Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 47 of 202
Found at i:14000861 original size:97 final size:96
Alignment explanation
Indices: 14000700--14000894 Score: 270
Period size: 97 Copynumber: 2.0 Consensus size: 96
14000690 TAATTTTTAA
* * *
14000700 TTTTAATTAATAAGTATTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAAT
1 TTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAATAAAAAT
*
14000765 A-GATTTGATATAATTCATTATGTTAAAAATATT
66 ATGATAT-ATATAATT-ATTATGTT-AAAATATT
* *
14000798 TTTTAATTAATAA-CACTTTTATTTATAT-AAGAAAATAATAAATATGCAGTTATATAATGAAAA
1 TTTTAATTAATAAGCA-TTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAATAAAAA
*
14000861 TATTATATATATAATTATTATGTTAAAATATT
65 TATGATATATATAATTATTATGTTAAAATATT
14000893 TT
1 TT
14000895 ATTTTTTTAA
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
95 10 0.11
96 8 0.09
97 42 0.48
98 28 0.32
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (96 bp):
TTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATAATAAAAAT
ATGATATATATAATTATTATGTTAAAATATT
Found at i:14000878 original size:28 final size:27
Alignment explanation
Indices: 14000820--14000878 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
14000810 ACACTTTTAT
* *
14000820 TTATATAAGAAAATAATAAATATGCAG
1 TTATATAAGAAAATAATAAATATACAA
* * *
14000847 TTATATAATGAAAATATTATATATATAA
1 TTATATAA-GAAAATAATAAATATACAA
14000875 TTAT
1 TTAT
14000879 TATGTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (27 bp):
TTATATAAGAAAATAATAAATATACAA
Found at i:14001633 original size:41 final size:41
Alignment explanation
Indices: 14001571--14001690 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
14001561 TTCTGACCTT
* *
14001571 TCGGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * *
14001612 TCGGGGCTTTAGTGGCTTTTTTGCAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
14001653 TTGGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
14001691 AAACATTTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:14002064 original size:15 final size:14
Alignment explanation
Indices: 14002046--14002086 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
14002036 GTTTAGGGAG
14002046 TATGGATTTAAGGAT
1 TATGGA-TTAAGGAT
*
14002061 TATGGATTAGGGAT
1 TATGGATTAAGGAT
*
14002075 TATGGCTTAAGG
1 TATGGATTAAGG
14002087 GTTGGGATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.02, G:0.32, T:0.37
Consensus pattern (14 bp):
TATGGATTAAGGAT
Found at i:14002074 original size:22 final size:22
Alignment explanation
Indices: 14002030--14002075 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
14002020 GAGTTACTAT
* *
14002030 TTTAAGGTTTAGGGAGTATGGA
1 TTTAAGGATTAGGGAGTAGGGA
* *
14002052 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGATTAGGGAGTAGGGA
14002074 TT
1 TT
14002076 ATGGCTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (22 bp):
TTTAAGGATTAGGGAGTAGGGA
Found at i:14002149 original size:14 final size:14
Alignment explanation
Indices: 14002132--14002163 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14002122 ATCATTATAG
*
14002132 TTTAGGGTTTATGA
1 TTTAGGGTTTAAGA
14002146 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
14002160 TTTA
1 TTTA
14002164 AGAGTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:14002199 original size:15 final size:15
Alignment explanation
Indices: 14002181--14002223 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14002171 CTATTTTAAG
*
14002181 GTTTAGTGATTATGT
1 GTTTAGGGATTATGT
14002196 GTTTAGGGATTATG-
1 GTTTAGGGATTATGT
* *
14002210 GATTATGGATTATG
1 GTTTAGGGATTATG
14002224 GATTATGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:14002242 original size:7 final size:7
Alignment explanation
Indices: 14002188--14002238 Score: 66
Period size: 7 Copynumber: 7.1 Consensus size: 7
14002178 AAGGTTTAGT
14002188 GATTATG
1 GATTATG
* *
14002195 TGTTTAGG
1 -GATTATG
14002203 GATTATG
1 GATTATG
14002210 GATTATG
1 GATTATG
14002217 GATTATG
1 GATTATG
14002224 GATTATG
1 GATTATG
*
14002231 GTTTATG
1 GATTATG
14002238 G
1 G
14002239 TTTAAGGGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
7 33 0.87
8 5 0.13
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (7 bp):
GATTATG
Found at i:14007989 original size:43 final size:43
Alignment explanation
Indices: 14007929--14008019 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
14007919 CTTTGAGTTC
* * *
14007929 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
14007971 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
14008014 ATTACC
1 ATTACC
14008020 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:14008479 original size:43 final size:43
Alignment explanation
Indices: 14008425--14008687 Score: 303
Period size: 43 Copynumber: 6.1 Consensus size: 43
14008415 GTTTGTTCAA
*
14008425 TAGCGGCGTTTGTGACAAAAGCGTCGTTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGGTCTT
* * * *
14008468 TAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGGTCTT
* * *
14008511 TAGCGGCGTTTGTGCCAAAAGCGTCGCTAAAGGTTATGTTCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGGTCTT
** ** **
14008554 TAGCGGCGTTTGTGACAAAAGCGTCGCTCTAGACCATGACCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGGTCTT
* ** ** * *
14008597 TAGCAGCGTTTGTGTTAAAAGCACCACTAAAGGTCATGGCCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGGTCTT
* *
14008640 TAGCAGCGTTTGTGATAAAAGCG-CTGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGACAAAAGCGTC-GCTAAAGGTCATGGTCTT
14008683 TAGCG
1 TAGCG
14008688 ACATTTTTTC
Statistics
Matches: 185, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 1 0.01
43 184 0.99
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGGTCATGGTCTT
Found at i:14008533 original size:86 final size:86
Alignment explanation
Indices: 14008381--14008687 Score: 328
Period size: 86 Copynumber: 3.6 Consensus size: 86
14008371 ATGTTATGTT
* ** * * * **
14008381 TTTAGCGGCGTTTTTGCGAGAAGCGCTGCTAAAGGT-TTGTTCAATAGCGGCGTTTGTGACAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
*
14008445 GCGTCGTTAAAGGTCATGGTC
66 GCGTCGCTAAAGGTCATGGTC
* *
14008466 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGCCAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
* *
14008531 GCGTCGCTAAAGGTTATGTTC
66 GCGTCGCTAAAGGTCATGGTC
* * ** ** ** * **
14008552 TTTAGCGGCGTTTGTGACAAAAGCGTCGCTCTAGACCATGACCTTTAGCAGCGTTTGTGTTAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
** * *
14008617 GCACCACTAAAGGTCATGGCC
66 GCGTCGCTAAAGGTCATGGTC
* * *
14008638 TTTAGCAGCGTTTGTGATAAAAGCGCTGCTAAAGGTCATGGTCTTTAGCG
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCG
14008688 ACATTTTTTC
Statistics
Matches: 179, Mismatches: 42, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
85 30 0.17
86 149 0.83
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
GCGTCGCTAAAGGTCATGGTC
Found at i:14008598 original size:129 final size:129
Alignment explanation
Indices: 14008376--14008687 Score: 396
Period size: 129 Copynumber: 2.4 Consensus size: 129
14008366 TTTAAATGTT
* * * **
14008376 ATGTT-TTTAGCGGCGTTTTTGCGAGAAGCGCTGCTAAAGGTT-TGTTCAATAGCGGCGTTTGTG
1 ATGTTCTTTAGCGGCGTTTGTGCCAAAAGCGCTGCTAAAGGTTATGTTCTTTAGCGGCGTTTGTG
* ** ** * *
14008439 ACAAAAGCGTCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTC
66 ACAAAAGCGTCGCTAAAGACCATGACCTTTAGCAGCGTTTGTGATAAAAGCACCACTAAAGGTC
14008503 ATGTTCTTTAGCGGCGTTTGTGCCAAAAGCG-TCGCTAAAGGTTATGTTCTTTAGCGGCGTTTGT
1 ATGTTCTTTAGCGGCGTTTGTGCCAAAAGCGCT-GCTAAAGGTTATGTTCTTTAGCGGCGTTTGT
** *
14008567 GACAAAAGCGTCGCTCTAGACCATGACCTTTAGCAGCGTTTGTGTTAAAAGCACCACTAAAGGTC
65 GACAAAAGCGTCGCTAAAGACCATGACCTTTAGCAGCGTTTGTGATAAAAGCACCACTAAAGGTC
** * ** * *
14008632 ATGGCCTTTAGCAGCGTTTGTGATAAAAGCGCTGCTAAAGGTCATGGTCTTTAGCG
1 ATGTTCTTTAGCGGCGTTTGTGCCAAAAGCGCTGCTAAAGGTTATGTTCTTTAGCG
14008688 ACATTTTTTC
Statistics
Matches: 159, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
127 6 0.04
128 32 0.20
129 120 0.75
130 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (129 bp):
ATGTTCTTTAGCGGCGTTTGTGCCAAAAGCGCTGCTAAAGGTTATGTTCTTTAGCGGCGTTTGTG
ACAAAAGCGTCGCTAAAGACCATGACCTTTAGCAGCGTTTGTGATAAAAGCACCACTAAAGGTC
Found at i:14009895 original size:16 final size:17
Alignment explanation
Indices: 14009861--14009895 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14009851 ATGTATTGGG
*
14009861 TTGAGAAACTTATTTAA
1 TTGAGAAACTTAATTAA
14009878 TTGAGAAA-TTAATTAA
1 TTGAGAAACTTAATTAA
14009894 TT
1 TT
14009896 AATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAACTTAATTAA
Found at i:14014164 original size:12 final size:12
Alignment explanation
Indices: 14014139--14014250 Score: 50
Period size: 12 Copynumber: 8.8 Consensus size: 12
14014129 ATTTACAAGA
14014139 TAAATATTAAAT
1 TAAATATTAAAT
14014151 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
14014163 TAAGATAATCACT
1 TAA-ATATTAAAT
*
14014176 TTAATATTAAATT
1 TAAATATTAAA-T
*
14014189 AATAAAATATTATAAGA
1 --T-AAATATTA-AA-T
*
14014206 TAAGTATTAAAT
1 TAAATATTAAAT
14014218 TAAAT-TTAATAT
1 TAAATATTAA-AT
*
14014230 TAAACTATTAAAA
1 TAAA-TATTAAAT
14014243 T-AATATTA
1 TAAATATTA
14014251 TTTTTGAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
11 13 0.17
12 27 0.36
13 11 0.15
14 13 0.17
15 2 0.03
16 7 0.09
17 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:14014191 original size:20 final size:18
Alignment explanation
Indices: 14014141--14014249 Score: 68
Period size: 20 Copynumber: 5.9 Consensus size: 18
14014131 TTACAAGATA
14014141 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
14014158 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
*
14014178 AATATTAAATTAATA--A
1 AATATTAAATTAATATTT
*
14014194 AATATTATAAGATAAGTA-TT
1 AATATTA-AA-TTAA-TATTT
*
14014214 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
*
14014232 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
14014250 ATTTTTGAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
16 7 0.10
17 15 0.21
18 12 0.16
19 16 0.22
20 23 0.32
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:14015421 original size:42 final size:42
Alignment explanation
Indices: 14015292--14015527 Score: 232
Period size: 43 Copynumber: 5.6 Consensus size: 42
14015282 TTATGTGAAA
* * *
14015292 AAACGTCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAAATCAT-GACTTTAGCGGCGCTTTTACCAC
* *
14015335 AAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTT-CACAC
1 AAACGCCGCTAAAAATCAT-GACTTTAGCGGCGCTTTTAC-CAC
*
14015378 AAACGCCGCTAAAAATCATGACCTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAAATCATGACTTTAGCGGCGCTTTTACCAC
* * * **
14015420 AAACGCCACTAAAAATCATGACCTTTAGTGGCACTTTTATTAC
1 AAACGCCGCTAAAAATCATGA-CTTTAGCGGCGCTTTTACCAC
** * *
14015463 AAACATCGCTATAAAA--ATAACTTTTAGCGGCAG-TTTT-TCAC
1 AAACGCCGCTA-AAAATCATGAC-TTTAGCGGC-GCTTTTACCAC
14015504 AAACGCCGCTAAAAA-CATGACTTT
1 AAACGCCGCTAAAAATCATGACTTT
14015528 TAAAAAAAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.04
41 17 0.10
42 55 0.33
43 83 0.50
44 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAAATCATGACTTTAGCGGCGCTTTTACCAC
Found at i:14015465 original size:85 final size:85
Alignment explanation
Indices: 14015292--14015529 Score: 254
Period size: 85 Copynumber: 2.8 Consensus size: 85
14015282 TTATGTGAAA
* * * **
14015292 AAACGTCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGATCATGGT
1 AAACGTCGCTAAAAATCAT-GACTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAATCATGAC
*
14015357 CTTTAGCGGCGCTTTTCACAC
65 CTTTAGCGGCACTTTTCACAC
* * *
14015378 AAACGCCGCTAAAAATCATGACCTTAGCGGCGCTTTTACCACAAACGCCACTAAAAATCATGACC
1 AAACGTCGCTAAAAATCATGACTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAATCATGACC
* *
14015443 TTTAGTGGCACTTTT-ATTAC
66 TTTAGCGGCACTTTTCA-CAC
* * *
14015463 AAACATCGCTATAAAA--ATAACTTTTAGCGGCAG-TTTT-TCACAAACGCCGCTAAAAA-CATG
1 AAACGTCGCTA-AAAATCATGAC-TTTAGCGGC-GCTTTTACCACAAACGCCGCTAAAAATCATG
*
14015523 ACTTTTA
63 ACCTTTA
14015530 AAAAAAATTA
Statistics
Matches: 130, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
83 10 0.08
84 22 0.17
85 76 0.58
86 22 0.17
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (85 bp):
AAACGTCGCTAAAAATCATGACTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAATCATGACC
TTTAGCGGCACTTTTCACAC
Found at i:14019729 original size:12 final size:11
Alignment explanation
Indices: 14019712--14019773 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
14019702 AAAATCATTT
14019712 TATTTAAACTAA
1 TATTTAAA-TAA
14019724 TATTTAAAT-A
1 TATTTAAATAA
**
14019734 TATTTATTAATTC
1 TATTTA--AATAA
14019747 TATTTAAACTAA
1 TATTTAAA-TAA
14019759 TATTTAAAT-A
1 TATTTAAATAA
14019769 TATTT
1 TATTT
14019774 TATTTAAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 13 0.30
11 4 0.09
12 20 0.47
13 6 0.14
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:14019754 original size:23 final size:25
Alignment explanation
Indices: 14019724--14019814 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 25
14019714 TTTAAACTAA
14019724 TATTTAAA-T-ATATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
* *
14019747 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTAATATTT-ATTA-ATTC
*
14019774 TATTTAAACT--TAATTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
14019797 TATTTAAACTAATATTTA
1 TATTTAAACTAATATTTA
14019815 AATATTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 21 0.38
24 4 0.07
25 15 0.27
26 3 0.05
27 13 0.23
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTAAACTAATATTTATTAATTC
Found at i:14019758 original size:35 final size:34
Alignment explanation
Indices: 14019710--14019881 Score: 133
Period size: 35 Copynumber: 4.9 Consensus size: 34
14019700 CAAAAATCAT
14019710 TTTATTTAAACTAATATTTAAATATATTTATTAA
1 TTTATTTAAACTAATATTTAAATATATTTATTAA
14019744 TTCTATTTAAACTAATATTTAAATATATTTTATTTAAA
1 TT-TATTTAAACTAATATTTAAATATA-TTTA-TT-AA
* * **
14019782 CTTAATTATTAA-TTCTATTTAAACTAATATTTA--AA
1 -TTTATT-TAAACTAATATTTAAA-T-ATATTTATTAA
14019817 --TATTTAAA-TATATTTTATTTAAACT-TATTTATTAA
1 TTTATTTAAACTA-A---TATTTAAA-TATATTTATTAA
14019852 TTCTATTTAAACTAATATTTAAATATATTT
1 TT-TATTTAAACTAATATTTAAATATATTT
14019882 TATTTAAACT
Statistics
Matches: 111, Mismatches: 8, Indels: 37
0.71 0.05 0.24
Matches are distributed among these distances:
31 4 0.04
32 3 0.03
33 6 0.05
34 3 0.03
35 51 0.46
36 4 0.04
37 2 0.02
38 23 0.21
39 12 0.11
40 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (34 bp):
TTTATTTAAACTAATATTTAAATATATTTATTAA
Found at i:14019791 original size:50 final size:50
Alignment explanation
Indices: 14019724--14019979 Score: 397
Period size: 50 Copynumber: 5.0 Consensus size: 50
14019714 TTTAAACTAA
14019724 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
*
14019774 TATTTAAACTTAATTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAAC-------T-AATATTTAAATATATTT
14019832 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
14019882 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
* *
14019932 TATTTAAACTTATTTATTAATTCTATTTAAATTAATAGTTAAATATAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATAT
14019980 CAAATGGTTT
Statistics
Matches: 193, Mismatches: 4, Indels: 18
0.90 0.02 0.08
Matches are distributed among these distances:
50 142 0.74
51 2 0.01
57 1 0.01
58 48 0.25
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (50 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
Found at i:14019839 original size:23 final size:23
Alignment explanation
Indices: 14019809--14019939 Score: 90
Period size: 23 Copynumber: 5.3 Consensus size: 23
14019799 TTTAAACTAA
14019809 TATTTAAATATTTAAATATATTT
1 TATTTAAATATTTAAATATATTT
* *
14019832 TATTTAAACTTATTT-ATTA-ATTC
1 TATTTAAA--TATTTAAATATATTT
14019855 TATTTAAACTAATATTTAAATATATTT
1 TATTT--A--AATATTTAAATATATTT
* *
14019882 TATTTAAACTTATTT-ATTA-ATTC
1 TATTTAAA--TATTTAAATATATTT
14019905 TATTTAAACTAATATTTAAATATATTT
1 TATTT--A--AATATTTAAATATATTT
14019932 TATTTAAA
1 TATTTAAA
14019940 CTTATTTATT
Statistics
Matches: 84, Mismatches: 8, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
23 28 0.33
24 6 0.07
25 24 0.29
26 6 0.07
27 20 0.24
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTAAATATTTAAATATATTT
Found at i:14019960 original size:23 final size:23
Alignment explanation
Indices: 14019832--14019962 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
14019822 AAATATATTT
14019832 TATTTAAACTTATTTATTAATTC
1 TATTTAAACTTATTTATTAATTC
* *
14019855 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACT--TATTT-ATTA-ATTC
14019882 TATTTAAACTTATTTATTAATTC
1 TATTTAAACTTATTTATTAATTC
* *
14019905 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACT--TATTT-ATTA-ATTC
14019932 TATTTAAACTTATTTATTAATTC
1 TATTTAAACTTATTTATTAATTC
14019955 TATTTAAA
1 TATTTAAA
14019963 TTAATAGTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
23 34 0.37
24 6 0.07
25 20 0.22
26 6 0.07
27 26 0.28
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTAAACTTATTTATTAATTC
Found at i:14020312 original size:43 final size:43
Alignment explanation
Indices: 14020264--14020376 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
14020254 ACCTCTGAAT
* *
14020264 CCCTAAACCTTAAATCCCTAACTCTTAACCCATAAAGTC-TAA
1 CCCTAAACCTTAAATCCCTAACCCTTAACCCATAAACTCTTAA
*
14020306 CCCCTAAACCTTAAATCCC-AACCCTTAAACCCCTAAACTCTTAA
1 -CCCTAAACCTTAAATCCCTAACCCTT-AACCCATAAACTCTTAA
* * *
14020350 ACCTTAACC-CAAATCCCTAACCCTTAA
1 CCCTAAACCTTAAATCCCTAACCCTTAA
14020377 ACTCTAACTC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
42 15 0.25
43 43 0.70
44 3 0.05
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (43 bp):
CCCTAAACCTTAAATCCCTAACCCTTAACCCATAAACTCTTAA
Found at i:14020328 original size:21 final size:21
Alignment explanation
Indices: 14020264--14020336 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
14020254 ACCTCTGAAT
14020264 CCCTAAACCTTAAATCCCTAAC
1 CCCTAAACCTTAAATCCC-AAC
* * * * *
14020286 TCTTAACCCATAAAGT-CTAAC
1 CCCTAAACCTTAAA-TCCCAAC
14020307 CCCTAAACCTTAAATCCCAAC
1 CCCTAAACCTTAAATCCCAAC
*
14020328 CCTTAAACC
1 CCCTAAACC
14020337 CCTAAACTCT
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
20 1 0.03
21 25 0.66
22 11 0.29
23 1 0.03
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.23
Consensus pattern (21 bp):
CCCTAAACCTTAAATCCCAAC
Found at i:14020331 original size:14 final size:15
Alignment explanation
Indices: 14020307--14020377 Score: 69
Period size: 14 Copynumber: 4.9 Consensus size: 15
14020297 AAAGTCTAAC
*
14020307 CCCTAAACCTTAAAT
1 CCCTAACCCTTAAAT
*
14020322 CCC-AACCCTTAAAC
1 CCCTAACCCTTAAAT
*
14020336 CCCTAAACTCTTAAA-
1 CCCT-AACCCTTAAAT
*
14020351 CCTTAACCC--AAAT
1 CCCTAACCCTTAAAT
14020364 CCCTAACCCTTAAA
1 CCCTAACCCTTAAA
14020378 CTCTAACTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
12 3 0.07
13 8 0.18
14 16 0.36
15 9 0.20
16 9 0.20
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (15 bp):
CCCTAACCCTTAAAT
Found at i:14020384 original size:27 final size:27
Alignment explanation
Indices: 14020336--14020396 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
14020326 ACCCTTAAAC
*
14020336 CCCTAAACTCTTAAACCTTAACCCAAAT
1 CCCT-AACCCTTAAACCTTAACCCAAAT
* *
14020364 CCCTAACCCTTAAA-CTCTAACTCGAAT
1 CCCTAACCCTTAAACCT-TAACCCAAAT
14020391 CCCTAA
1 CCCTAA
14020397 ACCAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.36, C:0.38, G:0.02, T:0.25
Consensus pattern (27 bp):
CCCTAACCCTTAAACCTTAACCCAAAT
Found at i:14020617 original size:22 final size:22
Alignment explanation
Indices: 14020591--14020638 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
14020581 TCTAACCCCT
*
14020591 AACCCCTAAATTACAACCCTTA
1 AACCCCTAAATCACAACCCTTA
14020613 AACCCCTAAATCACAACCCTTA
1 AACCCCTAAATCACAACCCTTA
14020635 AACC
1 AACC
14020639 AAAATCCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.19
Consensus pattern (22 bp):
AACCCCTAAATCACAACCCTTA
Found at i:14020996 original size:20 final size:19
Alignment explanation
Indices: 14020955--14020998 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
14020945 AATTTTAATT
*
14020955 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
14020974 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
14020994 AATAT
1 AATAT
14020999 TTTTGCGACC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:14021110 original size:40 final size:41
Alignment explanation
Indices: 14021008--14021149 Score: 200
Period size: 40 Copynumber: 3.5 Consensus size: 41
14020998 TTTTTGCGAC
*
14021008 CTTTTTCAAAAACGCCGCCAAAGCACC-GAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAG-ACCAGAGCATTAGCGGCG
* *
14021049 CTTTTTCGAAAACGCCACTAAAGACCAGAGCATTAGCGGCG
1 CTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCG
* * *
14021090 C-TTTTCAAAAATGCCGCTAAAGACTAGA-CATTAGCGTCG
1 CTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCG
14021129 CTTTTTCAAAAACGCCGCTAA
1 CTTTTTCAAAAACGCCGCTAA
14021150 TGCTTTTTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
39 11 0.12
40 44 0.49
41 35 0.39
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
CTTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCG
Found at i:14021281 original size:41 final size:40
Alignment explanation
Indices: 14021212--14021288 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
14021202 GTTAGGCTTA
* * *
14021212 CATTTTTTGCGGCGTTTTTCTAGAAAACGCCTCTAATGCT
1 CATTTTTAGCGGCGTTTTTCTACAAAACGCCACTAATGCT
* *
14021252 CATTTTTAGCGGCGTTTTTTTATCCAAACGCCACTAA
1 CATTTTTAGCGGCGTTTTTCTA-CAAAACGCCACTAA
14021289 AAATGCCGCG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 20 0.65
41 11 0.35
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (40 bp):
CATTTTTAGCGGCGTTTTTCTACAAAACGCCACTAATGCT
Found at i:14026219 original size:18 final size:18
Alignment explanation
Indices: 14026179--14026212 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14026169 CCATGTGGTC
14026179 GGCCCGTGTGGACCCACA
1 GGCCCGTGTGGACCCACA
*
14026197 CGCCCGTGTGG-CCCAC
1 GGCCCGTGTGGACCCAC
14026213 TTGGCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.44, G:0.32, T:0.12
Consensus pattern (18 bp):
GGCCCGTGTGGACCCACA
Found at i:14027601 original size:255 final size:254
Alignment explanation
Indices: 14027150--14027608 Score: 758
Period size: 255 Copynumber: 1.8 Consensus size: 254
14027140 AACAAAACAC
* * * * *
14027150 TTCAGAAGAAAGTTAACATATGGAGACAAATCACTTATCTAAAACTTACTGAACGATTGTAGACA
1 TTCAGAAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCGCAGACA
* * * *
14027215 AACATGGAACGACACGAGGCGGAGTGGGGAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGC
66 AACATGGAACGACACGAGGCAGACTCGGAAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGC
* *
14027280 AGAAATTCGGCAGCAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTGGGGAAAGTAAAAA
131 AAAAATTCGGCAGAAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTGGGGAAAGT-AAAA
14027345 AAAAGAAAAAGAAAAAAACAAATATGAACAGAATATTTGATAACTACCCCAATTCCTTAT
195 AAAAGAAAAAGAAAAAAACAAATATGAACAGAATATTTGATAACTACCCCAATTCCTTAT
14027405 TTCAGAAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCGCAGACA
1 TTCAGAAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCGCAGACA
* * *
14027470 AACGTGGAGCGACACGAGGCAGACTCGGAAAAGAAAAATCAAGAAGATGAAGGGAT-AAAGAGAG
66 AACATGGAACGACACGAGGCAGACTCGGAAAAGAAAAATCAAGAAGATAAAGGG-TGAAAGAGAG
*
14027534 CAAAAATTCGGCAGAAATGAAGAGAAAAACGACAAGAGTGTGGAGGGATTTTGGGGAAAGTAAAA
130 CAAAAATTCGGCAGAAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTGGGGAAAGTAAAA
14027599 AAAAGAAAAA
195 AAAAGAAAAA
14027609 AAATAGATGA
Statistics
Matches: 188, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
254 14 0.07
255 173 0.92
256 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (254 bp):
TTCAGAAGAAAGTTAACAAATGAAGACAAATCACTTATCTAAAACTTACCGAACGATCGCAGACA
AACATGGAACGACACGAGGCAGACTCGGAAAAGAAAAATCAAGAAGATAAAGGGTGAAAGAGAGC
AAAAATTCGGCAGAAATGAAGAGAAAAACGACAAGAGGGTGGAGGGATTTTGGGGAAAGTAAAAA
AAAGAAAAAGAAAAAAACAAATATGAACAGAATATTTGATAACTACCCCAATTCCTTAT
Found at i:14033749 original size:20 final size:18
Alignment explanation
Indices: 14033699--14033750 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
14033689 TTACAAGATA
14033699 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
14033716 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
14033736 AATATTAAATTAATA
1 AATATTAAATTAATA
14033751 AAATATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:14036219 original size:25 final size:25
Alignment explanation
Indices: 14036187--14036237 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14036177 TAAATATAGA
14036187 TTACTTTAAATAAACTATATTTTCT
1 TTACTTTAAATAAACTATATTTTCT
14036212 TTACTTTAAATAAACTATATTTTCT
1 TTACTTTAAATAAACTATATTTTCT
14036237 T
1 T
14036238 ACACTTACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (25 bp):
TTACTTTAAATAAACTATATTTTCT
Found at i:14036291 original size:13 final size:13
Alignment explanation
Indices: 14036260--14036301 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
14036250 TGGGTGGAAG
14036260 AAAATATTTTATGTA
1 AAAATATTTT-T-TA
14036275 AAAATATTTTTTA
1 AAAATATTTTTTA
14036288 AAAAT-TTTATTTA
1 AAAATATTT-TTTA
14036301 A
1 A
14036302 TAATGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.12
13 12 0.46
14 1 0.04
15 10 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
AAAATATTTTTTA
Found at i:14037154 original size:12 final size:12
Alignment explanation
Indices: 14037137--14037168 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
14037127 TACCCAATTA
14037137 AATTAATTCTAC
1 AATTAATTCTAC
14037149 AATTAATTCTAC
1 AATTAATTCTAC
14037161 AATTAATT
1 AATTAATT
14037169 TAATTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTAATTCTAC
Found at i:14040090 original size:21 final size:21
Alignment explanation
Indices: 14040036--14040090 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
14040026 TGCAGAGGAG
* *
14040036 ACACGACCATGTGGTCAAGGC
1 ACACGTCCATGTGGTCAAGAC
* *
14040057 ACACGTTCTTGTGGT-ATAGAC
1 ACACGTCCATGTGGTCA-AGAC
14040078 ACACGTCCATGTG
1 ACACGTCCATGTG
14040091 CGCAACCCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (21 bp):
ACACGTCCATGTGGTCAAGAC
Found at i:14044849 original size:6 final size:6
Alignment explanation
Indices: 14044840--14044869 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
14044830 ACATTCAAAC
14044840 TCATAT TCATAT TCATAT TCATAT TCATAT
1 TCATAT TCATAT TCATAT TCATAT TCATAT
14044870 CAATCGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATAT
Found at i:14044853 original size:18 final size:18
Alignment explanation
Indices: 14044832--14044869 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14044822 ATAAGAATAC
14044832 ATTCAAACTCATATTCAT
1 ATTCAAACTCATATTCAT
* *
14044850 ATTCATATTCATATTCAT
1 ATTCAAACTCATATTCAT
14044868 AT
1 AT
14044870 CAATCGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTCAAACTCATATTCAT
Found at i:14046124 original size:26 final size:26
Alignment explanation
Indices: 14046040--14046133 Score: 77
Period size: 26 Copynumber: 3.6 Consensus size: 26
14046030 CGTAAAAATC
* * *
14046040 TAAAAAAAATAATATACATAAAACAGTT
1 TAAAATAAATAATAT--ATGAAACAATT
*
14046068 TAAGAT-AA-AATA-ATAGAAAGCAATT
1 TAAAATAAATAATATAT-GAAA-CAATT
*
14046093 AAAAATAAATAATATATGAAACAATT
1 TAAAATAAATAATATATGAAACAATT
*
14046119 TAAAATAGATAATAT
1 TAAAATAAATAATAT
14046134 CAAACAGTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
23 2 0.04
24 3 0.06
25 8 0.15
26 24 0.45
27 10 0.19
28 6 0.11
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (26 bp):
TAAAATAAATAATATATGAAACAATT
Found at i:14046138 original size:24 final size:26
Alignment explanation
Indices: 14046040--14046145 Score: 67
Period size: 24 Copynumber: 4.1 Consensus size: 26
14046030 CGTAAAAATC
* * *
14046040 TAAAAAAAATAATATACATAAAACAGTT
1 TAAAATAAATAATAT--ATCAAACAATT
* * *
14046068 TAAGATAAAATAATAGA--AAGCAATT
1 TAAAAT-AAATAATATATCAAACAATT
* *
14046093 AAAAATAAATAATATATGAAACAATT
1 TAAAATAAATAATATATCAAACAATT
* *
14046119 TAAAATAGAT-A-ATATCAAACAGTT
1 TAAAATAAATAATATATCAAACAATT
14046143 TAA
1 TAA
14046146 TATGAACAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
24 23 0.37
25 11 0.18
26 15 0.24
27 1 0.02
28 4 0.06
29 8 0.13
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (26 bp):
TAAAATAAATAATATATCAAACAATT
Found at i:14059570 original size:3 final size:3
Alignment explanation
Indices: 14059553--14059595 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
14059543 TCGACAGTGA
14059553 TTC TATC TT- TTC TTC TTC TTC TTC TTC TTC TTC ATT- TTC TTC T
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC T
14059596 ATTTTTTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 27 0.75
4 5 0.14
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:14060014 original size:32 final size:33
Alignment explanation
Indices: 14059977--14060043 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
14059967 GGATTGATTT
*
14059977 ATATTTCATATATCATTATATT-AATTACTTAA
1 ATATTTCATACATCATTATATTAAATTACTTAA
* *
14060009 ATATTTCATGCATCATTATATTAAATTATTTAA
1 ATATTTCATACATCATTATATTAAATTACTTAA
14060042 AT
1 AT
14060044 CTTATTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 20 0.65
33 11 0.35
ACGTcount: A:0.40, C:0.09, G:0.01, T:0.49
Consensus pattern (33 bp):
ATATTTCATACATCATTATATTAAATTACTTAA
Found at i:14072456 original size:41 final size:41
Alignment explanation
Indices: 14072411--14072497 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
14072401 TTAATATCCT
*
14072411 TGAATTGAACATACATGCCCCTGTTTATACT-TCGGTACCCC
1 TGAATTGAACATACATGCCCCTGCTTATACTCT-GGTACCCC
* * *
14072452 TGAATTGCACATACGTGCCCCTGCTTGTACTCTGGTACCCC
1 TGAATTGAACATACATGCCCCTGCTTATACTCTGGTACCCC
14072493 TGAAT
1 TGAAT
14072498 GCATTTTTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (41 bp):
TGAATTGAACATACATGCCCCTGCTTATACTCTGGTACCCC
Found at i:14079959 original size:25 final size:24
Alignment explanation
Indices: 14079906--14079958 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
14079896 AAAAAATGAT
* *
14079906 AAAAGAATAAAGGTAAGTTTGTTC
1 AAAAGAATAAAGGTAAATTTGCTC
14079930 AAAAGAATAAAGAGTAAAATTTGCTC
1 AAAAGAATAAAG-GT-AAATTTGCTC
14079956 AAA
1 AAA
14079959 GTTTGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.48
25 2 0.08
26 11 0.44
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (24 bp):
AAAAGAATAAAGGTAAATTTGCTC
Found at i:14087045 original size:30 final size:30
Alignment explanation
Indices: 14087002--14087083 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
14086992 GAGTTTTTTT
14087002 ATTATTTTATTTAATATTAATA-TAATATA
1 ATTATTTTATTTAATATTAATATTAATATA
14087031 ATTATTTCTATTTAATATTAATATTAATATA
1 ATTATTT-TATTTAATATTAATATTAATATA
* * *
14087062 A-AATTTAATTTATTATT-ATATT
1 ATTATTTTATTTAATATTAATATT
14087084 CTTTTTGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
28 5 0.10
29 16 0.33
30 19 0.40
31 8 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTATTTTATTTAATATTAATATTAATATA
Found at i:14088270 original size:32 final size:31
Alignment explanation
Indices: 14088220--14088286 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
14088210 TATTTAAATT
* * *
14088220 AATTTTTCTATTATTAAA-TAGATTAATTAA
1 AATTTTTCTATTAATAAATTAAATAAATTAA
14088250 AATTTTATACTATTAATAAATTAAATAAATTAA
1 AATTTT-T-CTATTAATAAATTAAATAAATTAA
14088283 AATT
1 AATT
14088287 AGAATTGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 1 0.03
32 10 0.32
33 14 0.45
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
AATTTTTCTATTAATAAATTAAATAAATTAA
Found at i:14091958 original size:50 final size:50
Alignment explanation
Indices: 14091843--14092185 Score: 497
Period size: 50 Copynumber: 6.8 Consensus size: 50
14091833 GATAATAACA
* ** *
14091843 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
14091894 TGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
14091944 TGCCAATGTCATGTCCTAGACATGGTCTTACATGTGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
14091994 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14092044 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
14092094 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** * *
14092144 TGCCAACGTAATGTCCCGGACATGGTCTTACTTGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
14092186 TTACCCAAAT
Statistics
Matches: 261, Mismatches: 31, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
50 229 0.88
51 32 0.12
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14099632 original size:50 final size:50
Alignment explanation
Indices: 14099518--14099760 Score: 328
Period size: 50 Copynumber: 4.8 Consensus size: 50
14099508 GATAATAGCA
** *
14099518 TGCCAA-AGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACA-CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** * * *
14099569 TGCCCATGCCATGTCCCATACATGGTCTTAC-GGGGAACTTCTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATCTCGG
*
14099619 TGCCAACACCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
14099669 TGCCAACACCATGTCCCAGACTTGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
14099719 TGCCAACGCCATGTCCCAGACATGGTCTTAGATGGGACCTCT
1 TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
14099761 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 142 0.82
51 31 0.18
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:14100683 original size:20 final size:20
Alignment explanation
Indices: 14100649--14100688 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14100639 TAGCTCAACG
* *
14100649 AGCTCATTTTTAGCTCATTT
1 AGCTCATCTTAAGCTCATTT
*
14100669 AGCTCATCTTAAGCTTATTT
1 AGCTCATCTTAAGCTCATTT
14100689 TAGTTTGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (20 bp):
AGCTCATCTTAAGCTCATTT
Found at i:14102627 original size:2 final size:2
Alignment explanation
Indices: 14102620--14102650 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14102610 AATAGAGATT
14102620 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14102651 TAAATACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14106453 original size:30 final size:29
Alignment explanation
Indices: 14106389--14106477 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
14106379 GTGTGTTAAA
* * * *
14106389 CGATGGTTGTAACCGTCCTTTTTTATATT
1 CGATGGTCGTAACCATCCTTTTTCATAAT
*
14106418 CGATGGTCGAAACCATCCTTTTTCATTAAT
1 CGATGGTCGTAACCATCCTTTTTCA-TAAT
* *
14106448 CGATGGTCGTTACCATCCCTTTTCATAAT
1 CGATGGTCGTAACCATCCTTTTTCATAAT
14106477 C
1 C
14106478 AATAGCCGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 26 0.51
30 25 0.49
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (29 bp):
CGATGGTCGTAACCATCCTTTTTCATAAT
Found at i:14106494 original size:29 final size:29
Alignment explanation
Indices: 14106462--14106646 Score: 160
Period size: 29 Copynumber: 6.4 Consensus size: 29
14106452 GGTCGTTACC
* * *
14106462 ATCCCTTTTCATAATCAATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
* * *
14106491 ATCCCTTTCCACATTCGATAGCCAAAGTT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
**
14106520 ATCCCTTTTCAT-TTCGATAGATGAAA-CT
1 ATCCCTTTTCATATTCGATAG-CCAAAGCT
* *
14106548 ATCCCTTTTCACATTTGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
* * *** *
14106577 ATCCTTTTTCATATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATATTCGATAG-CCAAAGCT
* * *
14106606 ATCCCTTTTCATAATCGATAGGCAAAACT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
14106635 ATCCCTTTTCAT
1 ATCCCTTTTCAT
14106647 TATCTGAGGT
Statistics
Matches: 120, Mismatches: 31, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
28 24 0.20
29 94 0.78
30 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCT
Found at i:14106568 original size:57 final size:58
Alignment explanation
Indices: 14106462--14106646 Score: 192
Period size: 58 Copynumber: 3.2 Consensus size: 58
14106452 GGTCGTTACC
* * * * *
14106462 ATCCCTTTTCATAATCAATAGCCGAAGCTATCCCTTTCCACATTCGATAGCCAAAGTT
1 ATCCCTTTTCATATTCGATAGACGAAACTATCCCTTTCCACATTCGATAGCCAAAGCT
* * *
14106520 ATCCCTTTTCAT-TTCGATAGATGAAACTATCCCTTTTCACATTTGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGACGAAACTATCCCTTTCCACATTCGATAGCCAAAGCT
* * * ** * * * * * *
14106577 ATCCTTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATCGATAGGCAAAACT
1 ATCCCTTTTCATATTCGATAGACGAAACTATCCCTTTCCACATTCGATAGCCAAAGCT
14106635 ATCCCTTTTCAT
1 ATCCCTTTTCAT
14106647 TATCTGAGGT
Statistics
Matches: 105, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
57 48 0.46
58 57 0.54
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (58 bp):
ATCCCTTTTCATATTCGATAGACGAAACTATCCCTTTCCACATTCGATAGCCAAAGCT
Found at i:14109060 original size:13 final size:13
Alignment explanation
Indices: 14109044--14109091 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
14109034 AATAAATAAA
14109044 AAAATTAAAATTT
1 AAAATTAAAATTT
* *
14109057 AAAATAAAAAATT
1 AAAATTAAAATTT
*
14109070 AAAA-TAAAATTA
1 AAAATTAAAATTT
*
14109082 AAAAATAAAA
1 AAAATTAAAA
14109092 ATTTCTTTCG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:14109062 original size:25 final size:22
Alignment explanation
Indices: 14109032--14109092 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 22
14109022 TTATTAAGCA
14109032 TAAATAAATAAAAAAATTAAAATT
1 TAAATAAATAAAAAAA-TAAAA-T
14109056 TAAAATAAA-AAATTAAAATAAAAT
1 T-AAATAAATAAA--AAAATAAAAT
14109080 TAAA-AAATAAAAA
1 TAAATAAATAAAAA
14109093 TTTCTTTCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
21 2 0.06
22 3 0.09
23 6 0.18
24 6 0.18
25 12 0.36
26 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAATAAAAAAATAAAAT
Found at i:14124366 original size:15 final size:17
Alignment explanation
Indices: 14124346--14124386 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
14124336 TTTACATGTG
*
14124346 AAACTATAGAGTT-T-A
1 AAACTATAGAATTATGA
14124361 AAACTATAGAATTATGA
1 AAACTATAGAATTATGA
14124378 AAACTATAG
1 AAACTATAG
14124387 GTTGTGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 1 0.04
17 10 0.43
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (17 bp):
AAACTATAGAATTATGA
Found at i:14130943 original size:36 final size:36
Alignment explanation
Indices: 14130903--14130975 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
14130893 ATGCTCCTTT
14130903 GACACATAAATCCTTCACCAACAGGTCCCTTTTTTC
1 GACACATAAATCCTTCACCAACAGGTCCCTTTTTTC
14130939 GACACATAAATCCTTCACCAACAGGTCCCTTTTTTC
1 GACACATAAATCCTTCACCAACAGGTCCCTTTTTTC
14130975 G
1 G
14130976 TCTGTGATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (36 bp):
GACACATAAATCCTTCACCAACAGGTCCCTTTTTTC
Found at i:14131659 original size:41 final size:41
Alignment explanation
Indices: 14131602--14131682 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
14131592 TTGTGAAGAG
14131602 ATATAAAGCTGGTGGGAATAAATGTGTCCAATAGGGATTGT
1 ATATAAAGCTGGTGGGAATAAATGTGTCCAATAGGGATTGT
*
14131643 ATATAAAGCTGGTGGGAATAAATGTGTCCAATGGGGATTG
1 ATATAAAGCTGGTGGGAATAAATGTGTCCAATAGGGATTG
14131683 CGCCTATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.28
Consensus pattern (41 bp):
ATATAAAGCTGGTGGGAATAAATGTGTCCAATAGGGATTGT
Found at i:14140833 original size:11 final size:10
Alignment explanation
Indices: 14140808--14140850 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
14140798 TACCCTTTTC
14140808 TTTATTT-TAT
1 TTTATTTAT-T
14140818 TTTATTTCATT
1 TTTATTT-ATT
14140829 TTTATTTATT
1 TTTATTTATT
14140839 TATTATTTATT
1 T-TTATTTATT
14140850 T
1 T
14140851 ATTTTACTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.37
11 18 0.60
12 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTATT
Found at i:14140836 original size:15 final size:14
Alignment explanation
Indices: 14140808--14140854 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 14
14140798 TACCCTTTTC
14140808 TTTA-TTTTATTTTA
1 TTTATTTTTA-TTTA
14140822 TTTCATTTTTATTTA
1 TTT-ATTTTTATTTA
14140837 TTTATTATTTATTTA
1 TTTATT-TTTATTTA
14140852 TTT
1 TTT
14140855 TACTGATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.20
15 19 0.63
16 5 0.17
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:14140851 original size:11 final size:11
Alignment explanation
Indices: 14140819--14140853 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
14140809 TTATTTTATT
14140819 TTATTTCATTT-
1 TTATTT-ATTTA
14140830 TTATTTATTTA
1 TTATTTATTTA
14140841 TTATTTATTTA
1 TTATTTATTTA
14140852 TT
1 TT
14140854 TTACTGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:14141038 original size:6 final size:6
Alignment explanation
Indices: 14141023--14141065 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
14141013 ATTGAGTTTA
14141023 TTTC-T TTTCAT TTTCAT TTTCAT TTT-AT CTTT-AT TTTCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT -TTTCAT TTTCAT TTT
14141066 TGTTTTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTCAT
Found at i:14145601 original size:27 final size:27
Alignment explanation
Indices: 14145571--14145789 Score: 228
Period size: 27 Copynumber: 8.2 Consensus size: 27
14145561 GGGTATCACA
14145571 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** **
14145598 GTCATACTATTCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
14145624 ATTATTTTACGCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
14145651 GTCATTCTT--TCTACGGGGGTATTTTG
1 GTCATT-TTACCCTATGGGGGTATTTCG
* * *
14145677 GTCATTCTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
14145704 GTCATTTTACCCTATGGGGGCATTTCT
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
14145731 ATCATTTTACCCTATGGGGGTTTTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
14145758 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
14145785 ATCAT
1 GTCAT
14145790 AACAGTGTAA
Statistics
Matches: 154, Mismatches: 34, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
25 1 0.01
26 41 0.27
27 110 0.71
28 2 0.01
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:14145742 original size:54 final size:54
Alignment explanation
Indices: 14145572--14145789 Score: 244
Period size: 53 Copynumber: 4.1 Consensus size: 54
14145562 GGTATCACAG
** **
14145572 TCATTTTACCCTATGGGGGTATTTCGGTCATACTATTCTAT-GGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* * * * * * *
14145625 TTATTTTACGCTATGGGGGTATTTTGGTCATTCTT--TCTACGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGGTCATT-TTACCCTATGGGGGTATTTCGA
* * * * *
14145678 TCATTCTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGGGGGCATTTCTA
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
* *
14145732 TCATTTTACCCTATGGGGGTTTTTTGGTCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
14145786 TCAT
1 TCAT
14145790 AACAGTGTAA
Statistics
Matches: 134, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
52 6 0.04
53 64 0.48
54 64 0.48
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA
Found at i:14156554 original size:40 final size:39
Alignment explanation
Indices: 14156510--14156629 Score: 170
Period size: 40 Copynumber: 3.0 Consensus size: 39
14156500 TATTTGTATA
*
14156510 ATTGCACATATGTGTCGCTGTTTGTACTTCAGCACCCCTG
1 ATTGCACATATGTGTC-CTGTTTGTACTTCAGTACCCCTG
*
14156550 ATTGCACATATTTGCTCCTGTTTGTACTTTC-GTACCCCTG
1 ATTGCACATATGTG-TCCTGTTTGTAC-TTCAGTACCCCTG
*
14156590 ATTGCACATATGTGCCCCTGTTTGTACTTCAGTACCCCTG
1 ATTGCACATATGTG-TCCTGTTTGTACTTCAGTACCCCTG
14156630 GAATCATTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
39 3 0.04
40 65 0.89
41 5 0.07
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (39 bp):
ATTGCACATATGTGTCCTGTTTGTACTTCAGTACCCCTG
Found at i:14156607 original size:20 final size:20
Alignment explanation
Indices: 14156544--14156609 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
14156534 TACTTCAGCA
*
14156544 CCCCTGATTGCACATATTTG
1 CCCCTGATTGCACATATGTG
* * * * *
14156564 CTCCTGTTTGTAC-TTTCGTA
1 CCCCTGATTGCACATAT-GTG
14156584 CCCCTGATTGCACATATGTG
1 CCCCTGATTGCACATATGTG
14156604 CCCCTG
1 CCCCTG
14156610 TTTGTACTTC
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.32, G:0.17, T:0.36
Consensus pattern (20 bp):
CCCCTGATTGCACATATGTG
Found at i:14156627 original size:20 final size:20
Alignment explanation
Indices: 14156566--14156629 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
14156556 CATATTTGCT
14156566 CCTGTTTGTACTTTC-GTACC
1 CCTGTTTGTAC-TTCAGTACC
* * * *
14156586 CCTGATTGCACAT-ATGTGCC
1 CCTGTTTGTACTTCA-GTACC
14156606 CCTGTTTGTACTTCAGTACC
1 CCTGTTTGTACTTCAGTACC
14156626 CCTG
1 CCTG
14156630 GAATCATTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (20 bp):
CCTGTTTGTACTTCAGTACC
Found at i:14157483 original size:16 final size:15
Alignment explanation
Indices: 14157462--14157511 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
14157452 GTTTCATATT
14157462 TTTATTCATTTATTTC
1 TTTATTCATTT-TTTC
*
14157478 TTTATTTATTTTTTC
1 TTTATTCATTTTTTC
*
14157493 TATTATTCTTTTTATTC
1 T-TTATTCATTTT-TTC
14157510 TT
1 TT
14157512 GCTATGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTCATTTTTTC
Found at i:14157614 original size:13 final size:14
Alignment explanation
Indices: 14157596--14157627 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14157586 TTGGTATTTG
14157596 ATTATT-TTCATTC
1 ATTATTATTCATTC
14157609 ATTATTATTCATTC
1 ATTATTATTCATTC
14157623 -TTATT
1 ATTATT
14157628 CCCTAGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATTATTCATTC
Found at i:14157678 original size:3 final size:3
Alignment explanation
Indices: 14157653--14157713 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
14157643 TGCTATGAGT
* * * *
14157653 TTA TTA TT- TTA TTG TTG TCTA TTA TTA TCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
14157698 TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TT
14157714 CGTCCTATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.88
4 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14159105 original size:6 final size:6
Alignment explanation
Indices: 14159094--14159160 Score: 52
Period size: 6 Copynumber: 11.8 Consensus size: 6
14159084 ATTTTGTTTG
* * * *
14159094 TTTTAT TTTTAT TTTT-C TTTTAT GTTTAT GTTTAT TGTTAT TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
14159140 -GTTAT TTTTAT TGTT-T TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTA
14159161 AACTTATTTC
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
4 3 0.06
5 8 0.17
6 36 0.77
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:14159154 original size:29 final size:29
Alignment explanation
Indices: 14159095--14159155 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
14159085 TTTTGTTTGT
* **
14159095 TTTATTTTTATTTTTCTTTTATGTTTATG
1 TTTATTGTTATTTTTCAGTTATGTTTATG
*
14159124 TTTATTGTTATTTTT-AGTTATTTTTATTG
1 TTTATTGTTATTTTTCAGTTATGTTTA-TG
14159153 TTT
1 TTT
14159156 TTTTAAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (29 bp):
TTTATTGTTATTTTTCAGTTATGTTTATG
Found at i:14161721 original size:22 final size:22
Alignment explanation
Indices: 14161667--14161721 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14161657 TGCCAATAGT
*
14161667 CAGAATGGCTAAGATCCATAAA
1 CAGAATGGCTAAGAGCCATAAA
* * *
14161689 CAGGATAGCTATA-AGCTATAAA
1 CAGAATGGCTA-AGAGCCATAAA
14161711 CAGAATGGCTA
1 CAGAATGGCTA
14161722 CAAGACATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
CAGAATGGCTAAGAGCCATAAA
Found at i:14161731 original size:22 final size:21
Alignment explanation
Indices: 14161667--14161731 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 21
14161657 TGCCAATAGT
14161667 CAGAATGGCT-AAGATCCATAAA
1 CAGAATGGCTAAAGA--CATAAA
* *
14161689 CAGGATAGCTATAAG-CTATAAA
1 CAGAATGGCTA-AAGAC-ATAAA
14161711 CAGAATGGCTACAAGACATAA
1 CAGAATGGCTA-AAGACATAA
14161732 GTATAGTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.03
22 29 0.85
23 1 0.03
24 3 0.09
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (21 bp):
CAGAATGGCTAAAGACATAAA
Found at i:14161791 original size:32 final size:33
Alignment explanation
Indices: 14161743--14161958 Score: 135
Period size: 32 Copynumber: 6.7 Consensus size: 33
14161733 TATAGTAATG
*
14161743 TGATTGGCACAAAGCCATCAGT-GTGAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGTGAGTGATA
* * * *
14161775 TGATCGGCACACAGCCATCAGTAATG-GTAACA
1 TGATCGGCACAAAGCCATCAGTAGTGAGTGATA
* *
14161807 TGATCGGTACAAAGCCATCAGTAG-CAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGTGAGTGATA
* * *
14161839 TGATCGACACACAA-CCATCAGTAATG-GTGAAA
1 TGATCGGCACA-AAGCCATCAGTAGTGAGTGATA
** * ** ** *
14161871 TGATTAGTACGCAGCCATCTA-TAACG-GTAATA
1 TGATCGGCACAAAGCCATC-AGTAGTGAGTGATA
* ** *
14161903 TAATTAGCACAAAGCCATCAGTAATG-GT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGTGAGTGA-TA
*
14161935 TGATTGGCACAAAGCCATCAGTAG
1 TGATCGGCACAAAGCCATCAGTAG
14161959 CATCGCAGAT
Statistics
Matches: 143, Mismatches: 33, Indels: 16
0.74 0.17 0.08
Matches are distributed among these distances:
31 3 0.02
32 135 0.94
33 5 0.03
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (33 bp):
TGATCGGCACAAAGCCATCAGTAGTGAGTGATA
Found at i:14161857 original size:64 final size:64
Alignment explanation
Indices: 14161743--14161960 Score: 214
Period size: 64 Copynumber: 3.4 Consensus size: 64
14161733 TATAGTAATG
* * * *
14161743 TGATTGGCACAAAGCCATCAGT-GTGAGTGATATGATCGGCACACAGCCATCAGTAATGGTAACA
1 TGATTGGTACAAAGCCATCAGTAG-CAGTGATATGATCGACACACAACCATCAGTAATGGTAACA
*
14161807 TGATCGGTACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAATGGTGAA-A
1 TGATTGGTACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAATGGT-AACA
* ** * * * * *
14161871 TGATTAGTACGCAGCCATCTA-TAACGGTAATATAAT-TAGCACA-AAGCCATCAGTAATGGT-A
1 TGATTGGTACAAAGCCATC-AGTAGCAGTGATATGATCGA-CACACAA-CCATCAGTAATGGTAA
14161932 CTA
63 C-A
*
14161935 TGATTGGCACAAAGCCATCAGTAGCA
1 TGATTGGTACAAAGCCATCAGTAGCA
14161961 TCGCAGATCG
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 117 0.93
65 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (64 bp):
TGATTGGTACAAAGCCATCAGTAGCAGTGATATGATCGACACACAACCATCAGTAATGGTAACA
Found at i:14161996 original size:26 final size:26
Alignment explanation
Indices: 14161967--14162020 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
14161957 AGCATCGCAG
14161967 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
14161993 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
14162019 AT
1 AT
14162021 ATGTGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:14162038 original size:27 final size:27
Alignment explanation
Indices: 14161999--14162064 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
14161989 CAGTATCGCA
** *
14161999 GCAAAGCTGCCAGTAATAGT-ATATGTG
1 GCAAAGCCACCAGTAACAGTGAT-TGTG
*
14162026 GCCAAGCCACCAGTAACAGTGATTGTG
1 GCAAAGCCACCAGTAACAGTGATTGTG
14162053 GCAAAGCCACCA
1 GCAAAGCCACCA
14162065 CTACAGTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTGATTGTG
Found at i:14162628 original size:27 final size:27
Alignment explanation
Indices: 14162117--14162618 Score: 596
Period size: 27 Copynumber: 18.7 Consensus size: 27
14162107 ATGTCGTGTA
* *
14162117 TACCTTACAGGGGTATTAAGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
*
14162144 TACCCTACAGAGGTATTACGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
*
14162171 TACCCTACAGGGGTATTACGGTCGTTT
1 TACCCTACAGGGGTATTACGGTCATTT
* * *
14162198 TACCCTACAAGGGTATTTCGGTCGTTT
1 TACCCTACAGGGGTATTACGGTCATTT
* *
14162225 TACCCTACAAGGGTATTATGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
* * *
14162252 TACCCTACTGGGCTATGACGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
* * *
14162279 TA-CCTACA-GGGTATTACGATTATTA
1 TACCCTACAGGGGTATTACGGTCATTT
* * *
14162304 TACACTACAGGGGTACTACGGTCGTTT
1 TACCCTACAGGGGTATTACGGTCATTT
* * * *
14162331 TACCCTAAAGGGGTATTATGATCGTTT
1 TACCCTACAGGGGTATTACGGTCATTT
*
14162358 TACCC-ACCAGGGGTATTACGGTCGTTT
1 TACCCTA-CAGGGGTATTACGGTCATTT
* *
14162385 TACCTTACAGGGGTATTACGGTTATTT
1 TACCCTACAGGGGTATTACGGTCATTT
*
14162412 TACCTTACAGGGGTATTACGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
**
14162439 TACCCTACAGGGGTATTACAATCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
* * *
14162466 TACCCTACAAGGGTATTATGGTTATTT
1 TACCCTACAGGGGTATTACGGTCATTT
*
14162493 TACCCTACAAGGGTATTACGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
* *
14162520 TACCCTACAAGGGTATTACGGTCATTG
1 TACCCTACAGGGGTATTACGGTCATTT
* * * * *
14162547 TACCCTACAAGGTTATGACGATCGTTT
1 TACCCTACAGGGGTATTACGGTCATTT
* *
14162574 TACCCTACAAGGGTATTATGGTCATTT
1 TACCCTACAGGGGTATTACGGTCATTT
*
14162601 TACCCTATAGGGGTATTA
1 TACCCTACAGGGGTATTA
14162619 TAGTTGTTTT
Statistics
Matches: 409, Mismatches: 62, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
25 14 0.03
26 11 0.03
27 383 0.94
28 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTACGGTCATTT
Found at i:14162655 original size:27 final size:27
Alignment explanation
Indices: 14162632--14162732 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
14162622 TTGTTTTCCT
* *
14162632 CTTCGGGGGTATTTCGGTAATTTTACC
1 CTTCGAGGGTATTTCGATAATTTTACC
* * ** *
14162659 ATTCAAGGGTATTTTAATAATTTTAGC
1 CTTCGAGGGTATTTCGATAATTTTACC
*
14162686 CTTTGAGGGTATTTCGATAATTTTACC
1 CTTCGAGGGTATTTCGATAATTTTACC
14162713 CTTCGAGGGTATTTCGATAA
1 CTTCGAGGGTATTTCGATAA
14162733 CTTCACAGCC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.42
Consensus pattern (27 bp):
CTTCGAGGGTATTTCGATAATTTTACC
Found at i:14165535 original size:36 final size:36
Alignment explanation
Indices: 14165488--14165560 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
14165478 TTAGCTAACA
*
14165488 TATGAACATACTCACCTACCAAAATCCATTTATCTT
1 TATGAACATACTCACCTACCAAAATACATTTATCTT
14165524 TATGAACATACTCACCTACCAAAATACATTTATCTT
1 TATGAACATACTCACCTACCAAAATACATTTATCTT
14165560 T
1 T
14165561 TGACTATATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (36 bp):
TATGAACATACTCACCTACCAAAATACATTTATCTT
Found at i:14168993 original size:45 final size:45
Alignment explanation
Indices: 14168944--14169074 Score: 113
Period size: 45 Copynumber: 3.1 Consensus size: 45
14168934 TGAATATGAA
14168944 TAATTGTTTTATTGTTGTTCTTGGTCTAATTAAAATGACTTAAAT
1 TAATTGTTTTATTGTTGTTCTTGGTCTAATTAAAATGACTTAAAT
* * * *
14168989 TAATT-TTCTTATT-TATGTT-GTGATC--A-T-GAAT-A--TGAA-
1 TAATTGTT-TTATTGT-TGTTCTTGGTCTAATTAAAATGACTTAAAT
* *
14169025 TAATTGTTTTATTGTTATTCTTAGTCTAATTAAAATGACTTAAAT
1 TAATTGTTTTATTGTTGTTCTTGGTCTAATTAAAATGACTTAAAT
14169070 TAATT
1 TAATT
14169075 CGGGTTAGAT
Statistics
Matches: 63, Mismatches: 10, Indels: 26
0.64 0.10 0.26
Matches are distributed among these distances:
36 13 0.21
37 9 0.14
39 2 0.03
40 4 0.06
41 4 0.06
42 2 0.03
44 10 0.16
45 19 0.30
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (45 bp):
TAATTGTTTTATTGTTGTTCTTGGTCTAATTAAAATGACTTAAAT
Found at i:14169018 original size:81 final size:81
Alignment explanation
Indices: 14168911--14169074 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
14168901 TTCTCTTTAT
* *
14168911 TTTTCTTATTTATGTTGTGATCATGAATATGAATAATTGTTTTATTGTTGTTCTTGGTCTAATTA
1 TTTTCTTATTTATGTTGTGATCATGAATATGAATAATTGTTTTATTGTTATTCTTAGTCTAATTA
14168976 AAATGACTTAAATTAA
66 AAATGACTTAAATTAA
14168992 TTTTCTTATTTATGTTGTGATCATGAATATGAATAATTGTTTTATTGTTATTCTTAGTCTAATTA
1 TTTTCTTATTTATGTTGTGATCATGAATATGAATAATTGTTTTATTGTTATTCTTAGTCTAATTA
14169057 AAATGACTTAAATTAA
66 AAATGACTTAAATTAA
14169073 TT
1 TT
14169075 CGGGTTAGAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (81 bp):
TTTTCTTATTTATGTTGTGATCATGAATATGAATAATTGTTTTATTGTTATTCTTAGTCTAATTA
AAATGACTTAAATTAA
Found at i:14179087 original size:30 final size:30
Alignment explanation
Indices: 14179034--14179105 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
14179024 ATGTTGAACC
* *
14179034 ATCCCTTTTCTTTATTCGATAGCCG-AGGCT
1 ATCCCTTTTCATAATTCGATAGCCGAAGG-T
* *
14179064 ATCCCTTTTCATAATTTGTTAGCCGAAGGT
1 ATCCCTTTTCATAATTCGATAGCCGAAGGT
*
14179094 ATCCATTTTCAT
1 ATCCCTTTTCAT
14179106 TGTTTGATGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 33 0.92
31 3 0.08
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGCCGAAGGT
Found at i:14179132 original size:60 final size:60
Alignment explanation
Indices: 14179064--14179258 Score: 182
Period size: 60 Copynumber: 3.3 Consensus size: 60
14179054 AGCCGAGGCT
* * ** **
14179064 ATCCCTTTTCATAATTTGTTAGCCGAAGGTATCCATTTTCATTGTTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGCCGAAGGTATCCATTTTCATAGTTCAATGGTCACCACC
* * *
14179124 ATCCCTTTTCATAATTTGATAGCTGAAGTTATCCATTTTCATAGTTCAATTGTCACCACC
1 ATCCCTTTTCATAATTTGATAGCCGAAGGTATCCATTTTCATAGTTCAATGGTCACCACC
* * *** **
14179184 ATCCCTTTCCATAA-TTGATGGTCTTC-ACCAT-TCC-TTTTCATAGTTCAATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATAG-C--CGAAGGTATCCATTTTCATAGTTCAATGGTCACCACC
*
14179243 ATCCCTTTCCATAATT
1 ATCCCTTTTCATAATT
14179259 GATGGTTGTC
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
59 42 0.37
60 69 0.61
61 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTGATAGCCGAAGGTATCCATTTTCATAGTTCAATGGTCACCACC
Found at i:14179133 original size:30 final size:30
Alignment explanation
Indices: 14179094--14179286 Score: 133
Period size: 30 Copynumber: 6.5 Consensus size: 30
14179084 AGCCGAAGGT
* **
14179094 ATCCATTTTCATTGTTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * **
14179124 ATCCCTTTTCATAATTTGATAG-C-TGAAGTT
1 ATCCCTTTTCATAATTTGATGGTCGT-CA-CC
* * ** * **
14179154 ATCCATTTTCATAGTTCAATTGTCACCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
14179184 ATCCCTTTCCATAA-TTGATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * ** *
14179213 ATTCCTTTTCATAGTTCAATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* *
14179243 ATCCCTTTCCATAA-TTGATGGTTGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
14179272 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
14179287 CGATAGCCGA
Statistics
Matches: 120, Mismatches: 37, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
28 1 0.01
29 47 0.39
30 70 0.58
31 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:14179213 original size:29 final size:29
Alignment explanation
Indices: 14179180--14179286 Score: 144
Period size: 29 Copynumber: 3.7 Consensus size: 29
14179170 CAATTGTCAC
14179180 CACCATCCCTTTCCATAATTGATGGTCTT
1 CACCATCCCTTTCCATAATTGATGGTCTT
* * * *
14179209 CACCATTCCTTTTCATAGTTCAATGGTCTT
1 CACCATCCCTTTCCATAATT-GATGGTCTT
14179239 CACCATCCCTTTCCATAATTGATGGT-TGT
1 CACCATCCCTTTCCATAATTGATGGTCT-T
*
14179268 CACCATCCCTTTTCATAAT
1 CACCATCCCTTTCCATAAT
14179287 CGATAGCCGA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.01
29 41 0.61
30 25 0.37
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.39
Consensus pattern (29 bp):
CACCATCCCTTTCCATAATTGATGGTCTT
Found at i:14179231 original size:59 final size:59
Alignment explanation
Indices: 14179154--14179284 Score: 201
Period size: 59 Copynumber: 2.2 Consensus size: 59
14179144 AGCTGAAGTT
* *
14179154 ATCCATTTTCATAGTTCAATTGTCACCACCATCCCTTTCCATAATTGATGGTCT-TCACC
1 ATCCCTTTTCATAGTTCAATGGTCACCACCATCCCTTTCCATAATTGATGGT-TGTCACC
* **
14179213 ATTCCTTTTCATAGTTCAATGGTCTTCACCATCCCTTTCCATAATTGATGGTTGTCACC
1 ATCCCTTTTCATAGTTCAATGGTCACCACCATCCCTTTCCATAATTGATGGTTGTCACC
14179272 ATCCCTTTTCATA
1 ATCCCTTTTCATA
14179285 ATCGATAGCC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.40
Consensus pattern (59 bp):
ATCCCTTTTCATAGTTCAATGGTCACCACCATCCCTTTCCATAATTGATGGTTGTCACC
Found at i:14179304 original size:29 final size:29
Alignment explanation
Indices: 14179272--14179334 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
14179262 GGTTGTCACC
14179272 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * *
14179301 ATCCCTTTTCGTAGTTGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
14179330 ATCCC
1 ATCCC
14179335 ATTTGACCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.32
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:14184327 original size:30 final size:30
Alignment explanation
Indices: 14184293--14184349 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14184283 ACAGGCTGGC
*
14184293 ACATGGGCGTGTGGCCAGCCCGTGTGGCTT
1 ACATGAGCGTGTGGCCAGCCCGTGTGGCTT
* *
14184323 ACATGAGCGTGTGTCTAGCCCGTGTGG
1 ACATGAGCGTGTGGCCAGCCCGTGTGG
14184350 AAATGCCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.39, T:0.25
Consensus pattern (30 bp):
ACATGAGCGTGTGGCCAGCCCGTGTGGCTT
Found at i:14185211 original size:9 final size:10
Alignment explanation
Indices: 14185188--14185222 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
14185178 TTTATTATAT
14185188 TTTTTTTCAA
1 TTTTTTTCAA
*
14185198 ATTTTTT-AA
1 TTTTTTTCAA
14185207 TTTTTTTCAA
1 TTTTTTTCAA
14185217 TTTTTT
1 TTTTTT
14185223 ATATTTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:14185212 original size:19 final size:19
Alignment explanation
Indices: 14185177--14185231 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
14185167 ATAAATATAT
14185177 TTTTATTATATTTTTTTTCAAA
1 TTTT-TTATA-TTTTTTTC-AA
14185199 TTTTTTA-ATTTTTTTCAA
1 TTTTTTATATTTTTTTCAA
14185217 TTTTTTATATTTTTT
1 TTTTTTATATTTTTT
14185232 GAACAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.28
19 15 0.47
20 1 0.03
21 3 0.09
22 4 0.12
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTATATTTTTTTCAA
Found at i:14186554 original size:12 final size:12
Alignment explanation
Indices: 14186537--14186563 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14186527 AAAGAAAGAT
14186537 AAATAAAAAATA
1 AAATAAAAAATA
14186549 AAATAAAAAATA
1 AAATAAAAAATA
14186561 AAA
1 AAA
14186564 CGAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:14187204 original size:30 final size:30
Alignment explanation
Indices: 14187132--14187196 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
14187122 ACGCTCATAC
*
14187132 GTCCAGGCTGTGTGTTCCACACGCCCGTGA
1 GTCCAGGCCGTGTGTTCCACACGCCCGTGA
* *
14187162 GTCCAGGCCGTGTGTTCCACATGCCTGTGA
1 GTCCAGGCCGTGTGTTCCACACGCCCGTGA
*
14187192 TTCCA
1 GTCCA
14187197 TGTCGTGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.14, C:0.32, G:0.28, T:0.26
Consensus pattern (30 bp):
GTCCAGGCCGTGTGTTCCACACGCCCGTGA
Found at i:14195785 original size:22 final size:22
Alignment explanation
Indices: 14195759--14195803 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
14195749 ATTATATGTA
*
14195759 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATACAATTTAATT
14195781 TTAATTTATATACAATTTAATT
1 TTAATTTATATACAATTTAATT
14195803 T
1 T
14195804 GGGTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTTATATACAATTTAATT
Found at i:14199529 original size:30 final size:30
Alignment explanation
Indices: 14199460--14199600 Score: 110
Period size: 30 Copynumber: 4.7 Consensus size: 30
14199450 AGCCGAGGGT
* * *
14199460 ATCCCTTTTCATAATTCGATAGTCG-AAGCT
1 ATCCCTTTTCATAATTTGATAGTCGTCA-CC
* * *
14199490 ATTCATTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGTCGTCACC
** ** *
14199520 ATCCCTTTTCATTGTTTGATTTTTGTCACC
1 ATCCCTTTTCATAATTTGATAGTCGTCACC
*
14199550 ATCCCTTTTCATAATTTGATAG-C-TGAAGCC
1 ATCCCTTTTCATAATTTGATAGTCGT-CA-CC
*
14199580 ATCCCTATTCATAA-TTGATAG
1 ATCCCTTTTCATAATTTGATAG
14199601 CTGAAGCTAT
Statistics
Matches: 88, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
28 1 0.01
29 8 0.09
30 78 0.89
31 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGTCGTCACC
Found at i:14199607 original size:29 final size:29
Alignment explanation
Indices: 14199548--14199648 Score: 121
Period size: 29 Copynumber: 3.4 Consensus size: 29
14199538 ATTTTTGTCA
14199548 CCATCCCTTTTCATAATTTGATAGCTGAAG
1 CCATCCCTTTTCATAA-TTGATAGCTGAAG
*
14199578 CCATCCCTATTCATAATTGATAGCTGAAG
1 CCATCCCTTTTCATAATTGATAGCTGAAG
* * * **
14199607 CTATCCTTTTTCATAGTTGATAGCCAAAG
1 CCATCCCTTTTCATAATTGATAGCTGAAG
* *
14199636 CTATCCCATTTCA
1 CCATCCCTTTTCA
14199649 CCCGTCAATG
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
29 47 0.76
30 15 0.24
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTGATAGCTGAAG
Found at i:14204285 original size:33 final size:33
Alignment explanation
Indices: 14204248--14204343 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
14204238 AGGAAAATAA
14204248 ATGGATTAGGGAAAAATCAAGAAGAAGAAAAAG
1 ATGGATTAGGGAAAAATCAAGAAGAAGAAAAAG
* *
14204281 ATGG---A---AAAACTC-AG-AGAA-AAAATAA
1 ATGGATTAGGGAAAAATCAAGAAGAAGAAAA-AG
14204306 ATGGATTAGGGAAAAATCAAGAAGAAGAAAAAG
1 ATGGATTAGGGAAAAATCAAGAAGAAGAAAAAG
14204339 ATGGA
1 ATGGA
14204344 AAAACTCAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 4 0.08
25 9 0.18
26 2 0.04
27 6 0.12
28 1 0.02
30 1 0.02
31 6 0.12
32 2 0.04
33 14 0.29
34 4 0.08
ACGTcount: A:0.58, C:0.04, G:0.25, T:0.12
Consensus pattern (33 bp):
ATGGATTAGGGAAAAATCAAGAAGAAGAAAAAG
Found at i:14204287 original size:26 final size:28
Alignment explanation
Indices: 14204257--14204356 Score: 104
Period size: 26 Copynumber: 3.6 Consensus size: 28
14204247 AATGGATTAG
14204257 GGAAAAA-TCA-AGAAGAAGAAAAAGAT
1 GGAAAAACTCAGAGAAGAAGAAAAAGAT
14204283 GGAAAAACTCAGAGAA-AA-AATAAATGGATT
1 GGAAAAACTCAGAGAAGAAGAA-AAA--GA-T
14204313 AGGGAAAAA-TCA-AGAAGAAGAAAAAGAT
1 --GGAAAAACTCAGAGAAGAAGAAAAAGAT
14204341 GGAAAAACTCAGAGAA
1 GGAAAAACTCAGAGAA
14204357 TTTCGGCAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 22
0.74 0.00 0.26
Matches are distributed among these distances:
26 16 0.26
27 11 0.18
28 9 0.15
29 4 0.06
30 5 0.08
31 8 0.13
32 9 0.15
ACGTcount: A:0.61, C:0.06, G:0.23, T:0.10
Consensus pattern (28 bp):
GGAAAAACTCAGAGAAGAAGAAAAAGAT
Found at i:14204331 original size:58 final size:58
Alignment explanation
Indices: 14204241--14204356 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
14204231 AAAATGAAGG
14204241 AAAATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGATGGAAAAACTCAGAGAA
1 AAAATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGATGGAAAAACTCAGAGAA
14204299 AAAATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGATGGAAAAACTCAGAGAA
1 AAAATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGATGGAAAAACTCAGAGAA
14204357 TTTCGGCAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.60, C:0.05, G:0.22, T:0.12
Consensus pattern (58 bp):
AAAATAAATGGATTAGGGAAAAATCAAGAAGAAGAAAAAGATGGAAAAACTCAGAGAA
Found at i:14209022 original size:27 final size:27
Alignment explanation
Indices: 14208760--14209021 Score: 299
Period size: 27 Copynumber: 9.7 Consensus size: 27
14208750 GCCCAACTTG
* *
14208760 CCCCTAAAAGGTAAAATGACCGAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
* *
14208787 CCCCCAAAGGGTAAAATGAACAAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
*
14208814 CCCCCAAAGGGTAAAATGACTGAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
* *
14208841 CCCTCGAAGGGTAAAATGACCGAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
* *
14208868 CCCTCAAAGGGTAAAATGATCGAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
* * *
14208895 CCCCCGAAGGGTAAAATAACTGAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
*** * **
14208922 CCTTTAAAGGGTAAAATGGCTAAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
* * *
14208949 ACCCCAATGGGTAAAATGACCAAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
* * *
14208976 ACCCTAAAGGGTAAAATGATCGAAATA
1 CCCCCAAAGGGTAAAATGACCGAAATA
*
14209003 CCCCCATAGGGTAAAATGA
1 CCCCCAAAGGGTAAAATGA
14209022 TTGTTATACC
Statistics
Matches: 197, Mismatches: 38, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (27 bp):
CCCCCAAAGGGTAAAATGACCGAAATA
Found at i:14209239 original size:26 final size:26
Alignment explanation
Indices: 14209210--14209264 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
14209200 TTTGCCACAT
14209210 ATACTGTTACTGGCAGCTTCGCTGTG
1 ATACTGTTACTGGCAGCTTCGCTGTG
* *
14209236 ATACTTTTACTGGCAGCTTTGCTGTG
1 ATACTGTTACTGGCAGCTTCGCTGTG
14209262 ATA
1 ATA
14209265 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTCGCTGTG
Found at i:14209394 original size:28 final size:28
Alignment explanation
Indices: 14209359--14209422 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
14209349 GTTGTATTAT
* * *
14209359 CACACTGTTATTGTATTGGGCTAAGGTC
1 CACACTGTTACTGTATCGGGCTAAGGCC
14209387 CACACTGTTACTGTATCGGGCTAAGGCC
1 CACACTGTTACTGTATCGGGCTAAGGCC
14209415 CACACTGT
1 CACACTGT
14209423 ACTATTACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (28 bp):
CACACTGTTACTGTATCGGGCTAAGGCC
Found at i:14218634 original size:29 final size:29
Alignment explanation
Indices: 14218588--14218657 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
14218578 TTATCAACAA
*
14218588 ATGAAAAGGGATAACTTCGGCTATCGAAT
1 ATGAAAAGGGATAACTTCAGCTATCGAAT
* *
14218617 ATGGAAAA-GGATAGCTTCAGCTATCGATT
1 AT-GAAAAGGGATAACTTCAGCTATCGAAT
*
14218646 ATGAAAATGGAT
1 ATGAAAAGGGAT
14218658 GGTGACGACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.14
29 26 0.72
30 5 0.14
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAACTTCAGCTATCGAAT
Found at i:14218703 original size:22 final size:22
Alignment explanation
Indices: 14218675--14218720 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
14218665 ACCATCACCA
* *
14218675 ATGAAAAGGGATGGCTTCGGCT
1 ATGAAAAGGGATAGCTTCAGCT
14218697 ATGAAAAGGGATAGCTTCAGCT
1 ATGAAAAGGGATAGCTTCAGCT
14218719 AT
1 AT
14218721 CCATATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
ATGAAAAGGGATAGCTTCAGCT
Found at i:14218732 original size:30 final size:30
Alignment explanation
Indices: 14218696--14218857 Score: 120
Period size: 30 Copynumber: 5.4 Consensus size: 30
14218686 TGGCTTCGGC
*
14218696 TATGAAAAGGGATAGCTTC-AGCTATC-CAT
1 TATGAAAAGGGATAGCTTCGA-CTATCAAAT
*
14218725 ATATGAAAAGGGATTGCTTCGACTATCAAAT
1 -TATGAAAAGGGATAGCTTCGACTATCAAAT
* * * *
14218756 TATGAAAAGGGAT-GGTGAT-GACCATCGAAC
1 TATGAAAAGGGATAGCT--TCGACTATCAAAT
* * * *
14218786 AATGAAAAGGGAT-GGTGACGACCATCAAAT
1 TATGAAAAGGGATAGCT-TCGACTATCAAAT
* *
14218816 TATGAAAAGGGATAGCTTC-AGCTGTCAAAC
1 TATGAAAAGGGATAGCTTCGA-CTATCAAAT
14218846 TATGAAAAGGGA
1 TATGAAAAGGGA
14218858 CAATTTTAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
29 3 0.03
30 99 0.92
31 6 0.06
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATAGCTTCGACTATCAAAT
Found at i:14218851 original size:60 final size:60
Alignment explanation
Indices: 14218696--14218857 Score: 170
Period size: 60 Copynumber: 2.7 Consensus size: 60
14218686 TGGCTTCGGC
* * *
14218696 TATGAAAAGGGATAGCTTCAGCTATCCATA-TATGAAAAGGGATTGCTTCGACTATCAAAT
1 TATGAAAAGGGATAGCTTCAGCTAT-CAAACTATGAAAAGGGATTGCTACGACCATCAAAT
* * * * * *
14218756 TATGAAAAGGGAT-G-GTGATGACCATCGAACAATGAAAAGGGA-TGGTGACGACCATCAAAT
1 TATGAAAAGGGATAGCTTCA-G-CTATCAAACTATGAAAAGGGATTGCT-ACGACCATCAAAT
*
14218816 TATGAAAAGGGATAGCTTCAGCTGTCAAACTATGAAAAGGGA
1 TATGAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGA
14218858 CAATTTTAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
58 2 0.02
59 7 0.09
60 68 0.84
61 2 0.02
62 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (60 bp):
TATGAAAAGGGATAGCTTCAGCTATCAAACTATGAAAAGGGATTGCTACGACCATCAAAT
Found at i:14224816 original size:25 final size:24
Alignment explanation
Indices: 14224781--14224832 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
14224771 GATACCGCAA
14224781 CTCTTTATGAGCGTCCTAATATAGG
1 CTCTTTATGAGCGTCCTAATAT-GG
* * *
14224806 CTCTTTGTGAGCTTCCTGATATGG
1 CTCTTTATGAGCGTCCTAATATGG
14224830 CTC
1 CTC
14224833 GCTTGAACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAGCGTCCTAATATGG
Found at i:14229455 original size:29 final size:29
Alignment explanation
Indices: 14229392--14229461 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
14229382 TTATCGACGA
* *
14229392 ATGAAAAGGGATAGCTTCGGCTATCTAAT
1 ATGAAAAGGGATAACTTCAGCTATCTAAT
* * *
14229421 ACGAAAAAGGATAACTTCAGCTTTC-AATT
1 ATGAAAAGGGATAACTTCAGCTATCTAA-T
14229450 ATGAAAAGGGAT
1 ATGAAAAGGGAT
14229462 GGTGACAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAACTTCAGCTATCTAAT
Found at i:14229476 original size:29 final size:29
Alignment explanation
Indices: 14229444--14229522 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
14229434 ACTTCAGCTT
14229444 TCAATTATGAAAAGGGATGGTGACAACCA
1 TCAATTATGAAAAGGGATGGTGACAACCA
* * *
14229473 TCAATAATGAAAAAGGATGGTGACGACCA
1 TCAATTATGAAAAGGGATGGTGACAACCA
*
14229502 TCGAACTATGAAAAGGGATGG
1 TC-AATTATGAAAAGGGATGG
14229523 CTTCTGCTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 28 0.65
30 15 0.35
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.19
Consensus pattern (29 bp):
TCAATTATGAAAAGGGATGGTGACAACCA
Found at i:14238971 original size:27 final size:27
Alignment explanation
Indices: 14238941--14238997 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
14238931 AAAGCAGCTA
*
14238941 AAAACAAAAATAAAAAT-AAAGATAAAT
1 AAAACAAAAATAAAAATGAAA-AGAAAT
** *
14238968 AAAATGAAAATGAAAATGAAAAGAAAT
1 AAAACAAAAATAAAAATGAAAAGAAAT
14238995 AAA
1 AAA
14238998 CTCAATGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (27 bp):
AAAACAAAAATAAAAATGAAAAGAAAT
Found at i:14239178 original size:15 final size:16
Alignment explanation
Indices: 14239155--14239202 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
14239145 AAACAGATCT
*
14239155 ATAAGATAA-AAATAA
1 ATAATATAACAAATAA
14239170 ATAATATAACAAAT-A
1 ATAATATAACAAATAA
*
14239185 ATAATA-AATAAATAA
1 ATAATATAACAAATAA
14239200 ATA
1 ATA
14239203 GTGACTATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 19 0.66
16 4 0.14
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (16 bp):
ATAATATAACAAATAA
Found at i:14239636 original size:13 final size:13
Alignment explanation
Indices: 14239618--14239642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14239608 AAATTCAATG
14239618 TCAATTTCATATA
1 TCAATTTCATATA
14239631 TCAATTTCATAT
1 TCAATTTCATAT
14239643 CCAAACATGT
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:14240729 original size:22 final size:23
Alignment explanation
Indices: 14240683--14240773 Score: 89
Period size: 23 Copynumber: 4.0 Consensus size: 23
14240673 TTGAGCCGAT
* * *
14240683 AAATGGTAAGCTCTATCGAGTTG
1 AAATGGTAAGCTCCATAGAGCTG
*
14240706 -AATGGTAAGCTCCGTAGAGCTG
1 AAATGGTAAGCTCCATAGAGCTG
*
14240728 AAATAGTAAGCT-CATAAGAGCTG
1 AAATGGTAAGCTCCAT-AGAGCTG
*
14240751 AAACGGTAAGCT-CATACGAGCTG
1 AAATGGTAAGCTCCATA-GAGCTG
14240774 TGGTGAGTCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
22 21 0.37
23 36 0.63
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.23
Consensus pattern (23 bp):
AAATGGTAAGCTCCATAGAGCTG
Found at i:14240936 original size:2 final size:2
Alignment explanation
Indices: 14240929--14240956 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14240919 TCCTTAAATC
14240929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14240957 TCAATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14264610 original size:27 final size:27
Alignment explanation
Indices: 14264571--14264663 Score: 150
Period size: 27 Copynumber: 3.4 Consensus size: 27
14264561 AAGGCCATAA
14264571 CAGTCAATTTTACCCATCGGGGGTATTT
1 CAGT-AATTTTACCCATCGGGGGTATTT
14264599 CAGTAATTTTACCCATCGGGGGTATTT
1 CAGTAATTTTACCCATCGGGGGTATTT
* *
14264626 CAATAATTTTACCCATCGAGGGTATTT
1 CAGTAATTTTACCCATCGGGGGTATTT
*
14264653 TAGTAATTTTA
1 CAGTAATTTTA
14264664 TGTCCCAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 57 0.93
28 4 0.07
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTACCCATCGGGGGTATTT
Found at i:14267710 original size:21 final size:21
Alignment explanation
Indices: 14267684--14267726 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14267674 GAATGAGGAG
14267684 CGGAGAAAACTAGTCAAGCCT
1 CGGAGAAAACTAGTCAAGCCT
14267705 CGGAGAAAACTAGTCAAGCCT
1 CGGAGAAAACTAGTCAAGCCT
14267726 C
1 C
14267727 AAAGAAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.26, G:0.23, T:0.14
Consensus pattern (21 bp):
CGGAGAAAACTAGTCAAGCCT
Found at i:14267732 original size:21 final size:21
Alignment explanation
Indices: 14267687--14267733 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14267677 TGAGGAGCGG
**
14267687 AGAAAACTAGTCAAGCCTCGG
1 AGAAAACTAGTCAAGCCTCAA
14267708 AGAAAACTAGTCAAGCCTCAA
1 AGAAAACTAGTCAAGCCTCAA
14267729 AGAAA
1 AGAAA
14267734 CACCAGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (21 bp):
AGAAAACTAGTCAAGCCTCAA
Done.