Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 20 of 196
Found at i:5840673 original size:49 final size:49
Alignment explanation
Indices: 5840603--5840706 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
5840593 GAAAAAAAAT
* ** * *
5840603 AAATTAAAATTAAGTTTAATATCATGAATCAAAATGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
*
5840652 AAATTAAAATTGAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
5840701 AAATTA
1 AAATTA
5840707 TAGCACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
Found at i:5840875 original size:56 final size:56
Alignment explanation
Indices: 5840814--5840928 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 56
5840804 AAATTACATA
* *
5840814 TTTCTTTAAAGAATTTTTAGAAGCACTTTCAATCATAATAACAATGAATATTTGTT
1 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
5840870 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
1 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
5840926 TTT
1 TTT
5840929 TAATCAAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (56 bp):
TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
Found at i:5841154 original size:24 final size:26
Alignment explanation
Indices: 5841102--5841151 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
5841092 TATATGTAAT
5841102 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
5841129 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
5841152 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:5841181 original size:32 final size:32
Alignment explanation
Indices: 5841145--5841207 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
5841135 TAAAAATATT
*
5841145 TTTAATTAATGCGTTGTATATGACTATACACA
1 TTTAATTAATGCGTTGTATATGAATATACACA
5841177 TTTAATTAATGCGTTGTATATGAATATACAC
1 TTTAATTAATGCGTTGTATATGAATATACAC
5841208 TAGTGCAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (32 bp):
TTTAATTAATGCGTTGTATATGAATATACACA
Found at i:5841438 original size:25 final size:25
Alignment explanation
Indices: 5841410--5841462 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
5841400 CAATTTACTG
5841410 GAATTACAACTATAAAATACCTCTT
1 GAATTACAACTATAAAATACCTCTT
*
5841435 GAATTGCAACTATAAAATACCTCTT
1 GAATTACAACTATAAAATACCTCTT
5841460 GAA
1 GAA
5841463 ATGTAACTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (25 bp):
GAATTACAACTATAAAATACCTCTT
Found at i:5841470 original size:25 final size:25
Alignment explanation
Indices: 5841416--5841471 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
5841406 ACTGGAATTA
*
5841416 CAACTATAAAATACCTCTTGAATTG
1 CAACTATAAAATACCTCTTGAAATG
5841441 CAACTATAAAATACCTCTTGAAATG
1 CAACTATAAAATACCTCTTGAAATG
*
5841466 TAACTA
1 CAACTA
5841472 GAGCTTCAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (25 bp):
CAACTATAAAATACCTCTTGAAATG
Found at i:5841982 original size:10 final size:10
Alignment explanation
Indices: 5841967--5842001 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
5841957 ACAGCAAAGG
5841967 AATCACAGTC
1 AATCACAGTC
5841977 AATCACAGTC
1 AATCACAGTC
5841987 AATCACAGTC
1 AATCACAGTC
5841997 AATCA
1 AATCA
5842002 GCCAATCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.29, G:0.09, T:0.20
Consensus pattern (10 bp):
AATCACAGTC
Found at i:5843501 original size:17 final size:18
Alignment explanation
Indices: 5843475--5843513 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5843465 GTTTTTGTGG
5843475 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
5843491 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
5843509 AAAAT
1 AAAAT
5843514 CAAAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:5843690 original size:15 final size:15
Alignment explanation
Indices: 5843670--5843700 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5843660 AAAACAATAT
5843670 AACTCTAGACCTTTC
1 AACTCTAGACCTTTC
*
5843685 AACTCTTGACCTTTC
1 AACTCTAGACCTTTC
5843700 A
1 A
5843701 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTAGACCTTTC
Found at i:5847072 original size:15 final size:15
Alignment explanation
Indices: 5847062--5847091 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5847052 TCCCTTCTTG
5847062 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
5847077 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
5847092 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:5847858 original size:17 final size:18
Alignment explanation
Indices: 5847832--5847870 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5847822 CAAATTGTGG
5847832 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
5847848 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
5847866 AAAAT
1 AAAAT
5847871 CAAAAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:5848047 original size:15 final size:15
Alignment explanation
Indices: 5848027--5848057 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5848017 AAAACAATAT
5848027 AACTCTAGACCTTTC
1 AACTCTAGACCTTTC
*
5848042 AACTCTTGACCTTTC
1 AACTCTAGACCTTTC
5848057 A
1 A
5848058 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTAGACCTTTC
Found at i:5872280 original size:12 final size:12
Alignment explanation
Indices: 5872263--5872288 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5872253 CAAAACAAGC
5872263 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5872275 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5872287 TT
1 TT
5872289 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:5872323 original size:41 final size:39
Alignment explanation
Indices: 5872278--5872369 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 39
5872268 GCGGCGTTTT
*
5872278 TAGCGGCGTTTGGACAAAAAAAGCCACTAAAAATCTAGCAC
1 TAGCGGCGTTT--ACAAAAAAAGCCACTAAAAATCGAGCAC
** * * * *
5872319 TAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCAT
1 TAGCGGCG-TTTACAAAAAAAGCCACTAAAAATCGAGCAC
5872359 TAGCGGCGTTT
1 TAGCGGCGTTT
5872370 CTAGGAAAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.07
40 29 0.67
41 8 0.19
42 3 0.07
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.21
Consensus pattern (39 bp):
TAGCGGCGTTTACAAAAAAAGCCACTAAAAATCGAGCAC
Found at i:5872363 original size:40 final size:40
Alignment explanation
Indices: 5872295--5872391 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
5872285 GTTTGGACAA
* * * *
5872295 AAAAAGCCACTAAAAATCTAGCACTAGCGGCGCTT-TACGT
1 AAAACGCCGCTAAAAATCGAGCACTAGCGGCGCTTCTA-GG
* * *
5872335 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGTTTCTAGG
1 AAAACGCCGCTAAAAATCGAGCACTAGCGGCGCTTCTAGG
*
5872375 AAAGCGCCGCTAAAAAT
1 AAAACGCCGCTAAAAAT
5872392 TAGCATTAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCACTAGCGGCGCTTCTAGG
Found at i:5872535 original size:41 final size:41
Alignment explanation
Indices: 5872450--5872706 Score: 381
Period size: 41 Copynumber: 6.2 Consensus size: 41
5872440 TTGTACCTTA
* * *
5872450 CAGATCTTTAGCGGC-ATTTTGAAAAAAAGTGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTG--AGAAAGCGCCGCTAATGCT
5872492 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
* *
5872533 CAGATCTTTAGCGGCGTTTTTGAGAAAGCACCGCTAATACT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
* *
5872574 CAGATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
* * *
5872615 CAAATATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
* *
5872656 TAGATCTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCT
1 CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
5872697 CAGATCTTTA
1 CAGATCTTTA
5872707 ATTGAACATT
Statistics
Matches: 195, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
41 175 0.90
42 15 0.08
43 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (41 bp):
CAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCT
Found at i:5873089 original size:14 final size:15
Alignment explanation
Indices: 5873062--5873093 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
5873052 AGGTTTATAA
5873062 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
5873077 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
5873091 ATT
1 ATT
5873094 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:5873134 original size:7 final size:7
Alignment explanation
Indices: 5873124--5873151 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
5873114 TAAGGTTTAT
5873124 GGGTTAG
1 GGGTTAG
5873131 GGGTTAG
1 GGGTTAG
5873138 GGGTTAG
1 GGGTTAG
5873145 GGGTTAG
1 GGGTTAG
5873152 AGATTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.57, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:5873282 original size:82 final size:82
Alignment explanation
Indices: 5873194--5873355 Score: 254
Period size: 82 Copynumber: 2.0 Consensus size: 82
5873184 TTTAGTGTTA
* *
5873194 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
5873259 TAAG-GGATTTGGGGTCG
66 TAAGTGG-TTTGGGGTCG
* * *
5873276 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
*
5873341 TTAGTGGTTTGGGGT
66 TAAGTGGTTTGGGGT
5873356 TTGGGGTTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.45
Consensus pattern (82 bp):
GGTTAGGGTTTAGGATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
TAAGTGGTTTGGGGTCG
Found at i:5874073 original size:27 final size:26
Alignment explanation
Indices: 5874017--5874076 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
5874007 TTTTACTTTA
****
5874017 AAAAAATCAATTTATAAAAACGCTGC
1 AAAAAATCAATTTATAAAAACAAAAC
*
5874043 AAAAAATCAATTTATAAAAAACAAAAT
1 AAAAAATCAATTTAT-AAAAACAAAAC
5874070 AAAAAAT
1 AAAAAAT
5874077 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.22
Consensus pattern (26 bp):
AAAAAATCAATTTATAAAAACAAAAC
Found at i:5878758 original size:43 final size:43
Alignment explanation
Indices: 5878711--5878810 Score: 128
Period size: 43 Copynumber: 2.3 Consensus size: 43
5878701 TTTGTTGTGT
* * *
5878711 AAGCGTCGCTAAAGGTCGTGGCCTTTAATGGCGTTTTTGGGAA
1 AAGCGTCGCTAAAGATCGTGGCCTTTAACGGCGTTTTTGAGAA
* * *
5878754 AAGCGTTGCTAAAGATCGTGGCCTTTAGCGGCGTTTTTTAGAA
1 AAGCGTCGCTAAAGATCGTGGCCTTTAACGGCGTTTTTGAGAA
* *
5878797 ATGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
5878811 TGGGATAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
AAGCGTCGCTAAAGATCGTGGCCTTTAACGGCGTTTTTGAGAA
Found at i:5879537 original size:28 final size:28
Alignment explanation
Indices: 5879435--5879529 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
5879425 ACAGCCGTGC
* *
5879435 CCCCTGTTTTT-AAGATTTTATAGCTTTG
1 CCCCTCTTTTTCAA-ATTTTATAGTTTTG
* *
5879463 CCCCTCTTTTTCAAATTTTACAATTTTG
1 CCCCTCTTTTTCAAATTTTATAGTTTTG
** *
5879491 CCATTATTTTTCAAATTTTATAGTTTTG
1 CCCCTCTTTTTCAAATTTTATAGTTTTG
5879519 CCCCTCTTTTT
1 CCCCTCTTTTT
5879530 TATATTTTGC
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 52 0.96
29 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.53
Consensus pattern (28 bp):
CCCCTCTTTTTCAAATTTTATAGTTTTG
Found at i:5879545 original size:28 final size:28
Alignment explanation
Indices: 5879459--5879574 Score: 126
Period size: 28 Copynumber: 4.1 Consensus size: 28
5879449 ATTTTATAGC
5879459 TTTGCCCCTCTTTTTCAAATTTTACAAT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
** * * *
5879487 TTTGCCATTATTTTTCAAATTTTATAGT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
* * *
5879515 TTTGCCCCTCTTTTTTATATTTTGCAAT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
*
5879543 TTTTCCCCT-TTCTTTACAAATTTTACAAT
1 TTTGCCCCTCTT-TTT-CAAATTTTACAAT
5879572 TTT
1 TTT
5879575 ACCTAGAATT
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
27 2 0.03
28 54 0.78
29 13 0.19
ACGTcount: A:0.21, C:0.20, G:0.04, T:0.55
Consensus pattern (28 bp):
TTTGCCCCTCTTTTTCAAATTTTACAAT
Found at i:5886269 original size:39 final size:41
Alignment explanation
Indices: 5886218--5886308 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 41
5886208 GAAAATTATA
* * * * *
5886218 TTTAATACAATAAAATATTTATTATATTTAT-TTGTA-TTT
1 TTTAATATAATAAAACACTTATTATATTGATGTAGTATTTT
*
5886257 TTTAATATAATAAAACACTTGTTATATTGATGGTAGTATTTT
1 TTTAATATAATAAAACACTTATTATATTGAT-GTAGTATTTT
5886299 TTTAATATAA
1 TTTAATATAA
5886309 ATAATTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
39 26 0.60
41 4 0.09
42 13 0.30
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (41 bp):
TTTAATATAATAAAACACTTATTATATTGATGTAGTATTTT
Found at i:5886995 original size:9 final size:9
Alignment explanation
Indices: 5886951--5887175 Score: 80
Period size: 10 Copynumber: 23.6 Consensus size: 9
5886941 GCATGTGACG
*
5886951 AAAAATGAT
1 AAAAATTAT
*
5886960 AAAAA-AAT
1 AAAAATTAT
*
5886968 AAAAACTAAT
1 AAAAA-TTAT
*
5886978 AAAATTTAT
1 AAAAATTAT
*
5886987 ACAAATTAT
1 AAAAATTAT
5886996 AAAAATTATT
1 AAAAATTA-T
***
5887006 AAGTTTTAAT
1 AAAAATT-AT
*
5887016 AAAAAATATTT
1 -AAAAAT-TAT
*
5887027 AAAAGTTATT
1 AAAAATTA-T
*
5887037 AAAAATTAAA
1 AAAAATT-AT
*
5887047 AAAAATTGT
1 AAAAATTAT
*
5887056 AAAAAATTGT
1 -AAAAATTAT
**
5887066 AAACTTTTAT
1 AAA-AATTAT
*
5887076 AAAAATAAT
1 AAAAATTAT
5887085 AAAAATTAT
1 AAAAATTAT
*
5887094 AAAATATATAG
1 AAAA-AT-TAT
5887105 AAAAATT-T
1 AAAAATTAT
*
5887113 ATAAAATTTT
1 A-AAAATTAT
* *
5887123 ATAAAGTCAT
1 A-AAAATTAT
5887133 AAGAAAATTAT
1 -A-AAAATTAT
5887144 AAAAA-TAT
1 AAAAATTAT
*
5887152 AAAAA-AAT
1 AAAAATTAT
5887160 ATAAAATTCAT
1 A-AAAATT-AT
5887171 AAAAA
1 AAAAA
5887176 ATATTATCAA
Statistics
Matches: 162, Mismatches: 36, Indels: 35
0.70 0.15 0.15
Matches are distributed among these distances:
8 19 0.12
9 56 0.35
10 64 0.40
11 22 0.14
12 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:5887108 original size:29 final size:29
Alignment explanation
Indices: 5887076--5887155 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
5887066 AAACTTTTAT
*
5887076 AAAAATAATAAAAATTATAAAAT-ATATAG
1 AAAAATTATAAAAATTATAAAATCATA-AG
* *
5887105 AAAAATTTATAAAATTTTATAAAGTCATAAG
1 AAAAA-TTATAAAA-ATTATAAAATCATAAG
5887136 -AAAATTATAAAAA-TATAAAA
1 AAAAATTATAAAAATTATAAAA
5887156 AAATATAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
27 6 0.14
29 13 0.30
30 11 0.26
31 10 0.23
32 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (29 bp):
AAAAATTATAAAAATTATAAAATCATAAG
Found at i:5887114 original size:21 final size:20
Alignment explanation
Indices: 5887071--5887119 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
5887061 ATTGTAAACT
*
5887071 TTTATAAAA-ATAATAAAAA
1 TTTATAAAATATAAGAAAAA
5887090 -TTATAAAATATATAGAAAAA
1 TTTATAAAATATA-AGAAAAA
5887110 TTTATAAAAT
1 TTTATAAAAT
5887120 TTTATAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 6 0.23
21 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTATAAAATATAAGAAAAA
Found at i:5887172 original size:19 final size:19
Alignment explanation
Indices: 5887129--5887176 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
5887119 TTTTATAAAG
*
5887129 TCATAAGAAAATTATAAAAA
1 TCATAA-AAAAATATAAAAA
*
5887149 T-ATAAAAAAATATAAAAT
1 TCATAAAAAAATATAAAAA
5887167 TCATAAAAAA
1 TCATAAAAAA
5887177 TATTATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 12 0.48
20 1 0.04
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
TCATAAAAAAATATAAAAA
Found at i:5887553 original size:16 final size:17
Alignment explanation
Indices: 5887509--5887568 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
5887499 TTATATTTTT
*
5887509 TTATAATATTTTTACAA
1 TTATAATATTTTTACTA
*
5887526 TT-TTATATTTTTACTA
1 TTATAATATTTTTACTA
*
5887542 TTATAAT-TTTTTATTA
1 TTATAATATTTTTACTA
*
5887558 ATAT-ATATTTT
1 TTATAATATTTT
5887569 ATAATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.06
16 29 0.81
17 5 0.14
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATAATATTTTTACTA
Found at i:5887659 original size:19 final size:19
Alignment explanation
Indices: 5887622--5887659 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5887612 AATTCTTTAC
*
5887622 TATTTTTTTTTGTGATTTT
1 TATTTTTTTTTATGATTTT
5887641 TATTTTTTTTTAT-ATTTT
1 TATTTTTTTTTATGATTTT
5887659 T
1 T
5887660 CTATAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (19 bp):
TATTTTTTTTTATGATTTT
Found at i:5890462 original size:264 final size:264
Alignment explanation
Indices: 5889994--5890606 Score: 797
Period size: 264 Copynumber: 2.3 Consensus size: 264
5889984 GTTATATTAG
* * * * *
5889994 GTTGGTGTCACAAGTCAATCGGGCATCAATTTGGTTA-GAGAAACTGCAAAAATATCCTTTTGAA
1 GTTGGTGTCACAAGTCAACCGGGCATCAAATCGGTTAGGA-AAATTACAAAAATATCCTTTTGAA
* * * *** *
5890058 TTTAAAATAATTTATATT-TTTCGAGGGTACTTTAGTTTTTTTTTTTTAAAAATTAATAAAAATA
65 TTTAAAATAATTTATATTATTTCGAGAGCACTATAGTTTTTTTTTAAAAAAAACTAATAAAAATA
* * *
5890122 TGCACATAGTGAGATTTGATCTCATGCTAATTGCATTAGAAAAACTTTAAATTTACCCTTCAACC
130 TGCACATAGTGAGATTTGAACTCATGCTAATTGCATAAGAAAAACTTTAAATTTACCATTCAACC
* *
5890187 AAAGCTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTT-AAC-CCTT
195 AAAACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCTG
5890250 ACCAA
260 ACCAA
**
5890255 GTTGGTGTCACAAGTCAACCGGGCAAAAAATCGGTTAGGAAAATTACAAAAATATCCTTTTGAAT
1 GTTGGTGTCACAAGTCAACCGGGCATCAAATCGGTTAGGAAAATTACAAAAATATCCTTTTGAAT
* *
5890320 TTAAAATAAGTCATATTATTT-GAGAGCACTATAGTCTTTTTATTTAAAAAAAAACTAATAAAAA
66 TTAAAATAATTTATATTATTTCGAGAGCACTATAGT-TTTTT-TTT-AAAAAAAACTAATAAAAA
* * * * *
5890384 TATGCATATGGTGGGATTTGAACTCATG-TCAATTGCATAAGCAAAACTTTAAATTTATCATTCA
128 TATGCACATAGTGAGATTTGAACTCATGCT-AATTGCATAAGAAAAACTTTAAATTTACCATTCA
*
5890448 ACCAAAATTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTC
192 ACCAAAACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTC
**
5890513 CTGACTGA
257 CTGACCAA
* ** * * * * *
5890521 GTTGGTGCCATGAGTCAACTGGACATCAACTCGGTTAGAAAAATTACAAAAATATCATTTTGAAT
1 GTTGGTGTCACAAGTCAACCGGGCATCAAATCGGTTAGGAAAATTACAAAAATATCCTTTTGAAT
*
5890586 TTCAAATAATTTATATTATTT
66 TTAAAATAATTTATATTATTT
5890607 AAGGATATCT
Statistics
Matches: 302, Mismatches: 42, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
261 81 0.27
262 10 0.03
263 4 0.01
264 125 0.41
265 3 0.01
266 79 0.26
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (264 bp):
GTTGGTGTCACAAGTCAACCGGGCATCAAATCGGTTAGGAAAATTACAAAAATATCCTTTTGAAT
TTAAAATAATTTATATTATTTCGAGAGCACTATAGTTTTTTTTTAAAAAAAACTAATAAAAATAT
GCACATAGTGAGATTTGAACTCATGCTAATTGCATAAGAAAAACTTTAAATTTACCATTCAACCA
AAACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCTGA
CCAA
Found at i:5898638 original size:3 final size:3
Alignment explanation
Indices: 5898630--5898671 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
5898620 TGGCGACAAC
5898630 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
5898672 CATTGTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5899373 original size:25 final size:24
Alignment explanation
Indices: 5899319--5899381 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
5899309 AACACATTAA
5899319 AAAATATTTATATTAAAAAATATC
1 AAAATATTTATATTAAAAAATATC
* *
5899343 ATAAATATTT-TATTAAATATAATTTT
1 A-AAATATTTATATTAAA-A-AATATC
5899369 AAAAT-TTTATATT
1 AAAATATTTATATT
5899382 TTGAGTTGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
24 11 0.33
25 17 0.52
26 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATTTATATTAAAAAATATC
Found at i:5900051 original size:22 final size:21
Alignment explanation
Indices: 5900019--5900059 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
5900009 TTAAATGCCA
5900019 TTTTTTATTAATTGTCTTTAT
1 TTTTTTATTAATTGTCTTTAT
*
5900040 TTTTTTATTTAATTTTCTTT
1 TTTTTTA-TTAATTGTCTTT
5900060 GTTTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTATTAATTGTCTTTAT
Found at i:5902789 original size:21 final size:21
Alignment explanation
Indices: 5902763--5902802 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5902753 ATAAATAATA
*
5902763 TAATGGTTTTGCCTTTTAACT
1 TAATGGTTTTGACTTTTAACT
5902784 TAATGGTTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAA
5902803 ATTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:5904594 original size:3 final size:3
Alignment explanation
Indices: 5904588--5904633 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
5904578 TGAAGAAGGT
5904588 GAA GAA GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
5904634 CATTTTTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5906172 original size:13 final size:13
Alignment explanation
Indices: 5906154--5906179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5906144 AACGGGTCTT
5906154 TTACAAAAAAATA
1 TTACAAAAAAATA
5906167 TTACAAAAAAATA
1 TTACAAAAAAATA
5906180 AAAAAATACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
TTACAAAAAAATA
Found at i:5906444 original size:10 final size:10
Alignment explanation
Indices: 5906429--5906499 Score: 70
Period size: 10 Copynumber: 6.7 Consensus size: 10
5906419 GAGAAGAAAG
5906429 AAAGAAAGAA
1 AAAGAAAGAA
5906439 AAAGAAAGAA
1 AAAGAAAGAA
*
5906449 AAGGAAAGGAGAA
1 AAAG-AA--AGAA
5906462 GAAAGAAAGAA
1 -AAAGAAAGAA
* *
5906473 AAGGAAAGGA
1 AAAGAAAGAA
*
5906483 GAAGAAAGAA
1 AAAGAAAGAA
5906493 AAAGAAA
1 AAAGAAA
5906500 TGAGAAGAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 34 0.69
11 6 0.12
13 6 0.12
14 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:5906463 original size:20 final size:20
Alignment explanation
Indices: 5906419--5906535 Score: 103
Period size: 20 Copynumber: 5.6 Consensus size: 20
5906409 AGAGGGACAA
5906419 GAGAAGAAAG-AAA-GAAAG
1 GAGAAGAAAGAAAAGGAAAG
* *
5906437 AAAAAGAAAGAAAAGGAAAGG
1 GAGAAGAAAGAAAAGGAAA-G
5906458 AGAAGAAAGAAAGAAAAGGAAAG
1 -G-AG-AAGAAAGAAAAGGAAAG
* *
5906481 GAGAAGAAAGAAAAAGAAAT
1 GAGAAGAAAGAAAAGGAAAG
*
5906501 GAGAAGAAGAAGAAGAGGAAAG
1 GAGAAG-A-AAGAAAAGGAAAG
*
5906523 GAAGAAAAAAGAA
1 G-AGAAGAAAGAA
5906536 GTACAGGTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
18 8 0.10
19 3 0.04
20 25 0.31
21 9 0.11
22 13 0.16
23 6 0.08
24 16 0.20
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (20 bp):
GAGAAGAAAGAAAAGGAAAG
Found at i:5906466 original size:24 final size:24
Alignment explanation
Indices: 5906435--5906535 Score: 117
Period size: 24 Copynumber: 4.5 Consensus size: 24
5906425 AAAGAAAGAA
5906435 AGAA-AAAGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
5906458 AGAAGAAAGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
5906482 AGAAGAAAG--A-AAAA-GAAATG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
5906502 AGAAG-AAG-AAGAAGAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
5906524 AAGAAAAAAGAA
1 -AGAAGAAAGAA
5906536 GTACAGGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.04
20 11 0.16
21 7 0.10
22 6 0.09
23 8 0.12
24 31 0.46
25 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (24 bp):
AGAAGAAAGAAAGAAAAGGAAAGG
Found at i:5906507 original size:10 final size:9
Alignment explanation
Indices: 5906417--5906508 Score: 68
Period size: 10 Copynumber: 10.1 Consensus size: 9
5906407 TGAGAGGGAC
5906417 AAGAGAAGA
1 AAGAGAAGA
5906426 AAGA-AAGA
1 AAGAGAAGA
*
5906434 AAGAAAAAGA
1 AAG-AGAAGA
*
5906444 AAGAAAAGGA
1 AAGAGAA-GA
5906454 AAGGAGAAGA
1 AA-GAGAAGA
5906464 AAGA-AAGA
1 AAGAGAAGA
5906472 AA-AG--GA
1 AAGAGAAGA
5906478 AAGGAGAAGA
1 AA-GAGAAGA
*
5906488 AAGAAAAAGA
1 AAG-AGAAGA
5906498 AATGAGAAGA
1 AA-GAGAAGA
5906508 A
1 A
5906509 GAAGAAGAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
6 4 0.06
7 1 0.01
8 15 0.22
9 12 0.17
10 32 0.46
11 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (9 bp):
AAGAGAAGA
Found at i:5908500 original size:40 final size:40
Alignment explanation
Indices: 5908445--5908665 Score: 361
Period size: 40 Copynumber: 5.5 Consensus size: 40
5908435 AGGCTTGTGC
5908445 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
5908485 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* * * *
5908525 ATAGCAGGCTTAATGCCAGTGAAATATTCAGATTATATGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
5908565 CTAGCAGACTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
5908605 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
5908645 CTAGCAGGCTTCATGCTGGTG
1 CTAGCAGGCTTAATGCCGGTG
5908666 TACGGAATCA
Statistics
Matches: 168, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:5914789 original size:40 final size:40
Alignment explanation
Indices: 5914734--5914954 Score: 379
Period size: 40 Copynumber: 5.5 Consensus size: 40
5914724 AGGCTTGTGC
5914734 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
5914774 CTAGCAGGCTTAATGCCGTTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
5914814 ATAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
5914854 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
5914894 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
5914934 CTAGCAGGCTTCATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
5914955 TACGGAATCA
Statistics
Matches: 169, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:5916858 original size:41 final size:41
Alignment explanation
Indices: 5916801--5916883 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
5916791 GAACACCCAG
* *
5916801 AACGTGACCGTCGACCTCCGCGTAGGTATACCCCTAGGACC
1 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
5916842 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
1 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
5916883 A
1 A
5916884 TACCTTGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.36, G:0.22, T:0.17
Consensus pattern (41 bp):
AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
Found at i:5920148 original size:25 final size:26
Alignment explanation
Indices: 5920120--5920179 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
5920110 ACAACTTTCT
*
5920120 ATAATAACTAAACTA-ACAACAAAAA-
1 ATAATAAC-AAACTATACAAAAAAAAC
*
5920145 ATAATAA-AAATTATACAAAAAAAAC
1 ATAATAACAAACTATACAAAAAAAAC
5920170 ATAATAACAA
1 ATAATAACAA
5920180 GATAATCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 5 0.17
24 9 0.30
25 14 0.47
26 2 0.07
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (26 bp):
ATAATAACAAACTATACAAAAAAAAC
Found at i:5920259 original size:3 final size:3
Alignment explanation
Indices: 5920253--5920294 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
5920243 ACCACCACCA
*
5920253 CCT CCT CCT CCT CTT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
5920295 TCTTCTCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
CCT
Found at i:5924392 original size:3 final size:3
Alignment explanation
Indices: 5924384--5924485 Score: 89
Period size: 3 Copynumber: 33.0 Consensus size: 3
5924374 TTTAGGACTT
* * *
5924384 TTA TTA TTA TTA TTA TTA TTA TTA TTTC TTCA TTA TT- TTA ATG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA
* * * *
5924430 TTA TCTT TTA TTA TTA TGA TTA TTA ATA TTA TGA TTA TTAA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
5924477 TCA TTA TTA
1 TTA TTA TTA
5924486 GTTTTATTTG
Statistics
Matches: 78, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
2 2 0.03
3 67 0.86
4 9 0.12
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:5924456 original size:31 final size:31
Alignment explanation
Indices: 5924386--5924485 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
5924376 TAGGACTTTT
* * * * *
5924386 ATTATTATTATTATTATTATTATTTCTTCATT
1 ATTATTAATATTATGATTATTAATTATT-ATC
* * * *
5924418 ATT-TTAATGTTATTATCT-TTTATTATTATG
1 ATTATTAATATTATGAT-TATTAATTATTATC
5924448 ATTATTAATATTATGATTATTAATTATTATC
1 ATTATTAATATTATGATTATTAATTATTATC
5924479 ATTATTA
1 ATTATTA
5924486 GTTTTATTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
30 6 0.11
31 45 0.82
32 4 0.07
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (31 bp):
ATTATTAATATTATGATTATTAATTATTATC
Found at i:5931101 original size:45 final size:45
Alignment explanation
Indices: 5930991--5931197 Score: 237
Period size: 44 Copynumber: 4.6 Consensus size: 45
5930981 ATGGAGTTGT
* * *
5930991 AGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGAAGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGAAGCC
*
5931036 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTAAAGATAG-C
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-AAAGA-AGCC
* *
5931080 AGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGAAGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGAAGCC
* * *
5931125 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAG-GCTAAAGATAG-T
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-AAAGA-AGCC
* *
5931169 AGATCTTGCCTTCTTGTACTGGCAGCGAA
1 AGATCTTGCCTTCCTGTACTGACAGCGAA
5931198 ACGGATCGAA
Statistics
Matches: 139, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
43 2 0.01
44 71 0.51
45 65 0.47
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (45 bp):
AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCAAAGAAGCC
Found at i:5931142 original size:89 final size:89
Alignment explanation
Indices: 5930991--5931209 Score: 357
Period size: 89 Copynumber: 2.5 Consensus size: 89
5930981 ATGGAGTTGT
* *
5930991 AGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
5931056 ACAGCGGAGCAGACTAAAGATAGC
66 ACAGCGGAGCAGACTAAAGATAGC
*
5931080 AGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
* *
5931145 ACAGCGGAGCAGGCTAAAGATAGT
66 ACAGCGGAGCAGACTAAAGATAGC
* * * *
5931169 AGATCTTGCCTTCTTGTACTGGCAGCGAAACGGATCGAAGA
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGA
5931210 TGGCAGATTT
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 120 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (89 bp):
AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
ACAGCGGAGCAGACTAAAGATAGC
Found at i:5931210 original size:45 final size:45
Alignment explanation
Indices: 5930991--5931217 Score: 250
Period size: 45 Copynumber: 5.1 Consensus size: 45
5930981 ATGGAGTTGT
* *
5930991 AGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGA-AGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG-C
* *
5931036 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAGA-CTAAAGATAGC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGATAGC
*
5931080 AGATCTTGCCTTCCTGTACTGATAGCGAAGCAGATCGAAGA-AGCC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAG-C
* * * *
5931125 AG-TCTTGCCTTCCTGTACTGACAGCGGAGCAG-GCTAAAGATAGT
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGATAGC
* * * * *
5931169 AGATCTTGCCTTCTTGTACTGGCAGCGAAACGGATCGAAGATGGC
1 AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAGC
5931214 AGAT
1 AGAT
5931218 TTTACCTCCC
Statistics
Matches: 152, Mismatches: 21, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.01
44 71 0.47
45 77 0.51
46 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (45 bp):
AGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAGC
Found at i:5931344 original size:95 final size:95
Alignment explanation
Indices: 5931201--5931592 Score: 624
Period size: 95 Copynumber: 4.1 Consensus size: 95
5931191 CAGCGAAACG
* * * *
5931201 GATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTAGAGTACATTAAAACCGATAACTCTA
1 GATCGAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTA
*
5931266 TCTCCCTGATTGGCAGTAGAATAGATTGAA
66 TCTCCCTGATTGGCAGTGGAATAGATTGAA
* *
5931296 GATCAAAGATGGCAGATTTTACCTCTCTGTGACTACAGTGGAGTACATTGAAGCCGATAATTCTA
1 GATCGAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTA
*
5931361 TCTCCCTAATTGGCAGTGGAATAGATTGAA
66 TCTCCCTGATTGGCAGTGGAATAGATTGAA
* *
5931391 GATCGAAGATGGCAGATTTTACCT-TCCTGTGATTACAGTGGAGTACATTGAAGCCGATAATTCT
1 GATCGAAGATGGCAGATTTTACCTCT-CTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCT
*
5931455 ATCTCCCTGGTTGGCAGTGGAATAGATTGAA
65 ATCTCCCTGATTGGCAGTGGAATAGATTGAA
* **
5931486 GATCGAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGTTGATAATTCTA
1 GATCGAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTA
*
5931551 TCTCCCTGGTTGGCAGTGGAATAGATTGAA
66 TCTCCCTGATTGGCAGTGGAATAGATTGAA
*
5931581 GATCGAATATGG
1 GATCGAAGATGG
5931593 TAAATATTAT
Statistics
Matches: 276, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
94 1 0.00
95 274 0.99
96 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (95 bp):
GATCGAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTA
TCTCCCTGATTGGCAGTGGAATAGATTGAA
Found at i:5931666 original size:190 final size:188
Alignment explanation
Indices: 5931279--5931678 Score: 466
Period size: 190 Copynumber: 2.1 Consensus size: 188
5931269 CCCTGATTGG
* * *
5931279 CAGTAGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCTCTGTGACTACAGTGGAGTACAT
1 CAGTGGAATAGATTGAAGATCAAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACAT
* *
5931344 TGAAGCCGATAATTCTATCTCCCTAATTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAGATT
66 TGAAGCCGATAATTCTATCTCCCTAATTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAAATA
* ** * * * ***
5931409 TTACCTTCCTGTGATTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGGTTGG
131 TTACCTTCC--TCAAGACAGTGGAGAACATTGAAGCCGATAATTCTATCCCCCTAGTCAA
*
5931469 CAGTGGAATAGATTGAAGATCGAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACAT
1 CAGTGGAATAGATTGAAGATCAAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACAT
** ** * *
5931534 TGAAGTTGATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAATATGGTAAATA
66 TGAAGCCGATAATTCTATCTCCCTAATTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAAATA
* *
5931599 TTATCTTCC-CAAGACAGTGGAGAAGCAGATTTAAGCC-ATTAA-TCATATCCCCCTAAG-CAA
131 TTACCTTCCTCAAGACAGTGGAGAA-C--ATTGAAGCCGA-TAATTC-TATCCCCCT-AGTCAA
* * *
5931659 TAGTGGAATAGGTTAAAGAT
1 CAGTGGAATAGATTGAAGAT
5931679 TGCAGAATCT
Statistics
Matches: 178, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
187 11 0.06
188 1 0.01
189 3 0.02
190 162 0.91
191 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (188 bp):
CAGTGGAATAGATTGAAGATCAAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACAT
TGAAGCCGATAATTCTATCTCCCTAATTGGCAGTGGAATAGATTGAAGATCGAAGATGGCAAATA
TTACCTTCCTCAAGACAGTGGAGAACATTGAAGCCGATAATTCTATCCCCCTAGTCAA
Found at i:5931822 original size:132 final size:132
Alignment explanation
Indices: 5931580--5931848 Score: 378
Period size: 132 Copynumber: 2.0 Consensus size: 132
5931570 AATAGATTGA
* *
5931580 AGATCGAATATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAATCAT
1 AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
* * * * *
5931645 ATCCCCCTAAGCAATAGTGGAATAGGTTAAAGATTGCAGAATCTGT-CACTTTAAGCAGTAGTGA
66 ATCACCCTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCAC-CTAAGAAGTAGTGA
5931709 AGC
130 AGC
* * * * *
5931712 AGATCGAAAATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAGTCCT
1 AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
* * * *
5931777 ATCACCCTAAGCAGTAGTGGAATAGGTCAAAGACTGTAGATTCTGTCCACCTAAGAAGTAGTGGA
66 ATCACCCTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCACCTAAGAAGTAGTGAA
5931842 GC
131 GC
5931844 AGATC
1 AGATC
5931849 AATAATAACG
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 117 0.98
133 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (132 bp):
AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
ATCACCCTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCACCTAAGAAGTAGTGAA
GC
Found at i:5933341 original size:8 final size:8
Alignment explanation
Indices: 5933318--5933374 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
5933308 TTATTTATTC
*
5933318 TATATATA
1 TATATATG
5933326 TATATATG
1 TATATATG
5933334 TATATATG
1 TATATATG
*
5933342 CAT-TATG
1 TATATATG
*
5933349 CTTATATATA
1 --TATATATG
*
5933359 TATATCTG
1 TATATATG
5933367 TATATATG
1 TATATATG
5933375 CATTATGCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
7 4 0.10
8 30 0.77
9 2 0.05
10 3 0.08
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (8 bp):
TATATATG
Found at i:5933355 original size:33 final size:33
Alignment explanation
Indices: 5933318--5933384 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
5933308 TTATTTATTC
5933318 TATATATATATATATGTATATATGCATTATGCT
1 TATATATATATATATGTATATATGCATTATGCT
*
5933351 TATATATATATATCTGTATATATGCATTATGCT
1 TATATATATATATATGTATATATGCATTATGCT
5933384 T
1 T
5933385 GTACATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.49
Consensus pattern (33 bp):
TATATATATATATATGTATATATGCATTATGCT
Found at i:5933392 original size:19 final size:19
Alignment explanation
Indices: 5933332--5933393 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
5933322 TATATATATA
5933332 TGTATATATGCATTATGCT
1 TGTATATATGCATTATGCT
*
5933351 TATATATAT--A-TAT-C-
1 TGTATATATGCATTATGCT
5933365 TGTATATATGCATTATGCT
1 TGTATATATGCATTATGCT
*
5933384 TGTACATATG
1 TGTATATATG
5933394 TTTTTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.23
15 1 0.03
16 4 0.11
17 4 0.11
18 1 0.03
19 17 0.49
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.47
Consensus pattern (19 bp):
TGTATATATGCATTATGCT
Found at i:5937270 original size:21 final size:22
Alignment explanation
Indices: 5937235--5937279 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
5937225 AAAATTTGGT
*
5937235 TATATATATATATATGTTTTTCA
1 TATATATATATATAT-ATTTTCA
5937258 TATACTATA-ATATATATTTTCA
1 TATA-TATATATATATATTTTCA
5937280 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 10 0.50
24 4 0.20
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TATATATATATATATATTTTCA
Found at i:5941266 original size:25 final size:25
Alignment explanation
Indices: 5941220--5941273 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
5941210 TGGCTGGTGT
* *
5941220 GCGGCGGCCAGGAGCAGGCCTAGGG
1 GCGGCGGCCAAGAGCAGACCTAGGG
* * *
5941245 GCGGCGGCTAAGAGTAGACCTAGGT
1 GCGGCGGCCAAGAGCAGACCTAGGG
5941270 GCGG
1 GCGG
5941274 TGCACCTAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.19, C:0.24, G:0.48, T:0.09
Consensus pattern (25 bp):
GCGGCGGCCAAGAGCAGACCTAGGG
Found at i:5941333 original size:17 final size:19
Alignment explanation
Indices: 5941305--5941342 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
5941295 CTAAAAAGTT
5941305 TTTAGTTTTGGGCT-AGGG
1 TTTAGTTTTGGGCTGAGGG
5941323 TTTAG-TTTGGGCTGAGGG
1 TTTAGTTTTGGGCTGAGGG
5941341 TT
1 TT
5941343 AATTTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.11, C:0.05, G:0.39, T:0.45
Consensus pattern (19 bp):
TTTAGTTTTGGGCTGAGGG
Found at i:5941349 original size:18 final size:17
Alignment explanation
Indices: 5941310--5941349 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
5941300 AAGTTTTTAG
*
5941310 TTTTGGGCTAGGGTTTA
1 TTTTGGGCTAGGGTTAA
*
5941327 GTTTGGGCTGAGGGTTAA
1 TTTTGGGCT-AGGGTTAA
5941345 TTTTG
1 TTTTG
5941350 TATTTGGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.12, C:0.05, G:0.38, T:0.45
Consensus pattern (17 bp):
TTTTGGGCTAGGGTTAA
Found at i:5944368 original size:17 final size:17
Alignment explanation
Indices: 5944346--5944379 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5944336 TTATCACATT
5944346 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
5944363 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
5944380 CATGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
ATAGTACGATAATGTGG
Found at i:5944929 original size:30 final size:29
Alignment explanation
Indices: 5944866--5944962 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 29
5944856 AAAAAAATAT
*
5944866 AAATTACATTTTAACCCCTAAC-TTTTCTA
1 AAATTACATATTAA-CCCTAACTTTTTCTA
* *
5944895 AAATTACATATTGACCACTAACTTTTTTTA
1 AAATTACATATTAACC-CTAACTTTTTCTA
* *
5944925 AAATTACATTTTAACCCTAAACTTTTCCTA
1 AAATTACATATTAACCCT-AACTTTTTCTA
5944955 AAATTACA
1 AAATTACA
5944963 ATTTGACCCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.03
29 19 0.33
30 37 0.64
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATTACATATTAACCCTAACTTTTTCTA
Found at i:5944975 original size:30 final size:28
Alignment explanation
Indices: 5944866--5944974 Score: 112
Period size: 30 Copynumber: 3.7 Consensus size: 28
5944856 AAAAAAATAT
*
5944866 AAATTACATTTTAACCCCTAACTTTTCTA
1 AAATTACAATTTAA-CCCTAACTTTTCTA
* *
5944895 AAATTAC-ATATTGACCACTAACTTTTTTTA
1 AAATTACAAT-TTAACC-CTAAC-TTTTCTA
*
5944925 AAATTACATTTTAACCCTAAACTTTTCCTA
1 AAATTACAATTTAACCCT-AACTTTT-CTA
*
5944955 AAATTACAATTTGACCCTAA
1 AAATTACAATTTAACCCTAA
5944975 AGGTTTTACA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
28 3 0.05
29 23 0.35
30 39 0.59
31 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (28 bp):
AAATTACAATTTAACCCTAACTTTTCTA
Found at i:5945330 original size:11 final size:11
Alignment explanation
Indices: 5945314--5945350 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
5945304 AATTGACACG
5945314 AAAGAGAAGAA
1 AAAGAGAAGAA
5945325 AAAGAG-AGAA
1 AAAGAGAAGAA
5945335 AGAAGAGAAGAA
1 A-AAGAGAAGAA
5945347 AAAG
1 AAAG
5945351 GGAAATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:5945447 original size:4 final size:4
Alignment explanation
Indices: 5945433--5945479 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
5945423 AAGGCCGAAG
* *
5945433 GAAA AAAA GAAA GAAA G-AA GAAA -AAA GAAA AAAGA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA
5945480 AAATAATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 6 0.17
4 27 0.75
5 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:5946301 original size:21 final size:21
Alignment explanation
Indices: 5946262--5946301 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5946252 AAATTGATTT
*
5946262 ATCAAAATTTACTTGTAAATC
1 ATCAAAATTTAATTGTAAATC
*
5946283 ATCAAAATTTAATTTTAAA
1 ATCAAAATTTAATTGTAAA
5946302 ATATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (21 bp):
ATCAAAATTTAATTGTAAATC
Found at i:5952009 original size:4 final size:4
Alignment explanation
Indices: 5952000--5952029 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
5951990 TATTTCATAT
5952000 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
5952030 AGAAAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:5952819 original size:3 final size:3
Alignment explanation
Indices: 5952813--5952848 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
5952803 TTTTATCTTC
5952813 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
5952849 CTACTATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5957195 original size:51 final size:50
Alignment explanation
Indices: 5957063--5957253 Score: 206
Period size: 50 Copynumber: 3.8 Consensus size: 50
5957053 TATTATCATT
* *
5957063 CGATACACGTAGTAGCCCT-CACATAGTACTACACACGTGATCAAACTTTT
1 CGATACACGTAGTAG-CCTGCACATAGTACTACACACGTGATCAAACTATC
* * *
5957113 TGATTCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATC-AAACTATC
* * * * * ***
5957164 CGATACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTC-ATTC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTA-TC
* *
5957214 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
5957254 CAATCACTTT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 4 0.03
50 73 0.62
51 40 0.34
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAACTATC
Found at i:5960437 original size:47 final size:48
Alignment explanation
Indices: 5960373--5960463 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 48
5960363 CTTTTCACAT
5960373 TGCCATAGTATAACTATGGTCTCACACAGAAACACAT-ATCACACTGA
1 TGCCATAGTATAACTATGGTCTCACACAGAAACACATAATCACACTGA
* * *
5960420 TGCCATAGT-TCAGCTATGGTCTCATACAGAAGCACATAATCACA
1 TGCCATAGTAT-AACTATGGTCTCACACAGAAACACATAATCACA
5960464 TTTTCATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
46 1 0.03
47 32 0.82
48 6 0.15
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (48 bp):
TGCCATAGTATAACTATGGTCTCACACAGAAACACATAATCACACTGA
Found at i:5965095 original size:19 final size:19
Alignment explanation
Indices: 5965071--5965113 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
5965061 ATTGAACATG
5965071 TTGGTATAATAGTGAATAT
1 TTGGTATAATAGTGAATAT
5965090 TTGGTATAATAGTGAATAT
1 TTGGTATAATAGTGAATAT
5965109 TTGGT
1 TTGGT
5965114 GGTTTGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGGTATAATAGTGAATAT
Found at i:5965216 original size:50 final size:50
Alignment explanation
Indices: 5965156--5965294 Score: 172
Period size: 51 Copynumber: 2.8 Consensus size: 50
5965146 ATCATTCGAT
* * **
5965156 ACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTCCAGT
1 ACACGTAGTAGCCTGCACATAGTACTACACACGTGATCATAA-TATCCAAC
* * *
5965206 TCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTAAC
1 ACACGTAGTAGCCTGCACATAGTACTACACACGTGATCA-TAATATCCAAC
* *
5965257 ACATGTAGTAGCCTGGACATAGTACTACACACGTGATC
1 ACACGTAGTAGCCTGCACATAGTACTACACACGTGATC
5965295 GAAGCTATGA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 36 0.47
51 38 0.50
52 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
ACACGTAGTAGCCTGCACATAGTACTACACACGTGATCATAATATCCAAC
Found at i:5965404 original size:50 final size:50
Alignment explanation
Indices: 5965154--5965404 Score: 197
Period size: 50 Copynumber: 5.0 Consensus size: 50
5965144 TTATCATTCG
* * *
5965154 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTCCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTT-CA
* * * * *
5965204 GTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTC-A
* * * * * *
5965255 ACACATGTAGTAGCCTGGACATAGTACTACACACGTGATCGA--AGCTATGA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCA
* * * * * * * *
5965305 GGTACGCATAGTAG-CTGCACATAGTACTACACATGCGGCCTTTC-GTTTCA
1 -ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTTCA
* *
5965355 ATACACGTAGTAGCCTACACATAGTACTACACATGTGACCATCACTTTCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCA
5965405 CTTTCATATA
Statistics
Matches: 154, Mismatches: 37, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
49 13 0.08
50 91 0.59
51 48 0.31
52 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCA
Found at i:5970314 original size:21 final size:21
Alignment explanation
Indices: 5970288--5970329 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5970278 AAAGGCATCC
5970288 TAATGAAATAGCTTCGAACTT
1 TAATGAAATAGCTTCGAACTT
5970309 TAATGAAATAGCTTCGAACTT
1 TAATGAAATAGCTTCGAACTT
5970330 AAAGAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
TAATGAAATAGCTTCGAACTT
Found at i:5971241 original size:76 final size:75
Alignment explanation
Indices: 5971110--5972170 Score: 1142
Period size: 75 Copynumber: 14.1 Consensus size: 75
5971100 TCGTCTTTGA
* * ** *
5971110 AAAAATTAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
5971175 TCTATTTTTC
66 TCTATTTTTC
* * * * *
5971185 AAAAAATAAACTCATAATCTGAGAAGTGAATTGAGCCTCAGGTCGCACGCTAAGGTATTTTCAAT
1 -AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
*
5971250 TTCTGTTGTTTTTC
65 TTC---TATTTTTC
* * * * * * *
5971264 AAAAATAAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
** * *
5971329 TCTGCTTATA
66 TCTATTTTTC
* * ***
5971339 AAAAATTAACTCATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
5971404 TCTATTTTTC
66 TCTATTTTTC
* * * * *
5971414 AAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
*
5971479 TCTGTTTTTC
66 TCTATTTTTC
* * * *
5971489 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTT-AA
1 AAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATT-TTCAA
* *
5971553 TTTTTGTTTTTC
64 TTTCTATTTTTC
* * * *
5971565 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
5971630 TCTATTTTTC
66 TCTATTTTTC
* * * *
5971640 AAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGAGTCG-AGCACTGAGGTATTTTCAA
1 AAAAATCAACTCATAATCCGAGAAG-TGAGTTGAGCCTCGGGTCGCA-CGCTGAGGTATTTTCAA
*
5971704 TTTTTATTTTTC
64 TTTCTATTTTTC
* * * *
5971716 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
*
5971781 TTCTGTTTTTC
65 TTCTATTTTTC
* * * *
5971792 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
5971857 TCTATTTTTC
66 TCTATTTTTC
* * * * * * *
5971867 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
5971932 TTCTATTTTTC
65 TTCTATTTTTC
* * * * * * * * * * * *
5971943 AAAAATAAACTCAAAATCTGATAGGCGAGTTGAGCCTTGAGTCACATGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
5972008 TTCTATTTTTC
65 TTCTATTTTTC
* ** * * * * *
5972019 AAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCA-AT
*
5972083 TTCTGTTTTTC
65 TTCTATTTTTC
* * * * ** * *
5972094 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTGTTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
5972159 TCT-TTTTT-
66 TCTATTTTTC
5972167 AAAA
1 AAAA
5972171 TAAAAATAAA
Statistics
Matches: 833, Mismatches: 139, Indels: 29
0.83 0.14 0.03
Matches are distributed among these distances:
73 3 0.00
74 8 0.01
75 379 0.45
76 375 0.45
77 2 0.00
78 59 0.07
79 7 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
TCTATTTTTC
Found at i:5971593 original size:151 final size:150
Alignment explanation
Indices: 5971110--5972137 Score: 1151
Period size: 151 Copynumber: 6.8 Consensus size: 150
5971100 TCGTCTTTGA
* ** *
5971110 AAAAATTAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * * * *
5971175 TCTATTTTTCAAAAAATAAACTCATAATCTGAGAAGTGAATTGAGCCTCAGGTCGCACGCTAAGG
66 TCTATTTTTC-AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
*
5971240 TATTTTCAATTTCTGTTGTTTTTC
130 TATTTTCAA-TT-T-TTATTTTTC
* * * * * *
5971264 AAAAATAAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
** * * * * ****
5971329 TCTGCTTATAAAAAATTAACTCATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGT
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGGT
*
5971394 ATTTTCAATTTCTATTTTTC
131 ATTTTCAATTTTTATTTTTC
* * * *
5971414 AAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * *
5971479 TCTGTTTTTCAAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
*
5971544 TATTCTT-AATTTTTGTTTTTC
130 TATT-TTCAATTTTTATTTTTC
* * * * *
5971565 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * * * *
5971630 TCTATTTTTCAAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGAGTCGAGCACTGAGG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAAG-TGAGTTGAGCCTCGGGTCGCGCGCTGAGG
5971695 TATTTTCAATTTTTATTTTTC
130 TATTTTCAATTTTTATTTTTC
* * *
5971716 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
* * * *
5971781 TTCTGTTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
*
5971846 TATTTTCAATTTCTATTTTTC
130 TATTTTCAATTTTTATTTTTC
* * * * * *
5971867 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
* * * * * * * * * ** *
5971932 TTCTATTTTTCAAAAATAAACTCAAAATCTGATAGGCGAGTTGAGCCTTGAGTCACATGCCGAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG
* *
5971997 TATTTTTTAATTTCTATTTTTC
130 TA-TTTTCAATTTTTATTTTTC
* ** * * * * * *
5972019 AAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCA-AT
* * * *
5972083 TTCTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCG
5972138 TACGCCAAGG
Statistics
Matches: 752, Mismatches: 115, Indels: 17
0.85 0.13 0.02
Matches are distributed among these distances:
150 99 0.13
151 426 0.57
152 111 0.15
153 54 0.07
154 62 0.08
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (150 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCGCGCTGAGGT
ATTTTCAATTTTTATTTTTC
Found at i:5972555 original size:28 final size:30
Alignment explanation
Indices: 5972466--5972589 Score: 157
Period size: 29 Copynumber: 4.3 Consensus size: 30
5972456 AAGAAAATAT
** *
5972466 AAATTACATTTTGACAC-CCAACTTTCTTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
* *
5972495 AAATTACATTTTGACACTTCAACTTCCCTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
*
5972525 AAATTAGATTTTGAC-CTT-AACTTTCCTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
*
5972553 AAATTACATTTTGAC-CTTAAATTTTCCTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
5972582 AAATTACA
1 AAATTACA
5972590 CATTAACCCC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 26 0.30
29 37 0.43
30 23 0.27
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATTACATTTTGACACTTAAACTTTCCTA
Found at i:5972941 original size:11 final size:11
Alignment explanation
Indices: 5972925--5972960 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
5972915 AATCGGCACG
5972925 AAAGAGAAGAA
1 AAAGAGAAGAA
5972936 AAAGAG-AGAA
1 AAAGAGAAGAA
5972946 AGAAGAGAAGAA
1 A-AAGAGAAGAA
5972958 AAA
1 AAA
5972961 AGGAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:5972951 original size:22 final size:20
Alignment explanation
Indices: 5972926--5972967 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
5972916 ATCGGCACGA
5972926 AAGAGAAGAAAAAGAGAGAAAG
1 AAGAGAAGAAAAA-AG-GAAAG
5972948 AAGAGAAGAAAAAAGGAAAG
1 AAGAGAAGAAAAAAGGAAAG
5972968 GAGAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAGAAGAAAAAAGGAAAG
Found at i:5973092 original size:4 final size:4
Alignment explanation
Indices: 5973074--5973148 Score: 58
Period size: 4 Copynumber: 20.2 Consensus size: 4
5973064 AAGGAAAAAG
*
5973074 AGAA AGAAA ATGAA AG-A A-AA AGAA AGAA AG-A AG-A AGAA A-AG AGAA
1 AGAA AG-AA A-GAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
*
5973119 AGAA AG-A AGAA A-AA A-AG AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
5973149 AAGAAGAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 20 0.34
4 32 0.54
5 6 0.10
6 1 0.02
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (4 bp):
AGAA
Found at i:5973093 original size:21 final size:22
Alignment explanation
Indices: 5973069--5973153 Score: 126
Period size: 21 Copynumber: 4.1 Consensus size: 22
5973059 GGTTGAAGGA
*
5973069 AAAAGAGAAAGAAA-ATGAAAG
1 AAAAGAGAAAGAAAGAAGAAAG
5973090 AAAA-AGAAAGAAAGAAG-AAG
1 AAAAGAGAAAGAAAGAAGAAAG
5973110 AAAAGAGAAAGAAAGAAGAAA-
1 AAAAGAGAAAGAAAGAAGAAAG
5973131 AAAAGAGAAAGAAAGAA-AAAG
1 AAAAGAGAAAGAAAGAAGAAAG
5973152 AA
1 AA
5973154 GAAAAGAAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
20 19 0.32
21 38 0.64
22 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (22 bp):
AAAAGAGAAAGAAAGAAGAAAG
Found at i:5973094 original size:11 final size:10
Alignment explanation
Indices: 5973069--5973153 Score: 86
Period size: 10 Copynumber: 8.2 Consensus size: 10
5973059 GGTTGAAGGA
5973069 AAAAGAGAAAG
1 AAAA-AGAAAG
*
5973080 AAAATGAAAG
1 AAAAAGAAAG
5973090 AAAAAGAAAG
1 AAAAAGAAAG
5973100 AAAGAAG-AAG
1 AAA-AAGAAAG
5973110 AAAAGAGAAAG
1 AAAA-AGAAAG
5973121 AAAGAAGAAA-
1 AAA-AAGAAAG
5973131 AAAAGAGAAAG
1 AAAA-AGAAAG
5973142 AAAGAA-AAAG
1 AAA-AAGAAAG
5973152 AA
1 AA
5973154 GAAAAGAAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
9 2 0.03
10 39 0.60
11 22 0.34
12 2 0.03
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:5973118 original size:17 final size:18
Alignment explanation
Indices: 5973067--5973161 Score: 74
Period size: 18 Copynumber: 5.2 Consensus size: 18
5973057 AGGGTTGAAG
5973067 GAAA-AAGAGAAAGA-AAA
1 GAAAGAAGA-AAAGAGAAA
*
5973084 TGAAAGAA-AAAGAAAGAAA
1 -GAAAGAAGAAA-AGAGAAA
5973103 G-AAGAAGAAAAGAGAAA
1 GAAAGAAGAAAAGAGAAA
5973120 GAAAGAAGAAAAAAAGAGAAA
1 GAAAGAAG---AAAAGAGAAA
*
5973141 GAAAGAAAAAGAAGA-AAA
1 GAAAGAAGAA-AAGAGAAA
5973159 GAA
1 GAA
5973162 GTAATAAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
17 14 0.22
18 25 0.38
19 9 0.14
21 17 0.26
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (18 bp):
GAAAGAAGAAAAGAGAAA
Found at i:5973517 original size:10 final size:10
Alignment explanation
Indices: 5973498--5973532 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5973488 AATCTGCAAG
*
5973498 AAAAAGGAAA
1 AAAAAAGAAA
5973508 AAAAAAGAAA
1 AAAAAAGAAA
*
5973518 AAAAGAGAAA
1 AAAAAAGAAA
5973528 AAAAA
1 AAAAA
5973533 GAGCCCGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:5973533 original size:11 final size:11
Alignment explanation
Indices: 5973498--5973535 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
5973488 AATCTGCAAG
5973498 AAAAAG-GAAA
1 AAAAAGAGAAA
5973508 AAAAA-AG-AA
1 AAAAAGAGAAA
5973517 AAAAAGAGAAA
1 AAAAAGAGAAA
5973528 AAAAAGAG
1 AAAAAGAG
5973536 CCCGAGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 7 0.28
10 8 0.32
11 10 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:5974736 original size:23 final size:25
Alignment explanation
Indices: 5974704--5974749 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
5974694 TCATGTGAAA
5974704 ATATACTCATTCAGCTT-TAATTTC
1 ATATACTCATTCAGCTTCTAATTTC
5974728 ATAT-CTCATTCAGCTTCTAATT
1 ATATACTCATTCAGCTTCTAATT
5974750 CAACTTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATACTCATTCAGCTTCTAATTTC
Found at i:5975471 original size:46 final size:46
Alignment explanation
Indices: 5975393--5975577 Score: 289
Period size: 46 Copynumber: 4.0 Consensus size: 46
5975383 ACAAGGCTAT
* * *
5975393 AACTTAGTATGGTTTTCTTCACAGAAATACCATACGTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
5975439 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* **
5975485 AACTCAGTATGGTTTTCTTTACCAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* *
5975531 AACTCAGTATGGTTTTCTTCACTGAAATACCATACTTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
5975577 A
1 A
5975578 CTTTTCCATG
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:5976851 original size:16 final size:17
Alignment explanation
Indices: 5976805--5976852 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
5976795 AAATTCTTTT
*
5976805 TAAACCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
5976822 TAAATCACAAAATTTAA
1 TAAATCACAAAATTCAA
*
5976839 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
5976853 TTATAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:5981735 original size:64 final size:64
Alignment explanation
Indices: 5981634--5981761 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
5981624 TTGACTGTGT
5981634 GTGGGGGTGGTCCTAACTCCTAAGAAAGTTTGGTAATATTGTCCCACTGGAAGTAAAAATCTTA
1 GTGGGGGTGGTCCTAACTCCTAAGAAAGTTTGGTAATATTGTCCCACTGGAAGTAAAAATCTTA
5981698 GTGGGGGTGGTCCTAACTCCTAAGAAAGTTTGGTAATATTGTCCCACTGGAAGTAAAAATCTTA
1 GTGGGGGTGGTCCTAACTCCTAAGAAAGTTTGGTAATATTGTCCCACTGGAAGTAAAAATCTTA
5981762 TAAATTGATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGGGGGTGGTCCTAACTCCTAAGAAAGTTTGGTAATATTGTCCCACTGGAAGTAAAAATCTTA
Found at i:5983859 original size:20 final size:20
Alignment explanation
Indices: 5983834--5983903 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
5983824 ACTTAACATA
5983834 TAATAAAATTGATAAAAAAT
1 TAATAAAATTGATAAAAAAT
5983854 TAATAAGAA-TGAT-AAAAAT
1 TAATAA-AATTGATAAAAAAT
* * *
5983873 TATTAAATTTTAATAAAAATAT
1 TAATAAA-ATTGATAAAAA-AT
*
5983895 TAAAAAAAT
1 TAATAAAAT
5983904 AAAAAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 13 0.33
21 7 0.18
22 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATAAAATTGATAAAAAAT
Found at i:5983900 original size:9 final size:8
Alignment explanation
Indices: 5983886--5983935 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
5983876 TAAATTTTAA
5983886 TAAAAATAT
1 TAAAAA-AT
*
5983895 TAAAAAAA
1 TAAAAAAT
5983903 TAAAAAAT
1 TAAAAAAT
*
5983911 AAAAAACAT
1 TAAAAA-AT
5983920 TAAAAAAT
1 TAAAAAAT
5983928 TATAAAAA
1 TA-AAAAA
5983936 AATTAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 17 0.49
9 18 0.51
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:5983921 original size:25 final size:26
Alignment explanation
Indices: 5983887--5983936 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
5983877 AAATTTTAAT
*
5983887 AAAAATATTAAAAAA-ATAAAAAATA
1 AAAAACATTAAAAAATATAAAAAATA
5983912 AAAAACATTAAAAAATTATAAAAAA
1 AAAAACATTAAAAAA-TATAAAAAA
5983937 ATTAGTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
27 8 0.36
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (26 bp):
AAAAACATTAAAAAATATAAAAAATA
Found at i:5983950 original size:12 final size:11
Alignment explanation
Indices: 5983918--5983953 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
5983908 AATAAAAAAC
5983918 ATTAAAAAATT
1 ATTAAAAAATT
*
5983929 ATAAAAAAATT
1 ATTAAAAAATT
5983940 AGTTAAAAAATT
1 A-TTAAAAAATT
5983952 AT
1 AT
5983954 GAATTCTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:5985181 original size:74 final size:73
Alignment explanation
Indices: 5985038--5985186 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 73
5985028 GGGTGAGTTT
* *
5985038 TAACACCTTAGATTTTGGGATGAGAAGTTTTGAGGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
1 TAACACCTCAGAATTTGGGATGAGAAGTTTTGAGGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
5985103 CAATTAAG
66 CAATTAAG
* * *
5985111 TAACACCTCAGAATTTGGGGTTAGAAGTTTTGAGGTTTTTTAGTTAGGGTCAATAAGTAGGTTTA
1 TAACACCTCAGAATTTGGGATGAGAAGTTTTGAGG-TTTGTAGTTAGGGTCAATAAGTAGGTTTA
*
5985176 GCAATTAAG
65 ACAATTAAG
5985185 TA
1 TA
5985187 TCTGTTTCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 31 0.45
74 38 0.55
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (73 bp):
TAACACCTCAGAATTTGGGATGAGAAGTTTTGAGGTTTGTAGTTAGGGTCAATAAGTAGGTTTAA
CAATTAAG
Found at i:5987795 original size:15 final size:15
Alignment explanation
Indices: 5987775--5987805 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5987765 AAATAAATAA
5987775 TAAGTTGAGTTATAG
1 TAAGTTGAGTTATAG
5987790 TAAGTTGAGTTATAG
1 TAAGTTGAGTTATAG
5987805 T
1 T
5987806 GATACTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TAAGTTGAGTTATAG
Found at i:5992267 original size:28 final size:27
Alignment explanation
Indices: 5992214--5992283 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
5992204 TTTAATTAAT
* *
5992214 TTTTTAAAATTTTAAAAATATATAAATTA
1 TTTTTAAAA-ATTAAAAATATATAAA-AA
*
5992243 TTTTTAAAAATTACAAATCAT-TAAAAA
1 TTTTTAAAAATTAAAAAT-ATATAAAAA
5992270 TGTTTTAAAAATTA
1 T-TTTTAAAAATTA
5992284 TAATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.06
28 23 0.64
29 11 0.31
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (27 bp):
TTTTTAAAAATTAAAAATATATAAAAA
Found at i:5995445 original size:20 final size:21
Alignment explanation
Indices: 5995406--5995445 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5995396 TCTGTCCCTT
**
5995406 TTTTTCTTTTCTTTTCCTCTC
1 TTTTTCTTTTCTTTAACTCTC
5995427 TTTTTCTTTTC-TTAACTCT
1 TTTTTCTTTTCTTTAACTCT
5995446 AGTCACCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTCTTTTCTTTAACTCTC
Found at i:5996160 original size:21 final size:21
Alignment explanation
Indices: 5996134--5996173 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5996124 CAGCGTGGCA
5996134 AGTTAACTTGCCACATCAGCT
1 AGTTAACTTGCCACATCAGCT
5996155 AGTTAACTTGCCACATCAG
1 AGTTAACTTGCCACATCAG
5996174 TGGTCCTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
AGTTAACTTGCCACATCAGCT
Found at i:6002639 original size:3 final size:3
Alignment explanation
Indices: 6002631--6002659 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6002621 CGACGGCAGT
6002631 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
6002660 CATTGTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6004037 original size:13 final size:13
Alignment explanation
Indices: 6004019--6004056 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
6004009 ATTTATAAAA
*
6004019 AAAATAATATATT
1 AAAATAATATAAT
6004032 AAAATAATATAAT
1 AAAATAATATAAT
6004045 AAAAT-ATATAAT
1 AAAATAATATAAT
6004057 TTTAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATAATATAAT
Found at i:6011136 original size:48 final size:48
Alignment explanation
Indices: 6011045--6011138 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
6011035 TTTCTTGGCT
* *
6011045 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATATATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAATAGATTCAACCG
*
6011093 TAAAAATGCCTAAGTCAG-CTCAAC-TCGCAACAATAA-AGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAATA-GATTCAAC
6011139 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAATAGATTCAACCG
Found at i:6013638 original size:48 final size:48
Alignment explanation
Indices: 6013547--6013640 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
6013537 TTTCTTGGCT
* *
6013547 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATATATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAATAGATTCAACCG
6013595 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAA-AGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAATA-GATTCAAC
6013641 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 5 0.12
48 36 0.88
ACGTcount: A:0.41, C:0.28, G:0.11, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAATAGATTCAACCG
Found at i:6020098 original size:63 final size:63
Alignment explanation
Indices: 6020017--6020208 Score: 384
Period size: 63 Copynumber: 3.0 Consensus size: 63
6020007 TTTATCTTAT
6020017 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
6020080 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
6020143 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
1 AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
6020206 AAT
1 AAT
6020209 ATTGTAATTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 129 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (63 bp):
AATTTAGAGTTTTATTGATTCGTTAACCTAGAATTTCTTTATCTTGAACTTTTAATTGATCAG
Found at i:6029619 original size:24 final size:25
Alignment explanation
Indices: 6029583--6029631 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
6029573 TCAATCACAA
6029583 TTTCTCACATTTTCAATTCAATAATT
1 TTTCTCACATTTTCAA-TCAATAATT
*
6029609 TTTC-CAC-TTTTTAATCAATAATT
1 TTTCTCACATTTTCAATCAATAATT
6029632 AATCCACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 6 0.27
25 3 0.14
26 4 0.18
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTCTCACATTTTCAATCAATAATT
Found at i:6029792 original size:3 final size:3
Alignment explanation
Indices: 6029784--6029815 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6029774 CCACTCATCT
6029784 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6029816 CTTACCTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6030717 original size:3 final size:3
Alignment explanation
Indices: 6030709--6030746 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6030699 ATTTCACAAT
6030709 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6030747 TTAATAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6031465 original size:10 final size:10
Alignment explanation
Indices: 6031452--6031476 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6031442 TTATTGAAAA
6031452 TTTTAATTAT
1 TTTTAATTAT
6031462 TTTTAATTAT
1 TTTTAATTAT
6031472 TTTTA
1 TTTTA
6031477 TAGGTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:6036208 original size:13 final size:13
Alignment explanation
Indices: 6036190--6036214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6036180 TTTTTTCTAA
6036190 TTTTAATTTTAAT
1 TTTTAATTTTAAT
6036203 TTTTAATTTTAA
1 TTTTAATTTTAA
6036215 ACCCCCTTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:6039998 original size:6 final size:6
Alignment explanation
Indices: 6039989--6040014 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6039979 GTAAAATAAA
6039989 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
6040015 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:6040876 original size:14 final size:15
Alignment explanation
Indices: 6040857--6040892 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6040847 AATATTTATT
6040857 ATATAAA-TACTTAA
1 ATATAAAGTACTTAA
6040871 ATATAAAGTACTTAA
1 ATATAAAGTACTTAA
6040886 ATATAAA
1 ATATAAA
6040893 AATGGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATAAAGTACTTAA
Found at i:6042401 original size:128 final size:129
Alignment explanation
Indices: 6042220--6042471 Score: 296
Period size: 128 Copynumber: 2.0 Consensus size: 129
6042210 AGATGAATTT
* * * *
6042220 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
6042285 ACCTT-AGGGAGATAGGATT-T-GTTTATTTAGTCTGCTCCACTACAACTTCAGGGAGATAAGAC
66 A-CTTCAGGGAGATAGGATTATCG--GATTTAATCTGCTCCACTACAACTTCAAGGAGATAAGAC
6042347 TA
128 TA
* * ** * * * *
6042349 GATGCGTTCTGCTCT-CTGCAACTTCAGAGAGATAAGATTCAAGGTTTTAATCCGCTTCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* *
6042413 ACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAA
66 ACTTCAGGGAGATAGGATTATCGGATTTAATCTGCTCCACTACAACTTCAAGGAGATAA
6042472 AATTTGCCAT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
127 3 0.03
128 84 0.82
129 15 0.15
130 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGGAGATAGGATTATCGGATTTAATCTGCTCCACTACAACTTCAAGGAGATAAGACTA
Found at i:6042416 original size:44 final size:44
Alignment explanation
Indices: 6042364--6042471 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
6042354 GTTCTGCTCT
* *
6042364 CTGCAACTTCAGAGAGATAAGATTCA-AGGTTTTAATCCGCTTCA
1 CTGCAACTTCAGAGAGATAAGATT-ATAGGCTTTAATCCGCTCCA
* * * *
6042408 CTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCA
6042452 CTGCAACTTCA-AGGAGATAA
1 CTGCAACTTCAGA-GAGATAA
6042472 AATTTGCCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 53 0.98
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGAGAGATAAGATTATAGGCTTTAATCCGCTCCA
Found at i:6042832 original size:44 final size:44
Alignment explanation
Indices: 6042778--6043197 Score: 500
Period size: 44 Copynumber: 9.7 Consensus size: 44
6042768 GCTATTTTCC
* *
6042778 ACCTACTCCACTGCTG-CTCAGGGAGATAGGGTTCACAATCTTCA
1 ACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATCTTCA
* *
6042822 ACCTATTCCACTGTTGACCAGGGAGATAGGA-CCTACAATCTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* * * * *
6042866 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
6042910 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
**
6042954 ACCTATTCCACTGCTGTTCAGGGAGATAGGATT--C--T-TT-A
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* * *
6042992 ATCTATTCCACTGCTG-CCTAGGGAGATAGAATTCTCAATCTTCA
1 ACCTATTCCACTGCTGACC-AGGGAGATAGGATTCACAATCTTCA
**
6043036 ACCTATTCCACTGCTGACCAGGGAGATAGGA-TCTACAATCTTTG
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATCTTCA
* * * ** *
6043080 ATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTTAATTTTCA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
* *
6043124 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTA
1 ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
*
6043168 ACCTATTCCACTGCTGACTAGGGAGATAGG
1 ACCTATTCCACTGCTGACCAGGGAGATAGG
6043198 GCTGGGATCA
Statistics
Matches: 320, Mismatches: 43, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
37 1 0.00
38 29 0.09
39 2 0.01
40 2 0.01
42 2 0.01
43 5 0.02
44 273 0.85
45 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCA
Found at i:6043153 original size:214 final size:214
Alignment explanation
Indices: 6042784--6043197 Score: 706
Period size: 214 Copynumber: 1.9 Consensus size: 214
6042774 TTCCACCTAC
** *
6042784 TCCACTGCTGCTCAGGGAGATAGGGTTCACAATCTTCAACCTATTCCACTGTTGACCAGGGAGAT
1 TCCACTGCTGCTCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
6042849 AGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCT
66 AGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCT
* *
6042914 ATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTG-TTCAGGGA
131 ATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACT-AGGGA
6042978 GATAGGATTCTTTAATCTAT
195 GATAGGATTCTTTAATCTAT
*
6042998 TCCACTGCTGC-CTAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGA
1 TCCACTGCTGCTC-AGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGA
* ** *
6043062 TAGGATCTACAATCTTTGATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTTAATTTTCAACC
65 TAGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACC
6043127 TATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACTAGGGA
130 TATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACTAGGGA
6043192 GATAGG
195 GATAGG
6043198 GCTGGGATCA
Statistics
Matches: 188, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
213 1 0.01
214 186 0.99
215 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (214 bp):
TCCACTGCTGCTCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGAT
AGGACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATTTTCAACCT
ATTCCACTGCTGACCAGGGAGATAGGATTCACAATATTTAACCTATTCCACTGCTGACTAGGGAG
ATAGGATTCTTTAATCTAT
Found at i:6043256 original size:88 final size:87
Alignment explanation
Indices: 6043197--6043696 Score: 658
Period size: 88 Copynumber: 5.7 Consensus size: 87
6043187 AGGGAGATAG
* * *
6043197 GGCTGGGATCATCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGG-TCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
6043262 TCTGCTGCAACCTAGGGATGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* * *
6043285 GACTGGTGTCTTCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGG-GTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
6043350 TCCGCTGCAACCCAGGAAGGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* *
6043373 GGCTGGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTG
1 GGCTGGG--TCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
6043438 CTCCGCTGCAACCCAGGGAGGCAA
64 CTCCGCTGCAACCCAGGGAGGCAA
* * * * *
6043462 GGCTGGTATCTTCGATCTGATTCGCTGTCGGTGCAGGAAGTCAAGATCTGTTATTTTTAACCTAC
1 GGCTGG-GTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
6043527 TCCACTGCAACCCAGGGAGGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* * * * * *
6043550 GGCTAGTGTCTTTGATCTGCTTCGCTGTCAGTGCAGAAAGGCAAGATTTACTATTTTTAACCTGC
1 GGCT-GGGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
6043615 TTCGCTGCAATCTAGGGAGGCAA
65 TCCGCTGCAACCCAGGGAGGCAA
* * * *
6043638 GGCTGGTGTCTTTGATCTTCTTCGCTGTCGGTGTAGGAATGCAAGATCTGCTATTTTTA
1 GGCTGG-GTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
6043697 CTAATCTGCT
Statistics
Matches: 363, Mismatches: 43, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
87 2 0.01
88 278 0.77
89 83 0.23
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (87 bp):
GGCTGGGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCT
CCGCTGCAACCCAGGGAGGCAA
Found at i:6043329 original size:44 final size:45
Alignment explanation
Indices: 6043208--6043511 Score: 176
Period size: 44 Copynumber: 6.9 Consensus size: 45
6043198 GCTGGGATCA
*
6043208 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATCT
* * * * * * *
6043253 TTAACCTGC-TCTGCTGCAAC-CT--AGGGATGCAAGA-CTGGTGTCT
1 TCAATCTGCTTC-GCTGC--CGGTGCAGGAAGGCAAGATCTGCTATCT
*
6043296 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATCT
* * * **** * *
6043341 TTAACCTGCTCCGCTG-CAACCCAGGAAGGCAAG-GCTGGGTATCT
1 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCT-GCTATCT
* * * * *
6043385 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATTTGCTATTT
1 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATCT
* * * **** * * *
6043430 TTAACCTGCTCCGCTG-CAACCCAGGGAGGCAAG-GCTGGTATCT
1 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATCT
* * * *
6043473 TCGATCTGATTCGCTGTCGGTGCAGGAAGTCAAGATCTG
1 TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTG
6043512 TTATTTTTAA
Statistics
Matches: 181, Mismatches: 65, Indels: 26
0.67 0.24 0.10
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 37 0.20
44 76 0.42
45 63 0.35
46 2 0.01
47 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (45 bp):
TCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATCT
Found at i:6043509 original size:177 final size:177
Alignment explanation
Indices: 6043197--6043696 Score: 709
Period size: 177 Copynumber: 2.8 Consensus size: 177
6043187 AGGGAGATAG
* * * *
6043197 GGCTGGG-ATCATCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 GGCTGGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTG
* * * * * *
6043261 CTCTGCTGCAACCTAGGGATGCAAGACTGGTGTCTTCAATCTGCTTCGCTGCCGGTGCAGGAAGG
66 CTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGT
* *
6043326 CAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGAAGGCAA
131 CAAGATCTGCTATTTTTAACCTACTCCACTGCAACCCAGGAAGGCAA
*
6043373 GGCTGGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTG
1 GGCTGGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTG
* * *
6043438 CTCCGCTGCAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGATTCGCTGTCGGTGCAGGAAGT
66 CTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGT
* *
6043503 CAAGATCTGTTATTTTTAACCTACTCCACTGCAACCCAGGGAGGCAA
131 CAAGATCTGCTATTTTTAACCTACTCCACTGCAACCCAGGAAGGCAA
* * * * * *
6043550 GGCT-AGTGTCTTTGATCTGCTTCGCTGTCAGTGCAGAAAGGCAAGATTTACTATTTTTAACCTG
1 GGCTGGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTG
* * * * *
6043614 CTTCGCTGCAATCTAGGGAGGCAAGGCTGGTGTCTTTGATCTTCTTCGCTGTCGGTGTAGGAA-T
66 CTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGT
6043678 GCAAGATCTGCTATTTTTA
131 -CAAGATCTGCTATTTTTA
6043697 CTAATCTGCT
Statistics
Matches: 288, Mismatches: 34, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
175 1 0.00
176 132 0.46
177 155 0.54
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (177 bp):
GGCTGGGTATCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTG
CTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGT
CAAGATCTGCTATTTTTAACCTACTCCACTGCAACCCAGGAAGGCAA
Found at i:6043638 original size:265 final size:264
Alignment explanation
Indices: 6043197--6043696 Score: 703
Period size: 265 Copynumber: 1.9 Consensus size: 264
6043187 AGGGAGATAG
* *
6043197 GGCTGGGATCATCAATCTGCTTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGGATCATCAATCTGATTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
** * * * * *
6043262 TCTGCTGCAACCTAGGGATGCAAGACTGGTGTCTTCAATCTGCTTCGCTGCCGGTGCAGGAAGGC
66 TCCACTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGCCAGTGCAGAAAGGC
*
6043327 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTGGGTATCTTCGATCT
131 AAGATCTACTATTTTTAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCT-GGTATCTTCGATCT
*
6043392 GCTTCACTGTCGGTGCAGGAAGGCAAGATTTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGA
195 GCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGA
6043457 GGCAA
260 GGCAA
* * * * * *
6043462 GGCTGGTATCTTCGATCTGATTCGCTGTCGGTGCAGGAAGTCAAGATCTGTTATTTTTAACCTAC
1 GGCTGGGATCATCAATCTGATTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
* ** *
6043527 TCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTGCTTCGCTGTCAGTGCAGAAAGGC
66 TCCACTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGCCAGTGCAGAAAGGC
* * * * * * * *
6043592 AAGATTTACTATTTTTAACCTGCTTCGCTGCAATCTAGGGAGGCAAGGCTGGTGTCTTTGATCTT
131 AAGATCTACTATTTTTAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTGGTATCTTCGATCTG
* * *
6043657 CTTCGCTGTCGGTGTAGGAATGCAAGATCTGCTATTTTTA
196 CTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
6043697 CTAATCTGCT
Statistics
Matches: 203, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
264 48 0.24
265 155 0.76
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (264 bp):
GGCTGGGATCATCAATCTGATTCGCTGCCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTAC
TCCACTGCAACCCAGGGAGGCAAGACTAGTGTCTTCAATCTGCTTCGCTGCCAGTGCAGAAAGGC
AAGATCTACTATTTTTAACCTGCTCCGCTGCAACCCAGGAAGGCAAGGCTGGTATCTTCGATCTG
CTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAG
GCAA
Found at i:6050608 original size:14 final size:15
Alignment explanation
Indices: 6050591--6050625 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6050581 ATATTTATTG
6050591 TATAAA-TACTTAAA
1 TATAAAGTACTTAAA
6050605 TATAAAGTACTTAAA
1 TATAAAGTACTTAAA
6050620 TATAAA
1 TATAAA
6050626 AATGGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (15 bp):
TATAAAGTACTTAAA
Done.