Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 38
Found at i:4353143 original size:162 final size:162
Alignment explanation
Indices: 4352952--4353277 Score: 652
Period size: 162 Copynumber: 2.0 Consensus size: 162
4352942 ATAATTGAGG
4352952 AACCCAATTCATAAAAGAATCATTACTTTGAAGTGGGGCATATTACCTGACTGATATGATGTTTT
1 AACCCAATTCATAAAAGAATCATTACTTTGAAGTGGGGCATATTACCTGACTGATATGATGTTTT
4353017 TAAATGAGTTTTTGAAGAAGCCAAAATTTATTTTTCAAAGATTTCTTACTTGAGTATGTCCTTCG
66 TAAATGAGTTTTTGAAGAAGCCAAAATTTATTTTTCAAAGATTTCTTACTTGAGTATGTCCTTCG
4353082 TGCCATTAGTAAGTCTTTCGAGCATACTGATT
131 TGCCATTAGTAAGTCTTTCGAGCATACTGATT
4353114 AACCCAATTCATAAAAGAATCATTACTTTGAAGTGGGGCATATTACCTGACTGATATGATGTTTT
1 AACCCAATTCATAAAAGAATCATTACTTTGAAGTGGGGCATATTACCTGACTGATATGATGTTTT
4353179 TAAATGAGTTTTTGAAGAAGCCAAAATTTATTTTTCAAAGATTTCTTACTTGAGTATGTCCTTCG
66 TAAATGAGTTTTTGAAGAAGCCAAAATTTATTTTTCAAAGATTTCTTACTTGAGTATGTCCTTCG
4353244 TGCCATTAGTAAGTCTTTCGAGCATACTGATT
131 TGCCATTAGTAAGTCTTTCGAGCATACTGATT
4353276 AA
1 AA
4353278 ATCTTTTGAG
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 164 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (162 bp):
AACCCAATTCATAAAAGAATCATTACTTTGAAGTGGGGCATATTACCTGACTGATATGATGTTTT
TAAATGAGTTTTTGAAGAAGCCAAAATTTATTTTTCAAAGATTTCTTACTTGAGTATGTCCTTCG
TGCCATTAGTAAGTCTTTCGAGCATACTGATT
Found at i:4354022 original size:44 final size:44
Alignment explanation
Indices: 4353937--4354022 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
4353927 TCAAATGAGG
* *
4353937 TGGATCAACATTCCCTTTTTGCTAGGTTCCATCACATAAGGAGT
1 TGGATCAACATTCCCTTTTTGCTAGATTCCATCACAGAAGGAGT
* * * *
4353981 TGGATTAACA-TCACCTTTTTGTTCGATTCCATCATAGAAGGA
1 TGGATCAACATTC-CCTTTTTGCTAGATTCCATCACAGAAGGA
4354023 AACATTCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (44 bp):
TGGATCAACATTCCCTTTTTGCTAGATTCCATCACAGAAGGAGT
Found at i:4356567 original size:24 final size:23
Alignment explanation
Indices: 4356503--4356555 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
4356493 ATTGCTGTTG
*
4356503 AATTACATCCCTTCAACGCTCAAT
1 AATTACA-CGCTTCAACGCTCAAT
*
4356527 AATTACACGATTCAACGCTCAAT
1 AATTACACGCTTCAACGCTCAAT
4356550 ATATTA
1 A-ATTA
4356556 TTTGCTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (23 bp):
AATTACACGCTTCAACGCTCAAT
Found at i:4356853 original size:21 final size:20
Alignment explanation
Indices: 4356802--4356853 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
4356792 AAAACTAAAA
4356802 TTTAATTAATTAGTTTGTTAG
1 TTTAATT-ATTAGTTTGTTAG
* *
4356823 AATAAATTATTAGTTTGTTAG
1 -TTTAATTATTAGTTTGTTAG
4356844 TTTAAGTTAT
1 TTTAA-TTAT
4356854 ATTATATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 17 0.68
22 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
TTTAATTATTAGTTTGTTAG
Found at i:4356864 original size:28 final size:30
Alignment explanation
Indices: 4356830--4356892 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
4356820 TAGAATAAAT
4356830 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
4356858 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
4356888 TATTA
1 TATTA
4356893 TATATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:4357326 original size:4 final size:4
Alignment explanation
Indices: 4357319--4357344 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4357309 TATGTATAAA
4357319 TTAG TTAG TTAG TTAG TTAG TTAG TT
1 TTAG TTAG TTAG TTAG TTAG TTAG TT
4357345 TATATTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (4 bp):
TTAG
Found at i:4357420 original size:17 final size:16
Alignment explanation
Indices: 4357386--4357444 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
4357376 GATAATTCTC
4357386 GTTTAAAAAATATTGT
1 GTTTAAAAAATATTGT
*
4357402 GTTTAAAAATATTTAGTGTT
1 GTTTAAAAA-A--TATTG-T
*
4357422 GTTTTAAAAAATATTTT
1 G-TTTAAAAAATATTGT
4357439 GTTTAA
1 GTTTAA
4357445 TTTATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 14 0.40
17 3 0.09
18 3 0.09
19 4 0.11
20 3 0.09
21 8 0.23
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (16 bp):
GTTTAAAAAATATTGT
Found at i:4357448 original size:21 final size:22
Alignment explanation
Indices: 4357406--4357448 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4357396 TATTGTGTTT
**
4357406 AAAAATATTTAGTGTTGTTTTA
1 AAAAATATTTAGTGTTAATTTA
*
4357428 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
4357449 TATTATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
AAAAATATTTAGTGTTAATTTA
Found at i:4358869 original size:54 final size:54
Alignment explanation
Indices: 4358787--4358896 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
4358777 TGCAGAGTCC
4358787 AACCAGAAAACCCTATATGCGAAGTGTGTAAAATATGGCCCAGAGTGCAAGTGG
1 AACCAGAAAACCCTATATGCGAAGTGTGTAAAATATGGCCCAGAGTGCAAGTGG
4358841 AACCAGAAAACCCTATATGCGAAGTGTGTAAAATATGGCCCAGAGTGCAAGTGG
1 AACCAGAAAACCCTATATGCGAAGTGTGTAAAATATGGCCCAGAGTGCAAGTGG
4358895 AA
1 AA
4358897 GATCAGAGTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (54 bp):
AACCAGAAAACCCTATATGCGAAGTGTGTAAAATATGGCCCAGAGTGCAAGTGG
Found at i:4358892 original size:27 final size:27
Alignment explanation
Indices: 4358808--4358893 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
4358798 CCTATATGCG
4358808 AAGTGTGTAAAATATGGCCCAGAGTGC
1 AAGTGTGTAAAATATGGCCCAGAGTGC
* * *** *
4358835 AAGTG-G-AACCAGAAAACCCTATA-TGC
1 AAGTGTGTAA-AATATGGCCC-AGAGTGC
4358861 GAAGTGTGTAAAATATGGCCCAGAGTGC
1 -AAGTGTGTAAAATATGGCCCAGAGTGC
4358889 AAGTG
1 AAGTG
4358894 GAAGATCAGA
Statistics
Matches: 41, Mismatches: 12, Indels: 12
0.63 0.18 0.18
Matches are distributed among these distances:
25 2 0.05
26 9 0.22
27 19 0.46
28 9 0.22
29 2 0.05
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (27 bp):
AAGTGTGTAAAATATGGCCCAGAGTGC
Found at i:4361050 original size:23 final size:23
Alignment explanation
Indices: 4361023--4361066 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4361013 AAATTAAAAT
*
4361023 AATAATAAAATTGATTTAAATCA
1 AATAATAAAATTAATTTAAATCA
* *
4361046 AATAATATAGTTAATTTAAAT
1 AATAATAAAATTAATTTAAAT
4361067 AATAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (23 bp):
AATAATAAAATTAATTTAAATCA
Found at i:4362391 original size:30 final size:30
Alignment explanation
Indices: 4362355--4362425 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
4362345 TCACTTAAAC
*
4362355 AACTAATACACTATTCTTTAATATAACTTT-
1 AACTAATAAACTATTCTTTAATATAA-TTTA
4362385 AACTAATAAACTATTCTTTAATATAATTTA
1 AACTAATAAACTATTCTTTAATATAATTTA
4362415 AACTAATAAAC
1 AACTAATAAAC
4362426 CGATTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAATTTA
Found at i:4362444 original size:31 final size:30
Alignment explanation
Indices: 4362355--4362445 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 30
4362345 TCACTTAAAC
* * *
4362355 AACTAATACACTATTCTTTAATATAACTTT-
1 AACTAATAAACGATTCTTTAAT-TAAATTTA
*
4362385 AACTAATAAACTATTCTTTAA-TATAATTTA
1 AACTAATAAACGATTCTTTAATTA-AATTTA
*
4362415 AACTAATAAACCGATTTTTTAATTAAATTTA
1 AACTAATAAA-CGATTCTTTAATTAAATTTA
4362446 CTACTAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.04
29 4 0.08
30 30 0.57
31 15 0.28
32 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (30 bp):
AACTAATAAACGATTCTTTAATTAAATTTA
Found at i:4362719 original size:26 final size:26
Alignment explanation
Indices: 4362689--4362751 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 26
4362679 TTGTTTTACC
4362689 CTAATTTATAATAATAAACTAATTAA
1 CTAATTTATAATAATAAACTAATTAA
*
4362715 CTAATAATTTATAATAATAAACTATTTAA
1 C---TAATTTATAATAATAAACTAATTAA
*
4362744 AT-ATTTAT
1 CTAATTTAT
4362752 TCTTTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
25 6 0.19
26 2 0.06
29 24 0.75
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
CTAATTTATAATAATAAACTAATTAA
Found at i:4362785 original size:28 final size:29
Alignment explanation
Indices: 4362749--4362807 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
4362739 TTTAAATATT
4362749 TATTCTTTTATA-TA-ATTAAACTAATAAAC
1 TATTCTTTTATATTATATTAAACT--TAAAC
*
4362778 TATT-TTTTTTATTATATTAAACTTAAAC
1 TATTCTTTTATATTATATTAAACTTAAAC
4362806 TA
1 TA
4362808 CTAATAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 13 0.48
29 6 0.22
30 8 0.30
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
TATTCTTTTATATTATATTAAACTTAAAC
Found at i:4363063 original size:23 final size:23
Alignment explanation
Indices: 4363028--4363093 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
4363018 TGTGCTGCTG
* *
4363028 AAGGACTGTAATAATGCAGCAAT
1 AAGGGCTGCAATAATGCAGCAAT
*
4363051 AAGGGTTGCAATAATGCAGCAAT
1 AAGGGCTGCAATAATGCAGCAAT
*
4363074 AAGTGCTGCAATAATGCAGC
1 AAGGGCTGCAATAATGCAGC
4363094 TGAATTCACG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (23 bp):
AAGGGCTGCAATAATGCAGCAAT
Found at i:4363086 original size:12 final size:11
Alignment explanation
Indices: 4363037--4363093 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
4363027 GAAGGACTGT
4363037 AATAATGCAGC
1 AATAATGCAGC
* **
4363048 AATAAGGGTTGC
1 AATAA-TGCAGC
4363060 AATAATGCAGC
1 AATAATGCAGC
*
4363071 AATAAGTGCTGC
1 AATAA-TGCAGC
4363083 AATAATGCAGC
1 AATAATGCAGC
4363094 TGAATTCACG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 18 0.50
12 18 0.50
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (11 bp):
AATAATGCAGC
Found at i:4364109 original size:2 final size:2
Alignment explanation
Indices: 4364104--4364128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4364094 TAAATGTGTG
4364104 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 T
4364129 TATTTTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4367877 original size:20 final size:20
Alignment explanation
Indices: 4367799--4367879 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
4367789 AGAACCCGTG
* *
4367799 GGGGGTATCGATTCCCTCAA
1 GGGGGAATCGATTCCCTTAA
*
4367819 GGAGGGAATCGATTCCTATTCAAA
1 GG-GGGAATCGATTCC-CTT--AA
* * *
4367843 GGAGGAATCGGTTCCCTTAT
1 GGGGGAATCGATTCCCTTAA
*
4367863 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
4367880 CTGCCAAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
20 17 0.36
21 12 0.26
22 3 0.06
23 11 0.23
24 4 0.09
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTTAA
Found at i:4371526 original size:70 final size:70
Alignment explanation
Indices: 4371413--4371555 Score: 268
Period size: 70 Copynumber: 2.0 Consensus size: 70
4371403 TTTAGAGGTT
*
4371413 ACCCATTCCCTTTTTATGTGTGACTAGAGCATCTTGAATATCATCATCTTTATCACCATTGCTCT
1 ACCCATTCCCTTTTTATGTGCGACTAGAGCATCTTGAATATCATCATCTTTATCACCATTGCTCT
4371478 CACAC
66 CACAC
*
4371483 ACCCATTCCCTTTTTATGTGCGGCTAGAGCATCTTGAATATCATCATCTTTATCACCATTGCTCT
1 ACCCATTCCCTTTTTATGTGCGACTAGAGCATCTTGAATATCATCATCTTTATCACCATTGCTCT
4371548 CACAC
66 CACAC
4371553 ACC
1 ACC
4371556 TACAAGAGAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.24, C:0.30, G:0.10, T:0.36
Consensus pattern (70 bp):
ACCCATTCCCTTTTTATGTGCGACTAGAGCATCTTGAATATCATCATCTTTATCACCATTGCTCT
CACAC
Found at i:4383202 original size:11 final size:11
Alignment explanation
Indices: 4383171--4383204 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4383161 ACCCATTTCA
4383171 TTTTATTTTTG
1 TTTTATTTTTG
*
4383182 TTTTAATTTTG
1 TTTTATTTTTG
*
4383193 TTTTTTTTTTG
1 TTTTATTTTTG
4383204 T
1 T
4383205 AAACTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTG
Found at i:4390509 original size:40 final size:40
Alignment explanation
Indices: 4390465--4390574 Score: 166
Period size: 40 Copynumber: 2.8 Consensus size: 40
4390455 AGGACACTAA
* *
4390465 GTGTATATGGTGGGCACGACCTTATTTGTAATACACTTCG
1 GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
* **
4390505 GTGTATATGGTGGGCATGACCTTATGTGTAATACATTTTT
1 GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
*
4390545 GTGTATATGATGGGCATGACCTTATGTGTA
1 GTGTATATGGTGGGCATGACCTTATGTGTA
4390575 GCACTACAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (40 bp):
GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
Found at i:4393356 original size:23 final size:23
Alignment explanation
Indices: 4393304--4393349 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4393294 TTCATTATTC
4393304 AAAA-TTCTTTCATAAAACATTTT
1 AAAATTTC-TTCATAAAACATTTT
* *
4393327 AAAATTTCTTCATCAAACTTTTT
1 AAAATTTCTTCATAAAACATTTT
4393350 CACATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATTTCTTCATAAAACATTTT
Found at i:4393707 original size:30 final size:30
Alignment explanation
Indices: 4393671--4393748 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
4393661 TGGCTACGCA
*
4393671 CCAAATAATATAGGGA-TTGGACCACCAATG
1 CCAAATAATATAGGGACTTGG-CCACCAAGG
*
4393701 CCAAATAGTATAGGGACTTGGCCACCAAGG
1 CCAAATAATATAGGGACTTGGCCACCAAGG
** *
4393731 TTAAATAATACAGGGACT
1 CCAAATAATATAGGGACT
4393749 AAGGCCATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 37 0.90
31 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (30 bp):
CCAAATAATATAGGGACTTGGCCACCAAGG
Found at i:4397068 original size:2 final size:2
Alignment explanation
Indices: 4396996--4397055 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
4396986 GTTTTATTGG
4396996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4397038 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
4397056 TAGTTAGATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4397349 original size:20 final size:20
Alignment explanation
Indices: 4397324--4397387 Score: 119
Period size: 20 Copynumber: 3.2 Consensus size: 20
4397314 TTCCAAATTT
4397324 GCAACGCAAATCTGTAAATC
1 GCAACGCAAATCTGTAAATC
4397344 GCAACGCAAATCTGTAAATC
1 GCAACGCAAATCTGTAAATC
*
4397364 GCAACGCGAATCTGTAAATC
1 GCAACGCAAATCTGTAAATC
4397384 GCAA
1 GCAA
4397388 TGTGAATCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
GCAACGCAAATCTGTAAATC
Found at i:4397396 original size:40 final size:40
Alignment explanation
Indices: 4397324--4397405 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
4397314 TTCCAAATTT
*
4397324 GCAACGCAAATCTGTAAATCGCAACGCAAATCTGTAAATC
1 GCAACGCAAATCTGTAAATCGCAACGCAAATCTATAAATC
* * ** *
4397364 GCAACGCGAATCTGTAAATCGCAATGTGAATCTATATATC
1 GCAACGCAAATCTGTAAATCGCAACGCAAATCTATAAATC
4397404 GC
1 GC
4397406 GTTGCGATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (40 bp):
GCAACGCAAATCTGTAAATCGCAACGCAAATCTATAAATC
Found at i:4397404 original size:20 final size:20
Alignment explanation
Indices: 4397324--4397405 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 20
4397314 TTCCAAATTT
* *
4397324 GCAACGCAAATCTGTAAATC
1 GCAACGCGAATCTATAAATC
* *
4397344 GCAACGCAAATCTGTAAATC
1 GCAACGCGAATCTATAAATC
*
4397364 GCAACGCGAATCTGTAAATC
1 GCAACGCGAATCTATAAATC
* * *
4397384 GCAATGTGAATCTATATATC
1 GCAACGCGAATCTATAAATC
4397404 GC
1 GC
4397406 GTTGCGATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (20 bp):
GCAACGCGAATCTATAAATC
Found at i:4397529 original size:40 final size:40
Alignment explanation
Indices: 4397432--4397529 Score: 92
Period size: 40 Copynumber: 2.5 Consensus size: 40
4397422 TCGCAACACT
* * * * * *
4397432 GAATTTCAAATTCCCAACTCGATTTCTGAATTCGCAATGC
1 GAATTTTAATTTCGCAACTAGATTTCTGAATTCACAATAC
* *
4397472 GAATTTT-GTTGTAGCAACTAGATTT-TCGAATTCACAATAC
1 GAATTTTAATT-TCGCAACTAGATTTCT-GAATTCACAATAC
4397512 GAATTTTAATTTCGCAAC
1 GAATTTTAATTTCGCAAC
4397530 AGGTTTTAGT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
39 2 0.04
40 41 0.91
41 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (40 bp):
GAATTTTAATTTCGCAACTAGATTTCTGAATTCACAATAC
Found at i:4397719 original size:18 final size:16
Alignment explanation
Indices: 4397686--4397725 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4397676 TCCCCATCTC
4397686 TAATTTTTTTTATATA
1 TAATTTTTTTTATATA
* *
4397702 TAATTTTATTTCTATA
1 TAATTTTTTTTATATA
4397718 TAATTTTT
1 TAATTTTT
4397726 CAATGATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTATATA
Found at i:4400788 original size:18 final size:18
Alignment explanation
Indices: 4400765--4400800 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4400755 AAGCAAAAGG
*
4400765 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
4400783 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
4400801 CAACCAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:4401078 original size:20 final size:20
Alignment explanation
Indices: 4401054--4401145 Score: 103
Period size: 20 Copynumber: 4.6 Consensus size: 20
4401044 AAATCGCAAC
* *
4401054 GCGAAGTTGACTTTCGCGTT
1 GCGAATTTGACTTTCACGTT
* *
4401074 TCGAATTTGGCTTTCACGTT
1 GCGAATTTGACTTTCACGTT
* ** *
4401094 GCGAATTTGATTTTTGCATT
1 GCGAATTTGACTTTCACGTT
*
4401114 GCAAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCACGTT
4401134 GCGAATTTGACT
1 GCGAATTTGACT
4401146 ATGGAAACAC
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (20 bp):
GCGAATTTGACTTTCACGTT
Found at i:4401098 original size:40 final size:40
Alignment explanation
Indices: 4401054--4401145 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
4401044 AAATCGCAAC
* * * * *
4401054 GCGAAGTTGACTTTCGCGTTTCGAATTTGGCTTTCACGTT
1 GCGAATTTGACTTTCGCATTGCAAATTTGACTTTCACGTT
* *
4401094 GCGAATTTGATTTTTGCATTGCAAATTTGACTTTCACGTT
1 GCGAATTTGACTTTCGCATTGCAAATTTGACTTTCACGTT
4401134 GCGAATTTGACT
1 GCGAATTTGACT
4401146 ATGGAAACAC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (40 bp):
GCGAATTTGACTTTCGCATTGCAAATTTGACTTTCACGTT
Found at i:4401161 original size:40 final size:40
Alignment explanation
Indices: 4401075--4401178 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 40
4401065 TTTCGCGTTT
* * * * * ***
4401075 CGAATTTGGCTTTCACGTTGCGAATTTGATTTTTGCATTG
1 CGAATTTGACTTTCACGTTGCGAATTTGACTATGGAAACA
*
4401115 CAAATTTGACTTTCACGTTGCGAATTTGACTATGGAAACA
1 CGAATTTGACTTTCACGTTGCGAATTTGACTATGGAAACA
* *
4401155 CGAATTTAACTTTCCCGTTGCGAA
1 CGAATTTGACTTTCACGTTGCGAA
4401179 AGTGTATCTT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (40 bp):
CGAATTTGACTTTCACGTTGCGAATTTGACTATGGAAACA
Found at i:4402702 original size:21 final size:21
Alignment explanation
Indices: 4402673--4402785 Score: 102
Period size: 21 Copynumber: 5.4 Consensus size: 21
4402663 GTGAATCGGG
* *
4402673 CTCTCGAATGGTGGGAGGGAC
1 CTCTTGAATGGTGGGAGGGGC
* **
4402694 CTCTTGAATGATGACAGGGGC
1 CTCTTGAATGGTGGGAGGGGC
*
4402715 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAATGGTGGGAGGGGC
**
4402736 CTCTTGAA-GGATGATAGGGGC
1 CTCTTGAATGG-TGGGAGGGGC
* * * *
4402757 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAATGGTGGGAGGGGC
4402778 CTCTTGAA
1 CTCTTGAA
4402786 CGATAGGAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 2 0.03
21 71 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGGC
Found at i:4402741 original size:42 final size:42
Alignment explanation
Indices: 4402673--4402785 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
4402663 GTGAATCGGG
* * * *
4402673 CTCTCGAATGGTGGGAGGGACCTCTTGAATGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGACAGGGGC
*
4402715 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGACAGGGGC
* * *
4402757 CTCTTGAACGATAGGAGAGGCCTCTTGAA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAA
4402786 CGATAGGAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGACAGGGGC
Found at i:4402786 original size:21 final size:21
Alignment explanation
Indices: 4402712--4402810 Score: 119
Period size: 21 Copynumber: 4.7 Consensus size: 21
4402702 TGATGACAGG
* * *
4402712 GGCCTCTTGAACGGTGGGAGG
1 GGCCTCTTGAACGATAGGAGA
* * *
4402733 GGCCTCTTGAAGGAT-GATAGG
1 GGCCTCTTGAACGATAG-GAGA
4402754 GGCCTCTTGAACGATAGGAGA
1 GGCCTCTTGAACGATAGGAGA
*
4402775 GGCCTCTTGAACGATAGGAAA
1 GGCCTCTTGAACGATAGGAGA
4402796 GGCCTCTTGAACGAT
1 GGCCTCTTGAACGAT
4402811 GATAGGTTCT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 1 0.01
21 67 0.97
22 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.21
Consensus pattern (21 bp):
GGCCTCTTGAACGATAGGAGA
Found at i:4402800 original size:42 final size:42
Alignment explanation
Indices: 4402693--4402810 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
4402683 GTGGGAGGGA
* * * * * *
4402693 CCTCTTGAATGATGACAGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGATAGAGGCCTCTTGAACGATAGGAGAGG
* *
4402735 CCTCTTGAAGGATGATAGGGGCCTCTTGAACGATAGGAGAGG
1 CCTCTTGAACGATGATAGAGGCCTCTTGAACGATAGGAGAGG
4402777 CCTCTTGAACGATAGGA-A-AGGCCTCTTGAACGAT
1 CCTCTTGAACGAT--GATAGAGGCCTCTTGAACGAT
4402811 GATAGGTTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 64 0.96
43 1 0.01
44 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
CCTCTTGAACGATGATAGAGGCCTCTTGAACGATAGGAGAGG
Found at i:4403184 original size:21 final size:21
Alignment explanation
Indices: 4403129--4403203 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
4403119 GTAAAGTAGA
*
4403129 TACCTCACCACGTAAAGCACCA
1 TACCTCACCACGTAAAG-ACCC
** * *
4403151 T-TGTCATCGCGTAAA-ACCTC
1 TACCTCACCACGTAAAGACC-C
*
4403171 TACCTCACCACGTAAAGACCG
1 TACCTCACCACGTAAAGACCC
*
4403192 TACCTCATCACG
1 TACCTCACCACG
4403204 CCATGCACCA
Statistics
Matches: 39, Mismatches: 11, Indels: 7
0.68 0.19 0.12
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 31 0.79
22 4 0.10
ACGTcount: A:0.31, C:0.37, G:0.12, T:0.20
Consensus pattern (21 bp):
TACCTCACCACGTAAAGACCC
Found at i:4403244 original size:21 final size:21
Alignment explanation
Indices: 4403220--4403269 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4403210 ACCATTGTCT
* *
4403220 TCACGTAAAGTACTGACCTCC
1 TCACGTAAAGCACTGACCTCA
* *
4403241 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACTGACCTCA
4403262 TCACGTAA
1 TCACGTAA
4403270 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGCACTGACCTCA
Found at i:4404687 original size:20 final size:20
Alignment explanation
Indices: 4404662--4404714 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4404652 TTTCAAACGA
*
4404662 GATTTTTAGTTTCGCGTTGC
1 GATTTTAAGTTTCGCGTTGC
* * *
4404682 GATTTTCATTTTCGTGTTGC
1 GATTTTAAGTTTCGCGTTGC
*
4404702 GAATTTAAGTTTC
1 GATTTTAAGTTTC
4404715 AAATAGTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
GATTTTAAGTTTCGCGTTGC
Found at i:4405594 original size:20 final size:20
Alignment explanation
Indices: 4405569--4405621 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4405559 TTTCAAACGA
*
4405569 GATTTTTAGTTTCGCGTTGC
1 GATTTTCAGTTTCGCGTTGC
* *
4405589 GATTTTCATTTTCGTGTTGC
1 GATTTTCAGTTTCGCGTTGC
* *
4405609 AAATTTCAGTTTC
1 GATTTTCAGTTTC
4405622 AAATAGTCTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.19, T:0.51
Consensus pattern (20 bp):
GATTTTCAGTTTCGCGTTGC
Found at i:4406046 original size:907 final size:907
Alignment explanation
Indices: 4403976--4406702 Score: 5278
Period size: 907 Copynumber: 3.0 Consensus size: 907
4403966 TATGAACCCC
4403976 ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTGT
1 ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTGT
4404041 CTGGCCTCTTTTCCTAAAAAGTCGGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
66 CTGGCCTCTTTTCCTAAAAAGTCGGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
*
4404106 GTCATCCATCCGAGTAAAACCATTTTTAACAAATAATCTCTTCAAGTCATCGACGTGTAAACTCG
131 GTCATCCATCCGAGTAAAACCATCTTTAACAAATAATCTCTTCAAGTCATCGACGTGTAAACTCG
4404171 GCTTCGCCTTTGCCAGCTCAGGAAAAACCTGAGATAACCATGATGGGCGGGCGATATGACTAGTT
196 GCTTCGCCTTTGCCAGCTCAGGAAAAACCTGAGATAACCATGATGGGCGGGCGATATGACTAGTT
*
4404236 TACCGACCTATATCATCGTGACCGAAGTATAGACCAGTGATTAAACAAAACTCCTCCCTCCCAAA
261 TACCGACCTATATCATCGTGACCGAAGTATAGACCAGTGATTAAGCAAAACTCCTCCCTCCCAAA
4404301 ACAAGTATACGCCGGAGGAAAATGAAACCATATCTCTTCATCACCACGTTGTATCCTCTCGGGTA
326 ACAAGTATACGCCGGAGGAAAATGAAACCATATCTCTTCATCACCACGTTGTATCCTCTCGGGTA
4404366 GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATGTTGTACT
391 GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATGTTGTACT
*
4404431 TTTAGCCTTGGCCCGAAGAAAGTATCCTAAAACAATTTTCTTTGTACAGGTGTAAGCGTCGACGC
456 TTTAGCCTTGGCCCGAAGCAAGTATCCTAAAACAATTTTCTTTGTACAGGTGTAAGCGTCGACGC
4404496 AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
521 AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
4404561 ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
586 ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
4404626 TTAAACAGTGAAAAC-AA-CCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
651 TTAAACAGTGAAAACAAAGCCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
*
4404689 ATTTTCGTGTTGCGAATTTAAGTTTCAAATAGTCTTCTTCAAATTGAAACTTGAATGAATTGCAT
716 ATTTTCGTGTTGCGAATTTAAGTTTCAAATAGTCTTCTGCAAATTGAAACTTGAATGAATTGCAT
4404754 TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
781 TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
4404819 AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
846 AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
4404881 ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTGT
1 ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTGT
*
4404946 CTGGCCTCTTTTCCTAAAAAGTCAGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
66 CTGGCCTCTTTTCCTAAAAAGTCGGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
*
4405011 GTCATCCATCCGAGTAAAACCATCTTTAACAAATAATCTCTTCAAGTCGTCGACGTGTAAACTCG
131 GTCATCCATCCGAGTAAAACCATCTTTAACAAATAATCTCTTCAAGTCATCGACGTGTAAACTCG
4405076 GCTTCGCCTTTGCCAGCTCAGGAAAAACCTGAGATAACCATGATGGGCGGGCGATATGACTAGTT
196 GCTTCGCCTTTGCCAGCTCAGGAAAAACCTGAGATAACCATGATGGGCGGGCGATATGACTAGTT
*
4405141 TACCGACCTATATCATCGTGATCGAAGTATAGACCAGTGATTAAGCAAAACTCCTCCCTCCCAAA
261 TACCGACCTATATCATCGTGACCGAAGTATAGACCAGTGATTAAGCAAAACTCCTCCCTCCCAAA
*
4405206 ACAAGTATACGCCGGAGGAAAATGAAACCATATCGCTTCATCACCACGTTGTATCCTCTCGGGTA
326 ACAAGTATACGCCGGAGGAAAATGAAACCATATCTCTTCATCACCACGTTGTATCCTCTCGGGTA
4405271 GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATGTTGTACT
391 GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATGTTGTACT
*
4405336 TTTAGCCTTGGCCCGAAGCAAGTATCCTAAAACAATTTTCTTTGTACAAGTGTAAGCGTCGACGC
456 TTTAGCCTTGGCCCGAAGCAAGTATCCTAAAACAATTTTCTTTGTACAGGTGTAAGCGTCGACGC
4405401 AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
521 AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
4405466 ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
586 ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
*
4405531 TTAAACAGTGAAAACAAAGTCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
651 TTAAACAGTGAAAACAAAGCCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
* *
4405596 ATTTTCGTGTTGCAAATTTCAGTTTCAAATAGTCTTCTGCAAATTGAAACTTGAATGAATTGCAT
716 ATTTTCGTGTTGCGAATTTAAGTTTCAAATAGTCTTCTGCAAATTGAAACTTGAATGAATTGCAT
4405661 TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
781 TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
4405726 AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
846 AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
*
4405788 ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTTT
1 ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTGT
4405853 CTGGCCTCTTTTCCTAAAAAGTCGGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
66 CTGGCCTCTTTTCCTAAAAAGTCGGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
4405918 GTCATCCATCCGAGTAAAACCATCTTTAACAAATAATCTCTTCAAGTCATCGACGTGTAAACTCG
131 GTCATCCATCCGAGTAAAACCATCTTTAACAAATAATCTCTTCAAGTCATCGACGTGTAAACTCG
* *
4405983 GCTTCGCCTTTTCCAGCTCAGGAAAAACCCGAGATAACCATGATGGGCGGGCGATATGACTAGTT
196 GCTTCGCCTTTGCCAGCTCAGGAAAAACCTGAGATAACCATGATGGGCGGGCGATATGACTAGTT
4406048 TACCGACCTATATCATCGTGACCGAAGTATAGACCAGTGATTAAGCAAAACTCCTCCCTCCCAAA
261 TACCGACCTATATCATCGTGACCGAAGTATAGACCAGTGATTAAGCAAAACTCCTCCCTCCCAAA
4406113 ACAAGTATACGCCGGAGGAAAATGAAACCATATCTCTTCATCACCACGTTGTATCCTCTCGGGTA
326 ACAAGTATACGCCGGAGGAAAATGAAACCATATCTCTTCATCACCACGTTGTATCCTCTCGGGTA
*
4406178 GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATATTGTACT
391 GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATGTTGTACT
4406243 TTTAGCCTTGGCCCGAAGCAAGTATCCTAAAACAATTTTCTTTGTACAGGTGTAAGCGTCGACGC
456 TTTAGCCTTGGCCCGAAGCAAGTATCCTAAAACAATTTTCTTTGTACAGGTGTAAGCGTCGACGC
4406308 AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
521 AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
4406373 ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
586 ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
4406438 TTAAACAGTGAAAACAAAGCCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
651 TTAAACAGTGAAAACAAAGCCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
*
4406503 ATTTTTGTGTTGCGAATTTAAGTTTCAAATAGTCTTCTGCAAATTGAAACTTGAATGAATTGCAT
716 ATTTTCGTGTTGCGAATTTAAGTTTCAAATAGTCTTCTGCAAATTGAAACTTGAATGAATTGCAT
4406568 TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
781 TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
4406633 AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
846 AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
*
4406695 ACTGAAAT
1 ACGGAAAT
4406703 TATCAGTAAA
Statistics
Matches: 1794, Mismatches: 26, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
905 657 0.37
906 2 0.00
907 1135 0.63
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (907 bp):
ACGGAAATAGGTTTCATGCATTTAGGTCATCTACCAATAATATTAGGTCCTCAGAAATAGGTTGT
CTGGCCTCTTTTCCTAAAAAGTCGGCATGAAAAAGTAATAAAAGGCATACTCGGAAAACATCGAG
GTCATCCATCCGAGTAAAACCATCTTTAACAAATAATCTCTTCAAGTCATCGACGTGTAAACTCG
GCTTCGCCTTTGCCAGCTCAGGAAAAACCTGAGATAACCATGATGGGCGGGCGATATGACTAGTT
TACCGACCTATATCATCGTGACCGAAGTATAGACCAGTGATTAAGCAAAACTCCTCCCTCCCAAA
ACAAGTATACGCCGGAGGAAAATGAAACCATATCTCTTCATCACCACGTTGTATCCTCTCGGGTA
GATCGTTAGTCATGGTCTGAAGAAACAAATGGGTCAACATAGCATCTCCACCCCGATGTTGTACT
TTTAGCCTTGGCCCGAAGCAAGTATCCTAAAACAATTTTCTTTGTACAGGTGTAAGCGTCGACGC
AATTGTAGTGGCAAGGCTTAATTTATTCCTTAAGGTCAATGAAGCCGAAAAACATTTCTACAAAA
ACAATAAACATACCAAGTTAGATATACCAAAAACTACAAATTATACACTATAAACAAACATGATA
TTAAACAGTGAAAACAAAGCCAAATATGTTTCAAACGAGATTTTTAGTTTCGCGTTGCGATTTTC
ATTTTCGTGTTGCGAATTTAAGTTTCAAATAGTCTTCTGCAAATTGAAACTTGAATGAATTGCAT
TACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGGGTTAAAGACTAAACAGTTT
AGCAGTATTGGCAGCAACCGAATGAATTTACTAAGCAATCTAAATGAAATGGTTAATCTATT
Found at i:4406885 original size:22 final size:22
Alignment explanation
Indices: 4406855--4406899 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4406845 GATGGAGAAA
* *
4406855 GACGGATTTCGCCGGAGACGGG
1 GACGAATTTCGCCAGAGACGGG
*
4406877 GACGAATTTCGCCAGAGATGGG
1 GACGAATTTCGCCAGAGACGGG
4406899 G
1 G
4406900 GCGGATGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.42, T:0.16
Consensus pattern (22 bp):
GACGAATTTCGCCAGAGACGGG
Found at i:4407783 original size:21 final size:21
Alignment explanation
Indices: 4407752--4407791 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4407742 ATTTCAATTT
4407752 AAATAAAAATCCAAAATTTTCA
1 AAATAAAAAT-CAAAATTTTCA
*
4407774 AAAT-AAAATCATAATTTT
1 AAATAAAAATCAAAATTTT
4407792 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAAAAATCAAAATTTTCA
Found at i:4408927 original size:19 final size:19
Alignment explanation
Indices: 4408903--4408960 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
4408893 GTGAAACCAA
4408903 TTTTTTTAATTCGGTTCGG
1 TTTTTTTAATTCGGTTCGG
*
4408922 TTTTTTT-A-GCGGTTCGG
1 TTTTTTTAATTCGGTTCGG
* *
4408939 TTTTTTCATTTCGGTTCGG
1 TTTTTTTAATTCGGTTCGG
4408958 TTT
1 TTT
4408961 ATCGGGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 14 0.42
18 1 0.03
19 18 0.55
ACGTcount: A:0.07, C:0.12, G:0.22, T:0.59
Consensus pattern (19 bp):
TTTTTTTAATTCGGTTCGG
Found at i:4410564 original size:3 final size:3
Alignment explanation
Indices: 4410556--4410652 Score: 151
Period size: 3 Copynumber: 32.3 Consensus size: 3
4410546 TCTACAAAAA
4410556 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4410603 TAT TAT TAT TAT TAT TAT TAC TGT TAC TAT TAT TAT TAT TAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
4410649 TAT T
1 TAT T
4410653 TTCTTACAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.02
3 81 0.94
4 3 0.03
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:4412380 original size:30 final size:30
Alignment explanation
Indices: 4412344--4412517 Score: 151
Period size: 30 Copynumber: 5.8 Consensus size: 30
4412334 TCTATTTTAC
*
4412344 TATTTTAGCCCTTTAAGTTTCTGTTTGTGA
1 TATTTTAGTCCTTTAAGTTTCTGTTTGTGA
*
4412374 TATTTTAGTCCTTTAAGTTTCTGTTTGTCA
1 TATTTTAGTCCTTTAAGTTTCTGTTTGTGA
* *
4412404 CATTTTAGTACC-TTAAGTTT-TGGTTT-TTA
1 TATTTTAGT-CCTTTAAGTTTCT-GTTTGTGA
* * * *
4412433 CTATTTTAGTCCTTTAAGTTTTTATTTTTGT
1 -TATTTTAGTCCTTTAAGTTTCTGTTTGTGA
* * * *
4412464 TGTTTTAGTCCTTTTAGTTTCTATTT-TTA
1 TATTTTAGTCCTTTAAGTTTCTGTTTGTGA
* *
4412493 CTATTTTGGTCC-TTAAGTTTTTGTT
1 -TATTTTAGTCCTTTAAGTTTCTGTT
4412518 AATCGTATTT
Statistics
Matches: 119, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
29 16 0.13
30 99 0.83
31 4 0.03
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.59
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAGTTTCTGTTTGTGA
Found at i:4412470 original size:60 final size:60
Alignment explanation
Indices: 4412329--4412514 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 60
4412319 CTATTTAGAC
* * * *
4412329 AAGTTTCTATTT-T-ACTATTTTAGCCCTTTAAGTTTCTGTTTGTGA-TATTTTAGTCCTTT
1 AAGTTTTTATTTGTCAC-ATTTTAGTCCTTTAAGTTTCTATTT-TTACTATTTTAGTCCTTT
* * *
4412388 AAGTTTCTGTTTGTCACATTTTAGTACC-TTAAGTTT-TGGTTTTTACTATTTTAGTCCTTT
1 AAGTTTTTATTTGTCACATTTTAGT-CCTTTAAGTTTCT-ATTTTTACTATTTTAGTCCTTT
* **** * *
4412448 AAGTTTTTATTTTTGTTGTTTTAGTCCTTTTAGTTTCTATTTTTACTATTTTGGTCC-TT
1 AAGTTTTTATTTGTCACATTTTAGTCCTTTAAGTTTCTATTTTTACTATTTTAGTCCTTT
4412507 AAGTTTTT
1 AAGTTTTT
4412515 GTTAATCGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
59 26 0.24
60 76 0.71
61 5 0.05
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.59
Consensus pattern (60 bp):
AAGTTTTTATTTGTCACATTTTAGTCCTTTAAGTTTCTATTTTTACTATTTTAGTCCTTT
Found at i:4412515 original size:90 final size:89
Alignment explanation
Indices: 4412243--4412559 Score: 246
Period size: 90 Copynumber: 3.6 Consensus size: 89
4412233 ATTCAATCCT
* * * * *
4412243 TTAAGTTTCAGTTTTTGCCATTTTAGACC-TTAAGTTTTTATTTTTGTTATTTTAGTCCTTTAAA
1 TTAAGTTT-TGTTTTTACTATTTTAGTCCTTTAAGTTTTTATTTTTGTTGTTTTAGTCCTTT-AA
* * *
4412307 TGTCTGTATTT-TC-TA-TTTAG-A-C
64 -GTTTCTATTTGTCACATTTTAGTACC
* * * * * * *
4412329 --AAGTTTCT-ATTTTACTATTTTAGCCCTTTAAGTTTCTGTTTGTGATATTTTAGTCCTTTAAG
1 TTAAGTTT-TGTTTTTACTATTTTAGTCCTTTAAGTTTTTATTTTTGTTGTTTTAGTCCTTTAAG
*
4412391 TTTCTGTTTGTCACATTTTAGTACC
65 TTTCTATTTGTCACATTTTAGTACC
*
4412416 TTAAGTTTTGGTTTTTACTATTTTAGTCCTTTAAGTTTTTATTTTTGTTGTTTTAGTCCTTTTAG
1 TTAAGTTTT-GTTTTTACTATTTTAGTCCTTTAAGTTTTTATTTTTGTTGTTTTAGTCCTTTAAG
* *
4412481 TTTCTATTT-TTACTATTTTGGT-CC
65 TTTCTATTTGTCAC-ATTTTAGTACC
* * * * *
4412505 TTAAGTTTT-TGTTAATCGTATTTTATTCCTTTAATTTTATTATTGTT-TTGTTTTA
1 TTAAGTTTTGTTTTTA-C-TATTTTAGTCCTTTAAGTTT-TTATTTTTGTTGTTTTA
4412560 ATCATTTTTG
Statistics
Matches: 188, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
82 7 0.04
83 18 0.10
84 36 0.19
85 5 0.03
86 1 0.01
87 5 0.03
88 2 0.01
89 46 0.24
90 68 0.36
ACGTcount: A:0.19, C:0.11, G:0.12, T:0.59
Consensus pattern (89 bp):
TTAAGTTTTGTTTTTACTATTTTAGTCCTTTAAGTTTTTATTTTTGTTGTTTTAGTCCTTTAAGT
TTCTATTTGTCACATTTTAGTACC
Found at i:4416730 original size:227 final size:222
Alignment explanation
Indices: 4416293--4416741 Score: 835
Period size: 227 Copynumber: 2.0 Consensus size: 222
4416283 CTATGTGTGA
*
4416293 ATGTTTGTAAGTCGCTTGACGTTCTAACATTTTCAATAAAATGTTTTATTCTTAGGAAATTTACG
1 ATGTTTGTAAGTCGCTTGACGTTCTAACATTTTCAATAAAATGTTTTATTCTTAGGAAATTAACG
*
4416358 ATGAGCAAATTTTAATCTTGAAATTCTTGAATCATTTTATTAAAATCTTTTTTAAATTGATATGT
66 ATGAGCAAATTTTAATCTTGAAATTCTTGAATCATTTTATTAAAATCTTTTTAAAATTGATATGT
4416423 AAATCTTTGACAAATAACAAGATTGAACCCTGTAAAACAATGACCCCTTGATCCTAATCCAGATG
131 AAATCTTTGACAAATAACAAGATTGAACCCTGTAAAACAATGACCCCTTGATCCTAATCCAGATG
4416488 ATACACTAGAATACATACCCTTCTCTT
196 ATACACTAGAATACATACCCTTCTCTT
4416515 ATGTTTGTAAGTCGCTTGACGTTCTAACATTTTCAATAAAATGTTTTATTCTTAGGAAATTAACG
1 ATGTTTGTAAGTCGCTTGACGTTCTAACATTTTCAATAAAATGTTTTATTCTTAGGAAATTAACG
4416580 ATGAGCAAATTTTAATCTTGAAATTCTTTGAATATCATTTTAATTAAAATCTTTTTAATAATTGA
66 ATGAGCAAATTTTAATCTTGAAATTC-TTG-A-ATCATTTT-ATTAAAATCTTTTTAA-AATTGA
4416645 TATGTAAATCTTTGACAAATAACAAGATTGAACCCTGTAAAACAATGACCCCTTGATCCTAATCC
126 TATGTAAATCTTTGACAAATAACAAGATTGAACCCTGTAAAACAATGACCCCTTGATCCTAATCC
4416710 AGATGATACACTAGAATACATACCCTTCTCTT
191 AGATGATACACTAGAATACATACCCTTCTCTT
4416742 GCAGGGACCT
Statistics
Matches: 220, Mismatches: 2, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
222 90 0.41
223 3 0.01
224 1 0.00
225 8 0.04
226 15 0.07
227 103 0.47
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (222 bp):
ATGTTTGTAAGTCGCTTGACGTTCTAACATTTTCAATAAAATGTTTTATTCTTAGGAAATTAACG
ATGAGCAAATTTTAATCTTGAAATTCTTGAATCATTTTATTAAAATCTTTTTAAAATTGATATGT
AAATCTTTGACAAATAACAAGATTGAACCCTGTAAAACAATGACCCCTTGATCCTAATCCAGATG
ATACACTAGAATACATACCCTTCTCTT
Found at i:4417079 original size:2 final size:2
Alignment explanation
Indices: 4417074--4417100 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4417064 TATATATATA
4417074 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
4417101 ACAATAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4418589 original size:33 final size:33
Alignment explanation
Indices: 4418546--4418614 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
4418536 AGAATCAGTG
* *
4418546 TTGAAGCAATCAACATCGAATATTGGGGCATCT
1 TTGAACCAATCAACATCGAATATTGGGACATCT
*
4418579 TTGAACCAATCAACATCGAATGTTGGGACATCT
1 TTGAACCAATCAACATCGAATATTGGGACATCT
4418612 TTG
1 TTG
4418615 GGGATTCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (33 bp):
TTGAACCAATCAACATCGAATATTGGGACATCT
Found at i:4418836 original size:66 final size:63
Alignment explanation
Indices: 4418696--4418999 Score: 298
Period size: 66 Copynumber: 4.7 Consensus size: 63
4418686 TATCAGTATC
* *
4418696 CTTTGAGTTGTTTCTCTTGAAACAAATTTTGTC-C-CTCGAGACAGTTTCTTTTG--AAAAAAT
1 CTTTGAGTTGTTTCT-TTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAAAT
*
4418756 CTTTGAGTTTGTTTCTTTGGAAACAAAGTTTTGTCTCTCTTGAGATAATTTCTTTTGAAAAAAAA
1 CTTTGAG-TTGTTTCTTT-GAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAAA
4418821 T
63 T
* * * * * *
4418822 CTTTGAGTCCGTTTCTCTGAAACAAAGTGTTGTCTCTCTTGATACAATTTC-TTTGGAGAAAAAT
1 CTTTGAGT-TGTTTCTTTGAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAAAT
* *
4418886 CTTTGAGTATGTTTCTTTGGAAACAAAATTTT-T-TCTCTTAAGACAATTTTTTTCTAGAAAAAA
1 CTTTGAGT-TGTTTCTTT-GAAAC-AAATTTTGTCTCTCTTGAGACAATTTCTTT-T-GAAAAAA
*
4418949 CAT
61 AAT
* * * *
4418952 CTTTGAGATCGTTTCCCTTGAAACGAATTTTATCTCTCTTGAGACAAT
1 CTTTGAG-TTGTTT-CTTTGAAACAAATTTTGTCTCTCTTGAGACAAT
4419000 CACCCTTGAG
Statistics
Matches: 203, Mismatches: 24, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
60 9 0.04
61 16 0.08
62 7 0.03
63 15 0.07
64 45 0.22
65 46 0.23
66 48 0.24
67 17 0.08
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (63 bp):
CTTTGAGTTGTTTCTTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTTTTGAAAAAAAAT
Found at i:4418946 original size:130 final size:128
Alignment explanation
Indices: 4418696--4418999 Score: 384
Period size: 130 Copynumber: 2.4 Consensus size: 128
4418686 TATCAGTATC
* * * *
4418696 CTTTGAGTTGTTTCTCTTGAAACAAATTTTGTC-C-CTCGAGACAGTTTCTTTTGAAAAAATCTT
1 CTTTGAGTCGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTTTGGAAAAAATCTT
* * * *
4418759 TGAGTTTGTTTCTTTGGAAACAAAGTTTTGTCTCTCTTGAGATAATTTCTTTTGAAAAAAAAT
66 TGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCTTTTGAAAAAAAAT
* *
4418822 CTTTGAGTCCGTTTCTC-TGAAACAAAGTGTTGTCTCTCTTGATACAATTTCTTTGGAGAAAAAT
1 CTTTGAGT-CGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTTTGGA-AAAAAT
*
4418886 CTTTGAGTATGTTTCTTTGGAAACAAAATTTT-T-TCTCTTAAGACAATTTTTTTCTAGAAAAAA
63 CTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCTTT-T-GAAAAAA
*
4418949 CAT
126 AAT
* * *
4418952 CTTTGAGATCGTTTCCCTTGAAACGAATTTTATCTCTCTTGAGACAAT
1 CTTTGAG-TCGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAAT
4419000 CACCCTTGAG
Statistics
Matches: 152, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
126 17 0.11
127 13 0.09
128 18 0.12
129 18 0.12
130 77 0.51
131 9 0.06
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (128 bp):
CTTTGAGTCGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTTTGGAAAAAATCTT
TGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCTTTTGAAAAAAAAT
Found at i:4418948 original size:64 final size:62
Alignment explanation
Indices: 4418696--4418999 Score: 242
Period size: 65 Copynumber: 4.7 Consensus size: 62
4418686 TATCAGTATC
* * * * *
4418696 CTTTGAGT-TGTTTCTCTTGAAAC-AAATTTTGTCCCTCGAGACAGTTTCTTT-TGAAAAAAT
1 CTTTGAGTATGTTTCT-TTGAAACAAAATTTTTTCTCTTGAGACAATTTCTTTGAGAAAAAAT
* * * *
4418756 CTTTGAGTTTGTTTCTTTGGAAACAAAGTTTTGTCTCTCTTGAGATAATTTCTTTTGAAAAAAAA
1 CTTTGAGTATGTTTCTTT-GAAACAAAATTTT-T-TCTCTTGAGACAATTTC-TTTGAGAAAAAA
4418821 T
62 T
** * * * *
4418822 CTTTGAGTCCGTTTCTCTGAAACAAAGTGTTGTCTCTCTTGATACAATTTCTTTG-GAGAAAAAT
1 CTTTGAGTATGTTTCTTTGAAACAAAAT-TT-TTTCTCTTGAGACAATTTCTTTGAGA-AAAAAT
* * *
4418886 CTTTGAGTATGTTTCTTTGGAAACAAAATTTTTTCTCTTAAGACAATTTTTTTCTAGAAAAAACA
1 CTTTGAGTATGTTTCTTT-GAAACAAAATTTTTTCTCTTGAGACAATTTCTTT-GAG-AAAAA-A
4418951 T
62 T
* *
4418952 CTTTGAG-ATCGTTTCCCTTGAAAC-GAATTTTATCTCTCTTGAGACAAT
1 CTTTGAGTAT-GTTT-CTTTGAAACAAAATTTT-T-TCTCTTGAGACAAT
4419000 CACCCTTGAG
Statistics
Matches: 198, Mismatches: 27, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
60 10 0.05
61 12 0.06
62 6 0.03
63 19 0.10
64 40 0.20
65 50 0.25
66 44 0.22
67 17 0.09
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (62 bp):
CTTTGAGTATGTTTCTTTGAAACAAAATTTTTTCTCTTGAGACAATTTCTTTGAGAAAAAAT
Found at i:4419269 original size:128 final size:128
Alignment explanation
Indices: 4419015--4419523 Score: 603
Period size: 130 Copynumber: 3.9 Consensus size: 128
4419005 TTGAGACATT
* *
4419015 ATCCCTAAAGATGGCCA-A-CTGTCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGAACTC
1 ATCCCTAAAGATGG-CATATC-ATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTC
* *
4419078 CTCATCACGTAGGAGCCGTGTCACCCTTGATAACCAGCCATCCTTATCACGTAGGAATCGTGTTA
64 CTCATCACGTAGGAG-CGTGTCACCC-TGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTA
4419143 TC
127 TC
** * * * * *
4419145 ATCCCTAAAGATGGTTTGTCTTCCGCATCACGTAGGAACCGTGTCAT-CCTCGACTAGACCTCCT
1 ATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
* * *
4419209 CATCAGGTAGGAGCATGTCACCACTGATAACCAGCCAACCTCATCACGTAGGAACCGTGTTATC
66 CATCACGTAGGAGCGTGTCACC-CTGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTATC
*** *
4419273 ATCCCTAAAGATGGCATATCATCCTCATCGTATAGGAACCGTGTCATCCCCTGACCAGACCTCCT
1 ATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
* * * * * *
4419338 CATCATGTCGGAGCTGTGTCACCCTCAGATAACCAACCGTCCTCGTCACGTAGG-ACCATGTTAT
66 CATCACGTAGGAGC-GTGTCACCCT--GATAACCAGCCATCCTCATCACGTAGGAACCGTGTTAT
4419402 C
128 C
* * * *
4419403 ATCCCTAAAGATGGCATATCATCCTCATCAAGTAGGAACCATGTCATCCCCCGACAAAACCTCCT
1 ATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
* * * *
4419468 CATCACGTAGGAGTCGTATCAACCCTAGATAACCAGACATCCTCATCGCATAGGAA
66 CATCACGTAGGAG-CGTGTC-ACCCT-GATAACCAGCCATCCTCATCACGTAGGAA
4419524 TCGATGAGTC
Statistics
Matches: 321, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
128 84 0.26
129 55 0.17
130 151 0.47
131 31 0.10
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (128 bp):
ATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCT
CATCACGTAGGAGCGTGTCACCCTGATAACCAGCCATCCTCATCACGTAGGAACCGTGTTATC
Found at i:4419699 original size:3 final size:3
Alignment explanation
Indices: 4419682--4419722 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
4419672 TCTACAAATA
4419682 TAT TAT TAAT T-T TAT TAT TAT TAT TAT TAT TAT TACT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
4419723 TTGGTTACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4420084 original size:16 final size:16
Alignment explanation
Indices: 4420059--4420095 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4420049 ACCTCTGCTA
* *
4420059 CTACCGCCGACTGTTT
1 CTACCACCGACTATTT
4420075 CTACCACCGACTATTT
1 CTACCACCGACTATTT
4420091 CTACC
1 CTACC
4420096 GCTGTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.41, G:0.11, T:0.30
Consensus pattern (16 bp):
CTACCACCGACTATTT
Found at i:4421595 original size:30 final size:30
Alignment explanation
Indices: 4421339--4421652 Score: 195
Period size: 30 Copynumber: 10.6 Consensus size: 30
4421329 ATATTTATGA
*
4421339 TTTAGTCCTTTAAGTTT-TGATTTTTTCCAT
1 TTTAGTCCTTTAAGTTTCT-ATTTTTTCTAT
* * *
4421369 TCTAGTCC-TTAAGTTTATGTTTTTAT-TAT
1 TTTAGTCCTTTAAGTTTCTATTTTT-TCTAT
* * * * * *
4421398 TTTAGTCCTTTAAATGTATGTATTTGCTA-
1 TTTAGTCCTTTAAGTTTCTATTTTTTCTAT
* * **
4421427 TTTAGACCCTTTAAGTTT-T-TGTTTTACTGG
1 TTTAG-TCCTTTAAGTTTCTAT-TTTTTCTAT
* **
4421457 TTTAGCCCTTTAAGTTTCTATTTGTGAC-AT
1 TTTAGTCCTTTAAGTTTCTATTT-TTTCTAT
* **
4421487 TTTAGTCCTTTAAGTTTCTGTTTGTAAC-AT
1 TTTAGTCCTTTAAGTTTCTATTT-TTTCTAT
* *
4421517 TTTAGTACTTTAAGTTT-TAGTTTTTGT-TGT
1 TTTAGTCCTTTAAGTTTCTA-TTTTT-TCTAT
*
4421547 TTTAGTCCTTTAAATTTCTATTTTTTCTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTTCTAT
4421577 TTTAGTCCTTTAAGTTTCTATTTTTTACTAT
1 TTTAGTCCTTTAAGTTTCTATTTTTT-CTAT
* * * **
4421608 TTTGGT-CTTCAAGTTTCT-GTTAATCATAT
1 TTTAGTCCTTTAAGTTTCTATTTTTTC-TAT
4421637 TTTAGTCCTTT-AGTTT
1 TTTAGTCCTTTAAGTTT
4421653 TTTTATTGTT
Statistics
Matches: 230, Mismatches: 36, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
28 2 0.01
29 64 0.28
30 149 0.65
31 15 0.07
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTCTATTTTTTCTAT
Found at i:4421622 original size:90 final size:90
Alignment explanation
Indices: 4421457--4421623 Score: 221
Period size: 90 Copynumber: 1.9 Consensus size: 90
4421447 GTTTTACTGG
* *
4421457 TTTAGCCCTTTAAGTTTCTATTTGTGACATTTTAGTCCTTTAAGTTTCTGTTTGTAACATTTTAG
1 TTTAGCCCTTTAAATTTCTATTTGTGACATTTTAGTCCTTTAAGTTTCTATTTGTAACATTTTAG
*
4421522 TACTTTAAGTTTTAGTTTTTGTTGT
66 TACTTCAAGTTTTAGTTTTTGTTGT
* ** * *
4421547 TTTAGTCCTTTAAATTTCTATTT-TTTCTATTTTAGTCCTTTAAGTTTCTATTTTTTACTATTTT
1 TTTAGCCCTTTAAATTTCTATTTGTGAC-ATTTTAGTCCTTTAAGTTTCTATTTGTAAC-ATTTT
*
4421611 GGT-CTTCAAGTTT
64 AGTACTTCAAGTTT
4421624 CTGTTAATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 2 0.03
90 57 0.86
91 7 0.11
ACGTcount: A:0.19, C:0.12, G:0.11, T:0.58
Consensus pattern (90 bp):
TTTAGCCCTTTAAATTTCTATTTGTGACATTTTAGTCCTTTAAGTTTCTATTTGTAACATTTTAG
TACTTCAAGTTTTAGTTTTTGTTGT
Found at i:4424905 original size:13 final size:14
Alignment explanation
Indices: 4424887--4424915 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4424877 TAACTTTAAG
4424887 TTTTTTAAAA-TAT
1 TTTTTTAAAATTAT
4424900 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
4424914 TT
1 TT
4424916 GAATGCGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:4428679 original size:24 final size:24
Alignment explanation
Indices: 4428651--4428709 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
4428641 TAAAATTAAT
4428651 ATGTGTGTGTGCG-C-GCGTGCATGC
1 ATGTGTGTGTGCGTCTGCGTG--TGC
*
4428675 ATGTGTGTGCGCGTCTGCGTGTGC
1 ATGTGTGTGTGCGTCTGCGTGTGC
*
4428699 ATGTGCGTGTG
1 ATGTGTGTGTG
4428710 TGTGCATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 24 0.80
25 1 0.03
26 5 0.17
ACGTcount: A:0.07, C:0.19, G:0.42, T:0.32
Consensus pattern (24 bp):
ATGTGTGTGTGCGTCTGCGTGTGC
Found at i:4428712 original size:16 final size:16
Alignment explanation
Indices: 4428693--4428725 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4428683 GCGCGTCTGC
4428693 GTGTGCATGTGCGTGT
1 GTGTGCATGTGCGTGT
*
4428709 GTGTGCATGTGTGTGT
1 GTGTGCATGTGCGTGT
4428725 G
1 G
4428726 ATTTTAATTA
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:0.45, T:0.39
Consensus pattern (16 bp):
GTGTGCATGTGCGTGT
Found at i:4429091 original size:205 final size:205
Alignment explanation
Indices: 4428732--4429135 Score: 704
Period size: 205 Copynumber: 2.0 Consensus size: 205
4428722 TGTGATTTTA
*
4428732 ATTATCTCGTACATGCTGAATGAATATTAAAAGTTTATAATTAATGTAATTATTTTCTTTTAATA
1 ATTATCCCGTACATGCTGAATGAATATTAAAAGTTTATAATTAATGTAATTATTTTCTTTTAATA
*
4428797 AATAATTCATAAACAACCCTAGGGGTTAGGGCAACAACAGTATATAAGAAATATGATGACCTAGC
66 AATAATTCATAAACAACCCTAAGGGTTAGGGCAACAACAGTATATAAGAAATATGATGACCTAGC
* *
4428862 AGTTGTTTTATCCATTTATCGATATTTCTCAAAA-CATTTTTTGAGAAAACAAAAATTTTCTCTC
131 AGTTGTTTTATCCATTTATCGATATTTCTCAAAATAATTTTTT-AGAAAACAAAAATTTTCTCCC
4428926 GACACTGGGTG
195 GACACTGGGTG
4428937 ATTATCCCGTACATGCTGAATGAATATTAAAAGTTTATAATTAATGTAATTATTTTCTTTTAATA
1 ATTATCCCGTACATGCTGAATGAATATTAAAAGTTTATAATTAATGTAATTATTTTCTTTTAATA
* *
4429002 AATAATTCATAAA-AACCCCTAAGGGTTAGGGCAACAACAGTATATAAGAGATGTGATGACCTAG
66 AATAATTCATAAACAA-CCCTAAGGGTTAGGGCAACAACAGTATATAAGAAATATGATGACCTAG
* *
4429066 CAGTTGTTTTATCCATTTGTCGATATTTCTCAAAATAATTTTTTAGAAAAGAAAAATTTTCTCCC
130 CAGTTGTTTTATCCATTTATCGATATTTCTCAAAATAATTTTTTAGAAAACAAAAATTTTCTCCC
4429131 GACAC
195 GACAC
4429136 CAAGTGAACT
Statistics
Matches: 189, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
204 2 0.01
205 180 0.95
206 7 0.04
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (205 bp):
ATTATCCCGTACATGCTGAATGAATATTAAAAGTTTATAATTAATGTAATTATTTTCTTTTAATA
AATAATTCATAAACAACCCTAAGGGTTAGGGCAACAACAGTATATAAGAAATATGATGACCTAGC
AGTTGTTTTATCCATTTATCGATATTTCTCAAAATAATTTTTTAGAAAACAAAAATTTTCTCCCG
ACACTGGGTG
Found at i:4429681 original size:37 final size:37
Alignment explanation
Indices: 4429623--4429741 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 37
4429613 TCCCATTATC
* * *
4429623 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
*
4429659 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
*
4429695 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
4429731 ATTTTTCAAAG
1 ATTTTTCAAAG
4429742 TTGGTTGCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.37
36 18 0.24
37 29 0.39
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
Found at i:4429707 original size:35 final size:36
Alignment explanation
Indices: 4429622--4429741 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
4429612 ATCCCATTAT
* *
4429622 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
4429658 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4429694 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4429729 CAATTTTTCAAAG
1 C-ATTTTTCAAAG
4429742 TTGGTTGCCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 34 0.44
36 14 0.18
37 29 0.38
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:4433632 original size:37 final size:37
Alignment explanation
Indices: 4433574--4433692 Score: 163
Period size: 37 Copynumber: 3.3 Consensus size: 37
4433564 TCCCATTATC
* * *
4433574 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
*
4433610 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
* *
4433646 A-TTTTCAAAGAAATATTTACCAAACTTTGAAAACCA
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
4433682 ATTTTTCAAAG
1 ATTTTTCAAAG
4433693 TTGGTTGCCA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 27 0.36
36 18 0.24
37 29 0.39
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAACA
Found at i:4433658 original size:35 final size:36
Alignment explanation
Indices: 4433573--4433692 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
4433563 ATCCCATTAT
* *
4433573 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
4433609 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
*
4433645 CA-TTTTCAAAGAAATATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4433680 CAATTTTTCAAAG
1 C-ATTTTTCAAAG
4433693 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 33 0.43
36 14 0.18
37 29 0.38
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:4433704 original size:35 final size:35
Alignment explanation
Indices: 4433591--4433720 Score: 140
Period size: 35 Copynumber: 3.7 Consensus size: 35
4433581 AACAAACATC
* * *
4433591 TACCAAACTTTGAAAAACTATTTTTCAAAGAAACATT
1 TACCAAACTTTG-AAAACCATTTTTCAAAG-AATAGT
*
4433628 TACCAAACTTTGAAAACCA-TTTTCAAAGAAATATT
1 TACCAAACTTTGAAAACCATTTTTCAAAG-AATAGT
* *
4433663 TACCAAACTTTGAAAACCAATTTTTCAAAG-TTGGT
1 TACCAAACTTTGAAAACC-ATTTTTCAAAGAATAGT
*
4433698 TGCCAAAC-TTGAAAACCATTTTT
1 TACCAAACTTTGAAAACCATTTTT
4433721 AACAATACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
33 6 0.07
34 9 0.11
35 42 0.49
36 7 0.08
37 21 0.25
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (35 bp):
TACCAAACTTTGAAAACCATTTTTCAAAGAATAGT
Found at i:4437760 original size:16 final size:16
Alignment explanation
Indices: 4437739--4437770 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4437729 GTGAAAATCA
*
4437739 AAGTTGTTGTAGACTT
1 AAGTTGTTGAAGACTT
4437755 AAGTTGTTGAAGACTT
1 AAGTTGTTGAAGACTT
4437771 GAAAACCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (16 bp):
AAGTTGTTGAAGACTT
Found at i:4463768 original size:41 final size:41
Alignment explanation
Indices: 4463721--4463833 Score: 167
Period size: 41 Copynumber: 2.8 Consensus size: 41
4463711 TTGCATTTCG
*
4463721 CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTACAAT-GT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAATCGT
* *
4463762 CGTTGCGATTTTCCAAATTCGTTGCGAAAGTCTACATTCGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAATCGT
4463803 CGTTGCGATTTTCCAAATTCGTTGCGATAGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGT
4463834 TAAAAAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
40 17 0.26
41 46 0.70
42 3 0.05
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAATCGT
Found at i:4463785 original size:19 final size:19
Alignment explanation
Indices: 4463721--4463830 Score: 69
Period size: 19 Copynumber: 5.5 Consensus size: 19
4463711 TTGCATTTCG
*
4463721 CGTTGCGATTTTCC-ATTT
1 CGTTGCGATTTTCCAAATT
** *
4463739 CGCGTTGCGATAGTCTACAATGT
1 --CGTTGCGATTTTCCA-AAT-T
4463762 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
*** * *
4463781 CGTTGCGAAAGTCTACATTCGT
1 CGTTGCGATTTTCCA-AAT--T
4463803 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
4463822 CGTTGCGAT
1 CGTTGCGAT
4463831 AGTTAAAAAA
Statistics
Matches: 67, Mismatches: 17, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
19 22 0.33
20 16 0.24
21 14 0.21
22 14 0.21
23 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:4464472 original size:6 final size:6
Alignment explanation
Indices: 4464436--4464512 Score: 119
Period size: 6 Copynumber: 13.7 Consensus size: 6
4464426 TCTCGTCTCA
4464436 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
4464479 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
4464513 ATACATGTCT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 25 0.35
6 46 0.65
ACGTcount: A:0.00, C:0.18, G:0.53, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:4464656 original size:38 final size:40
Alignment explanation
Indices: 4464605--4464691 Score: 142
Period size: 38 Copynumber: 2.2 Consensus size: 40
4464595 CAATGAATTT
*
4464605 TCGCAATGAATTTGGAAAATCGC-A-ACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACACAACTGTAGACTA
4464643 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAAC-ACAACTGTAGACTA
4464684 TCGCAACG
1 TCGCAACG
4464692 CGAACTGGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
38 22 0.49
39 1 0.02
41 22 0.49
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (40 bp):
TCGCAACGAATTTGGAAAATCGCAACACAACTGTAGACTA
Found at i:4464668 original size:19 final size:19
Alignment explanation
Indices: 4464605--4464670 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
4464595 CAATGAATTT
*
4464605 TCGCAATGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
4464624 TCGCAAC-AACTGTAGACTA
1 TCGCAACGAA-TTTGGAAAA
4464643 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
4464662 TCGCAACGA
1 TCGCAACGA
4464671 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
18 2 0.06
19 32 0.89
20 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:4464689 original size:22 final size:22
Alignment explanation
Indices: 4464629--4464691 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 22
4464619 GAAAATCGCA
4464629 ACAACTGTAGACTATCGCAACG
1 ACAACTGTAGACTATCGCAACG
* * **
4464651 --AA-TTTGGAAAATCGCAACG
1 ACAACTGTAGACTATCGCAACG
4464670 ACAACTGTAGACTATCGCAACG
1 ACAACTGTAGACTATCGCAACG
4464692 CGAACTGGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 2 0.07
22 13 0.43
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (22 bp):
ACAACTGTAGACTATCGCAACG
Found at i:4464697 original size:22 final size:22
Alignment explanation
Indices: 4464631--4464698 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
4464621 AAATCGCAAC
4464631 AACTGTAGACTATCGCAA--CG
1 AACTGTAGACTATCGCAACGCG
* * **
4464651 AA-TTTGGAAAATCGCAACGAC-
1 AACTGTAGACTATCGCAACG-CG
4464672 AACTGTAGACTATCGCAACGCG
1 AACTGTAGACTATCGCAACGCG
4464694 AACTG
1 AACTG
4464699 GAAAATCGTA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 3 0.09
22 19 0.54
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (22 bp):
AACTGTAGACTATCGCAACGCG
Found at i:4466357 original size:3 final size:3
Alignment explanation
Indices: 4466344--4466391 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
4466334 TAATAACATT
* *
4466344 ATA ATA A-A ATA ATAA ATA ATA ATG ATA ATA ATA ACAA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
4466390 AT
1 AT
4466392 GAAAATAAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 5 0.13
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4466382 original size:22 final size:21
Alignment explanation
Indices: 4466347--4466399 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
4466337 TAACATTATA
*
4466347 ATAAAATAATAAATAATAATG
1 ATAAAATAACAAATAATAATG
*
4466368 ATAATAATAACAAATAATAATA
1 ATAA-AATAACAAATAATAATG
4466390 ATGAAAATAA
1 AT-AAAATAA
4466400 GCATCAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 4 0.14
22 22 0.79
23 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (21 bp):
ATAAAATAACAAATAATAATG
Found at i:4466390 original size:19 final size:20
Alignment explanation
Indices: 4466323--4466391 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 20
4466313 TTTGAAAATA
* *
4466323 AATAAAAATATTAATAACAT
1 AATAATAATAATAATAACAT
*
4466343 TATAATAA-AATAATAA-AT
1 AATAATAATAATAATAACAT
*
4466361 AATAATGATAATAATAACA-
1 AATAATAATAATAATAACAT
4466380 AATAATAATAAT
1 AATAATAATAAT
4466392 GAAAATAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
18 8 0.20
19 26 0.63
20 7 0.17
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (20 bp):
AATAATAATAATAATAACAT
Found at i:4468041 original size:11 final size:13
Alignment explanation
Indices: 4468012--4468036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4468002 TTTCAAAAGG
4468012 TGAAAAAGTTTTA
1 TGAAAAAGTTTTA
4468025 TGAAAAAGTTTT
1 TGAAAAAGTTTT
4468037 GAAAATGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
TGAAAAAGTTTTA
Found at i:4468087 original size:18 final size:18
Alignment explanation
Indices: 4468050--4468087 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4468040 AATGCCTTTT
*
4468050 TGAAAGAATTTTAAATAA
1 TGAAAGAATTTTAAAGAA
*
4468068 TGAAAGAATTTTGAAGAA
1 TGAAAGAATTTTAAAGAA
4468086 TG
1 TG
4468088 TTTGATGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (18 bp):
TGAAAGAATTTTAAAGAA
Found at i:4469006 original size:2 final size:2
Alignment explanation
Indices: 4468999--4469045 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
4468989 ATTCTTCAAT
*
4468999 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT 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
4469041 TA TA T
1 TA TA T
4469046 TAACCACGTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4469688 original size:54 final size:54
Alignment explanation
Indices: 4469629--4469855 Score: 276
Period size: 54 Copynumber: 4.2 Consensus size: 54
4469619 GGTGCACATA
* * * * * *
4469629 TAGTGCTGATACGGTCATTCA-AAAATTCATTGTGAATTCCGTTGGTTACACCCT
1 TAGTGCCGATACAGTCATTCATAAACTT-ATTATGAATTCCGTGGGTTACACACT
* * * *
4469683 TAGTGCCAATACAGTCGTTCATAAACTTATTATGAATTACGTGGGTTGCACACT
1 TAGTGCCGATACAGTCATTCATAAACTTATTATGAATTCCGTGGGTTACACACT
* * * *
4469737 TAGTGTCGATACAGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACACT
1 TAGTGCCGATACAGTCATTCATAAACTTATTATGAATTCCGTGGGTTACACACT
** * *
4469791 TAGTGCCGATATGGTCATTCATAAACTTATTATGAATTTCGTGGGTTACACACA
1 TAGTGCCGATACAGTCATTCATAAACTTATTATGAATTCCGTGGGTTACACACT
4469845 TAGTGCCGATA
1 TAGTGCCGATA
4469856 GTACACATAA
Statistics
Matches: 150, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 145 0.97
55 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (54 bp):
TAGTGCCGATACAGTCATTCATAAACTTATTATGAATTCCGTGGGTTACACACT
Found at i:4470328 original size:21 final size:18
Alignment explanation
Indices: 4470304--4470342 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
4470294 ATCAATATCA
4470304 ATACTAATTGCATCCGTATTT
1 ATACT-ATT-CATCC-TATTT
4470325 ATACTATTCATCCTATTT
1 ATACTATTCATCCTATTT
4470343 CCCCAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 3 0.17
21 5 0.28
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (18 bp):
ATACTATTCATCCTATTT
Found at i:4475329 original size:54 final size:53
Alignment explanation
Indices: 4475241--4475397 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 53
4475231 CAATAAGGAA
* * * *
4475241 ATTCACAAACTCATTTTGAAATCCT-TGGGATGCACATATAGTGCCGATATGGTC
1 ATTCACAAACTCATTATG-AATTCTGTGGGTTGCACAT-TAGTGCCGATACGGTC
* * * * *
4475295 ATTCACAAACTCATTGTGAATTCTGTAGGTTGCACCCTTAGTGTCAATACGGTC
1 ATTCACAAACTCATTATGAATTCTGTGGGTTGCA-CATTAGTGCCGATACGGTC
* * * *
4475349 GTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATA
1 ATTCACAAACTCATTATGAATTCTGTGGGTTGCACA-TTAGTGCCGATA
4475398 GTACACATAG
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
53 6 0.07
54 75 0.90
55 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (53 bp):
ATTCACAAACTCATTATGAATTCTGTGGGTTGCACATTAGTGCCGATACGGTC
Found at i:4478754 original size:14 final size:15
Alignment explanation
Indices: 4478735--4478764 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4478725 AAATAAATGC
4478735 AATACAGA-ATACAA
1 AATACAGAGATACAA
4478749 AATACAGAGATACAA
1 AATACAGAGATACAA
4478764 A
1 A
4478765 TGTGAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
AATACAGAGATACAA
Found at i:4480469 original size:20 final size:20
Alignment explanation
Indices: 4480429--4480470 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4480419 TTAATAAACC
*
4480429 TAATTAAAAAAAATAACAAA
1 TAATTAAAAAAAATAAAAAA
4480449 TAATTAAAAAACAA-AAAAAA
1 TAATTAAAAAA-AATAAAAAA
4480469 TA
1 TA
4480471 GTAAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (20 bp):
TAATTAAAAAAAATAAAAAA
Found at i:4482529 original size:136 final size:136
Alignment explanation
Indices: 4482303--4482568 Score: 347
Period size: 136 Copynumber: 2.0 Consensus size: 136
4482293 GGTCCCTCAT
* * * * * *
4482303 GTGAGGCGTCGCTCATTCAAAGTGTTGTGAATCGAGCAATAAGTCGAACAAGTTCTTCTTATTAT
1 GTGAGGCGTCGCTCATTCAAAGTGTTATGAATCGAGAAATAAGTCAAACAAATTCTTCTCATCAT
** * *
4482368 GAACTTTTTCTCCCTCTGATGGATGAGTTATTCTCATTAGGAACTCTCCGTTAGAAATGTCAATC
66 GAACTTCCTCTCCCTCTGATGGATGAGCTATTCTCATTAGGAACTCTCCATTAGAAATGTCAATC
4482433 CCTTAA
131 CCTTAA
* * * *
4482439 GTGAGGCGTTGCTGA-TCTAAAGTGTTATGAATCTAGAAATAGGTCAAACAAATTCTTCTCATCA
1 GTGAGGCGTCGCTCATTC-AAAGTGTTATGAATCGAGAAATAAGTCAAACAAATTCTTCTCATCA
* * *
4482503 TGAACTTCCTCTCCCTCTG-TCGGATGAGCTATTCTCATTATGAACTCTCCATTTGAAATGTTAA
65 TGAACTTCCTCTCCCTCTGAT-GGATGAGCTATTCTCATTAGGAACTCTCCATTAGAAATGTCAA
4482567 TC
129 TC
4482569 ACTCATCTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
135 3 0.03
136 108 0.97
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (136 bp):
GTGAGGCGTCGCTCATTCAAAGTGTTATGAATCGAGAAATAAGTCAAACAAATTCTTCTCATCAT
GAACTTCCTCTCCCTCTGATGGATGAGCTATTCTCATTAGGAACTCTCCATTAGAAATGTCAATC
CCTTAA
Found at i:4483049 original size:58 final size:56
Alignment explanation
Indices: 4482979--4483238 Score: 212
Period size: 54 Copynumber: 4.7 Consensus size: 56
4482969 AAGGACTTAG
* * * * * *
4482979 TCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTC-TTAAAATCTTTCATTTATAGTTA
1 TCATCAAGAAACCC-TGAAAATTAGGCTTAGTTTCTTTAAAA--ATTCATTTAAAATAA
* * *
4483037 TCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCTTTTAAAATAA
1 TCATCAAGAAA-CCCTGAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTAAAATAA
* **
4483094 TCATCAAGAAATCCCTGAAAATTAGGCTTAG-TT-TATAAAAATTCATTTTGAA-AA
1 TCATCAAGAAA-CCCTGAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTAAAATAA
* * * **
4483148 -CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTC-TTTTGAA-AA
1 TCATCAAGAAA-CCCTGAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTAAAATAA
* * * *
4483202 -CATTAAGAAATCCCTGAAAATCAAGCTTAGCTTCTTT
1 TCATCAAGAAA-CCCTGAAAATTAGGCTTAGTTTCTTT
4483239 CAAATTCGTC
Statistics
Matches: 174, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
53 28 0.16
54 45 0.26
55 24 0.14
56 2 0.01
57 39 0.22
58 27 0.16
59 9 0.05
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (56 bp):
TCATCAAGAAACCCTGAAAATTAGGCTTAGTTTCTTTAAAAATTCATTTAAAATAA
Found at i:4483242 original size:54 final size:54
Alignment explanation
Indices: 4483038--4483238 Score: 262
Period size: 54 Copynumber: 3.7 Consensus size: 54
4483028 TTATAGTTAT
*
4483038 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCTTTTAAAATAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCTTTT-GAA-AA
* * *
4483094 TCATCAAGAAATCCCTGAAAATTAGGCTTAG-TT-TATAAAAATTCATTTTGAAAA
1 -CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTC-TTTTGAAAA
*
4483148 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTCAAAATTCTTTTGAAAA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCTTTTGAAAA
* * * * *
4483202 CATTAAGAAATCCCTGAAAATCAAGCTTAGCTTCTTT
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT
4483239 CAAATTCGTC
Statistics
Matches: 128, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
53 28 0.22
54 45 0.35
55 21 0.16
56 6 0.05
57 28 0.22
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCTTTTGAAAA
Found at i:4483955 original size:18 final size:17
Alignment explanation
Indices: 4483934--4483993 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
4483924 ATATGGGAAT
4483934 ATATATTATTATGAGTAC
1 ATATATTATTAT-AGTAC
*
4483952 ATATAAATATTATAGTAC
1 ATAT-ATTATTATAGTAC
* *
4483970 TTATATATATATATA-TAT
1 ATATAT-TAT-TATAGTAC
4483988 ATATAT
1 ATATAT
4483994 ATATATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 22 0.65
19 11 0.32
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (17 bp):
ATATATTATTATAGTAC
Found at i:4483978 original size:2 final size:2
Alignment explanation
Indices: 4483971--4484010 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4483961 TTATAGTACT
4483971 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
4484011 ATAATATTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4485742 original size:21 final size:21
Alignment explanation
Indices: 4485696--4485742 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
4485686 TTTTCTTCTT
* *
4485696 ATTTTATTTATTTTATTTATC
1 ATTTTATTTATGTTATTTACC
*
4485717 TTTTTATTTACTGTT-TTTACC
1 ATTTTATTTA-TGTTATTTACC
4485738 ATTTT
1 ATTTT
4485743 TCATTGCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATTTATGTTATTTACC
Found at i:4490574 original size:30 final size:30
Alignment explanation
Indices: 4490538--4490811 Score: 512
Period size: 30 Copynumber: 9.1 Consensus size: 30
4490528 GAAGGACCTA
4490538 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4490568 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4490598 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4490628 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4490658 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
4490688 TCCAGAGGTCATAAAGATCCTCAGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4490718 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
**
4490748 TCCAGAGGTCATAAAGATCCTCGGTAGTTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
4490778 TCCAGAGGTCATAAAGATCCTCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4490808 TCCA
1 TCCA
4490812 TATGTTCCTT
Statistics
Matches: 237, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 237 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:4491133 original size:20 final size:20
Alignment explanation
Indices: 4491108--4491170 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
4491098 TTCATATTCT
4491108 TTCTTATGTCCTTTTCATAC
1 TTCTTATGTCCTTTTCATAC
* * *
4491128 TTCTTATTTCATATTC-T--
1 TTCTTATGTCCTTTTCATAC
4491145 TTCTTATGTCCTTTTCATAC
1 TTCTTATGTCCTTTTCATAC
4491165 TTCTTA
1 TTCTTA
4491171 CTTCATATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.38
18 1 0.03
19 1 0.03
20 19 0.56
ACGTcount: A:0.16, C:0.22, G:0.03, T:0.59
Consensus pattern (20 bp):
TTCTTATGTCCTTTTCATAC
Found at i:4491137 original size:37 final size:37
Alignment explanation
Indices: 4491095--4491182 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
4491085 ATATTCTGTA
4491095 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
1 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
4491132 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
1 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
*
4491169 TACTTCATATTCTT
1 TATTTCATATTCTT
4491183 ATGAAATCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (37 bp):
TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
Found at i:4491183 original size:13 final size:13
Alignment explanation
Indices: 4491121--4491183 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
4491111 TTATGTCCTT
*
4491121 TTCATACTTCTTAT
1 TTCATA-TTCTTAC
*
4491135 TTCATATTCTTTC
1 TTCATATTCTTAC
* *
4491148 TT-ATGTCCTT--
1 TTCATATTCTTAC
4491158 TTCATACTTCTTAC
1 TTCATA-TTCTTAC
4491172 TTCATATTCTTA
1 TTCATATTCTTA
4491184 TGAAATCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.05
11 2 0.05
12 10 0.26
13 13 0.33
14 12 0.31
ACGTcount: A:0.19, C:0.22, G:0.02, T:0.57
Consensus pattern (13 bp):
TTCATATTCTTAC
Found at i:4495218 original size:30 final size:30
Alignment explanation
Indices: 4495182--4495450 Score: 520
Period size: 30 Copynumber: 9.0 Consensus size: 30
4495172 GAAGGACCTA
4495182 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4495212 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4495242 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4495272 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
4495302 TCCAAAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
4495332 TCTAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4495362 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4495392 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
4495422 TCCAGAGGTCATAAAGATCCTCGGTAACT
1 TCCAGAGGTCATAAAGATCCTCGGTAACT
4495451 ATCTATATGT
Statistics
Matches: 235, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 235 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:4495777 original size:20 final size:20
Alignment explanation
Indices: 4495752--4495814 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
4495742 TTCATATTCT
4495752 TTCTTATGTCCTTTTCATAC
1 TTCTTATGTCCTTTTCATAC
* * *
4495772 TTCTTATTTCATATTC-T--
1 TTCTTATGTCCTTTTCATAC
4495789 TTCTTATGTCCTTTTCATAC
1 TTCTTATGTCCTTTTCATAC
4495809 TTCTTA
1 TTCTTA
4495815 CTTCATATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 13 0.38
18 1 0.03
19 1 0.03
20 19 0.56
ACGTcount: A:0.16, C:0.22, G:0.03, T:0.59
Consensus pattern (20 bp):
TTCTTATGTCCTTTTCATAC
Found at i:4495781 original size:37 final size:37
Alignment explanation
Indices: 4495739--4495825 Score: 165
Period size: 37 Copynumber: 2.4 Consensus size: 37
4495729 ATATTCTGTA
4495739 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
1 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
4495776 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
1 TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
*
4495813 TACTTCATATTCT
1 TATTTCATATTCT
4495826 ATTGAAATCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.17, C:0.22, G:0.02, T:0.59
Consensus pattern (37 bp):
TATTTCATATTCTTTCTTATGTCCTTTTCATACTTCT
Found at i:4504244 original size:83 final size:84
Alignment explanation
Indices: 4504147--4504313 Score: 302
Period size: 83 Copynumber: 2.0 Consensus size: 84
4504137 TGATCACTAA
4504147 ATCGAAGTTGTTTTTTTTAATTTATTAATTTGGTCTTCATGTTGTAAGGACTATTCATTTCAGTC
1 ATCGAAGTTGTTTTTTTTAATTTATTAATTTGGTCTTCATGTTGTAAGGACTATTCATTTCAGTC
4504212 CTGGTTTGTTGTTA-GTTT
66 CTGGTTTGTTGTTATGTTT
*
4504230 ATCGAAG-TGTTTTTTTTTATTTTATTAATTTGGTCTTCATGTTGTAAGGACTATTCATTTCAGT
1 ATCGAAGTTG-TTTTTTTTAATTTATTAATTTGGTCTTCATGTTGTAAGGACTATTCATTTCAGT
4504294 CCTGGTTTGTTGTTATGTTT
65 CCTGGTTTGTTGTTATGTTT
4504314 TAATTTTGAA
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
82 2 0.02
83 75 0.93
84 4 0.05
ACGTcount: A:0.19, C:0.10, G:0.18, T:0.54
Consensus pattern (84 bp):
ATCGAAGTTGTTTTTTTTAATTTATTAATTTGGTCTTCATGTTGTAAGGACTATTCATTTCAGTC
CTGGTTTGTTGTTATGTTT
Found at i:4517176 original size:106 final size:106
Alignment explanation
Indices: 4516947--4517633 Score: 713
Period size: 105 Copynumber: 6.5 Consensus size: 106
4516937 TAAAGCAAAT
* * * * *
4516947 GAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGC-GACCCATTGGCAGAACATTGTTCG
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCG
*
4517011 AGTTCTACACTCCCTT-AAGCAAGAGGGAGTGAACCCGTAGGCA
66 AGTTCT--ACT-CCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
* *
4517054 TAAGATAGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCG
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCG
*
4517119 AGTTCTACTCCTTGAAGCAAGAGGTAGTGAACCTGTAGGCA
66 AGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
* * * * * ** * * * *
4517160 GAAGATCGTTCAAGTTCTTACTCCCTGAAGTAAGAGGGAACGAGTCTGTAGGCAAAATATTGTCC
1 GAAGATTGTTCGAGTTC-TACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTC
* *
4517225 G-GTTCTACTCCCTGAAGCAAGAGGGAATGAACCTGTAGGCA
65 GAGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
* * * *
4517266 GAAGATTGTTCGAGTTCTACTCCCTGAAGCTAGAGGGAG-AGAACCCGTAGGTAGAAGATTATTT
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCA-AACCCGTAGGCAGAAGATTGTTC
*
4517330 GAGTTCTACTTCC-TGAAGCAAGAGGGAGCGAACCTGTAGGCA
65 GAGTTCTAC-TCCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
* *** *
4517372 GAAGATTG-TCCAGTTCTACTCCCTGAAGCAAGACAAACCAAACCCGTAGGCAGAAGATTGTTCG
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCG
* * * * * *
4517436 AGTTCTACTTC-TGAAGCGATAGGGAGCGAACCCGTAGACA
66 AGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
** * ** * * * * *
4517476 GAAGATTGTTCGAGTTCTACTCCCTGAAATAGGAGGGAGTGAACTCATTGGCAGAAGATTATTCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCG
** *
4517541 AGTTCTATACTCCTTGAAGCAAGAGGGAGTGAACCCATTGGCA
66 AGTTC--TACTCCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
* * * * * * *
4517584 TAATATTATTCGAGTTCCATACTCCCTGAAGCGATAAGGAGCGAACCCGT
1 GAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCAAACCCGT
4517634 TTTTTCGAGG
Statistics
Matches: 478, Mismatches: 89, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
104 35 0.07
105 137 0.29
106 137 0.29
107 84 0.18
108 62 0.13
109 1 0.00
110 22 0.05
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (106 bp):
GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCAGAAGATTGTTCG
AGTTCTACTCCTTGAAGCAAGAGGGAGTGAACCTGTAGGCA
Found at i:4517421 original size:52 final size:53
Alignment explanation
Indices: 4516947--4517633 Score: 725
Period size: 53 Copynumber: 12.9 Consensus size: 53
4516937 TAAAGCAAAT
* * *
4516947 GAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCG-ACCCATTGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * *
4516999 GAACATTGTTCGAGTTCTACACTCCCTTAAGCAAGAGGGAGTGAACCCGTAGGCA
1 GAAGATTGTTCGAGTTCT--ACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * *
4517054 TAAGATAGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * *
4517107 GAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGTAGTGAACCTGTAGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * * ** *
4517160 GAAGATCGTTCAAGTTCTTACTCCCTGAAGTAAGAGGGAACGAGTCTGTAGGCA
1 GAAGATTGTTCGAGTTC-TACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * ** *
4517214 AAATATTGTCCG-GTTCTACTCCCTGAAGCAAGAGGGAATGAACCTGTAGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * *
4517266 GAAGATTGTTCGAGTTCTACTCCCTGAAGCTAGAGGGAGAGAACCCGTAGGTA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * *
4517319 GAAGATTATTTGAGTTCTACTTCCTGAAGCAAGAGGGAGCGAACCTGTAGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* *** * *
4517372 GAAGATTG-TCCAGTTCTACTCCCTGAAGCAAGACAAACCAAACCCGTAGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * *
4517424 GAAGATTGTTCGAGTTCTACT-TCTGAAGCGATAGGGAGCGAACCCGTAGACA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
** * * * * *
4517476 GAAGATTGTTCGAGTTCTACTCCCTGAAATAGGAGGGAGTGAACTCATTGGCA
1 GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * * * *
4517529 GAAGATTATTCAAGTTCTATACTCCTTGAAGCAAGAGGGAGTGAACCCATTGGCA
1 GAAGATTGTTCGAGTTC--TACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
* * * * * *
4517584 TAATATTATTCGAGTTCCATACTCCCTGAAGCGATAAGGAGCGAACCCGT
1 GAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGAACCCGT
4517634 TTTTTCGAGG
Statistics
Matches: 526, Mismatches: 99, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
52 143 0.27
53 231 0.44
54 57 0.11
55 94 0.18
56 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (53 bp):
GAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCA
Found at i:4517981 original size:18 final size:18
Alignment explanation
Indices: 4517935--4517988 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 18
4517925 TATATGCGAG
4517935 TATATATTATTATGAGTACA
1 TATATA-TATTAT-AGTACA
*
4517955 TATAAATATTATAGTACTCA
1 TATATATATTATAGTA--CA
4517975 TATATATATATATA
1 TATATATAT-TATA
4517989 TATTCTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 15 0.52
21 4 0.14
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (18 bp):
TATATATATTATAGTACA
Found at i:4520769 original size:28 final size:28
Alignment explanation
Indices: 4520729--4520794 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
4520719 GTGTAAAGAT
4520729 TAATGTGTTTAATGTTAACTTGGGAAAG
1 TAATGTGTTTAATGTTAACTTGGGAAAG
* *
4520757 TAATGTGTTTAATGTTAATTTGGGGAAG
1 TAATGTGTTTAATGTTAACTTGGGAAAG
4520785 TAATGTGTTT
1 TAATGTGTTT
4520795 CAGGTTGGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (28 bp):
TAATGTGTTTAATGTTAACTTGGGAAAG
Found at i:4521452 original size:7 final size:7
Alignment explanation
Indices: 4521442--4521502 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
4521432 TTCTTCTTTC
4521442 TTTTTTA
1 TTTTTTA
4521449 TTTTTTA
1 TTTTTTA
4521456 TTTTTTTTA
1 --TTTTTTA
4521465 TTTTTTA
1 TTTTTTA
*
4521472 TATTTT-
1 TTTTTTA
*
4521478 TTATTT-
1 TTTTTTA
4521484 TTTTTTA
1 TTTTTTA
4521491 TTTTTTTA
1 -TTTTTTA
4521499 TTTT
1 TTTT
4521503 CATTTTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 9 0.20
7 23 0.50
8 7 0.15
9 7 0.15
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:4521461 original size:16 final size:16
Alignment explanation
Indices: 4521442--4521511 Score: 90
Period size: 16 Copynumber: 4.3 Consensus size: 16
4521432 TTCTTCTTTC
4521442 TTTTTTATTTTTTATT
1 TTTTTTATTTTTTATT
*
4521458 TTTTTTATTTTTTATA
1 TTTTTTATTTTTTATT
4521474 TTTTTTATTTTTT-TT
1 TTTTTTATTTTTTATT
4521489 TATTTTT-TTATTTTCATT
1 T-TTTTTATT-TTTT-ATT
4521507 TTTTT
1 TTTTT
4521512 GCTATATCTC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.08
16 37 0.77
17 4 0.08
18 3 0.06
ACGTcount: A:0.13, C:0.01, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTATTTTTTATT
Found at i:4521509 original size:25 final size:23
Alignment explanation
Indices: 4521442--4521511 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 23
4521432 TTCTTCTTTC
4521442 TTTTTTATTTTTTATTTTTTTTAT
1 TTTTTTATTTTTT-TTTTTTTTAT
4521466 TTTTTATATTTTTTATTTTTTTTTAT
1 TTTTT-TA-TTTTT-TTTTTTTTTAT
**
4521492 TTTTTTATTTTCATTTTTTT
1 TTTTTTATTTTTTTTTTTTT
4521512 GCTATATCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 7 0.17
24 9 0.22
25 4 0.10
26 20 0.49
27 1 0.02
ACGTcount: A:0.13, C:0.01, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTTTATTTTTTTTTTTTTTAT
Found at i:4521511 original size:1 final size:1
Alignment explanation
Indices: 4521442--4521502 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
4521432 TTCTTCTTTC
* * * * * * * *
4521442 TTTTTTATTTTTTATTTTTTTTATTTTTTATATTTTTTATTTTTTTTTATTTTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4521503 CATTTTTTTG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:4521511 original size:9 final size:8
Alignment explanation
Indices: 4521442--4521502 Score: 79
Period size: 9 Copynumber: 7.4 Consensus size: 8
4521432 TTCTTCTTTC
4521442 TTTTTTA-
1 TTTTTTAT
4521449 TTTTTTATT
1 TTTTTTA-T
4521458 TTTTTTAT
1 TTTTTTAT
4521466 TTTTTATAT
1 TTTTT-TAT
*
4521475 TTTTTATTT
1 TTTTT-TAT
4521484 TTTTTTAT
1 TTTTTTAT
4521492 TTTTTTAT
1 TTTTTTAT
4521500 TTT
1 TTT
4521503 CATTTTTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
7 7 0.14
8 19 0.39
9 23 0.47
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:4525363 original size:29 final size:28
Alignment explanation
Indices: 4525310--4525377 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
4525300 AAACCTAATT
4525310 AAATAAA-AT-AAAAAAACAAATAATAA
1 AAATAAACATAAAAAAAACAAATAATAA
*
4525336 TAA-AAACAGTAAAAAACAACATAA-AATAA
1 AAATAAACA-TAAAAAA-AACA-AATAATAA
4525365 AAATAAACATAAA
1 AAATAAACATAAA
4525378 CATAAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 3 0.09
26 3 0.09
27 1 0.03
28 5 0.15
29 15 0.44
30 7 0.21
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.15
Consensus pattern (28 bp):
AAATAAACATAAAAAAAACAAATAATAA
Found at i:4525367 original size:17 final size:18
Alignment explanation
Indices: 4525339--4525383 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
4525329 ATAATAATAA
4525339 AAACAGTAAAAA-ACAACAT
1 AAACA-TAAAAATA-AACAT
4525358 AAA-ATAAAAATAAACAT
1 AAACATAAAAATAAACAT
4525375 AAACATAAA
1 AAACATAAA
4525384 TACAAGGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 14 0.58
18 7 0.29
19 3 0.12
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.13
Consensus pattern (18 bp):
AAACATAAAAATAAACAT
Found at i:4527975 original size:31 final size:32
Alignment explanation
Indices: 4527922--4527981 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
4527912 AAATGGATTC
4527922 ATAAAATAAACGAAATAATTATAATTATAATA
1 ATAAAATAAACGAAATAATTATAATTATAATA
* * *
4527954 ATAAAATAAA-TAAATATTTATAGTTATA
1 ATAAAATAAACGAAATAATTATAATTATA
4527982 TTACAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (32 bp):
ATAAAATAAACGAAATAATTATAATTATAATA
Found at i:4528020 original size:16 final size:16
Alignment explanation
Indices: 4527986--4528027 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
4527976 GTTATATTAC
*
4527986 AATAA-AAAT-AATGA
1 AATAATAAATAAATAA
4528000 AATAATAAATAAATAA
1 AATAATAAATAAATAA
*
4528016 AATAATGAATAA
1 AATAATAAATAA
4528028 TTAATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 4 0.17
16 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (16 bp):
AATAATAAATAAATAA
Found at i:4528039 original size:23 final size:24
Alignment explanation
Indices: 4527990--4528043 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
4527980 TATTACAATA
4527990 AAAATAATGAAATAATAAATAAAT
1 AAAATAATGAAATAATAAATAAAT
* * *
4528014 AAAATAATG-AATAATTAATTATT
1 AAAATAATGAAATAATAAATAAAT
4528037 AAAATAA
1 AAAATAA
4528044 CTTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAATAATGAAATAATAAATAAAT
Found at i:4530757 original size:25 final size:26
Alignment explanation
Indices: 4530707--4530759 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
4530697 ATTGGATCCA
*
4530707 TTATAAAATTTTAAAAGAAAGTAAAT
1 TTATAAAATTTTAAAAGAAAATAAAT
* *
4530733 TTATAAAATTTT-GAGGAAAATAAAT
1 TTATAAAATTTTAAAAGAAAATAAAT
4530758 TT
1 TT
4530760 TCAATAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (26 bp):
TTATAAAATTTTAAAAGAAAATAAAT
Found at i:4531153 original size:27 final size:28
Alignment explanation
Indices: 4531104--4531161 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
4531094 AGGGGTGCAC
4531104 AAAAAATCCGAATATCCGATTTTGCGAA
1 AAAAAATCCGAATATCCGATTTTGCGAA
* *
4531132 AAAAATATCCGAA-A-CCGGTTTTGGGAA
1 AAAAA-ATCCGAATATCCGATTTTGCGAA
4531159 AAA
1 AAA
4531162 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 14 0.52
28 6 0.22
29 7 0.26
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGATTTTGCGAA
Found at i:4531271 original size:15 final size:14
Alignment explanation
Indices: 4531250--4531291 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
4531240 TTTTACCGGA
4531250 TAAAAAAACCGGTT
1 TAAAAAAACCGGTT
4531264 TGAAAAAAACCGG-T
1 T-AAAAAAACCGGTT
4531278 T-AAAAAACCGGTT
1 TAAAAAAACCGGTT
4531291 T
1 T
4531292 TTATCCGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 10 0.38
13 2 0.08
14 3 0.12
15 11 0.42
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (14 bp):
TAAAAAAACCGGTT
Done.