Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, 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: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 19
Found at i:412099 original size:66 final size:66
Alignment explanation
Indices: 412003--412135 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
411993 ACGCGAAATT
*
412003 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
412068 G
66 G
* *
412069 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGTATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
412134 G
66 G
412135 A
1 A
412136 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:414659 original size:24 final size:24
Alignment explanation
Indices: 414625--414678 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
414615 CTGAAACATC
* *
414625 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
414649 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
414673 ATCAAA
1 ATCAAA
414679 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:415737 original size:20 final size:20
Alignment explanation
Indices: 415712--415769 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
415702 ATTCATTTGA
415712 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
415732 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
415752 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
415770 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:415812 original size:14 final size:14
Alignment explanation
Indices: 415793--415850 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
415783 GAAAATCGCA
415793 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
415807 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
415824 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
415840 TTGCGATTTTC
1 TTGCGATTTTC
415851 ATTTCGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 22 0.56
16 3 0.08
17 3 0.08
19 11 0.28
ACGTcount: A:0.10, C:0.21, G:0.19, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:415812 original size:33 final size:33
Alignment explanation
Indices: 415775--415845 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
415765 AAAATCGCAA
415775 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
415808 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
415841 TGCGA
1 TGCGA
415846 TTTTCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:415829 original size:19 final size:19
Alignment explanation
Indices: 415788--415941 Score: 220
Period size: 19 Copynumber: 8.6 Consensus size: 19
415778 GAAATGAAAA
415788 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
415804 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
415821 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
415837 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
415854 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
415873 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
415892 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
415911 TCGCATTGCGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
415930 TCGCGTTGCGAT
1 TCGCATTGCGAT
415942 AGTCTGTTTT
Statistics
Matches: 126, Mismatches: 2, Indels: 17
0.87 0.01 0.12
Matches are distributed among these distances:
14 22 0.17
16 6 0.05
17 6 0.05
19 92 0.73
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:417957 original size:19 final size:20
Alignment explanation
Indices: 417933--417978 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
417923 GAAACTTAAA
*
417933 ATCGCAACG-TGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
417952 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
417972 ATCGCAA
1 ATCGCAA
417979 TACGAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:417987 original size:19 final size:20
Alignment explanation
Indices: 417943--417998 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
417933 ATCGCAACGT
*
417943 GAAATGACTATCGCAACGCG
1 GAAATGACTATCGCAACACG
* *
417963 GAAATGGCTATCGCAATAC-
1 GAAATGACTATCGCAACACG
**
417982 GAAATGAAAATCGCAAC
1 GAAATGACTATCGCAAC
417999 GACAAAATCG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (20 bp):
GAAATGACTATCGCAACACG
Found at i:418007 original size:14 final size:14
Alignment explanation
Indices: 417988--418045 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
417978 ATACGAAATG
417988 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
418002 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
418018 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
418034 AAAATCGCAACG
1 AAAATCGCAACG
418046 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:418030 original size:32 final size:33
Alignment explanation
Indices: 417972--418050 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
417962 GGAAATGGCT
**
417972 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
418005 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
418037 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
418051 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 30 0.68
33 14 0.32
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:418079 original size:19 final size:17
Alignment explanation
Indices: 418057--418152 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
418047 GAAACACAAA
418057 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
418076 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
418092 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
418108 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
418124 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
418141 TCGCATTGCGAT
1 TCGC-TTGCGAT
418153 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:418098 original size:14 final size:14
Alignment explanation
Indices: 418079--418136 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
418069 TTTCATTTCG
418079 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
418093 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
418109 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
418125 CGTTGCGATTTT
1 CGTTGCGATTTT
418137 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:418143 original size:33 final size:33
Alignment explanation
Indices: 418062--418152 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
418052 ACAAATCGCA
418062 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
418095 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
418127 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
418153 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:418159 original size:19 final size:19
Alignment explanation
Indices: 418137--418182 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
418127 TTGCGATTTT
418137 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
** *
418156 CATTTCCGTGTTGCGATAGT
1 CATTT-CGCATTGCGATAGC
418176 CATTTCG
1 CATTTCG
418183 TGTTGCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:418171 original size:20 final size:19
Alignment explanation
Indices: 418146--418190 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
418136 TCATTTCGCA
418146 TTGCGATAGCCATTTCCGTG
1 TTGCGATAGCCATTT-CGTG
*
418166 TTGCGATAGTCATTTCGTG
1 TTGCGATAGCCATTTCGTG
418185 TTGCGA
1 TTGCGA
418191 AAGTAAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.38
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGTG
Found at i:418186 original size:19 final size:19
Alignment explanation
Indices: 418126--418190 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
418116 CGATTTTGTC
** *
418126 GTTGCGATTTTCATTTCGC
1 GTTGCGATAGTCATTTCGT
* *
418145 ATTGCGATAGCCATTTCCGT
1 GTTGCGATAGTCATTT-CGT
418165 GTTGCGATAGTCATTTCGT
1 GTTGCGATAGTCATTTCGT
418184 GTTGCGA
1 GTTGCGA
418191 AAGTAAACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (19 bp):
GTTGCGATAGTCATTTCGT
Found at i:418689 original size:18 final size:18
Alignment explanation
Indices: 418663--418707 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
418653 GTCGATCAGA
* *
418663 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
418681 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
418699 TGATGGCTC
1 TGATGGCTC
418708 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:420268 original size:22 final size:22
Alignment explanation
Indices: 420243--420286 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
420233 GATTTAGATA
420243 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
420265 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
420287 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:420567 original size:20 final size:20
Alignment explanation
Indices: 420454--420567 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
420444 CGCTTTGAAA
420454 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
420474 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
420494 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
420514 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
420535 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
420555 ATCGCATTGCGAT
1 ATCGCATTGCGAT
420568 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:420585 original size:21 final size:21
Alignment explanation
Indices: 420556--420648 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
420546 ATAGTAAGTA
420556 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
420577 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
420597 TCGCATTGCGTTTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
420618 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
420638 TCGCATTGCGA
1 TCGCATTGCGA
420649 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:420586 original size:41 final size:41
Alignment explanation
Indices: 420495--420629 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
420485 AAAGTCAGTA
* * * ** *
420495 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
420535 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
420577 TCGCGTTGCGAT-TTACTTATTCGCATTGCGTTTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
420618 TCGCGTTGCGAT
1 TCGCGTTGCGAT
420630 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:420630 original size:41 final size:41
Alignment explanation
Indices: 420556--420648 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
420546 ATAGTAAGTA
420556 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
420597 TCGCATTGCGTTTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
420638 TCGCATTGCGA
1 TCGCATTGCGA
420649 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:420752 original size:20 final size:20
Alignment explanation
Indices: 420727--420772 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
420717 CAACGCGAAT
*
420727 TTGCGATAATGGAGATCGCG
1 TTGCGATAATAGAGATCGCG
* *
420747 TTGCGA-ATTAGCGATCGCG
1 TTGCGATAATAGAGATCGCG
420766 TTGCGAT
1 TTGCGAT
420773 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCG
Found at i:421439 original size:60 final size:61
Alignment explanation
Indices: 421335--421498 Score: 171
Period size: 60 Copynumber: 2.7 Consensus size: 61
421325 ATTGAAGATG
* * *
421335 CAAAAGTTTAGGGAC-AATTTAGAAAGATATTCATAGTTTGGGGATGAAATTGGAAT-TTT
1 CAAAAGTTTAAGGACTAATTTAGAAAGATATTCATAGTTTCGGGATGAAATTAGAATGTTT
* *
421394 CAAAAGTTTAAGGACTAATTTAGATTGAGA-ATT-ATTGTTTCGGGATGAAATTAGAATGTTT
1 CAAAAGTTTAAGGACTAATTTAGA--AAGATATTCATAGTTTCGGGATGAAATTAGAATGTTT
** *
421455 -AAAAGTTTAATAACTAATTT-GAAATGA-ATATCATAGTTTAGGGA
1 CAAAAGTTTAAGGACTAATTTAGAAA-GATAT-TCATAGTTTCGGGA
421499 CATATGATGC
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
57 1 0.01
58 4 0.05
59 17 0.19
60 57 0.65
61 6 0.07
62 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (61 bp):
CAAAAGTTTAAGGACTAATTTAGAAAGATATTCATAGTTTCGGGATGAAATTAGAATGTTT
Found at i:431224 original size:15 final size:15
Alignment explanation
Indices: 431206--431237 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
431196 GTGAAATTCT
431206 AAATATTTAAATAAA
1 AAATATTTAAATAAA
*
431221 AAATATTTATATAAA
1 AAATATTTAAATAAA
431236 AA
1 AA
431238 TTTTATTTGT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATTTAAATAAA
Found at i:438198 original size:8 final size:8
Alignment explanation
Indices: 438181--438215 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
438171 TCTGATTTAA
438181 AATA-TTT
1 AATATTTT
438188 AATATTTT
1 AATATTTT
438196 AATA-TTT
1 AATATTTT
438203 AATATTTT
1 AATATTTT
438211 AATAT
1 AATAT
438216 CAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
AATATTTT
Found at i:438201 original size:15 final size:15
Alignment explanation
Indices: 438181--438215 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
438171 TCTGATTTAA
438181 AATATTTAATATTTT
1 AATATTTAATATTTT
438196 AATATTTAATATTTT
1 AATATTTAATATTTT
438211 AATAT
1 AATAT
438216 CAGAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATATTTAATATTTT
Found at i:438680 original size:3 final size:3
Alignment explanation
Indices: 438666--438718 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
438656 AGAGATATTC
*
438666 TCT TCA TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
438714 TCT TC
1 TCT TC
438719 ATGTACGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (3 bp):
TCT
Found at i:439325 original size:64 final size:64
Alignment explanation
Indices: 439251--439435 Score: 207
Period size: 64 Copynumber: 2.9 Consensus size: 64
439241 TTGTTTGAAT
* * ***
439251 GTGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATC-CCAGTAATAATAAA-ACATCGAATGCAA-T
439314 C-
63 CG
* * *
439315 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAGTGAAACATCGAATGCAATCG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAATGCAATCG
* **
439379 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTACATCGAAT
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAAT
439436 ACCTTTTATG
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
63 2 0.02
64 94 0.91
65 7 0.07
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCAGTAATAATAAAACATCGAATGCAATCG
Found at i:439448 original size:64 final size:64
Alignment explanation
Indices: 439299--439475 Score: 198
Period size: 64 Copynumber: 2.8 Consensus size: 64
439289 TAAAATAAAG
* * *
439299 ACATCGAATGCAATTCG-TGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAGTGAA
1 ACATCGAATACAA-TCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
* * * *
439363 ACATCGAATGCAATCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAAT-ACT
1 ACATCGAATACAATCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGA-A
** ** *
439427 ACATCGAATACCTTTTATGCATCGATGCATCAA-TAGTGCATTGATGCAT
1 ACATCGAATACAATCGATGCATCGATGCAT-AAGTAGTGCATCGATGCAT
439476 ACCTTCATTA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
63 4 0.04
64 92 0.94
65 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
ACATCGAATACAATCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:440024 original size:31 final size:31
Alignment explanation
Indices: 439985--440299 Score: 558
Period size: 31 Copynumber: 10.2 Consensus size: 31
439975 AGAGTCGAGG
439985 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
440016 TTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
440047 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
440078 ATTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
440109 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
440140 GTTTACATATGTTTAAAGGTACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
440171 GTTTACATATGTTTAAAGGCACATATAAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
440202 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
440233 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
440264 GTTTACATATGTTTAAAGGCACATATGAATA
1 GTTTACATATGTTTAAAGGCACATATGAACA
440295 GTTTA
1 GTTTA
440300 TATTGTGACC
Statistics
Matches: 269, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 269 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:440103 original size:16 final size:16
Alignment explanation
Indices: 440082--440135 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
440072 TGAACAATTT
440082 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
440098 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
440113 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
440129 ACATATG
1 ACATATG
440136 AACAGTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
13 2 0.07
14 2 0.07
15 7 0.24
16 14 0.48
17 2 0.07
18 2 0.07
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:440118 original size:15 final size:15
Alignment explanation
Indices: 440098--440181 Score: 59
Period size: 15 Copynumber: 5.5 Consensus size: 15
440088 GTTTAAAGGC
440098 ACATATGAACAGTTT
1 ACATATGAACAGTTT
**
440113 ACATATGTTTAA-AG-GC
1 ACATATG---AACAGTTT
440129 ACATATGAACAGTTT
1 ACATATGAACAGTTT
*
440144 ACATATGTTTAA-AG-GT
1 ACATATG---AACAGTTT
440160 ACATATGAACAGTTT
1 ACATATGAACAGTTT
440175 ACATATG
1 ACATATG
440182 TTTAAAGGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 20
0.67 0.08 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 22 0.42
16 15 0.28
17 4 0.08
18 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (15 bp):
ACATATGAACAGTTT
Found at i:444097 original size:19 final size:19
Alignment explanation
Indices: 444075--444144 Score: 51
Period size: 19 Copynumber: 3.8 Consensus size: 19
444065 TTGTCCAGAT
444075 GGTACAGATTCCCCCAGGG
1 GGTACAGATTCCCCCAGGG
444094 GGTATC-GATT-CCCC---G
1 GGTA-CAGATTCCCCCAGGG
* *
444109 GGAACAAATTCCCCCCCAGGG
1 GGTACAGATT--CCCCCAGGG
*
444130 AGTACAGATTCCCCC
1 GGTACAGATTCCCCC
444145 TGCATGGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
14 1 0.03
15 7 0.18
18 8 0.21
19 13 0.34
20 1 0.03
21 8 0.21
ACGTcount: A:0.23, C:0.36, G:0.24, T:0.17
Consensus pattern (19 bp):
GGTACAGATTCCCCCAGGG
Found at i:444359 original size:21 final size:21
Alignment explanation
Indices: 444326--444365 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
444316 TTTTTGCAGA
*
444326 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
444348 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
444366 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:450659 original size:24 final size:24
Alignment explanation
Indices: 450632--450682 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
450622 GTTCGTGAAC
* *
450632 GTTCTTTTATGTTCGTTCGA-TTAT
1 GTTCGTTTATGTTCATTC-ATTTAT
450656 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCATTCATTTAT
450680 GTT
1 GTT
450683 TAACCCAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.14, C:0.12, G:0.16, T:0.59
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCATTTAT
Found at i:451569 original size:11 final size:12
Alignment explanation
Indices: 451540--451572 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
451530 GTCGAGCTCA
451540 GAATCGAGCTTT
1 GAATCGAGCTTT
451552 GAATCGAG-TTT
1 GAATCGAGCTTT
*
451563 TAATCGAGCT
1 GAATCGAGCT
451573 CTTAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (12 bp):
GAATCGAGCTTT
Found at i:451786 original size:16 final size:16
Alignment explanation
Indices: 451762--451825 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
451752 GGTCTCCAAC
451762 GTTTATGTTCGTTTAT
1 GTTTATGTTCGTTTAT
* **
451778 GTTTGTGTTAATTTAT
1 GTTTATGTTCGTTTAT
* *
451794 GTTCATGTTCGTGTT-C
1 GTTTATGTTCGT-TTAT
451810 GTTTATGTTCGTTTAT
1 GTTTATGTTCGTTTAT
451826 TTATTAAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
15 2 0.06
16 32 0.89
17 2 0.06
ACGTcount: A:0.12, C:0.08, G:0.20, T:0.59
Consensus pattern (16 bp):
GTTTATGTTCGTTTAT
Found at i:451807 original size:22 final size:22
Alignment explanation
Indices: 451776--451819 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
451766 ATGTTCGTTT
*
451776 ATGTTTGTGTTAATTTATGTTC
1 ATGTTCGTGTTAATTTATGTTC
**
451798 ATGTTCGTGTTCGTTTATGTTC
1 ATGTTCGTGTTAATTTATGTTC
451820 GTTTATTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.09, G:0.20, T:0.57
Consensus pattern (22 bp):
ATGTTCGTGTTAATTTATGTTC
Found at i:451915 original size:16 final size:16
Alignment explanation
Indices: 451891--451923 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
451881 AAAAAAAATT
*
451891 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
451907 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
451923 T
1 T
451924 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:453056 original size:182 final size:179
Alignment explanation
Indices: 452670--453122 Score: 746
Period size: 182 Copynumber: 2.5 Consensus size: 179
452660 ACTTTTTTAC
* *
452670 TACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
452735 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTCTTTTAAATTTCAAAAGTGT
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTCTTTTAAATTTCAAAAGTGT
* *
452800 CGATACTTATAATAAAGTATCGACACTTTCAACATATCCGACAGCTCTT
131 CGATACTTATAATAAAGTATCGACACTATCAACATATCCGACAGCGCTT
452849 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
452914 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTTAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAA---CTTCTCTTTTAAATTTCAAAAG
* **
452979 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
128 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGACAGCGCTT
* **
453031 TACCTGTTTTGTCATTTATAGACCGGTTTTGTCAT-TTGTTTACCTGTTATATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATT-TTTACCTGTTATATTGTTATGGATCG
*
453095 ATACATTTTTATAAAGTATCAACACTTT
65 ATACATTTTTATAAAGTATCGACACTTT
453123 CAATATAACT
Statistics
Matches: 257, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
179 102 0.40
181 2 0.01
182 153 0.60
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (179 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTCTTTTAAATTTCAAAAGTGT
CGATACTTATAATAAAGTATCGACACTATCAACATATCCGACAGCGCTT
Found at i:453188 original size:19 final size:20
Alignment explanation
Indices: 453141--453189 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
453131 CTAGTAGCGC
453141 TTTACCTGTTTTGTCATTTA
1 TTTACCTGTTTTGTCATTTA
**
453161 TAGACCTGTTTTGTCATTT-
1 TTTACCTGTTTTGTCATTTA
453180 TTTACCTGTT
1 TTTACCTGTT
453190 ATATTGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.14, C:0.16, G:0.12, T:0.57
Consensus pattern (20 bp):
TTTACCTGTTTTGTCATTTA
Found at i:453348 original size:113 final size:112
Alignment explanation
Indices: 452993--453419 Score: 649
Period size: 111 Copynumber: 3.8 Consensus size: 112
452983 GATACTTATA
* * *
452993 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
453058 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * ** *
453105 ATAAAGTATCAACACTTTCAATATAACTAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCTGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
453170 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
453216 ATAAAGTATCGACACTTTCAATATATCCGGTAGCACTTAACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
453281 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * *
453329 ATAAAGTATCGACACTTTCAATATATACGGTAGCGCTCTACCTGTTTTGTTATTTATAAACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
453394 TTTGTCATTTTTTTATCTATTATATT
66 TTTGTCATTTTTTTACCTGTTATATT
453420 ACCGGTTGTC
Statistics
Matches: 286, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
111 102 0.36
112 83 0.29
113 101 0.35
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:453386 original size:224 final size:223
Alignment explanation
Indices: 452993--453406 Score: 661
Period size: 224 Copynumber: 1.9 Consensus size: 223
452983 GATACTTATA
* * *
452993 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTAACCTGTTTTGTCATTTATAGACCGGT
*
453058 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACTTT
66 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTT
* *
453123 CAATATAACTAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCTG-TTTTGTCATTTTTTACCT
131 CAATATAACTAGTAGCGCTCTACCTGTTTTGTCATTTATAAACC-GATTTTGTCATTTTTTACCT
453187 GTTATATTGTTATGGATCGATACATTTTT
195 GTTATATTGTTATGGATCGATACATTTTT
* * *
453216 ATAAAGTATCGACACTTTCAATATATCCGGTAGCACTTAACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTAACCTGTTTTGTCATTTATAGACCGGT
* * *
453281 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTTATAAAGTATCGACACTT
66 TTTGTCA-TTTGTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTT
* *
453346 TCAATATATAC-GGTAGCGCTCTACCTGTTTTGTTATTTATAAACCGATTTTGTCATTTTTT
130 TCAATATA-ACTAGTAGCGCTCTACCTGTTTTGTCATTTATAAACCGATTTTGTCATTTTTT
453407 TATCTATTAT
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
223 67 0.39
224 105 0.60
225 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (223 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCACTTAACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCAATACATTTTTATAAAGTATCAACACTTT
CAATATAACTAGTAGCGCTCTACCTGTTTTGTCATTTATAAACCGATTTTGTCATTTTTTACCTG
TTATATTGTTATGGATCGATACATTTTT
Found at i:458118 original size:34 final size:34
Alignment explanation
Indices: 458075--458144 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
458065 TTTCGTCTTA
458075 TTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 TTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
458109 TTAGGATTCAAACTCCTAAAGATATGATAGAATT
1 TTAGGATTCAAACTCCTAAAAATAGGATAAAATT
458143 TT
1 TT
458145 GCTAGGATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (34 bp):
TTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:458199 original size:34 final size:34
Alignment explanation
Indices: 458084--458200 Score: 93
Period size: 34 Copynumber: 3.6 Consensus size: 34
458074 ATTAGGATTC
*
458084 AAACTCCTAAAAATAGGATAAAATTTTAGGAT-T
1 AAACTCCTAAAAATAGGATAAAATTTTATGATCT
* * *
458117 CAAACTCCTAAAGATATGATAGAA-TTT-TG--CT
1 -AAACTCCTAAAAATAGGATAAAATTTTATGATCT
* * * *
458148 AGGA-TTCAAAAAATAGGATATAATTTTATGATCT
1 A-AACTCCTAAAAATAGGATAAAATTTTATGATCT
*
458182 AAACTCCTAAAGATAGGAT
1 AAACTCCTAAAAATAGGAT
458201 CCACAAGCAC
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
30 15 0.24
31 5 0.08
32 3 0.05
33 4 0.06
34 35 0.56
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (34 bp):
AAACTCCTAAAAATAGGATAAAATTTTATGATCT
Found at i:458597 original size:18 final size:17
Alignment explanation
Indices: 458558--458600 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
458548 ATTATATGGA
*
458558 TATT-TTATTTATTTAT
1 TATTATTATTCATTTAT
*
458574 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
458592 TATTATTAT
1 TATTATTAT
458601 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:458662 original size:2 final size:2
Alignment explanation
Indices: 458655--458685 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
458645 ATTTTACTAT
458655 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
458686 TTTTTCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:459120 original size:2 final size:2
Alignment explanation
Indices: 459113--459140 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
459103 TAATACTTTG
459113 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
459141 TTTTCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:462911 original size:16 final size:16
Alignment explanation
Indices: 462885--462936 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
462875 AGATCCAATC
462885 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
462900 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
* *
462917 AA-AAAAAACAAAGAAA
1 AAGAACAAA-AAAGCAA
462933 AAGA
1 AAGA
462937 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 8 0.26
16 18 0.58
17 5 0.16
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:462933 original size:22 final size:22
Alignment explanation
Indices: 462908--462988 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
462898 AAAAGAAGCA
462908 AAAAAGCA-AAAAAAAAACAAAG
1 AAAAAG-AGAAAAAAAAACAAAG
* * *
462930 AAAAAGAGAAACAAGAACAAAA
1 AAAAAGAGAAAAAAAAACAAAG
*
462952 AAAAAGAGAAAAAATCAA-AAAG
1 AAAAAGAGAAAAAA-AAACAAAG
* *
462974 AAAAAGGGACAAAAA
1 AAAAAGAGAAAAAAA
462989 GCACATGCAA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 1 0.02
22 45 0.94
23 2 0.04
ACGTcount: A:0.78, C:0.07, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAAGAGAAAAAAAAACAAAG
Found at i:463637 original size:22 final size:22
Alignment explanation
Indices: 463609--463663 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
463599 GCTATCCCAT
463609 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
463631 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
463653 CAAACCTTTGA
1 CAAACCTTTGA
463664 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:464570 original size:36 final size:36
Alignment explanation
Indices: 464523--464627 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
464513 GTGCTCACTA
464523 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
*
464559 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
464596 TTGTCTCCCTTAAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
464628 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 32 0.50
37 32 0.50
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:464612 original size:37 final size:37
Alignment explanation
Indices: 464523--464632 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
464513 GTGCTCACTA
464523 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
464559 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
464596 TTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
464633 ATTGAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 31 0.46
37 33 0.49
38 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:464717 original size:102 final size:102
Alignment explanation
Indices: 464541--465137 Score: 1043
Period size: 102 Copynumber: 5.9 Consensus size: 102
464531 CTTGAGACAG
** * *
464541 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
464606 TAAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * * *
464643 TTTCCCTTGAAATGAGTTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
464708 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
464745 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
464810 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
464847 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTTCTCCC
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTG-TCTCCC
*
464912 TTGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
65 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
464950 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
465015 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
465052 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
465116 TGAGACAGTTTCTCTTAAAACA
66 TGAGACAGTTTCTCTTGAAACA
465138 CAAAACCTTT
Statistics
Matches: 472, Mismatches: 22, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
101 35 0.07
102 336 0.71
103 101 0.21
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:464792 original size:36 final size:37
Alignment explanation
Indices: 464745--464831 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
464735 ATTGGAAACA
** * *
464745 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
464781 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
464818 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
464832 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:464894 original size:36 final size:38
Alignment explanation
Indices: 464847--464934 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 38
464837 ATTGAAAACA
** * *
464847 TTTCCCTTGAAA-TGAATTTTG-TCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTTCTCCCTTGAGACAG
464883 TTTCCCTTGAAACAAAATTTTGTTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTTCTCCCTTGAGACAG
*
464921 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
464935 TAAACATTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
36 12 0.27
37 7 0.16
38 26 0.58
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (38 bp):
TTTCCCTTGAAACAAAATTTTGTTCTCCCTTGAGACAG
Found at i:464997 original size:36 final size:37
Alignment explanation
Indices: 464950--465036 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
464940 ATTGGAAACA
** * *
464950 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
464986 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
465023 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
465037 TAAACATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 12 0.27
37 31 0.69
38 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:465014 original size:205 final size:204
Alignment explanation
Indices: 464541--465137 Score: 1061
Period size: 205 Copynumber: 2.9 Consensus size: 204
464531 CTTGAGACAG
** * *
464541 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * *
464606 TAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTTTCTCTCT
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
* *
464671 TGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACA
131 TGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
464736 TTGGAAACA
196 TTGGAAACA
464745 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
464810 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
464875 TGAGATAGTTTCCCTTGAAACAAAATTTTGTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
131 TGAGATAGTTTCCCTTGAAACAAAATTTTG-TCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
464940 ATTGGAAACA
195 ATTGGAAACA
464950 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
465015 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
* *
465080 TGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACA
131 TGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
465138 CAAAACCTTT
Statistics
Matches: 379, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
203 28 0.07
204 160 0.42
205 191 0.50
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (204 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
TGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
TTGGAAACA
Found at i:465094 original size:307 final size:305
Alignment explanation
Indices: 464541--465204 Score: 1058
Period size: 307 Copynumber: 2.2 Consensus size: 305
464531 CTTGAGACAG
464541 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* *
464606 TAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTTTCTCTCT
66 TAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
*
464671 TGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACA
131 TGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCATTGAGACAGTTTCTCCTGAAACATAAACA
* * *
464736 TTGGAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTT
196 TTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTT
*
464801 TGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
260 TGTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTGAAAACA
** * *
464847 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTTCTCCC
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTG-TCTCCC
* *
464912 TTGAGACAGTTTCTCTTGAAACATAAACATTGGAAACATTTCCCTTGAAATGAATTTTGTCTCTC
65 TTAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTC
* *
464977 TTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCCTGAAACATAAAC
130 TTGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCATTGAGACAGTTTCTCCTGAAACATAAAC
465042 ATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAACAAATTT
195 ATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAACAAATTT
* * * ***
465107 TGTCTCCCTTGAGACAGTTTCTCTTAAAACACAAAACCTTTGAGATTG
260 TGTCTCCCTTGAGACAGTTTCTCTTAAAACA-TAAA-CATTGAAAACA
* * * * *
465155 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
465205 CAAAATCTTT
Statistics
Matches: 327, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
306 90 0.28
307 188 0.57
308 49 0.15
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (305 bp):
TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TAAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCT
TGAGATAGTTTCCCTTGAAACAAAATTTCGTCTCCATTGAGACAGTTTCTCCTGAAACATAAACA
TTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAACAAATTTT
GTCTCCCTTGAGACAGTTTCTCTTAAAACATAAACATTGAAAACA
Found at i:465098 original size:36 final size:36
Alignment explanation
Indices: 465051--465120 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
465041 CATTGAAAAC
** *
465051 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
*
465087 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
465121 CAGTTTCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGATA
Found at i:465137 original size:36 final size:36
Alignment explanation
Indices: 465051--465137 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
465041 CATTGAAAAC
* ** * *
465051 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTTAAAACAAATTTCGTCTCCCTTGAGACA
* *
465087 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTAAAACAAATTTCGTCTCCCTTGAGACA
* *
465123 GTTTCTCTTAAAACA
1 ATTTCCCTTAAAACA
465138 CAAAACCTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (36 bp):
ATTTCCCTTAAAACAAATTTCGTCTCCCTTGAGACA
Found at i:465228 original size:67 final size:67
Alignment explanation
Indices: 465079--465237 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
465069 TTCGTCTCTC
** *
465079 TTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTAAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTAAAACACAAAAC
465144 CT
66 CT
* * *
465146 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAT
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTAAAACACAAAAC
465211 CT
66 CT
*
465213 TTGA-ATT-TATCTCCCTTAAAACAAA
1 TTGAGATTGT-T-TCCCTTGAAACAAA
465238 ATTTCGTTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 77 0.94
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTAAAACACAAAAC
CT
Found at i:466006 original size:109 final size:109
Alignment explanation
Indices: 465816--466287 Score: 605
Period size: 109 Copynumber: 4.4 Consensus size: 109
465806 TAGCTAGAGT
* * *
465816 CAAGTTCAACTTCACAACGAAGGGACGTCTGGTTGCCAAC-AACAATTTCCCAATTTCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCG
*
465880 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCAAGACAACA
66 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* *
465924 CAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACGAACAACTTCCCAATTCCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCG
*
465989 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGAAAACA
66 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* * * ** * **
466033 CAAGTCCAACTTCACAACGAAGGGACGACTGGTTGTCAATGAACAACTTTTCAGTTTCA-TCCGC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAAC-C
* *
466097 GATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACA
65 GATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
* * * ** * * * *
466142 CAAGTTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCG
* * * *
466207 ATTTCAACTTCAC-AGCGAAGGATAT--TG-GACTCGAGACAACA
66 ATTTCAACTCCACGA-CGGAGGATATCGTGCTACCCGAGACAACA
*
466248 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC
466288 AAGATTTCGT
Statistics
Matches: 320, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
106 50 0.16
107 2 0.01
108 39 0.12
109 228 0.71
110 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (109 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTCCCAATTTCAGAACCG
ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACA
Found at i:466284 original size:106 final size:107
Alignment explanation
Indices: 465816--466445 Score: 590
Period size: 109 Copynumber: 5.9 Consensus size: 107
465806 TAGCTAGAGT
* * *
465816 CAAGTTCAACTTCACAACGAAGGGACGTCTGGTTGCCAACAACAATTTCCCAATTTCAGAACCGA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
* * *
465881 TTTCAACTCCACGACGGAGGATATCGTGCTACCCAAGACAACA
66 TTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * *
465924 CAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACGAACAACTTCCCAATTCCAGAACCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
* * *
465989 ATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGAAAACA
65 ATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * * **
466033 CAAGTCCAACTTCACAACGAAGGGACGACTGGTTGTCAATGAACAACTTT-TCAGTTTCA-TCCG
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAACAA-TTTCCCAATTTCAGAAC-
* *
466096 CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACA
63 CAATTTCAACTCCACGACGGAGGATATC-TGCGACTCGAGACAACA
* * * * * *
466142 CAAGTTCAACTTCACAATGAAGGGACAGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
* *
466207 ATTTCAACTTCAC-AGCGAAGGATAT-TG-GACTCGAGACAACA
65 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCGAGACAACA
* * * **
466248 CAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAA-GATTT--C--GTTCAGAGTCAA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
* * * ** *
466308 TTTCAACTTCAC-A-GCGA-AATATATTAGACTCGAGACAGCA
66 TTTCAACTCCACGACG-GAGGATATCTGCGACTCGAGACAACA
* * * ** * * *
466348 CAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCATCAAACAATTTCCCGATTCCAGAACCA
1 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AACAATTTCCCAATTTCAGAACCA
*
466413 ATTTCAACTTCAC-AGCGGAGGATAT-TG-GACTCG
65 ATTTCAACTCCACGA-CGGAGGATATCTGCGACTCG
466446 GAACAATATT
Statistics
Matches: 443, Mismatches: 59, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
98 5 0.01
99 2 0.00
100 71 0.16
101 2 0.00
102 4 0.01
104 4 0.01
105 2 0.00
106 77 0.17
107 5 0.01
108 47 0.11
109 221 0.50
110 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (107 bp):
CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAACAATTTCCCAATTTCAGAACCAA
TTTCAACTCCACGACGGAGGATATCTGCGACTCGAGACAACA
Found at i:466950 original size:34 final size:34
Alignment explanation
Indices: 466907--467031 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
466897 TTCGTCCTAC
466907 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
466941 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
466976 GCTAGGATTC--A-----AAAAATATGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
467005 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
467032 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 14 0.19
34 38 0.51
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:467428 original size:18 final size:17
Alignment explanation
Indices: 467389--467431 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
467379 ATTATATGGA
467389 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
467405 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
467423 TATTATTAT
1 TATTATTAT
467432 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:478022 original size:15 final size:15
Alignment explanation
Indices: 478002--478033 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
477992 GAAAAATGGT
478002 TTTCAAAAGGGAAGG
1 TTTCAAAAGGGAAGG
478017 TTTCAAAAGGGAAGG
1 TTTCAAAAGGGAAGG
478032 TT
1 TT
478034 GACACTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (15 bp):
TTTCAAAAGGGAAGG
Found at i:479323 original size:22 final size:23
Alignment explanation
Indices: 479297--479357 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
479287 ATAGGGCAGA
479297 GGGAATCGATACCCCC-TTGAAG
1 GGGAATCGATACCCCCTTTGAAG
* *
479319 GGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCCTTTGAAG
479342 GGGAATCGATACCCCC
1 GGGAATCGATACCCCC
479358 CTAGGGTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.41
23 20 0.59
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (23 bp):
GGGAATCGATACCCCCTTTGAAG
Found at i:481963 original size:23 final size:22
Alignment explanation
Indices: 481937--481987 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
481927 AGGGAACTGA
481937 TTCCACCCCAAGGGGGTACCTAT
1 TTCC-CCCCAAGGGGGTACCTAT
481960 TTCCCCCCAAGGGGGTACCTA-
1 TTCCCCCCAAGGGGGTACCTAT
481981 TTCCCCC
1 TTCCCCC
481988 TGAATGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 7 0.25
22 17 0.61
23 4 0.14
ACGTcount: A:0.18, C:0.41, G:0.20, T:0.22
Consensus pattern (22 bp):
TTCCCCCCAAGGGGGTACCTAT
Found at i:483817 original size:19 final size:20
Alignment explanation
Indices: 483779--483817 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
483769 TTCTATTTAT
*
483779 AAAATTAAAAGATTGATGATC
1 AAAATAAAAAGA-TGATGATC
483800 AAAATAAAAAGA-GATGAT
1 AAAATAAAAAGATGATGAT
483818 AATTAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.59, C:0.03, G:0.15, T:0.23
Consensus pattern (20 bp):
AAAATAAAAAGATGATGATC
Found at i:485915 original size:2 final size:2
Alignment explanation
Indices: 485908--485958 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
485898 GACTATTAGT
485908 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
485950 TA TA TA TA T
1 TA TA TA TA T
485959 TATGTCTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:493610 original size:18 final size:20
Alignment explanation
Indices: 493587--493624 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
493577 TCGAGGGCTT
493587 GAATTT-TAAGC-TAAGAAA
1 GAATTTCTAAGCTTAAGAAA
*
493605 GAATTTCTTAGCTTAAGAAA
1 GAATTTCTAAGCTTAAGAAA
493625 CCAATTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (20 bp):
GAATTTCTAAGCTTAAGAAA
Found at i:497813 original size:15 final size:16
Alignment explanation
Indices: 497793--497833 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
497783 GTCTACTTCA
*
497793 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
497808 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
497824 GAATGATTCA
1 GAATGATTCA
497834 GAGGCTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:497936 original size:23 final size:23
Alignment explanation
Indices: 497910--497975 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
497900 TGTACTTCTG
497910 TGCTAAATCATTCAACACTGTTT
1 TGCTAAATCATTCAACACTGTTT
*
497933 TGCTGAATCATTCAACACTGTTT
1 TGCTAAATCATTCAACACTGTTT
*
497956 TGCTAAATCAGTCAACACTG
1 TGCTAAATCATTCAACACTG
497976 AATCATTCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (23 bp):
TGCTAAATCATTCAACACTGTTT
Found at i:499048 original size:3 final size:3
Alignment explanation
Indices: 499042--499080 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
499032 TCATTTCGTT
*
499042 TTA TTA TTA ATA TTA TTA TTA -TA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
499081 AATAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:499062 original size:15 final size:15
Alignment explanation
Indices: 499042--499081 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
499032 TCATTTCGTT
499042 TTATTATTAATATTA
1 TTATTATTAATATTA
499057 TTATTA-TATATATTA
1 TTATTATTA-ATATTA
499072 TTATTATTAA
1 TTATTATTAA
499082 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 19 0.83
16 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTAATATTA
Found at i:501134 original size:25 final size:24
Alignment explanation
Indices: 501105--501160 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
501095 TCTAATATTT
501105 TTAAATAAATAAATATATTATTATA
1 TTAAATAAATAAAT-TATTATTATA
** *
501130 TTAAAATAAATTTATTATTATTATT
1 TT-AAATAAATAAATTATTATTATA
501155 TTAAAT
1 TTAAAT
501161 GTTTTAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 13 0.48
26 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAATAAATAAATTATTATTATA
Found at i:501878 original size:28 final size:25
Alignment explanation
Indices: 501847--501901 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
501837 TTCAAAATTA
501847 TTATATATACTTATTATTTTCATAATAT
1 TTATATATA--TATTATTTT-ATAATAT
* *
501875 TTATATGTATATTATTTTTTAATAT
1 TTATATATATATTATTTTATAATAT
501900 TT
1 TT
501902 TTATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 9 0.36
28 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATATATATATTATTTTATAATAT
Found at i:506790 original size:25 final size:25
Alignment explanation
Indices: 506744--506791 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
506734 ATACTCATTC
* **
506744 AAAAAAATAAAAAAAGGGAAAAATG
1 AAAAAAAGAAAAAAAGAAAAAAATG
506769 AAAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAAGAAAAAAAGAAAAAAA
506792 AATTGAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAGAAAAAAATG
Found at i:506792 original size:9 final size:8
Alignment explanation
Indices: 506744--506791 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
506734 ATACTCATTC
*
506744 AAAAAAAT
1 AAAAAAAG
506752 AAAAAAAGG
1 AAAAAAA-G
* *
506761 GAAAAATG
1 AAAAAAAG
506769 AAAAAAAG
1 AAAAAAAG
506777 AAAAAAAG
1 AAAAAAAG
506785 AAAAAAA
1 AAAAAAA
506792 AATTGAATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 29 0.85
9 5 0.15
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:511592 original size:22 final size:23
Alignment explanation
Indices: 511542--511592 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
511532 ATCTATACTC
* *
511542 TTCAAAGATGATAGATTCTCTCT
1 TTCAAAGATGATAAATTATCTCT
*
511565 TT-AAAGATGATAAATTAT-TTT
1 TTCAAAGATGATAAATTATCTCT
511586 TTCAAAG
1 TTCAAAG
511593 TTGAAAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 18 0.75
23 2 0.08
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (23 bp):
TTCAAAGATGATAAATTATCTCT
Found at i:512367 original size:46 final size:45
Alignment explanation
Indices: 512253--513038 Score: 953
Period size: 46 Copynumber: 17.0 Consensus size: 45
512243 CTATTTCCAA
* * * *
512253 CATCTGTAAGTCCTTCAGTGCATGATATTATCAAAAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTT-T--TAAAAACCTTCGGGT
*
512301 CATCTGTAAGCCCTTTAGTGCATGATGTTATTAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTAAAAACCTTCGGGT
* * * *
512347 CATCTATAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTCCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAAACCTTCGGGT
* * *
512393 CATCTATAAGCCCTTCAGTGCATGATGTTATCAAAAACCTCCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTAAAAACCTTCGGGT
* * * *
512439 CATATGTAAGCCCTTCAGTGCATGATGTTATCAAAAACCTCCAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTAAAAACCTTCGGGT
* *
512485 CATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTAAAAACCTTCGGGT
*
512531 CATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTAAAAACCTTCGGGT
*
512577 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACC-TCTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAAACCTTC-GGGT
* *
512623 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCGGGT
* * *
512668 CATCTGTAAGACCTTTAGTGCTTGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAAACCTTCGGGT
*
512714 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAAAAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-----AAAAACCTTCGGGT
* *
512764 CATTTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT--AAAAACCTTCGGGT
* *
512811 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCGGGT
* *
512856 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCGGGT
* * *
512901 CATCTGTAAGCCCTTAAGTTCTTGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAAACCTTCGGGT
* * *
512947 CATCTGTAAGCCCTTTAGTGCATGATGCTTTCAAAACCTTCGAGGT
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCG-GGT
** * ** * *
512993 CATCCATAAGACCAGCAGTGTAGGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTT-AAAAA-CCTTCGGG
513039 AGCTTTTTTG
Statistics
Matches: 667, Mismatches: 57, Indels: 29
0.89 0.08 0.04
Matches are distributed among these distances:
45 140 0.21
46 400 0.60
47 51 0.08
48 34 0.05
50 42 0.06
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTAAAAACCTTCGGGT
Found at i:513279 original size:3 final size:3
Alignment explanation
Indices: 513273--513313 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
513263 TCATTTCGTT
*
513273 TTA TTA TTA ATA TTA TTA TTA TATA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA
513314 AATAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:513304 original size:17 final size:15
Alignment explanation
Indices: 513273--513314 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 15
513263 TCATTTCGTT
513273 TTATTATTAATATTA
1 TTATTATTAATATTA
513288 TTATTATATATATATTA
1 TTATTAT-TA-ATATTA
513305 TTATTATTAA
1 TTATTATTAA
513315 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.32
16 4 0.16
17 13 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATTAATATTA
Found at i:514979 original size:33 final size:35
Alignment explanation
Indices: 514942--515014 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 35
514932 GGTAAATACC
* *
514942 ATAATTAG-TCCTTAATGTTT-TTTTATATATTTT
1 ATAATTAGTTCCATAATGTTTATTTTATATACTTT
* *
514975 ATAA-TAGTTCGATAATTTTTATTTTATATACTTT
1 ATAATTAGTTCCATAATGTTTATTTTATATACTTT
*
515009 ACAATT
1 ATAATT
515015 TAATTTTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
32 3 0.09
33 13 0.41
34 15 0.47
35 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (35 bp):
ATAATTAGTTCCATAATGTTTATTTTATATACTTT
Found at i:515077 original size:19 final size:20
Alignment explanation
Indices: 515055--515116 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 20
515045 TTATTTATAA
515055 TATATTTTATTATTACTT-T
1 TATATTTTATTATTACTTAT
** *
515074 TATATTCAATTATTGCTTCAAT
1 TATATTTTATTATTACTT--AT
515096 TATTATTTTATTATTATCTTA
1 TA-TATTTTATTATTA-CTTA
515117 GTCATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
19 15 0.47
22 4 0.12
23 10 0.31
24 3 0.09
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATTTTATTATTACTTAT
Found at i:523997 original size:17 final size:17
Alignment explanation
Indices: 523975--524034 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
523965 GTTGAATAAG
523975 TTCTTCTCATTACGAAC
1 TTCTTCTCATTACGAAC
*
523992 TTCTTCTTC-TT-CAGATGAG
1 TTCTTC-TCATTAC-GA--AC
*
524011 TTCTTCTCATTATGAAC
1 TTCTTCTCATTACGAAC
524028 TTCTTCT
1 TTCTTCT
524035 GGCAAAGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
16 1 0.03
17 18 0.53
18 4 0.12
19 11 0.32
ACGTcount: A:0.18, C:0.25, G:0.08, T:0.48
Consensus pattern (17 bp):
TTCTTCTCATTACGAAC
Found at i:524111 original size:103 final size:101
Alignment explanation
Indices: 523997--524298 Score: 317
Period size: 102 Copynumber: 2.9 Consensus size: 101
523987 CGAACTTCTT
* * *
523997 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGCAAAGTTGATGTTGATCTACCTTAT
1 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGG-AAAGTTGAT-TTGATCTACCTTCT
524062 GTGATAGAATCAAGCAAAAGGTTGAACAAGTTCTCCTC
64 GTGATAGAATCAAGCAAAAGGTTGAACAAGTTCTCCTC
* * *** *
524100 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCGTTGGGGATGACAATTT-ATCT-TCTTC
1 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTC--T-GGAAAGTTGATTTGATCTACCTTC
* * * *
524163 TGTGAT-GTAATCTAGCAAAAAGTTGAACAAATTCTCTTC
63 TGTGATAG-AATCAAGCAAAAGGTTGAACAAGTTCTCCTC
* *
524202 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTATGGAAA-TACTGATACTGATCTATCTCA
1 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAAGT--TGAT-TTGATCTA-C-C-
*
524266 TTCTGTGATAGAATCAAAC-AAAGGTTGAACAAG
60 TTCTGTGATAGAATCAAGCAAAAGGTTGAACAAG
524299 CTCTTCTCAT
Statistics
Matches: 161, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
99 3 0.02
100 3 0.02
101 2 0.01
102 76 0.47
103 39 0.24
104 2 0.01
105 18 0.11
106 17 0.11
107 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (101 bp):
CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTTTCTGGAAAGTTGATTTGATCTACCTTCTGT
GATAGAATCAAGCAAAAGGTTGAACAAGTTCTCCTC
Found at i:524602 original size:113 final size:113
Alignment explanation
Indices: 524405--524966 Score: 1027
Period size: 113 Copynumber: 5.0 Consensus size: 113
524395 ATAGAGTCGT
* *
524405 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
524469 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
524517 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
524582 ATTATGAACTTTCTCTGGAAAATTTGATCCATCGAATGATGAATTTAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
524630 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
524695 ATTATGAACTTTCTCTGGAAAAGTTAATCCATCGAATGATGAATTTAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
* *
524743 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
524808 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
* *
524856 GCAAAAAGTTGAACAAGTTCTTCTCTTTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
524921 ATTATGAACTTTCTCTGGAAAAGTTTATCCATCAAATGATGAATTT
66 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTT
524967 GAATCTTTGC
Statistics
Matches: 437, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
112 42 0.10
113 395 0.90
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAA
Found at i:524756 original size:226 final size:226
Alignment explanation
Indices: 524289--524966 Score: 1065
Period size: 226 Copynumber: 3.0 Consensus size: 226
524279 TCAAACAAAG
*
524289 GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * *** * * *
524354 ACTTTCTCTGAAAAATTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGT--GCAAAAGGTTGA
66 ACTTTCTCTGGAAAA-T--T--TGATCCA--T-CGAAT--GAT-GAAT-TTAAGCAAAAAGTTGA
*
524417 ACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTTT
119 ACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
*
524481 CTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAAAAA
184 CTCTGGAAAAGTTAATCCATCGAATGATGAATTTAAGCAAAAA
524524 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
524589 ACTTTCTCTGGAAAATTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
66 ACTTTCTCTGGAAAATTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
524654 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT
131 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT
524719 TAATCCATCGAATGATGAATTTAAGCAAAAA
196 TAATCCATCGAATGATGAATTTAAGCAAAAA
* *
524750 GTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCATTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
524815 ACTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
66 ACTTTCTCTGGAAAATTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
* *
524880 CTTTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT
131 CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT
* *
524945 TTATCCATCAAATGATGAATTT
196 TAATCCATCGAATGATGAATTT
524967 GAATCTTTGC
Statistics
Matches: 422, Mismatches: 18, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
223 1 0.00
224 3 0.01
225 45 0.11
226 284 0.67
227 2 0.00
228 1 0.00
230 6 0.01
232 1 0.00
234 1 0.00
235 78 0.18
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (226 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTCTCTGGAAAATTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT
TAATCCATCGAATGATGAATTTAAGCAAAAA
Found at i:524868 original size:339 final size:344
Alignment explanation
Indices: 524289--524966 Score: 1077
Period size: 339 Copynumber: 2.0 Consensus size: 344
524279 TCAAACAAAG
524289 GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * *** * *
524354 ACTTTCTCTGAAAAATTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGTGCAAAAGGTTGAAC
66 ACTTTCTCTGAAAAA-TGAT-CTAATCCA-CTCCGAAT-CGATAGAATCGTGCAAAAAGTTGAAC
*
524419 AAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
127 AAGCTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
524484 TGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
192 TGGAAAAGTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
*
524549 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-TTTGATCCA
257 ACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTT-ATCCA
*
524613 TCGAATGATGAATTTAAGCAAAAA
321 TCAAATGATGAATTTAAGCAAAAA
*
524637 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
524702 ACTTTCTCTGGAAAA-G-T-TAATCCA-T-CGAAT-GAT-GAAT-TTAAGCAAAAAGTTGAACAA
66 ACTTTCTCTGAAAAATGATCTAATCCACTCCGAATCGATAGAATCGT--GCAAAAAGTTGAACAA
* *
524759 GTTCTTCTCATTATGAACTTCTTATTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
129 GCTCTTCTCATTATGAACTTCTTATTC-CTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
*
524824 GGAAAAGTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCTTTATGAA
193 GGAAAAGTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAA
524889 CTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTTATCCATC
258 CTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTTATCCATC
524954 AAATGATGAATTT
323 AAATGATGAATTT
524967 GAATCTTTGC
Statistics
Matches: 310, Mismatches: 16, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
336 1 0.00
337 3 0.01
338 43 0.14
339 172 0.55
340 5 0.02
341 1 0.00
343 5 0.02
345 1 0.00
346 1 0.00
348 78 0.25
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (344 bp):
GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTCTCTGAAAAATGATCTAATCCACTCCGAATCGATAGAATCGTGCAAAAAGTTGAACAAGC
TCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
AAAGTTGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT
CTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTTATCCATCAAA
TGATGAATTTAAGCAAAAA
Found at i:527751 original size:114 final size:114
Alignment explanation
Indices: 527592--527813 Score: 354
Period size: 114 Copynumber: 1.9 Consensus size: 114
527582 ATGCAGTTCA
* * * *
527592 TCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTTAAAGAACAC
1 TCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
* * *
527657 TTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGAAAATTCG
66 TTCCAGAAGATACTATTGGGGCTCCTTATTTCTACTACGAGAAAATTCG
* * *
527706 TCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAACGAACAC
1 TCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
527771 TTCCAGAAGATACTATTGGGGCTCCTTATTTCTACTACGAGAA
66 TTCCAGAAGATACTATTGGGGCTCCTTATTTCTACTACGAGAA
527814 CGTGGCACTT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (114 bp):
TCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATACTATTGGGGCTCCTTATTTCTACTACGAGAAAATTCG
Found at i:530066 original size:22 final size:22
Alignment explanation
Indices: 530023--530067 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
530013 CTTTTTCATC
*
530023 TTTTTTTTCTTTCTTTGTTGGA
1 TTTTTTTTCTTTCTTTGCTGGA
530045 TTTTTTTTCTTTCTTTGCTGGA
1 TTTTTTTTCTTTCTTTGCTGGA
530067 T
1 T
530068 GAGTATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.11, G:0.13, T:0.71
Consensus pattern (22 bp):
TTTTTTTTCTTTCTTTGCTGGA
Found at i:533694 original size:13 final size:13
Alignment explanation
Indices: 533673--533729 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
533663 CAAAGATGCC
533673 AATGCAAATGTAA
1 AATGCAAATGTAA
*
533686 AATGTAAATGT-A
1 AATGCAAATGTAA
* *
533698 AATACAAACGTAA
1 AATGCAAATGTAA
533711 AA---AAATGTACA
1 AATGCAAATGTA-A
533722 AATGCAAA
1 AATGCAAA
533730 ATACAAATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 9 0.26
13 13 0.38
14 3 0.09
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
AATGCAAATGTAA
Found at i:536283 original size:28 final size:28
Alignment explanation
Indices: 536251--536326 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 28
536241 TTATATGACT
* **
536251 ATATAATAATAATAAAAATAATATTTAA
1 ATATAATAATAATAAAAATAAAACATAA
* *
536279 ATAT-ATAAACAAGTAAAATTAAAACATAA
1 ATATAAT-AATAA-TAAAAATAAAACATAA
*
536308 ATA-AACAATAATAAAAATA
1 ATATAATAATAATAAAAATA
536327 CAATTAGAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 7
0.71 0.15 0.13
Matches are distributed among these distances:
27 9 0.24
28 12 0.32
29 16 0.43
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (28 bp):
ATATAATAATAATAAAAATAAAACATAA
Found at i:540977 original size:35 final size:35
Alignment explanation
Indices: 540931--541001 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
540921 GGTCGGGAGA
540931 TGAGAGGAAACGGCGCCGTTTAGAAGGACGCGAGC
1 TGAGAGGAAACGGCGCCGTTTAGAAGGACGCGAGC
540966 TGAGAGGAAACGGCGCCGTTTAGAAGGACGCGAGC
1 TGAGAGGAAACGGCGCCGTTTAGAAGGACGCGAGC
541001 T
1 T
541002 CGATATATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.39, T:0.13
Consensus pattern (35 bp):
TGAGAGGAAACGGCGCCGTTTAGAAGGACGCGAGC
Found at i:542585 original size:14 final size:14
Alignment explanation
Indices: 542551--542600 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
542541 CCCGCCCCGA
542551 TTATATATATATATAT
1 TTATATATA-ATAT-T
*
542567 ATATATATAATATT
1 TTATATATAATATT
* *
542581 TTATATTTTATATT
1 TTATATATAATATT
542595 TTATAT
1 TTATAT
542601 TTTTTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 4 0.13
16 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATATATAATATT
Found at i:542586 original size:7 final size:7
Alignment explanation
Indices: 542576--542637 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
542566 TATATATATA
542576 ATATTTT
1 ATATTTT
542583 ATATTTT
1 ATATTTT
542590 ATATTTT
1 ATATTTT
542597 ATATTTT
1 ATATTTT
* *
542604 TTATATT
1 ATATTTT
*
542611 A-ATTAT
1 ATATTTT
*
542617 ATA-TAT
1 ATATTTT
542623 AGTATTTT
1 A-TATTTT
542631 ATATTTT
1 ATATTTT
542638 TTATATTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
6 8 0.17
7 35 0.76
8 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (7 bp):
ATATTTT
Found at i:542650 original size:9 final size:8
Alignment explanation
Indices: 542550--542652 Score: 54
Period size: 9 Copynumber: 12.2 Consensus size: 8
542540 TCCCGCCCCG
542550 ATTATATAT
1 ATTAT-TAT
542559 ATATATATAT
1 AT-TAT-TAT
*
542569 ATATATAAT
1 AT-TATTAT
542578 ATT-TTAT
1 ATTATTAT
542585 ATT-TTAT
1 ATTATTAT
542592 ATT-TTAT
1 ATTATTAT
*
542599 ATTTTTTAT
1 A-TTATTAT
542608 ATTAATTAT
1 ATT-ATTAT
542617 A-TATATAGT
1 ATTAT-TA-T
542626 ATT-TTAT
1 ATTATTAT
*
542633 ATTTTTTAT
1 A-TTATTAT
542642 ATTAATTAT
1 ATT-ATTAT
542651 AT
1 AT
542653 AAAAAATATT
Statistics
Matches: 80, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
7 22 0.28
8 14 0.17
9 30 0.38
10 14 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (8 bp):
ATTATTAT
Found at i:542663 original size:34 final size:34
Alignment explanation
Indices: 542590--542664 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
542580 TTTATATTTT
* *
542590 ATATTTTATATTTTTTATATTAATTATATATATA
1 ATATTTTATATTTTTTATATTAATTATATAAAAA
*
542624 GTATTTTATATTTTTTATATTAATTATATAAAAA
1 ATATTTTATATTTTTTATATTAATTATATAAAAA
542658 ATATTTT
1 ATATTTT
542665 CGGGTTCGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (34 bp):
ATATTTTATATTTTTTATATTAATTATATAAAAA
Found at i:543428 original size:26 final size:27
Alignment explanation
Indices: 543389--543439 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
543379 GATGATGATA
543389 ATAAATATTTTATA-ATTTAAAAAATT
1 ATAAATATTTTATATATTTAAAAAATT
*
543415 ATAAAT-TTTATATATTTTTAAAAAA
1 ATAAATATTT-TATATATTTAAAAAA
543440 AATTATTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 10 0.45
27 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATAAATATTTTATATATTTAAAAAATT
Found at i:545194 original size:31 final size:29
Alignment explanation
Indices: 545151--545228 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
545141 TTAATCCGTG
*
545151 ATGATCACATCTTAAATAAATAAAAATAAA
1 ATGATCATATCTTAAATAAATAAAAAT-AA
* *
545181 AGTGATCATATCTTGACTAAATAAAAATAA
1 A-TGATCATATCTTAAATAAATAAAAATAA
545211 AT-ATACATATCTTAAATA
1 ATGAT-CATATCTTAAATA
545229 TTTTAAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 12 0.29
30 4 0.10
31 23 0.56
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (29 bp):
ATGATCATATCTTAAATAAATAAAAATAA
Found at i:548342 original size:23 final size:23
Alignment explanation
Indices: 548312--548362 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
548302 AAATTGTTTT
*
548312 CAAAAGTCTTTATTTGGGGCTGG
1 CAAAAGTCTTTATTTGGGGCTAG
548335 CAAAAGTCTTTATTTGGGGCTAG
1 CAAAAGTCTTTATTTGGGGCTAG
548358 CAAAA
1 CAAAA
548363 TGAAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (23 bp):
CAAAAGTCTTTATTTGGGGCTAG
Found at i:548757 original size:24 final size:25
Alignment explanation
Indices: 548715--548763 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
548705 AAAGATCTTT
*
548715 TTAACATTGTTTTTCATAA-ATAAA
1 TTAACATTATTTTTCATAAGATAAA
548739 TTAACATTATTATTT-ATAAGATAAA
1 TTAACATTATT-TTTCATAAGATAAA
548764 CTACGACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (25 bp):
TTAACATTATTTTTCATAAGATAAA
Found at i:553010 original size:105 final size:104
Alignment explanation
Indices: 552802--553017 Score: 252
Period size: 105 Copynumber: 2.1 Consensus size: 104
552792 GATTTTCCAT
* * * *
552802 AAGGACCACATATAAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAAA
1 AAGGACCACATAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAA
* *
552867 AGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
66 AGACCTCATACATACTCCAAAGAATACATATACATCCCG
* * * * *
552906 AAGGACCACATAGAAAATTCCTTAATAATCATATACATATGCTAAGGACCAAATATGTGTCGCAA
1 AAGGACCACATA-AAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAA
* * * * * * * *
552971 AGGACCTCATAGATATTCTATAGGATACCTATATATCCCG
65 AAGACCTCATACATACTCCAAAGAATACATATACATCCCG
553011 AAGGACC
1 AAGGACC
553018 GCGTAGACCC
Statistics
Matches: 92, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
104 12 0.13
105 80 0.87
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (104 bp):
AAGGACCACATAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAA
AGACCTCATACATACTCCAAAGAATACATATACATCCCG
Found at i:557972 original size:105 final size:105
Alignment explanation
Indices: 557764--557984 Score: 275
Period size: 105 Copynumber: 2.1 Consensus size: 105
557754 GATTTTCCAT
* * * * *
557764 AAGGACCACAT-ATAAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAA
1 AAGGACCACGTAAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCACAA
557828 AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
66 AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
* * * *
557868 AAGGACCACGTAAAAAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATGTGTCACAA
1 AAGGACCACGTAAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCACAA
* * * * * *
557933 AGGACCTCATAGATGTTCCATAGGATACCTATATC-TCCCG
66 AAGACCTCATACATGCTCCAAAGAATACATATA-CGTCCCG
*
557973 AAGGACCGCGTA
1 AAGGACCACGTA
557985 GACCCTCGAC
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
104 10 0.10
105 88 0.89
106 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (105 bp):
AAGGACCACGTAAAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCACAA
AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
Found at i:558894 original size:2 final size:2
Alignment explanation
Indices: 558887--558914 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
558877 TCTTATATTC
558887 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
558915 CAATCATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:559456 original size:22 final size:22
Alignment explanation
Indices: 559414--559456 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
559404 CTTCCTTTAG
* *
559414 GGGGGAATCGGTTCTCTCATGT
1 GGGGGAATCGGTTCCCCCATGT
*
559436 GGGGGTATCGGTTCCCCCATG
1 GGGGGAATCGGTTCCCCCATG
559457 ACATTCTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.37, T:0.28
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCCATGT
Found at i:562269 original size:173 final size:173
Alignment explanation
Indices: 561980--562328 Score: 698
Period size: 173 Copynumber: 2.0 Consensus size: 173
561970 TTGCACGATA
561980 CCTCTCCACTTGATCGTCACCATTTCGCTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCC
1 CCTCTCCACTTGATCGTCACCATTTCGCTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCC
562045 TTCCTTGTGGTAGTGGCACAAGGTCCCATGTATTATTTTTATGAAGGACTTTGATTTCTTCTTGC
66 TTCCTTGTGGTAGTGGCACAAGGTCCCATGTATTATTTTTATGAAGGACTTTGATTTCTTCTTGC
562110 ATCGTCATCATCCACAGTGAAGCATCTGAGCTGTTTATTGCCT
131 ATCGTCATCATCCACAGTGAAGCATCTGAGCTGTTTATTGCCT
562153 CCTCTCCACTTGATCGTCACCATTTCGCTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCC
1 CCTCTCCACTTGATCGTCACCATTTCGCTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCC
562218 TTCCTTGTGGTAGTGGCACAAGGTCCCATGTATTATTTTTATGAAGGACTTTGATTTCTTCTTGC
66 TTCCTTGTGGTAGTGGCACAAGGTCCCATGTATTATTTTTATGAAGGACTTTGATTTCTTCTTGC
562283 ATCGTCATCATCCACAGTGAAGCATCTGAGCTGTTTATTGCCT
131 ATCGTCATCATCCACAGTGAAGCATCTGAGCTGTTTATTGCCT
562326 CCT
1 CCT
562329 GGTATGTTGA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 176 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (173 bp):
CCTCTCCACTTGATCGTCACCATTTCGCTTGATTTTGAAGACCCATTTGTTACCAATTGGCTTCC
TTCCTTGTGGTAGTGGCACAAGGTCCCATGTATTATTTTTATGAAGGACTTTGATTTCTTCTTGC
ATCGTCATCATCCACAGTGAAGCATCTGAGCTGTTTATTGCCT
Found at i:565416 original size:19 final size:19
Alignment explanation
Indices: 565392--565435 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
565382 AAGATGGACT
565392 GAAAGAAAGGGACAAGTCG
1 GAAAGAAAGGGACAAGTCG
*
565411 GAAAGAAAGGGACAAGTTG
1 GAAAGAAAGGGACAAGTCG
565430 GAAAGA
1 GAAAGA
565436 TTGGTGAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.50, C:0.07, G:0.36, T:0.07
Consensus pattern (19 bp):
GAAAGAAAGGGACAAGTCG
Found at i:569522 original size:22 final size:22
Alignment explanation
Indices: 569497--569542 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
569487 AGGTTATTCT
569497 TGCCTACCTCTATGAAGCCTTC
1 TGCCTACCTCTATGAAGCCTTC
*
569519 TGCCTGCCTCTATGAAGCCTTC
1 TGCCTACCTCTATGAAGCCTTC
569541 TG
1 TG
569543 ACTGCCTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (22 bp):
TGCCTACCTCTATGAAGCCTTC
Found at i:569526 original size:26 final size:25
Alignment explanation
Indices: 569497--569550 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 25
569487 AGGTTATTCT
*
569497 TGCCTACCTCTATGAAGCCTTCTGCC
1 TGCCT-CCTCTATGAAGCCTTCTGAC
569523 TG---CCTCTATGAAGCCTTCTGAC
1 TGCCTCCTCTATGAAGCCTTCTGAC
569545 TGCCTC
1 TGCCTC
569551 ATATAGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
22 21 0.88
25 1 0.04
26 2 0.08
ACGTcount: A:0.15, C:0.37, G:0.17, T:0.31
Consensus pattern (25 bp):
TGCCTCCTCTATGAAGCCTTCTGAC
Found at i:569547 original size:22 final size:22
Alignment explanation
Indices: 569503--569550 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
569493 TTCTTGCCTA
*
569503 CCTCTATGAAGCCTTCTGCCTG
1 CCTCTATGAAGCCTTCTGACTG
569525 CCTCTATGAAGCCTTCTGACTG
1 CCTCTATGAAGCCTTCTGACTG
569547 CCTC
1 CCTC
569551 ATATAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.15, C:0.38, G:0.17, T:0.31
Consensus pattern (22 bp):
CCTCTATGAAGCCTTCTGACTG
Found at i:575286 original size:22 final size:22
Alignment explanation
Indices: 575260--575305 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
575250 GTGATTGAAC
575260 GTTCATTGTCAAATGGTTAAGA
1 GTTCATTGTCAAATGGTTAAGA
575282 GTTCATTGTCAAATGGTTAAGA
1 GTTCATTGTCAAATGGTTAAGA
575304 GT
1 GT
575306 ATTTAGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (22 bp):
GTTCATTGTCAAATGGTTAAGA
Found at i:576258 original size:27 final size:27
Alignment explanation
Indices: 576193--576246 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
576183 TTGTAAGAAT
576193 CTTGCTTGATGCGGGTGCAGATACCAA
1 CTTGCTTGATGCGGGTGCAGATACCAA
576220 CTTGCTTGATGCGGGTGCAGATACCAA
1 CTTGCTTGATGCGGGTGCAGATACCAA
576247 TTCTCTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (27 bp):
CTTGCTTGATGCGGGTGCAGATACCAA
Found at i:578132 original size:24 final size:22
Alignment explanation
Indices: 578104--578156 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
578094 ATCTTTGTTA
578104 ATTGGTGGCGACACTAATTTTAAT
1 ATTGGTGGCGAC-C-AATTTTAAT
*
578128 ATTGGTTGTCGACCAATTTTAAT
1 ATTGG-TGGCGACCAATTTTAAT
578151 ATTGGT
1 ATTGGT
578157 TGTCGACCGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 1 0.04
23 14 0.52
24 6 0.22
25 6 0.22
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (22 bp):
ATTGGTGGCGACCAATTTTAAT
Found at i:578147 original size:23 final size:23
Alignment explanation
Indices: 578119--578164 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
578109 TGGCGACACT
578119 AATTTTAATATTGGTTGTCGACC
1 AATTTTAATATTGGTTGTCGACC
578142 AATTTTAATATTGGTTGTCGACC
1 AATTTTAATATTGGTTGTCGACC
578165 GTCGATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
AATTTTAATATTGGTTGTCGACC
Found at i:578881 original size:22 final size:22
Alignment explanation
Indices: 578856--579265 Score: 572
Period size: 22 Copynumber: 18.6 Consensus size: 22
578846 ATAATAAATT
578856 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
578878 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
578900 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
578922 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
578944 TTTTTAAAATAAATCAATCCATA
1 -TTTTAAAATAAATCAATCCATA
*
578967 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*** *
578989 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
579011 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
579033 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
579055 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
579077 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
579099 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* * *
579121 TTTTAAAATAAATTAATCAATT
1 TTTTAAAATAAATCAATCCATA
579143 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
579165 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
579187 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
579209 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
579231 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
579253 TTTTAAAATAAAT
1 TTTTAAAATAAAT
579266 TTAAATAATT
Statistics
Matches: 344, Mismatches: 39, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
21 4 0.01
22 318 0.92
23 22 0.06
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:579297 original size:10 final size:10
Alignment explanation
Indices: 579284--579311 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
579274 TTTTAATTTC
579284 TTTGAAGACG
1 TTTGAAGACG
579294 TTTGAAGACG
1 TTTGAAGACG
579304 TTTGAAGA
1 TTTGAAGA
579312 GATAAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (10 bp):
TTTGAAGACG
Done.