAATTTACCATTTGAAATTTCAACAAATCTCATCATTAGATAATTA
TCAAATATTCCCAAACCAATTTTTATTTTATTTTATTATTTTAAAATTTTTTGGATTGAAAATAA
ATATT
Found at i:6773913 original size:19 final size:18
Alignment explanation
Indices: 6773889--6773934 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
6773879 ATTCCCAAAT
*
6773889 TTATTTTTATTTTATTTTA
1 TTATTTTTAATTT-TTTTA
*
6773908 TTATTTTAAAATTTTTTTA
1 TTATTTT-TAATTTTTTTA
6773927 TTATTTTT
1 TTATTTTT
6773935 TACAAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATTTTTAATTTTTTTA
Found at i:6774334 original size:20 final size:20
Alignment explanation
Indices: 6774288--6774335 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
6774278 TGAATATCTT
*
6774288 ATTGAAAACTGGGAAACAAC
1 ATTGAAAACTGGAAAACAAC
* * * *
6774308 GTCGAAAACTGGAAAATATC
1 ATTGAAAACTGGAAAACAAC
6774328 ATTGAAAA
1 ATTGAAAA
6774336 TTTCAAGTTT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (20 bp):
ATTGAAAACTGGAAAACAAC
Found at i:6775079 original size:40 final size:39
Alignment explanation
Indices: 6774974--6775106 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 39
6774964 TTTTTTAATT
* * *
6774974 AAATAAA-GCTTCTCTAAACAGAGGCTCAATAACTTCGAGAA
1 AAATAAATGCTCCTCTAAACAGAGGCACCATAACTT---GAA
* *
6775015 AAATATATGCTCCTCTAAATAGAGGCACCATAACGTTGAA
1 AAATAAATGCTCCTCTAAACAGAGGCACCATAAC-TTGAA
* *
6775055 GAATAAATGCTCCTCTAAACAGAGGCACCACAACTTTGAA
1 AAATAAATGCTCCTCTAAACAGAGGCACCATAAC-TTGAA
*
6775095 AAATACATGCTC
1 AAATAAATGCTC
6775107 ATCAACAATC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
40 48 0.62
41 6 0.08
42 22 0.28
43 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (39 bp):
AAATAAATGCTCCTCTAAACAGAGGCACCATAACTTGAA
Found at i:6775606 original size:25 final size:25
Alignment explanation
Indices: 6775554--6775621 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
6775544 CTAAAATCTC
* *
6775554 AAAGGTTCTCATTTGAAGGATTTCTT
1 AAAGATTCTCATTT-AAGGATTTATT
6775580 AAAGATTCTCATTTAAGGATTTATT
1 AAAGATTCTCATTTAAGGATTTATT
6775605 AAAGATTCTCATTTAAG
1 AAAGATTCTCATTTAAG
6775622 ACTCAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 27 0.68
26 13 0.32
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (25 bp):
AAAGATTCTCATTTAAGGATTTATT
Found at i:6780799 original size:53 final size:52
Alignment explanation
Indices: 6780699--6780835 Score: 145
Period size: 53 Copynumber: 2.6 Consensus size: 52
6780689 TAATTATTCT
* * *
6780699 ACCATTTGGGCCAAATTAGAAATATTTTATTA-TTTTGAATTTTTAAATTCTCC
1 ACCATTTGGGCCTATTTAGAAAT-TTTT-TTATTTTTGAATTTCTAAATTCTCC
** * *
6780752 ACCATTTGGGCCTATTTAGAAATTCTTTTTATTTTTTTATTTCTAAATTTTTC
1 ACCATTTGGGCCTATTTAGAAATT-TTTTTATTTTTGAATTTCTAAATTCTCC
* *
6780805 ATCATTTGGG-GTATTTA-AAATTTTTTTATTT
1 ACCATTTGGGCCTATTTAGAAATTTTTTTATTT
6780836 CTCTTTTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
50 9 0.12
51 5 0.07
52 10 0.14
53 49 0.67
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (52 bp):
ACCATTTGGGCCTATTTAGAAATTTTTTTATTTTTGAATTTCTAAATTCTCC
Found at i:6781239 original size:31 final size:31
Alignment explanation
Indices: 6781198--6781258 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6781188 TAATTAATAT
6781198 TTATTCTCAAAA-TTTATTATTTATTATTTTA
1 TTATTCTCAAAATTTTATTA-TTATTATTTTA
*
6781229 TTATTTTCAAAATTTTATTATTATTATTTT
1 TTATTCTCAAAATTTTATTATTATTATTTT
6781259 TTACAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (31 bp):
TTATTCTCAAAATTTTATTATTATTATTTTA
Found at i:6781260 original size:25 final size:26
Alignment explanation
Indices: 6781217--6781266 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
6781207 AAATTTATTA
6781217 TTTATTATTTTATTATTTT-CAAAAT
1 TTTATTATTTTATTATTTTACAAAAT
6781242 TTTATTATTATTATT-TTTTACAAAA
1 TTTATTATT-TTATTATTTTACAAAA
6781267 AAGCTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTATTATTTTATTATTTTACAAAAT
Found at i:6781690 original size:20 final size:20
Alignment explanation
Indices: 6781654--6781691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6781644 TGAATATCTT
* *
6781654 ACCAAAAACTGGGAAATAGC
1 ACCAAAAACTAGAAAATAGC
6781674 ACCAAAAACTAGAAAATA
1 ACCAAAAACTAGAAAATA
6781692 TTGCCAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.18, G:0.13, T:0.11
Consensus pattern (20 bp):
ACCAAAAACTAGAAAATAGC
Found at i:6782371 original size:3 final size:3
Alignment explanation
Indices: 6782363--6782403 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6782353 AAAGTTATGC
*
6782363 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6782404 GATGATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6799439 original size:16 final size:16
Alignment explanation
Indices: 6799420--6799460 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
6799410 TGAATGAAGT
6799420 GAAAAAGAAATGAAAA
1 GAAAAAGAAATGAAAA
6799436 GAAAAA-ATAATGAAAA
1 GAAAAAGA-AATGAAAA
6799452 -AAAAAGAAA
1 GAAAAAGAAA
6799461 AAAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
GAAAAAGAAATGAAAA
Found at i:6799451 original size:10 final size:10
Alignment explanation
Indices: 6799421--6799464 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
6799411 GAATGAAGTG
*
6799421 AAAAAGAAAT
1 AAAAAGAAAA
*
6799431 GAAAAGAAAA
1 AAAAAGAAAA
*
6799441 AATAATGAAAA
1 AA-AAAGAAAA
6799452 AAAAAGAAAA
1 AAAAAGAAAA
6799462 AAA
1 AAA
6799465 GGAAAATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:6800292 original size:15 final size:14
Alignment explanation
Indices: 6800274--6800339 Score: 64
Period size: 13 Copynumber: 4.7 Consensus size: 14
6800264 ACAATAAGAG
6800274 TTGCATTCATTAACA
1 TTGCATTCATT-ACA
*
6800289 TTGCATTCA-TGCA
1 TTGCATTCATTACA
*
6800302 TTGCATTCATAAACA
1 TTGCATTCAT-TACA
* *
6800317 TTGCTTTCA-TGCA
1 TTGCATTCATTACA
6800330 TTGCATTCAT
1 TTGCATTCAT
6800340 AAGCATTACA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
13 21 0.51
14 1 0.02
15 19 0.46
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (14 bp):
TTGCATTCATTACA
Found at i:6800305 original size:13 final size:13
Alignment explanation
Indices: 6800287--6800339 Score: 70
Period size: 13 Copynumber: 3.9 Consensus size: 13
6800277 CATTCATTAA
6800287 CATTGCATTCATG
1 CATTGCATTCATG
*
6800300 CATTGCATTCATAAA
1 CATTGCATTCAT--G
*
6800315 CATTGCTTTCATG
1 CATTGCATTCATG
6800328 CATTGCATTCAT
1 CATTGCATTCAT
6800340 AAGCATTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 23 0.68
15 11 0.32
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (13 bp):
CATTGCATTCATG
Found at i:6800316 original size:28 final size:28
Alignment explanation
Indices: 6800274--6800355 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
6800264 ACAATAAGAG
*
6800274 TTGCATTCATTAACATTGCATTCATGCA
1 TTGCATTCATAAACATTGCATTCATGCA
*
6800302 TTGCATTCATAAACATTGCTTTCATGCA
1 TTGCATTCATAAACATTGCATTCATGCA
* * *
6800330 TTGCATTCATAAGCATTACACTCATG
1 TTGCATTCATAAACATTGCATTCATG
6800356 TAATTTGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (28 bp):
TTGCATTCATAAACATTGCATTCATGCA
Found at i:6800345 original size:15 final size:15
Alignment explanation
Indices: 6800274--6800346 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
6800264 ACAATAAGAG
6800274 TTGCATTCATTAA-CA
1 TTGCATTCA-TAAGCA
6800289 TTGCATTCAT--GCA
1 TTGCATTCATAAGCA
*
6800302 TTGCATTCATAAACA
1 TTGCATTCATAAGCA
*
6800317 TTGCTTTCAT--GCA
1 TTGCATTCATAAGCA
6800330 TTGCATTCATAAGCA
1 TTGCATTCATAAGCA
6800345 TT
1 TT
6800347 ACACTCATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 23 0.47
14 1 0.02
15 25 0.51
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.40
Consensus pattern (15 bp):
TTGCATTCATAAGCA
Found at i:6801168 original size:45 final size:43
Alignment explanation
Indices: 6801103--6801207 Score: 106
Period size: 45 Copynumber: 2.4 Consensus size: 43
6801093 TTTTTAAATG
* * * *
6801103 TGAATTTTTGATGAGAATCTC-AAAATTTTTTTGAATGTGAACCTT
1 TGAATCTTAGATGTGAATCTCTAAAA--TTTTTGAATGAGAACC-T
*
6801148 TGAATCTTAGATGTGAATCTCTAAGATTTTTGAATGAGAACCT
1 TGAATCTTAGATGTGAATCTCTAAAATTTTTGAATGAGAACCT
* *
6801191 T-AATCTTGGATTTGAAT
1 TGAATCTTAGATGTGAAT
6801208 ATTTAAGAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 14 0.27
43 2 0.04
44 15 0.29
45 18 0.35
46 3 0.06
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (43 bp):
TGAATCTTAGATGTGAATCTCTAAAATTTTTGAATGAGAACCT
Found at i:6801215 original size:42 final size:44
Alignment explanation
Indices: 6801130--6801215 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 44
6801120 TCTCAAAATT
* *
6801130 TTTTTGAATGTGAACCTTTGAATCTTAGATGTGAATCTCTAAGA
1 TTTTTGAATGAGAACCTTTGAATCTTAGATGTGAATATCTAAGA
* * *
6801174 TTTTTGAATGAGAACC-TT-AATCTTGGATTTGAATATTTAAGA
1 TTTTTGAATGAGAACCTTTGAATCTTAGATGTGAATATCTAAGA
6801216 GCTTGAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 20 0.54
43 2 0.05
44 15 0.41
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (44 bp):
TTTTTGAATGAGAACCTTTGAATCTTAGATGTGAATATCTAAGA
Found at i:6801324 original size:16 final size:17
Alignment explanation
Indices: 6801264--6801341 Score: 65
Period size: 16 Copynumber: 4.6 Consensus size: 17
6801254 AATTTTTAGG
*
6801264 AATC-TTGAACACTTACA
1 AATCTTTGAA-ACTTGCA
**
6801281 AATC-TTGAAACTTGTG
1 AATCTTTGAAACTTGCA
6801297 AAT-TTTGAAACTTGCA
1 AATCTTTGAAACTTGCA
6801313 AATCTTTG-AACTTTTGCA
1 AATCTTTGAAAC--TTGCA
*
6801331 AATTTTTGAAA
1 AATCTTTGAAA
6801342 ATTTTTGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 23 0.46
17 13 0.26
18 12 0.24
19 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (17 bp):
AATCTTTGAAACTTGCA
Found at i:6801370 original size:18 final size:18
Alignment explanation
Indices: 6801343--6801448 Score: 133
Period size: 18 Copynumber: 5.7 Consensus size: 18
6801333 TTTTTGAAAA
*
6801343 TTTT-TGAATCTTAAATT
1 TTTTGTGAATCTTAAATC
*
6801360 TTTTGTGAATCTTTGAATC
1 TTTTGTGAATC-TTAAATC
*
6801379 TTTTGGGAATCTTAAATC
1 TTTTGTGAATCTTAAATC
6801397 TTTTGTGAATCTTAAATC
1 TTTTGTGAATCTTAAATC
*
6801415 TTTTGTAAATCTTTGAAATC
1 TTTTGTGAATC-TT-AAATC
6801435 TTTTTGTGAATCTT
1 -TTTTGTGAATCTT
6801449 GAATTTTAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.05
18 39 0.51
19 17 0.22
20 7 0.09
21 10 0.13
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTTGTGAATCTTAAATC
Found at i:6801395 original size:37 final size:36
Alignment explanation
Indices: 6801348--6801465 Score: 141
Period size: 37 Copynumber: 3.2 Consensus size: 36
6801338 GAAAATTTTT
*
6801348 GAATCTTAAATTTTTTGTGAATCTTTGAATCTTTTGG
1 GAATCTTAAATTTTTTGTGAATC-TTGAATCTTTTGA
* *
6801385 GAATCTTAAATCTTTTGTGAATCTTAAATCTTTTGTA
1 GAATCTTAAATTTTTTGTGAATCTTGAATCTTTTG-A
*
6801422 -AATCTTTGAAATCTTTTTGTGAATCTTGAAT-TTTAGA
1 GAATC-TT-AAAT-TTTTTGTGAATCTTGAATCTTTTGA
6801459 GAATCTT
1 GAATCTT
6801466 TGAATTTAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
36 15 0.21
37 27 0.39
38 12 0.17
39 16 0.23
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (36 bp):
GAATCTTAAATTTTTTGTGAATCTTGAATCTTTTGA
Found at i:6801406 original size:55 final size:56
Alignment explanation
Indices: 6801343--6801465 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 56
6801333 TTTTTGAAAA
* *
6801343 TTTT-TGAATCTTAAATTTTTTGTGAATCTTTG-AATC-TTTTGGGAATCTTAAAT
1 TTTTGTGAATCTTAAATCTTTTGTAAATCTTTGAAATCTTTTTGGGAATCTTAAAT
* *
6801396 CTTTTGTGAATCTTAAATCTTTTGTAAATCTTTGAAATCTTTTTGTGAATCTTGAAT
1 -TTTTGTGAATCTTAAATCTTTTGTAAATCTTTGAAATCTTTTTGGGAATCTTAAAT
* *
6801453 TTTAGAGAATCTT
1 TTTTGTGAATCTT
6801466 TGAATTTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
54 4 0.07
55 26 0.43
56 15 0.25
57 15 0.25
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (56 bp):
TTTTGTGAATCTTAAATCTTTTGTAAATCTTTGAAATCTTTTTGGGAATCTTAAAT
Found at i:6801715 original size:21 final size:20
Alignment explanation
Indices: 6801691--6801758 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 20
6801681 TCAAGTTAAG
*
6801691 AATTCTTGAATTTCAAATGCA
1 AATT-TTGAATTTCAATTGCA
* *
6801712 AATTTTTAAATTTTCAATTGTA
1 AA-TTTTGAA-TTTCAATTGCA
*
6801734 AACTTTTGAATTGCAATTGCA
1 AA-TTTTGAATTTCAATTGCA
6801755 AATT
1 AATT
6801759 GCAAATCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 19 0.50
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (20 bp):
AATTTTGAATTTCAATTGCA
Found at i:6802250 original size:20 final size:21
Alignment explanation
Indices: 6802212--6802250 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6802202 CCCCATTAGG
*
6802212 ATCAATTAGAAACAATCAAGA
1 ATCAATTAGAAAAAATCAAGA
6802233 ATCAATTA-AAAAAATCAA
1 ATCAATTAGAAAAAATCAA
6802251 AAGAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.13, G:0.05, T:0.21
Consensus pattern (21 bp):
ATCAATTAGAAAAAATCAAGA
Found at i:6807107 original size:7 final size:8
Alignment explanation
Indices: 6807082--6807106 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6807072 TTAGTATATC
6807082 TTAATTTT
1 TTAATTTT
6807090 TTAATTTT
1 TTAATTTT
6807098 TTAATTTT
1 TTAATTTT
6807106 T
1 T
6807107 ATTTCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTAATTTT
Found at i:6807240 original size:7 final size:7
Alignment explanation
Indices: 6807223--6807258 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
6807213 AAATTAGAAT
6807223 AATAA-A
1 AATAATA
6807229 AATAATA
1 AATAATA
6807236 AATAATA
1 AATAATA
6807243 AATAATA
1 AATAATA
6807250 AATAATA
1 AATAATA
6807257 AA
1 AA
6807259 ATAACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AATAATA
Found at i:6807267 original size:14 final size:14
Alignment explanation
Indices: 6807169--6807268 Score: 71
Period size: 14 Copynumber: 7.0 Consensus size: 14
6807159 TAGAATATCT
*
6807169 TAAAATAAATATAA
1 TAAAATAAAAATAA
6807183 TAATAA-AAAAACTAA
1 TAA-AATAAAAA-TAA
* **
6807198 CAAAATAAGTATAA
1 TAAAATAAAAATAA
* *
6807212 -AAAATTAGAATAA
1 TAAAATAAAAATAA
6807225 TAAAAATAATAAATAA
1 T-AAAATAA-AAATAA
6807241 T-AAATAATAAATAA
1 TAAAATAA-AAATAA
*
6807255 TAAAATAACAATAA
1 TAAAATAAAAATAA
6807269 AGTCACAAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
13 11 0.16
14 31 0.44
15 22 0.31
16 6 0.09
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAAATAAAAATAA
Found at i:6814069 original size:4 final size:4
Alignment explanation
Indices: 6814060--6814151 Score: 68
Period size: 4 Copynumber: 24.0 Consensus size: 4
6814050 GTTTTGCTAG
* * * *
6814060 TTTA TTTA TTTA TTTG TTTA TTTC TATA TTTA TTTA TTCA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
** * *
6814107 -TTA TTTA TTTA GGT- TTTA TTT- TTT- TCTTA TTGA TTTA TTGA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
6814152 ATTGATATAA
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
3 10 0.15
4 56 0.84
5 1 0.01
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:6819011 original size:2 final size:2
Alignment explanation
Indices: 6819004--6819029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6818994 ACCATAAACT
6819004 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6819030 AAAGAGTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6825010 original size:38 final size:38
Alignment explanation
Indices: 6824968--6825045 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
6824958 ATAAATTAGG
* *
6824968 TTTTTAGTCAAAAA-TATTCTCCAATATGTTGGTAAGA
1 TTTTTTGTCAAAAATTATCCTCCAATATGTTGGTAAGA
* *
6825005 TTTTTTGTCAAAAATTATCCTCCAATATTTTGGTAGGA
1 TTTTTTGTCAAAAATTATCCTCCAATATGTTGGTAAGA
6825043 TTT
1 TTT
6825046 CAAAGAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 13 0.36
38 23 0.64
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (38 bp):
TTTTTTGTCAAAAATTATCCTCCAATATGTTGGTAAGA
Found at i:6825242 original size:19 final size:19
Alignment explanation
Indices: 6825210--6825247 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6825200 AAACAAAAAT
* *
6825210 TATCATGCATTAATATAAA
1 TATCAAGCAATAATATAAA
6825229 TATCAAGCAATAATATAAA
1 TATCAAGCAATAATATAAA
6825248 AATACCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
TATCAAGCAATAATATAAA
Found at i:6825262 original size:19 final size:20
Alignment explanation
Indices: 6825240--6825285 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
6825230 ATCAAGCAAT
*
6825240 AATATAAAAAT-ACCATTCA
1 AATATAAAAATAACCATGCA
* *
6825259 AATAT-TAATTAACCATGCA
1 AATATAAAAATAACCATGCA
6825278 AATATAAA
1 AATATAAA
6825286 TCATACAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.14
19 17 0.81
20 1 0.05
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (20 bp):
AATATAAAAATAACCATGCA
Found at i:6825341 original size:18 final size:18
Alignment explanation
Indices: 6825297--6825346 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
6825287 CATACAAATA
**
6825297 AAATAATATATAATCATGC
1 AAATAA-ATATAATCACAC
6825316 -AATCAAATATAATCACAC
1 AAAT-AAATATAATCACAC
6825334 AAATAAATATAAT
1 AAATAAATATAAT
6825347 AACCATGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (18 bp):
AAATAAATATAATCACAC
Found at i:6825354 original size:39 final size:42
Alignment explanation
Indices: 6825276--6825365 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 42
6825266 ATTAACCATG
* *
6825276 CAAATATAAATCATACAAATAAAATAATATATAATCATGCAAT
1 CAAATAT-AATCACACAAATAAAATAATATATAACCATGCAAT
6825319 CAAATATAATCACACAAAT-AAAT-ATA-ATAACCATGCAAT
1 CAAATATAATCACACAAATAAAATAATATATAACCATGCAAT
*
6825358 TAAATATA
1 CAAATATA
6825366 TTAATAATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 19 0.43
40 3 0.07
41 4 0.09
42 11 0.25
43 7 0.16
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (42 bp):
CAAATATAATCACACAAATAAAATAATATATAACCATGCAAT
Found at i:6825361 original size:21 final size:20
Alignment explanation
Indices: 6825301--6825365 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
6825291 CAAATAAAAT
*
6825301 AATAT-ATAATCATGCAATCA
1 AATATAATAA-CATGCAATTA
* *
6825321 AATATAATCACA--CAAATA
1 AATATAATAACATGCAATTA
6825339 AATATAATAACCATGCAATTA
1 AATATAATAA-CATGCAATTA
6825360 AATATA
1 AATATA
6825366 TTAATAATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 13 0.36
19 2 0.06
20 7 0.19
21 14 0.39
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (20 bp):
AATATAATAACATGCAATTA
Found at i:6825377 original size:24 final size:25
Alignment explanation
Indices: 6825333--6825414 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 25
6825323 TATAATCACA
6825333 CAAATAAATATAATAACCATGCAAT
1 CAAATAAATATAATAACCATGCAAT
* * *
6825358 TAAATATAT-TAATAATCATGCAAT
1 CAAATAAATATAATAACCATGCAAT
* *
6825382 CAAATTAAACATAATCATATCATGCAAT
1 CAAA-TAAATATAAT-A-ACCATGCAAT
6825410 -AAATA
1 CAAATA
6825415 TAAAATCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 17 0.36
25 10 0.21
26 6 0.13
27 4 0.09
28 10 0.21
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (25 bp):
CAAATAAATATAATAACCATGCAAT
Found at i:6825387 original size:29 final size:27
Alignment explanation
Indices: 6825355--6825418 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
6825345 ATAACCATGC
* *
6825355 AATTAAATATATTAATAATCATGCAATCA
1 AATTAAACATAATAAT-ATCATGCAAT-A
*
6825384 AATTAAACATAATCATATCATGCAATA
1 AATTAAACATAATAATATCATGCAATA
6825411 AATATAAA
1 AAT-TAAA
6825419 ATCATATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 13 0.42
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (27 bp):
AATTAAACATAATAATATCATGCAATA
Found at i:6825425 original size:24 final size:25
Alignment explanation
Indices: 6825350--6825447 Score: 89
Period size: 24 Copynumber: 3.9 Consensus size: 25
6825340 ATATAATAAC
**
6825350 CATGCAATTAAATATATTAAT-A-AT
1 CATGCAA-TAAATATACAAATCATAT
*
6825374 CATGCAATCAAATTAAACATAATCATAT
1 CATGCAAT-AAA-TATACA-AATCATAT
6825402 CATGCAATAAATATA-AAATCATAT
1 CATGCAATAAATATACAAATCATAT
6825426 CATGCAA-ATAATATA-AAATCAT
1 CATGCAATA-AATATACAAATCAT
6825448 GCCAAAAAAC
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
23 2 0.03
24 38 0.59
25 4 0.06
26 6 0.09
27 4 0.06
28 10 0.16
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.31
Consensus pattern (25 bp):
CATGCAATAAATATACAAATCATAT
Found at i:6825628 original size:17 final size:15
Alignment explanation
Indices: 6825601--6825642 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
6825591 AGATAAAAGG
*
6825601 AAAAACAAAAAACAAA
1 AAAAACCAAAAAC-AA
6825617 ATAAAACCAAAAACAA
1 A-AAAACCAAAAACAA
6825633 AAAAACCAAA
1 AAAAACCAAA
6825643 CCTTACGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 11 0.46
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAACCAAAAACAA
Found at i:6827220 original size:18 final size:18
Alignment explanation
Indices: 6827197--6827234 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6827187 AAGATTCACA
*
6827197 AAGTTTTGT-AAGAATTTC
1 AAGTTTCGTAAAG-ATTTC
6827215 AAGTTTCGTAAAGATTTC
1 AAGTTTCGTAAAGATTTC
6827233 AA
1 AA
6827235 AAGCTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (18 bp):
AAGTTTCGTAAAGATTTC
Found at i:6827786 original size:42 final size:44
Alignment explanation
Indices: 6827730--6827812 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
6827720 TGAAAGAAAT
* *
6827730 TCAGTTTCTCAAGAATTTTGA-ATTCACAAG-ATTCTCAGAATC
1 TCAGGTTCGCAAGAATTTTGAGATTCACAAGAATTCTCAGAATC
* *
6827772 TCAGGTTCGCAAGAATTTTTAGATTCACAAGAATTTTCAGA
1 TCAGGTTCGCAAGAATTTTGAGATTCACAAGAATTCTCAGA
6827813 TTCGCAAGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 18 0.51
43 9 0.26
44 8 0.23
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (44 bp):
TCAGGTTCGCAAGAATTTTGAGATTCACAAGAATTCTCAGAATC
Found at i:6827804 original size:18 final size:18
Alignment explanation
Indices: 6827781--6827825 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6827771 CTCAGGTTCG
*
6827781 CAAGAATTTTTAGATTCA
1 CAAGAATTTTCAGATTCA
*
6827799 CAAGAATTTTCAGATTCG
1 CAAGAATTTTCAGATTCA
6827817 CAAGAATTT
1 CAAGAATTT
6827826 GAACTCTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
CAAGAATTTTCAGATTCA
Found at i:6828569 original size:24 final size:24
Alignment explanation
Indices: 6828537--6828602 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 24
6828527 ATTATATTTA
*
6828537 ATTTGATTGCATGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
*
6828561 ATTTAATTGCTTGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
* *
6828585 GTTTATTTGCATGATTAT
1 ATTTAATTGCATGATTAT
6828603 ATATTTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (24 bp):
ATTTAATTGCATGATTATTAATAT
Found at i:6828609 original size:20 final size:20
Alignment explanation
Indices: 6828557--6828622 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
6828547 ATGATTATTA
*
6828557 ATATATTTAATTGCTTGATT
1 ATATATTTAATTGCATGATT
*
6828577 ATTAATATGTTTATTTGCATGATT
1 A-T-ATA--TTTAATTGCATGATT
* *
6828601 ATATATTTAATTACATGTTT
1 ATATATTTAATTGCATGATT
6828621 AT
1 AT
6828623 TTGCATGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 15 0.41
21 1 0.03
22 6 0.16
23 1 0.03
24 14 0.38
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:6828620 original size:32 final size:32
Alignment explanation
Indices: 6828583--6828648 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
6828573 GATTATTAAT
6828583 ATGTTTATTTGCATGATTATATATTTAATTAC
1 ATGTTTATTTGCATGATTATATATTTAATTAC
6828615 ATGTTTATTTGCATGATTATATATTTAATTAC
1 ATGTTTATTTGCATGATTATATATTTAATTAC
6828647 AT
1 AT
6828649 ATTTTGCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (32 bp):
ATGTTTATTTGCATGATTATATATTTAATTAC
Found at i:6828695 original size:31 final size:31
Alignment explanation
Indices: 6828623--6828715 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
6828613 ACATGTTTAT
*
6828623 TTGCATGA-TTATATA-T-TTAATTACAT-A
1 TTGCATGATTTATATATTATTATTTACATGA
*
6828650 TTTTGCATGGTTTATATATTATTATTTACATGA
1 --TTGCATGATTTATATATTATTATTTACATGA
* *
6828683 TTGCATGATTTATGTATTATTATTTTCATGA
1 TTGCATGATTTATATATTATTATTTACATGA
6828714 TT
1 TT
6828716 ATATATCTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
29 7 0.13
30 7 0.13
31 31 0.56
32 9 0.16
33 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTATTTACATGA
Done.