Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 139 of 313
Found at i:44766795 original size:3 final size:3
Alignment explanation
Indices: 44766787--44766812 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44766777 ATTGATATAT
44766787 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
44766813 AACGACGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:44768673 original size:18 final size:20
Alignment explanation
Indices: 44768636--44768676 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
44768626 ATATAATTTT
*
44768636 AAAATACATATAATACATCA
1 AAAATACATATAAAACATCA
44768656 AAAATAC-TA-AAAACATCA
1 AAAATACATATAAAACATCA
44768674 AAA
1 AAA
44768677 TAAATATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATACATATAAAACATCA
Found at i:44771531 original size:30 final size:30
Alignment explanation
Indices: 44771495--44771566 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
44771485 ACGGCCTGAG
*
44771495 ACACGGGCGTTTCTTTTGGCCATGTGAGAC
1 ACACGGGCGTGTCTTTTGGCCATGTGAGAC
* *
44771525 ACACGGGCATGTCTTTTGGCCGTGTGAGAC
1 ACACGGGCGTGTCTTTTGGCCATGTGAGAC
44771555 ACACGGGCGTGT
1 ACACGGGCGTGT
44771567 GTCCCCTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (30 bp):
ACACGGGCGTGTCTTTTGGCCATGTGAGAC
Found at i:44772361 original size:49 final size:50
Alignment explanation
Indices: 44772269--44772366 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
44772259 ATCTATTTAT
* * * * *
44772269 AGGTTGAAAAAACCTTATTCTAATAAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAAAAGAAGTATAGTA
*
44772319 AGGTTG-AAAAACATTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAAAAGAAGTATAGT
44772367 GCTATATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (50 bp):
AGGTTGAAAAAACATTATTCTAATAAATGTAAAATAAAAGAAGTATAGTA
Found at i:44779059 original size:15 final size:15
Alignment explanation
Indices: 44779010--44779167 Score: 118
Period size: 15 Copynumber: 10.5 Consensus size: 15
44779000 TATAGTAGCA
* *
44779010 TTTGGCACCGCAACG
1 TTTGGTACCGCAGCG
** *
44779025 TTTCGGTATAGCAGCA
1 TTT-GGTACCGCAGCG
*
44779041 TTTGGCACCGCAGCG
1 TTTGGTACCGCAGCG
* *
44779056 TTTGGTACAGCAGCA
1 TTTGGTACCGCAGCG
*
44779071 TTTGGTACCGCAACG
1 TTTGGTACCGCAGCG
** *
44779086 TTTGGTACAACAGCA
1 TTTGGTACCGCAGCG
* *
44779101 TTTGGTACAGCAGCA
1 TTTGGTACCGCAGCG
**
44779116 TTTGGTACCGTGGCG
1 TTTGGTACCGCAGCG
* * *
44779131 TTTGGTACAGCATCA
1 TTTGGTACCGCAGCG
* *
44779146 TTTGGTACCGCAACA
1 TTTGGTACCGCAGCG
44779161 TTTGGTA
1 TTTGGTA
44779168 AACAACATTT
Statistics
Matches: 111, Mismatches: 31, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
15 101 0.91
16 10 0.09
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (15 bp):
TTTGGTACCGCAGCG
Found at i:44779105 original size:45 final size:45
Alignment explanation
Indices: 44779051--44779200 Score: 176
Period size: 45 Copynumber: 3.4 Consensus size: 45
44779041 TTTGGCACCG
*
44779051 CAGCGTTTGGTACAGCAGCATTTGGTACCGCAACGTTTGGTACAA
1 CAGCATTTGGTACAGCAGCATTTGGTACCGCAACGTTTGGTACAA
*** *
44779096 CAGCATTTGGTACAGCAGCATTTGGTACCGTGGCGTTTGGTACAG
1 CAGCATTTGGTACAGCAGCATTTGGTACCGCAACGTTTGGTACAA
* * * ** * * *
44779141 CATCATTTGGTACCGCAACATTTGGTA-AACAACATTTGGTGCTA
1 CAGCATTTGGTACAGCAGCATTTGGTACCGCAACGTTTGGTACAA
44779185 CAGCATTTGGTACAGC
1 CAGCATTTGGTACAGC
44779201 GGCAGAGGGT
Statistics
Matches: 86, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
44 22 0.26
45 64 0.74
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (45 bp):
CAGCATTTGGTACAGCAGCATTTGGTACCGCAACGTTTGGTACAA
Found at i:44779165 original size:30 final size:30
Alignment explanation
Indices: 44778992--44779200 Score: 170
Period size: 30 Copynumber: 6.9 Consensus size: 30
44778982 GCTATCGCAG
* * * *
44778992 CATTTCGGTATAGTAGCATTTGGCACCGCAA
1 CATTT-GGTACAGCAGCATTTGGTACAGCAA
* * * * *
44779023 CGTTTCGGTATAGCAGCATTTGGCACCGCAG
1 CATTT-GGTACAGCAGCATTTGGTACAGCAA
* *
44779054 CGTTTGGTACAGCAGCATTTGGTACCGCAA
1 CATTTGGTACAGCAGCATTTGGTACAGCAA
* * *
44779084 CGTTTGGTACAACAGCATTTGGTACAGCAG
1 CATTTGGTACAGCAGCATTTGGTACAGCAA
* ** * *
44779114 CATTTGGTACCGTGGCGTTTGGTACAGCAT
1 CATTTGGTACAGCAGCATTTGGTACAGCAA
* * *
44779144 CATTTGGTACCGCAACATTTGGTA-AACAA
1 CATTTGGTACAGCAGCATTTGGTACAGCAA
*
44779173 CATTTGGTGCTA-CAGCATTTGGTACAGC
1 CATTTGGTAC-AGCAGCATTTGGTACAGC
44779201 GGCAGAGGGT
Statistics
Matches: 150, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.15
30 94 0.63
31 33 0.22
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (30 bp):
CATTTGGTACAGCAGCATTTGGTACAGCAA
Found at i:44779674 original size:13 final size:13
Alignment explanation
Indices: 44779656--44779680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44779646 TATTTTAATA
44779656 TTATTTTGTGTGT
1 TTATTTTGTGTGT
44779669 TTATTTTGTGTG
1 TTATTTTGTGTG
44779681 AATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:44780510 original size:29 final size:29
Alignment explanation
Indices: 44780478--44780536 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44780468 GTGTTTTTGG
44780478 ACTAAACTGAATGTGATAATGATTAAACT
1 ACTAAACTGAATGTGATAATGATTAAACT
44780507 ACTAAACTGAATGTGATAATGATTAAACT
1 ACTAAACTGAATGTGATAATGATTAAACT
44780536 A
1 A
44780537 TCTCATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (29 bp):
ACTAAACTGAATGTGATAATGATTAAACT
Found at i:44783789 original size:18 final size:19
Alignment explanation
Indices: 44783752--44783792 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
44783742 TATATGTCAT
* *
44783752 ATTAATAAATAATTAAAAA
1 ATTAATAAAGAATCAAAAA
44783771 ATTAA-AAAGAATCAAAAA
1 ATTAATAAAGAATCAAAAA
44783789 ATTA
1 ATTA
44783793 GTATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATTAATAAAGAATCAAAAA
Found at i:44784651 original size:17 final size:17
Alignment explanation
Indices: 44784629--44784661 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44784619 AATCTGGCCA
*
44784629 TTTTTAGTTTTATTTTG
1 TTTTTAATTTTATTTTG
44784646 TTTTTAATTTTATTTT
1 TTTTTAATTTTATTTT
44784662 ATGGGTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTAATTTTATTTTG
Found at i:44786308 original size:18 final size:17
Alignment explanation
Indices: 44786285--44786321 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
44786275 TATCAACAAA
44786285 ATGAAATTTAAATTATAG
1 ATGAAATTTAAATT-TAG
*
44786303 ATGAAATTTTAATTTAG
1 ATGAAATTTAAATTTAG
44786320 AT
1 AT
44786322 TCAATTGTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
ATGAAATTTAAATTTAG
Found at i:44787594 original size:23 final size:23
Alignment explanation
Indices: 44787568--44787613 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44787558 AATGTCTCGA
44787568 AATGCATGAATAGGTGAAACCAT
1 AATGCATGAATAGGTGAAACCAT
44787591 AATGCATGAATAGGTGAAACCAT
1 AATGCATGAATAGGTGAAACCAT
44787614 GCAGAGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (23 bp):
AATGCATGAATAGGTGAAACCAT
Found at i:44791768 original size:29 final size:29
Alignment explanation
Indices: 44791736--44791798 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
44791726 ATTACAATAG
* *
44791736 TATTACAAGTAGTAACAA-TCAAATCCAAT
1 TATTACAAGCAATAACAACT-AAATCCAAT
*
44791765 TATTACAAGCAATTACAACTAAATCCAAT
1 TATTACAAGCAATAACAACTAAATCCAAT
44791794 TATTA
1 TATTA
44791799 GTTGGGTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (29 bp):
TATTACAAGCAATAACAACTAAATCCAAT
Found at i:44794703 original size:50 final size:47
Alignment explanation
Indices: 44794608--44794703 Score: 104
Period size: 50 Copynumber: 2.0 Consensus size: 47
44794598 GTTAATATTA
* **
44794608 TAATATTTTAATAAGAATATAAAAAATAATTTTTTATAATTTTTTAT
1 TAATATTTTAATAAGAATATAAAAAATAAATTTTTATAAGATTTTAT
**
44794655 TAATATTTTAATATATGAAATATAAAATTTAAATTTTTA-AACGATTTTA
1 TAATATTTTAATA-A-G-AATATAAAAAATAAATTTTTATAA-GATTTTA
44794704 ATTATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
47 13 0.32
48 1 0.03
49 3 0.08
50 23 0.57
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (47 bp):
TAATATTTTAATAAGAATATAAAAAATAAATTTTTATAAGATTTTAT
Found at i:44794754 original size:19 final size:20
Alignment explanation
Indices: 44794710--44794811 Score: 73
Period size: 20 Copynumber: 5.0 Consensus size: 20
44794700 TTTAATTATT
* *
44794710 TATAAAATTTAATTTGAATA
1 TATAAAATATAATTTAAATA
*
44794730 TATAAAATATATTTTAAATA
1 TATAAAATATAATTTAAATA
* *
44794750 T-TAAAATATAACTAATAAAAA
1 TATAAAATATAA-T-TTAAATA
* *
44794771 TTTAAATATATAATATTATATA
1 TATAAA-ATATAAT-TTAAATA
* *
44794793 TTTAAAATA-AATTTCAATA
1 TATAAAATATAATTTAAATA
44794812 GGAAAGTAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.21
20 22 0.33
21 9 0.13
22 16 0.24
23 6 0.09
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:44795046 original size:17 final size:17
Alignment explanation
Indices: 44795024--44795056 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44795014 ATTTTAGTAA
*
44795024 TATTTTTATCTTAAAAT
1 TATTTTTATCCTAAAAT
44795041 TATTTTTATCCTAAAA
1 TATTTTTATCCTAAAA
44795057 ATACCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTTATCCTAAAAT
Found at i:44795364 original size:28 final size:27
Alignment explanation
Indices: 44795308--44795365 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
44795298 TTTTTTATTC
*
44795308 TTTTATTTTTTAAATTTTAAAATACTT
1 TTTTATTTTTTAAATTTTAAAATAATT
* * *
44795335 TTTTATTTTTTTATTTTTAAAATAAAT
1 TTTTATTTTTTAAATTTTAAAATAATT
44795362 TTTT
1 TTTT
44795366 GGTGTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTATTTTTTAAATTTTAAAATAATT
Found at i:44796693 original size:32 final size:32
Alignment explanation
Indices: 44796652--44796715 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
44796642 ATGTAAATAA
* *
44796652 ATTAGATTATTT-TATATTTTATATATAATTAT
1 ATTAAATTATTTAAATA-TTTATATATAATTAT
*
44796684 ATTAAATTATTTAAATATTTATATTTAATTAT
1 ATTAAATTATTTAAATATTTATATATAATTAT
44796716 TTTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
ATTAAATTATTTAAATATTTATATATAATTAT
Found at i:44796790 original size:9 final size:11
Alignment explanation
Indices: 44796766--44796792 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44796756 ATTTAGTATT
44796766 TATATAATAAA
1 TATATAATAAA
44796777 TATATAATAAA
1 TATATAATAAA
44796788 TATAT
1 TATAT
44796793 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TATATAATAAA
Found at i:44797250 original size:43 final size:43
Alignment explanation
Indices: 44797069--44797228 Score: 241
Period size: 43 Copynumber: 3.7 Consensus size: 43
44797059 TATAGAAACA
* * * * *
44797069 AAACGCCGCTAAAGGTCATGTTCTTTAGAGGCGC-AAAAATAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATACTAC
*
44797111 AAACGCCGCTAAAGGTTATGTTCTTTAGCGGCGCTTATACTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATACTAC
* *
44797154 AAACGCCACTAAAGGTCATGTTCTTTAGCGGTGCTTATACTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATACTAC
44797197 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
44797229 ACTTTTTCCA
Statistics
Matches: 106, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 32 0.30
43 74 0.70
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTATACTAC
Found at i:44797267 original size:86 final size:86
Alignment explanation
Indices: 44797111--44797269 Score: 196
Period size: 86 Copynumber: 1.8 Consensus size: 86
44797101 GCAAAAATAA
* * * ** *
44797111 AAACGCCGCTAAAGGTTATGTTCTTTAGCGGCGCTTATACTACAAACGCCACTAAAGGTCATGTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTATACCACAAACGCCACTAAAGAACATGCT
44797176 CTTTAGCGGTGCTTATACTAC
66 CTTTAGCGGTGCTTATACTAC
* * * *
44797197 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTTCCACAAACGGCGCTACAA-AACATGG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTATACCACAAACGCCACTA-AAGAACAT-G
44797261 CT-TTTAGCG
64 CTCTTTAGCG
44797270 ACGTTTTCTC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
86 57 0.93
87 4 0.07
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTATACCACAAACGCCACTAAAGAACATGCT
CTTTAGCGGTGCTTATACTAC
Found at i:44797336 original size:44 final size:42
Alignment explanation
Indices: 44797220--44797337 Score: 121
Period size: 42 Copynumber: 2.7 Consensus size: 42
44797210 GGTCATGTTC
* * * *
44797220 TTTAGCGGCACTTTTTCCACAAACGGCGCTACAAAACATGGCT
1 TTTAGCGGCGCTTTTT-CACAAACGCCGCTATAAAACATGACT
* * * *
44797263 TTTAGCGACG-TTTTCTCACAAACGTCGCTATAGAACCTGACT
1 TTTAGCGGCGCTTTT-TCACAAACGCCGCTATAAAACATGACT
44797305 TTTAGCGGCGCTTTTTCAAGCAAACGCCGCTAT
1 TTTAGCGGCGCTTTTTC-A-CAAACGCCGCTAT
44797338 TGTTTGGTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 36 0.58
43 14 0.23
44 12 0.19
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTTCACAAACGCCGCTATAAAACATGACT
Found at i:44800556 original size:9 final size:9
Alignment explanation
Indices: 44800544--44800866 Score: 188
Period size: 9 Copynumber: 37.4 Consensus size: 9
44800534 CAGTAAATTG
44800544 TGTAAGTTA
1 TGTAAGTTA
*
44800553 TGT-A-TTG
1 TGTAAGTTA
*
44800560 TATAAGTTA
1 TGTAAGTTA
44800569 TGTAAGTTA
1 TGTAAGTTA
**
44800578 --TATTTTA
1 TGTAAGTTA
* *
44800585 TGTTAGCTA
1 TGTAAGTTA
44800594 TGTAAGTTA
1 TGTAAGTTA
44800603 TGT-A-TTA
1 TGTAAGTTA
*
44800610 TGTATGTTA
1 TGTAAGTTA
*
44800619 TGTAAGTTG
1 TGTAAGTTA
44800628 TGT-A-TTA
1 TGTAAGTTA
44800635 TGTATA-TTA
1 TGTA-AGTTA
*
44800644 TGTAAGTTG
1 TGTAAGTTA
*
44800653 TGT-AG-AA
1 TGTAAGTTA
*
44800660 TGTAAGCTA
1 TGTAAGTTA
44800669 TGTAAGTTA
1 TGTAAGTTA
44800678 TGTAAGTTA
1 TGTAAGTTA
*
44800687 TGTAAGTTG
1 TGTAAGTTA
*
44800696 TGT-A-TAA
1 TGTAAGTTA
44800703 TGTAAGTTA
1 TGTAAGTTA
*
44800712 TGAAAGTTA
1 TGTAAGTTA
*
44800721 TGT-A-TCA
1 TGTAAGTTA
44800728 TGTAAGTTA
1 TGTAAGTTA
*
44800737 TTTAAGTTA
1 TGTAAGTTA
*
44800746 TGTAAGTTG
1 TGTAAGTTA
44800755 TGT-A-TTA
1 TGTAAGTTA
*
44800762 TGTAAGTCA
1 TGTAAGTTA
* *
44800771 TGTAGGCTA
1 TGTAAGTTA
44800780 TGT-A-TTA
1 TGTAAGTTA
44800787 TGTAAGTTA
1 TGTAAGTTA
44800796 T-T-A--TA
1 TGTAAGTTA
*
44800801 AGTAAGTTA
1 TGTAAGTTA
*
44800810 TGAAAGTTATA
1 TGTAAG-T-TA
*
44800821 TATAAGTTTATA
1 TGTAAG--T-TA
*
44800833 TATAAGTTA
1 TGTAAGTTA
44800842 TGTAAGTTATTA
1 TGTAAG---TTA
44800854 TGTAAGTTA
1 TGTAAGTTA
44800863 TGTA
1 TGTA
44800867 TTGTATAAGT
Statistics
Matches: 240, Mismatches: 45, Indels: 58
0.70 0.13 0.17
Matches are distributed among these distances:
5 2 0.01
6 1 0.00
7 44 0.18
8 17 0.07
9 148 0.62
10 2 0.01
11 6 0.03
12 20 0.08
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:44800565 original size:16 final size:16
Alignment explanation
Indices: 44800540--44800572 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44800530 ACTTCAGTAA
*
44800540 ATTGTGTAAGTTATGT
1 ATTGTATAAGTTATGT
44800556 ATTGTATAAGTTATGT
1 ATTGTATAAGTTATGT
44800572 A
1 A
44800573 AGTTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (16 bp):
ATTGTATAAGTTATGT
Found at i:44800572 original size:25 final size:25
Alignment explanation
Indices: 44800544--44800796 Score: 219
Period size: 25 Copynumber: 10.0 Consensus size: 25
44800534 CAGTAAATTG
* *
44800544 TGTAAGTTATGTATTGTATAAGTTA
1 TGTAAGTTATGTATTATGTAAGTTA
* * * *
44800569 TGTAAGTTATATTTTATGTTAGCTA
1 TGTAAGTTATGTATTATGTAAGTTA
*
44800594 TGTAAGTTATGTATTATGTATGTTA
1 TGTAAGTTATGTATTATGTAAGTTA
*
44800619 TGTAAGTTGTGTATTATGTATA-TTA
1 TGTAAGTTATGTATTATGTA-AGTTA
* ** *
44800644 TGTAAGTTGTGTAGAATGTAAGCTA
1 TGTAAGTTATGTATTATGTAAGTTA
*
44800669 TGTAAGTTATGTAAGTTATGTAAGTTG
1 TGTAAGTTATGT-A-TTATGTAAGTTA
* *
44800696 TGT-A-TAATGTAAGTTATGAAAGTTA
1 TGTAAGTTATGT-A-TTATGTAAGTTA
* *
44800721 TGT-A-TCATGTAAGTTATTTAAGTTA
1 TGTAAGTTATGT-A-TTATGTAAGTTA
* *
44800746 TGTAAGTTGTGTATTATGTAAGTCA
1 TGTAAGTTATGTATTATGTAAGTTA
* *
44800771 TGTAGGCTATGTATTATGTAAGTTA
1 TGTAAGTTATGTATTATGTAAGTTA
44800796 T
1 T
44800797 TATAAGTAAG
Statistics
Matches: 187, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.01
25 167 0.89
26 4 0.02
27 15 0.08
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.46
Consensus pattern (25 bp):
TGTAAGTTATGTATTATGTAAGTTA
Found at i:44800620 original size:34 final size:33
Alignment explanation
Indices: 44800582--44800774 Score: 98
Period size: 34 Copynumber: 5.7 Consensus size: 33
44800572 AAGTTATATT
*
44800582 TTATGTTAGCTATGTAAGTTATGTATTATGTATG
1 TTATGTTAG-TATGTAAGTTATGTATTATGTAAG
* *
44800616 TTATGTAAGT-TGTGTA-TTATGTATATTATGTAAG
1 TTATGTTAGTATGT-AAGTTATG--TATTATGTAAG
* * *
44800650 TTGTG-TAGAATGTAAGCTATGTAAGTTATGTAAG
1 TTATGTTAGTATGTAAGTTATGT-A-TTATGTAAG
* *
44800684 TTATGTAAGT-TGT--GTATAATGTAAGTTATGAAAG
1 TTATGTTAGTATGTAAGT-T-ATGT-A-TTATGTAAG
*
44800718 TTATG-TA-TCATGTAAGTTATTTAAGTTATGTAAG
1 TTATGTTAGT-ATGTAAGTTATGT-A-TTATGTAAG
* * *
44800752 TTGTG-TATTATGTAAGTCATGTA
1 TTATGTTAGTATGTAAGTTATGTA
44800775 GGCTATGTAT
Statistics
Matches: 125, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
32 11 0.09
33 9 0.07
34 99 0.79
35 4 0.03
36 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (33 bp):
TTATGTTAGTATGTAAGTTATGTATTATGTAAG
Found at i:44800625 original size:59 final size:59
Alignment explanation
Indices: 44800562--44800823 Score: 235
Period size: 59 Copynumber: 4.4 Consensus size: 59
44800552 ATGTATTGTA
* * * *
44800562 TAAGTTATGTAAGTTATATTTTATGTTAGCTATGTAAGTTATGTATTATGTATGTTATG
1 TAAGTTATGTAAGTTATATATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATG
* * * *
44800621 TAAGTTGTGT-A-TTATGTATATTATGTAAGTTGTGT-AG-AATGTAAGCTATGTAAGTTATG
1 TAAGTTATGTAAGTTA--TATATTATGTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTATG
* * * * * *
44800680 TAAGTTATGTAAGTTGTGTATAATGTAAGTTATGAAAGTTATGTATCATGTAAGTTATT
1 TAAGTTATGTAAGTTATATATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATG
* * * * *
44800739 TAAGTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATATATTATGTAAGTTATGTAAGTTATGTATTATGTAAG---TTAT--G
*
44800803 TAAGTTATGAAAGTTATATAT
1 TAAGTTATGTAAGTTATATAT
44800824 AAGTTTATAT
Statistics
Matches: 162, Mismatches: 28, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
57 7 0.04
58 4 0.02
59 119 0.73
60 4 0.02
61 6 0.04
62 4 0.02
64 18 0.11
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (59 bp):
TAAGTTATGTAAGTTATATATTATGTAAGTTATGTAAGTTATGTATTATGTAAGTTATG
Found at i:44800688 original size:43 final size:43
Alignment explanation
Indices: 44800632--44800725 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
44800622 AAGTTGTGTA
*
44800632 TTATGTATATTATGTAAGTTGTGTAGAATGTAAGCTATGTAAG
1 TTATGTATATTATGTAAGTTGTGTAGAATGTAAGCTATGAAAG
* *
44800675 TTATGTA-AGTTATGTAAGTTGTGTATAATGTAAGTTATGAAAG
1 TTATGTATA-TTATGTAAGTTGTGTAGAATGTAAGCTATGAAAG
44800718 TTATGTAT
1 TTATGTAT
44800726 CATGTAAGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (43 bp):
TTATGTATATTATGTAAGTTGTGTAGAATGTAAGCTATGAAAG
Found at i:44800782 original size:34 final size:34
Alignment explanation
Indices: 44800562--44800793 Score: 96
Period size: 34 Copynumber: 6.9 Consensus size: 34
44800552 ATGTATTGTA
* * *
44800562 TAAGTTATGTAAGTTATATTTTATGTTAG-CTATG
1 TAAGTTATGTAAGTTATGTATTATGTAAGTC-ATG
**
44800596 TAAGTTATGT-A-TTATGTATGTTATGTAAGTTGTG
1 TAAGTTATGTAAGTTATGTA--TTATGTAAGTCATG
* *
44800630 T-A-TTATGTATA-TTATGTAAGTTGTGT-AG-AATG
1 TAAGTTATGTA-AGTTATGT-A-TTATGTAAGTCATG
* **
44800662 TAAGCTATGTAAGTTATGTAAGTTATGTAAGTTGTG
1 TAAGTTATGTAAGTTATGT-A-TTATGTAAGTCATG
* *
44800698 T-A-TAATGTAAGTTATGAAAGTTATGT-A-TCATG
1 TAAGTTATGTAAGTTATG-TA-TTATGTAAGTCATG
* * *
44800730 TAAGTTATTTAAGTTATGTAAGTTGTGT-A-TTATG
1 TAAGTTATGTAAGTTATGT-A-TTATGTAAGTCATG
* * *
44800764 TAAGTCATGTAGGCTATGTATTATGTAAGT
1 TAAGTTATGTAAGTTATGTATTATGTAAGT
44800794 TATTATAAGT
Statistics
Matches: 154, Mismatches: 27, Indels: 34
0.72 0.13 0.16
Matches are distributed among these distances:
32 23 0.15
33 10 0.06
34 114 0.74
35 4 0.03
36 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (34 bp):
TAAGTTATGTAAGTTATGTATTATGTAAGTCATG
Found at i:44800799 original size:12 final size:12
Alignment explanation
Indices: 44800782--44800863 Score: 61
Period size: 12 Copynumber: 7.2 Consensus size: 12
44800772 GTAGGCTATG
44800782 TATTATGTAAGT
1 TATTATGTAAGT
44800794 TATTA--TAAGT
1 TATTATGTAAGT
* *
44800804 AAGTTATGAAAGT
1 TA-TTATGTAAGT
*
44800817 TA-TATATAAGT
1 TATTATGTAAGT
*
44800828 T-TATATATAAG-
1 TAT-TATGTAAGT
44800839 --TTATGTAAGT
1 TATTATGTAAGT
44800849 TATTATGTAAGT
1 TATTATGTAAGT
44800861 TAT
1 TAT
44800864 GTATTGTATA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
9 7 0.12
10 7 0.12
11 11 0.20
12 26 0.46
13 5 0.09
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TATTATGTAAGT
Found at i:44800847 original size:21 final size:21
Alignment explanation
Indices: 44800823--44800866 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44800813 AAGTTATATA
44800823 TAAGTT-TATATATAAGTTATG
1 TAAGTTAT-TATATAAGTTATG
*
44800844 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTTATG
44800865 TA
1 TA
44800867 TTGTATAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TAAGTTATTATATAAGTTATG
Found at i:44800954 original size:17 final size:19
Alignment explanation
Indices: 44800921--44801042 Score: 79
Period size: 19 Copynumber: 6.1 Consensus size: 19
44800911 GATATGATTG
44800921 ATAAATTTTTAAAATATAT
1 ATAAATTTTTAAAATATAT
44800940 ATAAA-TTTT-AAATATAT
1 ATAAATTTTTAAAATATAT
* ** **
44800957 ATTAATACGTTAAGTTA-AT
1 ATAAAT-TTTTAAAATATAT
44800976 ACGCTAAATTAGATTTAAAATTATAT
1 A---TAAATT---TTTAAAA-TATAT
*
44801002 ATTAAATTTTAAAAATATAT
1 A-TAAATTTTTAAAATATAT
*
44801022 ATAAAATTTTAAAATATAT
1 ATAAATTTTTAAAATATAT
44801041 AT
1 AT
44801043 TAATAAGTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
17 12 0.15
18 4 0.05
19 28 0.36
20 9 0.12
21 6 0.08
22 4 0.05
24 10 0.13
25 2 0.03
26 3 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.43
Consensus pattern (19 bp):
ATAAATTTTTAAAATATAT
Found at i:44801014 original size:20 final size:19
Alignment explanation
Indices: 44800989--44801045 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
44800979 CTAAATTAGA
44800989 TTTAAAATTATATATTAAAT
1 TTTAAAA-TATATATTAAAT
*
44801009 TTTAAAAATATATATAAAAT
1 TTT-AAAATATATATTAAAT
44801029 TTTAAAATATATATTAA
1 TTTAAAATATATATTAA
44801046 TAAGTTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.38
20 17 0.50
21 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAATATATATTAAAT
Found at i:44802040 original size:7 final size:7
Alignment explanation
Indices: 44802028--44802069 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
44802018 TAATCACAGC
44802028 CTAATAT
1 CTAATAT
44802035 CTAATAT
1 CTAATAT
*
44802042 C-AATAC
1 CTAATAT
*
44802048 CAAATAT
1 CTAATAT
*
44802055 GTAATAT
1 CTAATAT
44802062 CTAATAT
1 CTAATAT
44802069 C
1 C
44802070 AAATTCACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (7 bp):
CTAATAT
Found at i:44802053 original size:20 final size:21
Alignment explanation
Indices: 44802030--44802073 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
44802020 ATCACAGCCT
44802030 AATATCTAATATC-AATACCA
1 AATATCTAATATCTAATACCA
* *
44802050 AATATGTAATATCTAATATCA
1 AATATCTAATATCTAATACCA
44802071 AAT
1 AAT
44802074 TCACATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (21 bp):
AATATCTAATATCTAATACCA
Found at i:44803741 original size:15 final size:15
Alignment explanation
Indices: 44803721--44803759 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
44803711 AATTAGAGAT
44803721 TTGGGGCTGATGAAA
1 TTGGGGCTGATGAAA
44803736 TTGGGGCTGATGAAA
1 TTGGGGCTGATGAAA
44803751 TTGGGGCTG
1 TTGGGGCTG
44803760 GGGGCTGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.44, T:0.28
Consensus pattern (15 bp):
TTGGGGCTGATGAAA
Found at i:44804010 original size:83 final size:83
Alignment explanation
Indices: 44803840--44804018 Score: 225
Period size: 83 Copynumber: 2.2 Consensus size: 83
44803830 TAATTCATTT
* * *
44803840 TTGCGGCGTTTTCCTAAAAAACGCCACTATCAAATTTTTCCCAGTACAGAAACGGCGCCGCGTTG
1 TTGCGGCGTTTTCCTAAAAAACGCCACTATCAAATTTTTCCCAGTACAAAAACGGCACCGCATTG
* * *
44803905 GGAAAGTTTAATAAATCT
66 GCAAAGTTTAATAAACCC
* ** * *
44803923 TTGCGGCGTTTTCTTAAAAAACGCCACTATCATTTTTTTTCCAGTACAAAAATGGCACCGCATTG
1 TTGCGGCGTTTTCCTAAAAAACGCCACTATCAAATTTTTCCCAGTACAAAAACGGCACCGCATTG
*
44803988 GCAAATTGTTAA-AAACCC
66 GCAAAGT-TTAATAAACCC
*
44804006 TTGCGGCGCTTTC
1 TTGCGGCGTTTTC
44804019 AGTAAAACAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
83 78 0.95
84 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (83 bp):
TTGCGGCGTTTTCCTAAAAAACGCCACTATCAAATTTTTCCCAGTACAAAAACGGCACCGCATTG
GCAAAGTTTAATAAACCC
Found at i:44804424 original size:21 final size:21
Alignment explanation
Indices: 44804400--44804452 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
44804390 ATGTTTTTAG
*
44804400 CTAAACCCTAAACA-TTAAACC
1 CTAAACCATAAA-ATTTAAACC
**
44804421 CTAAAATATAAAATTTAAACC
1 CTAAACCATAAAATTTAAACC
44804442 CTAAACCATAA
1 CTAAACCATAA
44804453 GCCCTTAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAACCATAAAATTTAAACC
Found at i:44804801 original size:14 final size:14
Alignment explanation
Indices: 44804782--44804818 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
44804772 GAAAACGTAC
44804782 ACCATAAACACTA-A
1 ACCATAAAC-CTACA
44804796 ACCATAAACCTACA
1 ACCATAAACCTACA
44804810 A-CATAAACC
1 ACCATAAACC
44804819 GTAAACACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (14 bp):
ACCATAAACCTACA
Found at i:44805526 original size:166 final size:166
Alignment explanation
Indices: 44805309--44805699 Score: 604
Period size: 166 Copynumber: 2.4 Consensus size: 166
44805299 TTGTATAAAG
* * *
44805309 ACGCCGCTAGTACCACTACAGGTCAAAGTTAAACGACGACATTCTGCTTAATTATTTGCGGAGCA
1 ACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGGAGCA
* * * *
44805374 TTAGTGGCGTTTTTATAGTAGCGCCGCTAATGTACCGATCTTTAGCGGCGTT-TTTATATAAGCG
66 TTAGTGGCGTTTTTATACTAGCGCCGCAAATGTACCGATCATTAGCAGCGTTGTTT-TATAAGCG
* * *
44805438 CCGCAACTGCTTGATCTTTACCGGCGTTTCCAGATAA
130 CCGCAAATGCTAGATCTTTACCGGCATTTCCAGATAA
* *
44805475 ACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTTCGGAGCC
1 ACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGGAGCA
* * *
44805540 TTAGTGGCGTTTTTGTCCTAGCGCCGCAAATGTACCGGTCATTAGCAGCGTTGTTTTATAAGCGC
66 TTAGTGGCGTTTTTATACTAGCGCCGCAAATGTACCGATCATTAGCAGCGTTGTTTTATAAGCGC
44805605 CGCAAATGCTAGATCTTTACCGGCATTTCCAGATAA
131 CGCAAATGCTAGATCTTTACCGGCATTTCCAGATAA
* * *
44805641 ACGCCGCTAGTGCCAGTACAGGTCAAAGTTAAACGACGGTGTTCTACTTAATTATTTGC
1 ACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGC
44805700 AAAAGCGCCG
Statistics
Matches: 205, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
166 202 0.99
167 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (166 bp):
ACGCCGCTAGTGCCACTACAGGTCAAAGTTAAACGACGGCGTTCTGCTTAATTATTTGCGGAGCA
TTAGTGGCGTTTTTATACTAGCGCCGCAAATGTACCGATCATTAGCAGCGTTGTTTTATAAGCGC
CGCAAATGCTAGATCTTTACCGGCATTTCCAGATAA
Found at i:44815232 original size:25 final size:25
Alignment explanation
Indices: 44815198--44815249 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
44815188 AAGGTCAAAG
44815198 AAAGGTTTTGGTAATTCAAATGTAA
1 AAAGGTTTTGGTAATTCAAATGTAA
44815223 AAAGGTTTTGGTAATTCAAATGTAA
1 AAAGGTTTTGGTAATTCAAATGTAA
44815248 AA
1 AA
44815250 GAAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (25 bp):
AAAGGTTTTGGTAATTCAAATGTAA
Found at i:44817832 original size:25 final size:24
Alignment explanation
Indices: 44817798--44817854 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
44817788 ATTATATATT
* *
44817798 ATATATATTTCTTATTTTTAATCAA
1 ATATATATTTCTTATATAT-ATCAA
* *
44817823 ATATATATTTTTTATATATATTAA
1 ATATATATTTCTTATATATATCAA
44817847 ATATATAT
1 ATATATAT
44817855 ATTTAATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATATTTCTTATATATATCAA
Found at i:44817841 original size:13 final size:13
Alignment explanation
Indices: 44817823--44817863 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
44817813 TTTTAATCAA
**
44817823 ATATATATTTTTT
1 ATATATATTTAAT
*
44817836 ATATATATTAAAT
1 ATATATATTTAAT
44817849 ATATATATTTAAT
1 ATATATATTTAAT
44817862 AT
1 AT
44817864 GGGCTAGGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATATATTTAAT
Found at i:44831425 original size:59 final size:59
Alignment explanation
Indices: 44831314--44831460 Score: 188
Period size: 59 Copynumber: 2.5 Consensus size: 59
44831304 ACTTAAATGA
* * * *
44831314 AAACTTTCAAATAGTTTAATGACCATTTTGTAACTTTTTGAAGTTAAGTGACCAAAATAT
1 AAACTTACTAATAGTTTAGTGACCA-TTTGTAACTTTTTAAAGTTAAGTGACCAAAATAT
* * * *
44831374 AAACTTACTAATAATTTAGTGACCATTTGTAACTTTTTAAAGTTTATTGACCAAAATGT
1 AAACTTACTAATAGTTTAGTGACCATTTGTAACTTTTTAAAGTTAAGTGACCAAAATAT
* *
44831433 AAACTTATTAATAGTCTAGTGA-CATTTG
1 AAACTTACTAATAGTTTAGTGACCATTTG
44831461 ACGGAATTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
58 6 0.08
59 49 0.64
60 21 0.28
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (59 bp):
AAACTTACTAATAGTTTAGTGACCATTTGTAACTTTTTAAAGTTAAGTGACCAAAATAT
Found at i:44831433 original size:29 final size:30
Alignment explanation
Indices: 44831345--44831455 Score: 91
Period size: 30 Copynumber: 3.7 Consensus size: 30
44831335 ACCATTTTGT
* * * *
44831345 AACTTTTTGAAGTTAAGTGACCAAAATATA
1 AACTTATTAAAGTTTAGTGACCAAAATGTA
* * **
44831375 AACTTACTAATAATTTAGTGACC-ATTTGT-
1 AACTTATTAA-AGTTTAGTGACCAAAATGTA
* *
44831404 AACTTTTTAAAGTTTATTGACCAAAATGTA
1 AACTTATTAAAGTTTAGTGACCAAAATGTA
*
44831434 AACTTATTAATAGTCTAGTGAC
1 AACTTATTAA-AGTTTAGTGAC
44831456 ATTTGACGGA
Statistics
Matches: 60, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
28 10 0.17
29 12 0.20
30 19 0.32
31 19 0.32
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (30 bp):
AACTTATTAAAGTTTAGTGACCAAAATGTA
Found at i:44831557 original size:26 final size:25
Alignment explanation
Indices: 44831507--44831567 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
44831497 TTATTTTTTA
*
44831507 AAAT-TAAAAATATGTTTGATAAAT
1 AAATATAAAAATATGTTTCATAAAT
* *
44831531 AAATATAAAAATTTGCTTTCATTAAT
1 AAATATAAAAATATG-TTTCATAAAT
*
44831557 AAAAATAAAAA
1 AAATATAAAAA
44831568 AGAGTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 4 0.13
25 9 0.29
26 18 0.58
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
AAATATAAAAATATGTTTCATAAAT
Found at i:44832679 original size:21 final size:22
Alignment explanation
Indices: 44832646--44832693 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
44832636 AGTTTAGATT
*
44832646 TTTTTAAAAATAT-TTTTTAAG
1 TTTTTAAAAATATATTTATAAG
* * *
44832667 TTTTTATATATATATTTATAAT
1 TTTTTAAAAATATATTTATAAG
44832689 TTTTT
1 TTTTT
44832694 GGATGTAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTAAAAATATATTTATAAG
Found at i:44837366 original size:20 final size:22
Alignment explanation
Indices: 44837341--44837385 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
44837331 CAACCTCTTT
44837341 TACATATATT-GTTATA-TAAA
1 TACATATATTAGTTATATTAAA
*
44837361 TACATATATTATTTATATTAAA
1 TACATATATTAGTTATATTAAA
44837383 TAC
1 TAC
44837386 TTCATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (22 bp):
TACATATATTAGTTATATTAAA
Found at i:44839223 original size:19 final size:19
Alignment explanation
Indices: 44839176--44839309 Score: 187
Period size: 19 Copynumber: 6.8 Consensus size: 19
44839166 AAATTAAATC
*
44839176 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
* *
44839196 TCTTCTAAGGTTGCATATCATA
1 ---TCTAAGATTACATATCATA
44839218 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44839237 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
44839256 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
44839275 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
44839294 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
44839310 CTTGAAGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 87 0.84
22 7 0.07
23 9 0.09
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:44839920 original size:45 final size:45
Alignment explanation
Indices: 44839821--44840322 Score: 198
Period size: 44 Copynumber: 11.6 Consensus size: 45
44839811 TTCAAATCCA
* * * * * * *
44839821 CTCCACTACAACTTTAGGGAGATGAGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * *
44839865 CCCCACTGCAATTTCAAGGG-GATAAGACTTGATTTCTTGAGTGTG
1 CTCCACTGCAACTTC-AGGGAGATAAGACTCGATTTCTTGAGTCTG
* *
44839910 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* * * * *
44839955 CTCAACTGTAACTTCAGGGAGATAAGAC-CCAATGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* ** * * * **
44839996 CT-CTCTGCAACTTCAGATAGATAAGATTTG-TGATT-TT-AATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGAT--TTCTTGAGTCTG
* * * * * *
44840039 CTCCACTGTAACTTCAGGAAGATAAGA-T-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTG
* * ** * *
44840083 TTCCACTGCAACTTCAGGGAGATAAGATTC-ACCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGA-TTTCTTGAGTCTG
* * * * * *
44840128 C-CTCACTACAACTTCA-GGA-AGAAGGCTTGCTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
* *
44840170 CTCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
** * * * *
44840211 CT-CTTTGCAACTTCAGAGAGATATGA-TCTGAGATT-TT-AATC-G
1 CTCCACTGCAACTTCAGGGAGATAAGACTC-GA-TTTCTTGAGTCTG
* * * * * *
44840253 CT-CACTGCGACTTCAGGGAGATAGGA-T-TATTGGCTTTATTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGATT-TCTTGAGTCTG
44840296 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
44840323 TTCGTCATCT
Statistics
Matches: 339, Mismatches: 85, Indels: 68
0.69 0.17 0.14
Matches are distributed among these distances:
39 2 0.01
40 42 0.12
41 15 0.04
42 50 0.15
43 27 0.08
44 108 0.32
45 95 0.28
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCGATTTCTTGAGTCTG
Found at i:44840339 original size:213 final size:215
Alignment explanation
Indices: 44839950--44840339 Score: 597
Period size: 213 Copynumber: 1.8 Consensus size: 215
44839940 GCTTTCTTGG
* *
44839950 GTCTGCTCAACTGTAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGATA
1 GTCTGCTCAACTGCAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGA
* * *
44840015 GATAAGATTTGTGATTTTAATCCACTCCACTGTAACTTCAGGAAGATAAGATTATTGGCTTTAAT
66 GATAAGATCTGAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATTGGCTTTAAT
*
44840080 CTGTTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTACCTCACTACAACTTCAG
131 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTACCTCACTACAACTTCAG
44840145 GAAGAAGGCTTGCTTACTTA
196 GAAGAAGGCTTGCTTACTTA
* * *
44840165 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGATCTGCTCTTTGCAACTTCAGAG
1 GTCTGCTCAACTGCAACTTCAGGGAGATAAGACCCA-ATGCGATCTGCTCTCTGCAACTTCAGAG
* * * * * *
44840229 AGATATGATCTGAGATTTTAAT-CGCT-CACTGCGACTTCAGGGAGATAGGATTATTGGCTTTAT
65 AGATAAGATCTGAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATTGGCTTTAA
**
44840292 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTCATCTTCAGTCT
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCT
44840340 TTTAAATTGT
Statistics
Matches: 157, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
213 77 0.49
214 5 0.03
215 75 0.48
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (215 bp):
GTCTGCTCAACTGCAACTTCAGGGAGATAAGACCCAATGCGATCTGCTCTCTGCAACTTCAGAGA
GATAAGATCTGAGATTTTAATCCACTCCACTGCAACTTCAGGAAGATAAGATTATTGGCTTTAAT
CTGCTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTACCTCACTACAACTTCAG
GAAGAAGGCTTGCTTACTTA
Found at i:44840773 original size:43 final size:44
Alignment explanation
Indices: 44840688--44840794 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 44
44840678 ATCTACTATT
* *
44840688 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
44840732 TTCAACCTATTCCACT-CTGAC-CAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGA-TTCACAATC
44840775 TTCAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTG
44840795 TCTAGAAAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
43 37 0.64
44 21 0.36
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGATTCACAATC
Found at i:44841122 original size:263 final size:264
Alignment explanation
Indices: 44840808--44841469 Score: 979
Period size: 263 Copynumber: 2.5 Consensus size: 264
44840798 AGAAAGATAG
* * * *
44840808 GGTTGGGGTCATCGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGTTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
44840873 TTCGCTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCGGTACAGGAAGGT
66 TCCGCTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
* **
44840938 AAGATCTGCT-ATTTTTAACCTGCTCTGCTGTAACCCAGGGAGGCAAGACTGGTGTCTTCGATCT
131 AAGATCTG-TAATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGACTGGTGTCTTCGATCT
* ** *
44841002 GCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTTGCTACAACCCA-TGA
195 GCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGA
*
44841066 GGCAA
260 GGAAA
*
44841071 GGTTGGTGTCTTCGATTTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGTTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
44841136 TCCGCTGCAATCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCATGAAAGC
66 TCCGCTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
* *
44841201 AAGATCTGTAATTTTTAACTTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTG
131 AAGATCTGTAATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTG
* * *
44841266 CTTCGCTGTCGGTGCAAGAAGGTAAGATCTGCTATTTTTAACCTGCTCCGCTGCACCCCAGGGAG
196 CTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAG
44841331 GAAA
261 GAAA
* * * * *
44841335 GGCTAGTGTCTTCGATCTGCTTTGCTGTTGGTGCAGGAAAGCAAGATTTGCTATTTTTAACCTGC
1 GGTTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * *
44841400 TCCGCTACAACCCA-ATGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGG
66 TCCGCTGCAACCCAGA-GAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
44841464 CAAGAT
130 CAAGAT
44841470 TTGTTATCTT
Statistics
Matches: 357, Mismatches: 39, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
262 1 0.00
263 229 0.64
264 127 0.36
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (264 bp):
GGTTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCCGCTGCAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
AAGATCTGTAATTTTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGACTGGTGTCTTCGATCTG
CTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGGAG
GAAA
Found at i:44841472 original size:88 final size:88
Alignment explanation
Indices: 44840819--44841469 Score: 964
Period size: 88 Copynumber: 7.4 Consensus size: 88
44840809 GTTGGGGTCA
* *
44840819 TCGATCTGCTTCGCTGTCGGTGCAGAAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
44840884 CCAGAGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
44840907 TCGATCTGCTTCGTTGTCGGTACAGGAAGGTAAGATCTGCTATTTTTAACCTGCTCTGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
44840972 CCAGGGAGGCAAGACTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
** *
44840995 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTTGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
44841060 CCA-TGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
44841082 TCGATTTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
44841147 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
44841170 TCGATCTGCTTCGCTGTCGGTGCATGAAAGCAAGATCTG-TAATTTTTAACTTGCTCCGCTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTGCTCCGCTGCAA
44841234 CCCAGGGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * *
44841258 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGTAAGATCTGCTATTTTTAACCTGCTCCGCTGCACC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
44841323 CCAGGGAGGAAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
44841346 TCGATCTGCTTTGCTGTTGGTGCAGGAAAGCAAGATTTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
** *
44841411 CCAATGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
44841434 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGAT
44841470 TTGTTATCTT
Statistics
Matches: 504, Mismatches: 56, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
87 79 0.16
88 424 0.84
89 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:44842556 original size:25 final size:26
Alignment explanation
Indices: 44842505--44842565 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
44842495 AAGAAAATCC
* **
44842505 AAAAGAATGAAATAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
44842531 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
44842556 AAAATGAATG
1 AAAA-GAATG
44842566 CAAATATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.13, T:0.25
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:44846781 original size:23 final size:22
Alignment explanation
Indices: 44846727--44846777 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
44846717 AATAAAAACA
44846727 AAAACATATGTATAAAATATAT
1 AAAACATATGTATAAAATATAT
* **
44846749 ATAAGCATATGTATACTATATAT
1 A-AAACATATGTATAAAATATAT
44846772 AAAACA
1 AAAACA
44846778 ATATATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (22 bp):
AAAACATATGTATAAAATATAT
Found at i:44847335 original size:19 final size:19
Alignment explanation
Indices: 44847311--44847364 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
44847301 AATCATATCT
* *
44847311 TCTAAGGTTGCATATTATA
1 TCTAAGATTGCATATCATA
*
44847330 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
44847349 TCTATGATTGCATATC
1 TCTAAGATTGCATATC
44847365 CTTGAAGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:44848270 original size:30 final size:29
Alignment explanation
Indices: 44848211--44848274 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
44848201 AAAACATCTC
* **
44848211 ATTTCCGTAATTAATTTGTTTTTCGTATT
1 ATTTTCGTAATTAATTTGTTTTTAATATT
*
44848240 ATTTTCGTAATTAATTTATTTTTTAATATT
1 ATTTTCGTAATTAATTT-GTTTTTAATATT
44848270 ATTTT
1 ATTTT
44848275 TATAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (29 bp):
ATTTTCGTAATTAATTTGTTTTTAATATT
Found at i:44848459 original size:30 final size:30
Alignment explanation
Indices: 44848423--44848479 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44848413 TTTTAATGAG
*
44848423 ATGCTTGAAATTTTTCA-GTCAAAAAAAGAA
1 ATGCTTG-AACTTTTCATGTCAAAAAAAGAA
*
44848453 ATGCTTGGACTTTTCATGTCAAAAAAA
1 ATGCTTGAACTTTTCATGTCAAAAAAA
44848480 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (30 bp):
ATGCTTGAACTTTTCATGTCAAAAAAAGAA
Found at i:44850142 original size:31 final size:30
Alignment explanation
Indices: 44850078--44850142 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
44850068 TAAAAATTTT
*
44850078 TTAAAAATAATTTTGAAAAATTAAAAAGTA
1 TTAAAAATAATTTTGAAAAATTAAAAAATA
**
44850108 TTAAAAATATATTTT-AAATTTTAAAAAATAA
1 TTAAAAATA-ATTTTGAAAAATTAAAAAAT-A
44850139 TTAA
1 TTAA
44850143 TATCTAATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (30 bp):
TTAAAAATAATTTTGAAAAATTAAAAAATA
Found at i:44853385 original size:60 final size:60
Alignment explanation
Indices: 44853281--44853437 Score: 183
Period size: 60 Copynumber: 2.6 Consensus size: 60
44853271 ACATTAGTAG
* * *
44853281 TATTCCAACTATTTTCCTGTTTTGGTCACCTAGCTATGAAAAGTTACAAAATGGTCAACCAAC
1 TATT-CAA-TATTTT-CTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCAACCAAC
* **
44853344 TATT-AGTGATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCATTCAAC
1 TATTCAAT-ATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCAACCAAC
* *
44853404 TATTCAAT-TTTGTCTTTTTCGGTCACTCAACTAT
1 TATTCAATATTT-TCTTTTTTGGTCACCCAACTAT
44853438 CTTAGATTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
59 3 0.04
60 67 0.82
61 8 0.10
63 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (60 bp):
TATTCAATATTTTCTTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGGTCAACCAAC
Found at i:44853565 original size:60 final size:61
Alignment explanation
Indices: 44853501--44853614 Score: 176
Period size: 60 Copynumber: 1.9 Consensus size: 61
44853491 ACAAAATTGG
* *
44853501 ATAGTTGCGTGTCCATTTTATAACTTTTCATAGTTAGGTGACC-AAAAAAGAAATTTACTA
1 ATAGTTGCGTGACCATTTTATAACTTTTCATAGATAGGTGACCAAAAAAAGAAATTTACTA
* * *
44853561 ATAGTTGGGTGACCATTTTGTAACTTTTTATAGATAGGTGACCAAAAAAAGAAA
1 ATAGTTGCGTGACCATTTTATAACTTTTCATAGATAGGTGACCAAAAAAAGAAA
44853615 AAACCATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 38 0.79
61 10 0.21
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (61 bp):
ATAGTTGCGTGACCATTTTATAACTTTTCATAGATAGGTGACCAAAAAAAGAAATTTACTA
Found at i:44863686 original size:15 final size:16
Alignment explanation
Indices: 44863660--44863690 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
44863650 AAATTTGATC
44863660 TAAAATATACCAAAAA
1 TAAAATATACCAAAAA
44863676 TAAAA-ATACCAAAAA
1 TAAAATATACCAAAAA
44863691 AATCCTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (16 bp):
TAAAATATACCAAAAA
Found at i:44864411 original size:21 final size:22
Alignment explanation
Indices: 44864372--44864424 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
44864362 TTCTCTTAAA
44864372 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
44864394 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
44864416 CTCTCAAAT
1 CTCTCAAAT
44864425 CCATATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:44864492 original size:30 final size:28
Alignment explanation
Indices: 44864456--44864514 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
44864446 ATTCAATTTC
44864456 ATTTTTTTAAAGAAAATTTTAAATATTTTT
1 ATTTTTTTAAA-AAAATTTTAAA-ATTTTT
*
44864486 ATTTTTTTAAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAAAAATTTTAAAATTTTT
44864514 A
1 A
44864515 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAAAAAAATTTTAAAATTTTT
Found at i:44864521 original size:29 final size:30
Alignment explanation
Indices: 44864459--44864521 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
44864449 CAATTTCATT
*
44864459 TTTTTAAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAAGAAAATTTTAAATATTTTTATA
*
44864489 TTTTTAAA-ATAATTTTAAA-ATTTTTAATA
1 TTTTTAAAGAAAATTTTAAATATTTTT-ATA
44864518 TTTT
1 TTTT
44864522 CAACAATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 6 0.20
29 16 0.53
30 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTTAAAGAAAATTTTAAATATTTTTATA
Found at i:44866523 original size:21 final size:22
Alignment explanation
Indices: 44866484--44866536 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
44866474 TTCTCTTAAA
44866484 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
44866506 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
44866528 CTCTCAAAT
1 CTCTCAAAT
44866537 CCATATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:44866604 original size:30 final size:28
Alignment explanation
Indices: 44866568--44866626 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
44866558 ATTCAATTTC
44866568 ATTTTTTTAAAGAAAATTTTAAATATTTTT
1 ATTTTTTTAAA-AAAATTTTAAA-ATTTTT
*
44866598 ATTTTTTTAAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAAAAATTTTAAAATTTTT
44866626 A
1 A
44866627 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAAAAAAATTTTAAAATTTTT
Found at i:44866633 original size:29 final size:30
Alignment explanation
Indices: 44866571--44866633 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
44866561 CAATTTCATT
*
44866571 TTTTTAAAGAAAATTTTAAATATTTTTATT
1 TTTTTAAAGAAAATTTTAAATATTTTTATA
*
44866601 TTTTTAAA-ATAATTTTAAA-ATTTTTAATA
1 TTTTTAAAGAAAATTTTAAATATTTTT-ATA
44866630 TTTT
1 TTTT
44866634 CAACAATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 6 0.20
29 16 0.53
30 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTTTAAAGAAAATTTTAAATATTTTTATA
Found at i:44869396 original size:8 final size:8
Alignment explanation
Indices: 44869385--44869429 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
44869375 GCTAAATGTT
44869385 TGTTTATA
1 TGTTTATA
44869393 TGTTTATA
1 TGTTTATA
*
44869401 TATTTATA
1 TGTTTATA
44869409 TG--T-T-
1 TGTTTATA
44869413 TGTTTATA
1 TGTTTATA
44869421 TGTTTATA
1 TGTTTATA
44869429 T
1 T
44869430 CTGGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 2 0.06
7 1 0.03
8 25 0.81
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (8 bp):
TGTTTATA
Found at i:44870331 original size:42 final size:42
Alignment explanation
Indices: 44870280--44870399 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
44870270 CAATTTTTAT
44870280 TATTTATAACAAATTAAAGAGTTATTAATTTAAAATTCTATA
1 TATTTATAACAAATTAAAGAGTTATTAATTTAAAATTCTATA
***
44870322 TATTTATAACAAATTAATA-ACAAATTAATTTAAAATTCTATA
1 TATTTATAACAAATTAA-AGAGTTATTAATTTAAAATTCTATA
44870364 TATTTATAACAAATTAAAGAGTTATTAATTTAAAAT
1 TATTTATAACAAATTAAAGAGTTATTAATTTAAAAT
44870400 ATTTAATAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (42 bp):
TATTTATAACAAATTAAAGAGTTATTAATTTAAAATTCTATA
Found at i:44871910 original size:9 final size:9
Alignment explanation
Indices: 44871892--44871937 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
44871882 GGTTGCAAAA
*
44871892 AGGACAATG
1 AGGACGATG
44871901 AGGACGATG
1 AGGACGATG
*
44871910 ACGACGATG
1 AGGACGATG
44871919 AGGACGATG
1 AGGACGATG
*
44871928 AGGATGATG
1 AGGACGATG
44871937 A
1 A
44871938 TGTTTCTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.39, T:0.13
Consensus pattern (9 bp):
AGGACGATG
Found at i:44872016 original size:39 final size:39
Alignment explanation
Indices: 44871973--44872066 Score: 170
Period size: 39 Copynumber: 2.4 Consensus size: 39
44871963 GCTTTCCTTC
* *
44871973 TAAATATGTTGATGGACAATTTATATTTTGTTTTGAAAT
1 TAAATATGTTGATGGACAATTTATATCTTGTTATGAAAT
44872012 TAAATATGTTGATGGACAATTTATATCTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATCTTGTTATGAAAT
44872051 TAAATATGTTGATGGA
1 TAAATATGTTGATGGA
44872067 TTAATGTATG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (39 bp):
TAAATATGTTGATGGACAATTTATATCTTGTTATGAAAT
Found at i:44872085 original size:39 final size:38
Alignment explanation
Indices: 44871973--44872085 Score: 102
Period size: 39 Copynumber: 2.9 Consensus size: 38
44871963 GCTTTCCTTC
* ** * *
44871973 TAAATATGTTGATGGACAATTTATATTTTGTTTTGAAAT
1 TAAATATGTTGATGGACAATGTATA-CATATTATGAAAT
* * *
44872012 TAAATATGTTGATGGACAATTTATATCTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-CATATTATGAAAT
*
44872051 TAAATATGTTGATGGATTAATGTATGA-ATATTATG
1 TAAATATGTTGATGGA-CAATGTAT-ACATATTATG
44872086 GTTTGTTGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 59 0.89
40 6 0.09
41 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (38 bp):
TAAATATGTTGATGGACAATGTATACATATTATGAAAT
Found at i:44875697 original size:65 final size:65
Alignment explanation
Indices: 44875593--44875719 Score: 245
Period size: 65 Copynumber: 2.0 Consensus size: 65
44875583 ATATTGCCCA
*
44875593 CCAACAACACCTTGGTGCGGTCTGTCAAACTCCGTCACGCGAAACCATAAATTGTCTTGATCCCG
1 CCAACAACACCTTGGTGCAGTCTGTCAAACTCCGTCACGCGAAACCATAAATTGTCTTGATCCCG
44875658 CCAACAACACCTTGGTGCAGTCTGTCAAACTCCGTCACGCGAAACCATAAATTGTCTTGATC
1 CCAACAACACCTTGGTGCAGTCTGTCAAACTCCGTCACGCGAAACCATAAATTGTCTTGATC
44875720 GTGGCACACT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (65 bp):
CCAACAACACCTTGGTGCAGTCTGTCAAACTCCGTCACGCGAAACCATAAATTGTCTTGATCCCG
Found at i:44876348 original size:112 final size:112
Alignment explanation
Indices: 44876144--44876366 Score: 419
Period size: 112 Copynumber: 2.0 Consensus size: 112
44876134 TTAAACTAAT
*
44876144 TCAAAATGACAAACGAAATAATACAGTTATATAGTAAATACCCATGTTGGTCACTTGTCGTCGTT
1 TCAAAATGACAAACGAAATAATACAGTTATATAGTAAATACCCATGTTGGTCACTTGTCGTCATT
* *
44876209 CGGTCTTAGATGAAAATTTCCTGTAGTAGTTCGAAGCAACGTGTCTA
66 CGGTCTTAGATGAAAATTGCCTATAGTAGTTCGAAGCAACGTGTCTA
44876256 TCAAAATGACAAACGAAATAATACAGTTATATAGTAAATACCCATGTTGGTCACTTGTCGTCATT
1 TCAAAATGACAAACGAAATAATACAGTTATATAGTAAATACCCATGTTGGTCACTTGTCGTCATT
44876321 CGGTCTTAGATGAAAATTGCCTATAGTAGTTCGAAGCAACGTGTCT
66 CGGTCTTAGATGAAAATTGCCTATAGTAGTTCGAAGCAACGTGTCT
44876367 CAGGCAATAT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 108 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (112 bp):
TCAAAATGACAAACGAAATAATACAGTTATATAGTAAATACCCATGTTGGTCACTTGTCGTCATT
CGGTCTTAGATGAAAATTGCCTATAGTAGTTCGAAGCAACGTGTCTA
Found at i:44878607 original size:124 final size:126
Alignment explanation
Indices: 44878386--44878666 Score: 430
Period size: 124 Copynumber: 2.3 Consensus size: 126
44878376 CCACGAGGGT
* *
44878386 GCGATTTGACACTATTTGCTCAG-AAACATCAAAAAATAATTATTTCCTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAATAATTATTTCCTACATGACCAACTGTAG
* **
44878450 CGAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATTA
66 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTGGTAGAA
* *
44878511 GCGATTTTATACTATTTGCTCAGAAAACGTC-AAAAA-AATTATTTCTTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAATAATTATTTCCTACATGACCAACTGTAG
44878574 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
66 CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
*
44878635 GCAATTTTATACTATTTGAC-CAG-AAACATCAA
1 GCGATTTTATACTATTTG-CTCAGAAAACATCAA
44878667 CTCGAAATAA
Statistics
Matches: 143, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
123 7 0.05
124 103 0.72
125 27 0.19
126 6 0.04
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAATAATTATTTCCTACATGACCAACTGTAG
CGAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
Found at i:44885917 original size:3 final size:3
Alignment explanation
Indices: 44885909--44885940 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44885899 ATTCACTAGA
44885909 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44885941 AAGATATTTG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:44889848 original size:20 final size:21
Alignment explanation
Indices: 44889809--44889850 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
44889799 TCAAATATAT
44889809 TTAAATAATAATCAAACCAAA
1 TTAAATAATAATCAAACCAAA
**
44889830 TTAAATAA-AATTGAACCAAA
1 TTAAATAATAATCAAACCAAA
44889850 T
1 T
44889851 AATATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAAATAATAATCAAACCAAA
Found at i:44903857 original size:1 final size:1
Alignment explanation
Indices: 44903851--44903876 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
44903841 ATCTAAAATA
44903851 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
44903877 GGGTTTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:44918607 original size:24 final size:24
Alignment explanation
Indices: 44918580--44918632 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
44918570 ATATGTAAGT
*
44918580 ATAATTATAATACTATATAAT-ATA
1 ATAATGATAATACTA-ATAATAATA
*
44918604 ATAATGATAATAGTAATAATAATA
1 ATAATGATAATACTAATAATAATA
44918628 ATAAT
1 ATAAT
44918633 AACAAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAATGATAATACTAATAATAATA
Found at i:44918623 original size:3 final size:3
Alignment explanation
Indices: 44918580--44918634 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
44918570 ATATGTAAGT
* * * *
44918580 ATA ATT ATA ATA CTA TATA AT- ATA ATA ATG ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44918625 ATA ATA ATA A
1 ATA ATA ATA A
44918635 CAAAAACTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:44920454 original size:43 final size:44
Alignment explanation
Indices: 44920249--44920463 Score: 150
Period size: 43 Copynumber: 4.9 Consensus size: 44
44920239 AAAATCTGCC
* * *
44920249 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATATG-ATTTGTA
1 ATCTTTGATCTACTCCACTGCTGCCTAGGGAGATA-GAATTTGTT
** * * **
44920293 ATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAA-TTACT
1 ATCTTTGATCTACTCCACTGCTGCCTAGGGAGATAGAATTTGTT
** * * * * * * * *
44920336 GGCTTTAATGTACTCCACTG-TAACCATAAGGAGGTAAAATCTGTC
1 ATCTTTGATCTACTCCACTGCT-GCC-TAGGGAGATAGAATTTGTT
* ** *
44920381 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATA-AATTTGTT
1 ATCTTTGATCTACTCCACTGCTGCCTAGGGAGATAGAATTTGTT
* *
44920424 ATCTTTGATCTATTCCACTGCTGCCCAGGGAGATAGAATT
1 ATCTTTGATCTACTCCACTGCTGCCTAGGGAGATAGAATT
44920464 ACTGGCTTCA
Statistics
Matches: 126, Mismatches: 39, Indels: 12
0.71 0.22 0.07
Matches are distributed among these distances:
42 1 0.01
43 55 0.44
44 53 0.42
45 16 0.13
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
ATCTTTGATCTACTCCACTGCTGCCTAGGGAGATAGAATTTGTT
Found at i:44920482 original size:131 final size:131
Alignment explanation
Indices: 44920189--44920567 Score: 566
Period size: 131 Copynumber: 2.9 Consensus size: 131
44920179 GCAACTTCAA
44920189 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTAACC-TCAGGGAGGTAAAATCTGCCATC
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAACCAT-AGGGAGGTAAAATCTGCCATC
* * * * * **
44920252 TTCGATCTACTCCACTACTGCCTAGGGAGATATGATTTGTAATCTTCAATCTATTCCACTGCTGC
64 TTCGATCTGCTCCACTATTGCTTAGGGAGATA-AATTTGTTATCTTTGATCTATTCCACTGCTGC
44920317 CCAG
128 CCAG
* * *
44920321 GGAGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCATAAGGAGGTAAAATCTGTCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCTGCCATCTT
*
44920386 TGATCTGCTCCACTATTGCTTAGGGAGATAAATTTGTTATCTTTGATCTATTCCACTGCTGCCCA
66 CGATCTGCTCCACTATTGCTTAGGGAGATAAATTTGTTATCTTTGATCTATTCCACTGCTGCCCA
44920451 G
131 G
*
44920452 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAAT-TCACCATCT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCT-GCCATCT
* *
44920516 TCGATCTGCTCCACTATTGCTTAGGGAAATAAAATATGTTATCTTTGATCTA
65 TCGATCTGCTCCACTATTGCTTAGGGAGAT-AAATTTGTTATCTTTGATCTA
44920568 CTTCATGCCA
Statistics
Matches: 225, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 121 0.54
132 102 0.45
133 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (131 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCTGCCATCTT
CGATCTGCTCCACTATTGCTTAGGGAGATAAATTTGTTATCTTTGATCTATTCCACTGCTGCCCA
G
Found at i:44920597 original size:44 final size:45
Alignment explanation
Indices: 44920549--44920656 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
44920539 GGGAAATAAA
** *
44920549 ATATGTTATCTTTGATCTACTTC-ATGCCAGTACATGAAGACAAG
1 ATATGTTATCTTTGATCTACTTCGACACCAGTACAGGAAGACAAG
* * * **
44920593 ATATGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATATGTTATCTTTGATCTACTTCGACACCAGTACAGGAAGACAAG
* *
44920638 ATCTGTTATCTTTAATCTA
1 ATATGTTATCTTTGATCTA
44920657 TTCCACTACT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
44 21 0.41
45 30 0.59
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (45 bp):
ATATGTTATCTTTGATCTACTTCGACACCAGTACAGGAAGACAAG
Found at i:44920870 original size:132 final size:132
Alignment explanation
Indices: 44920631--44921279 Score: 978
Period size: 132 Copynumber: 4.9 Consensus size: 132
44920621 CAGTATGGGA
** * * * * * * *
44920631 AGACAAGATCTGTTATCTTTAATCTATTCCACTACTGCCTAGGG-AGATACAATTATTGGTTTTA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* *
44920695 ATGTACTCCGCTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTACTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTA
44920760 GGG
130 GGG
* * *
44920763 ACACAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * * *
44920828 AGTACTCGACTGTAACGACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
44920893 GG
131 GG
* * *
44920895 AGACAAGATCTGAAATCTTCAATCTATTCCATTGCTTCCCAGGGAAGTAGAATTACTCGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
44920960 TGTACTCTACTGTAACCACGGGGAGGTAAAATTCACTATCTTTGATCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
44921025 GG
131 GG
* * *
44921027 AGACAAGATCTGAAATCTTCAATCCATTTCACTGCTGCCCAAGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
*
44921092 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCCCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
44921157 GG
131 GG
*
44921159 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGACTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
44921224 TGTACTCCACTGTAACCACAGGAAGGTAAAA-TCTGCCATCTTTGATCTGCCCCACT
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACT
44921280 GTCTATGCAG
Statistics
Matches: 470, Mismatches: 45, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
131 2 0.00
132 466 0.99
133 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:44922494 original size:7 final size:7
Alignment explanation
Indices: 44922483--44922545 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
44922473 TCTATTTTAC
44922483 TTTTTCCA
1 TTTTT-CA
44922491 TTTTTCA
1 TTTTTCA
44922498 TTTTTCA
1 TTTTTCA
44922505 TTTTTC-
1 TTTTTCA
*
44922511 CTTTTCA
1 TTTTTCA
44922518 CTTTTTCA
1 -TTTTTCA
44922526 TTTTTCA
1 TTTTTCA
*
44922533 TTTCATCA
1 TTT-TTCA
44922541 TTTTT
1 TTTTT
44922546 TAATGACTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.10
7 26 0.54
8 17 0.35
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTTCA
Found at i:44922501 original size:15 final size:14
Alignment explanation
Indices: 44922483--44922545 Score: 74
Period size: 15 Copynumber: 4.4 Consensus size: 14
44922473 TCTATTTTAC
44922483 TTTTTCCATTTTTCA
1 TTTTT-CATTTTTCA
44922498 TTTTTCATTTTTC-
1 TTTTTCATTTTTCA
*
44922511 CTTTTCACTTTTTCA
1 TTTTTCA-TTTTTCA
*
44922526 TTTTTCATTTCATCA
1 TTTTTCATTT-TTCA
44922541 TTTTT
1 TTTTT
44922546 TAATGACTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.14
14 17 0.40
15 19 0.45
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:44922508 original size:28 final size:28
Alignment explanation
Indices: 44922476--44922535 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
44922466 TAGCCTCTCT
*
44922476 ATTTTACTTTTTC-CATTTTTCATTTTTC
1 ATTTTACCTTTTCAC-TTTTTCATTTTTC
*
44922504 ATTTTTCCTTTTCACTTTTTCATTTTTC
1 ATTTTACCTTTTCACTTTTTCATTTTTC
44922532 ATTT
1 ATTT
44922536 CATCATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (28 bp):
ATTTTACCTTTTCACTTTTTCATTTTTC
Found at i:44927161 original size:17 final size:19
Alignment explanation
Indices: 44927135--44927173 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
44927125 AATGATATGC
*
44927135 ATATATGTAT-TTTCA-AA
1 ATATAAGTATGTTTCATAA
44927152 ATATAAGTATGTTTCATAA
1 ATATAAGTATGTTTCATAA
44927171 ATA
1 ATA
44927174 AATTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 5 0.26
19 5 0.26
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (19 bp):
ATATAAGTATGTTTCATAA
Found at i:44927458 original size:18 final size:20
Alignment explanation
Indices: 44927431--44927481 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
44927421 ATATGTAAGT
*
44927431 ATAATTATAATACT-ATA-TA
1 ATAATAATAATA-TGATAGTA
44927450 AT-ATAATAATGATGATAGTA
1 ATAATAATAAT-ATGATAGTA
44927470 ATAATAATAATA
1 ATAATAATAATA
44927482 ACAAAAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.30
19 6 0.22
20 5 0.19
21 8 0.30
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (20 bp):
ATAATAATAATATGATAGTA
Found at i:44927458 original size:24 final size:24
Alignment explanation
Indices: 44927431--44927482 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
44927421 ATATGTAAGT
*
44927431 ATAATTATAATACTATATAAT-ATA
1 ATAATGATAATACTA-ATAATAATA
* *
44927455 ATAATGATGATAGTAATAATAATA
1 ATAATGATAATACTAATAATAATA
44927479 ATAA
1 ATAA
44927483 CAAAAACTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (24 bp):
ATAATGATAATACTAATAATAATA
Found at i:44929862 original size:21 final size:21
Alignment explanation
Indices: 44929823--44929862 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44929813 ATTTTAAAAT
***
44929823 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAAATTTTTA
44929844 ATTTTTAAAATAAAATTTT
1 ATTTTTAAAATAAAATTTT
44929863 GGTATTTATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTTAAAATAAAATTTTTA
Found at i:44935859 original size:24 final size:22
Alignment explanation
Indices: 44935827--44935878 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
44935817 TTAAAATGAT
*
44935827 TAAATATAAAATTATAATAAATAA
1 TAAATATAAAATCAT--TAAATAA
*
44935851 TAAATATAAAATCATTAAATAT
1 TAAATATAAAATCATTAAATAA
44935873 TAAATA
1 TAAATA
44935879 AACTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 12 0.46
24 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAATATAAAATCATTAAATAA
Found at i:44946899 original size:68 final size:68
Alignment explanation
Indices: 44946770--44946899 Score: 149
Period size: 69 Copynumber: 1.9 Consensus size: 68
44946760 TGGAAGCAAC
* * * **
44946770 AAAAGCTTGATTTAGTTCTACCCATTCTTCCACGTCATGTTCTCTCTGCCTCCGTTGTTCCCTTT
1 AAAAGCTTGATTTAGTTCCACCAATTCTTCCACGCCATGTTCTCTCTGCCTCCGAAGTTCCCTTT
44946835 TAT
66 TAT
* *
44946838 AAAAGTTTGATTTAGTTCCCACTAATTCTTCCAAC-CCATGTTCTCTCAT-CCTCC-AAGTTCCC
1 AAAAGCTTGATTTAGTT-CCACCAATTCTTCC-ACGCCATGTTCTCTC-TGCCTCCGAAGTTCCC
44946900 ACTCATTTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
68 22 0.42
69 27 0.52
70 3 0.06
ACGTcount: A:0.20, C:0.31, G:0.10, T:0.39
Consensus pattern (68 bp):
AAAAGCTTGATTTAGTTCCACCAATTCTTCCACGCCATGTTCTCTCTGCCTCCGAAGTTCCCTTT
TAT
Found at i:44950707 original size:29 final size:28
Alignment explanation
Indices: 44950633--44950707 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
44950623 ACTTTAGGTT
* *
44950633 CCTTAAAAAGTTAG-TAAAAAATTTGGGC
1 CCTTAAAAA-TTAGAAAAAAAATTTAGGC
* *
44950661 CCTTAAAAGTTGATAAAAAAAATTTAGGC
1 CCTTAAAAATT-AGAAAAAAAATTTAGGC
44950690 CCATTAAAAATTAGAAAA
1 CC-TTAAAAATTAGAAAA
44950708 TAATATTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.05
28 9 0.24
29 19 0.50
30 8 0.21
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (28 bp):
CCTTAAAAATTAGAAAAAAAATTTAGGC
Found at i:44957659 original size:109 final size:105
Alignment explanation
Indices: 44957438--44957747 Score: 379
Period size: 109 Copynumber: 3.0 Consensus size: 105
44957428 AAATTATTTT
* * * * *
44957438 TTGGGTACTGGCCTGTCAATGGCCGACACTCA--AC-AGTAAAAAAAAATTCCTTTTTT--TATC
1 TTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAATTAAAAAAAAATTCTTTTTTTCGTGTC
* *
44957498 AGAATAATATATAAATATACGAAAAAA--TAAAAAAAAAT
66 AGAATAAGATATAAATATACGAAAAAATTTAAAAAAAAAA
44957536 TTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAATTTTAAAAAAAAATTTACTTTTCTTTC
1 TTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAA--TTAAAAAAAAA-TT-CTTTT-TTTC
* *
44957601 GTGTCAGAATTAGATATAAATATTC-AAAAAATTTAAAAAAAAAA
61 GTGTCAGAATAAGATATAAATATACGAAAAAATTTAAAAAAAAAA
*
44957645 TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT-AAAAAAAATTCTTTTTTTTCGTG
1 TTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTAC-AATTAAAAAAAAATTC-TTTTTTTCGTG
* *
44957709 TCAG-ATCAGATATAAATATACGAAAAAATTTTAAAAAAA
64 TCAGAATAAGATATAAATATACGAAAAAATTTAAAAAAAA
44957748 TTCTTTTTTT
Statistics
Matches: 184, Mismatches: 13, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
98 30 0.16
100 2 0.01
101 1 0.01
103 10 0.05
104 17 0.09
105 32 0.17
106 9 0.05
107 14 0.08
108 22 0.12
109 45 0.24
110 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (105 bp):
TTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAATTAAAAAAAAATTCTTTTTTTCGTGTC
AGAATAAGATATAAATATACGAAAAAATTTAAAAAAAAAA
Found at i:44957935 original size:88 final size:86
Alignment explanation
Indices: 44957761--44957935 Score: 219
Period size: 88 Copynumber: 2.0 Consensus size: 86
44957751 TTTTTTTTTA
* * * *
44957761 GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAAAG
1 GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCATCTAGTGGCA-GAAGTAAATCGAAGAAAG
*
44957826 CAGATCATGTCTTCTTATATTG
65 CAGATCATGTCTTCATATATTG
*
44957848 GTAGGAAGTGGATCAAATG-TGCAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAAATCGAAGA
1 GTAGGAAGTGGATCAAA-GATGCAGATCTTGTCTT--CAT-CTAGTGGCAGAAGTAAATCGAAGA
* *
44957911 AAGCAGATCTTGTCTTCATGTATTG
62 AAGCAGATCATGTCTTCATATATTG
44957936 ACGTGAAGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
87 31 0.41
88 37 0.49
89 3 0.04
90 5 0.07
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (86 bp):
GTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCATCTAGTGGCAGAAGTAAATCGAAGAAAGC
AGATCATGTCTTCATATATTG
Found at i:44957997 original size:44 final size:44
Alignment explanation
Indices: 44957761--44957998 Score: 193
Period size: 44 Copynumber: 5.4 Consensus size: 44
44957751 TTTTTTTTTA
* * *
44957761 GTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCATGTATTG
1 GTAGGAAGTAGATCGAAAATAGCAGATCTTGTCTTCATATATTG
* * * *
44957804 GCATGAAGTAGATCGAAGAA-AGCAGATCATGTCTTCTTATATTG
1 GTAGGAAGTAGATCGAA-AATAGCAGATCTTGTCTTCATATATTG
* * ** *
44957848 GTAGGAAGTGGATC--AAATGTGCAGATCTTGTCTTCCCATACTG
1 GTAGGAAGTAGATCGAAAAT-AGCAGATCTTGTCTTCATATATTG
* * *
44957891 GTGGCGAAGTAAATCGAAGAA-AGCAGATCTTGTCTTCATGTATT-
1 GTAG-GAAGTAGATCGAA-AATAGCAGATCTTGTCTTCATATATTG
* * * *
44957935 G-ACGTGAAGTAGATCGAAAATAGTAGGTCCTGTCTTCCTATATTG
1 GTA-G-GAAGTAGATCGAAAATAGCAGATCTTGTCTTCATATATTG
*
44957980 GTAGGAAGTGGATCGAAAA
1 GTAGGAAGTAGATCGAAAA
44957999 ATAGATCCTA
Statistics
Matches: 151, Mismatches: 32, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 38 0.25
44 86 0.57
45 20 0.13
46 2 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GTAGGAAGTAGATCGAAAATAGCAGATCTTGTCTTCATATATTG
Found at i:44973042 original size:6 final size:6
Alignment explanation
Indices: 44973031--44973077 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
44973021 GAATTTAGAT
44973031 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATA
44973078 TATGTCCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (6 bp):
ATATAG
Found at i:44973863 original size:109 final size:109
Alignment explanation
Indices: 44973672--44973891 Score: 413
Period size: 109 Copynumber: 2.0 Consensus size: 109
44973662 AACATGCCAC
*
44973672 CATGTTTGTGCTGCTTGAATCTCCAGTGCTGTAAGTGTTGAACCAGTTGCAACAAGATGGGTGTC
1 CATGTTTGCGCTGCTTGAATCTCCAGTGCTGTAAGTGTTGAACCAGTTGCAACAAGATGGGTGTC
* *
44973737 TCCATAGGCTAACCCCATTAGTGCAGCAGCGTAATATGCATTCA
66 TCCATAGGCTAACCCCATTAGTGCAGCAGAGTAATATCCATTCA
44973781 CATGTTTGCGCTGCTTGAATCTCCAGTGCTGTAAGTGTTGAACCAGTTGCAACAAGATGGGTGTC
1 CATGTTTGCGCTGCTTGAATCTCCAGTGCTGTAAGTGTTGAACCAGTTGCAACAAGATGGGTGTC
44973846 TCCATAGGCTAACCCCATTAGTGCAGCAGAGTAATATCCATTCA
66 TCCATAGGCTAACCCCATTAGTGCAGCAGAGTAATATCCATTCA
44973890 CA
1 CA
44973892 GCTTCACTAG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (109 bp):
CATGTTTGCGCTGCTTGAATCTCCAGTGCTGTAAGTGTTGAACCAGTTGCAACAAGATGGGTGTC
TCCATAGGCTAACCCCATTAGTGCAGCAGAGTAATATCCATTCA
Found at i:44988039 original size:20 final size:20
Alignment explanation
Indices: 44988014--44988053 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44988004 AATATTTTCC
*
44988014 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
44988034 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44988054 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44988059 original size:34 final size:34
Alignment explanation
Indices: 44988002--44988067 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
44987992 CAAACACCAG
*
44988002 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
44988037 AAAACATTTTCCAG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
44988068 ATATTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:44997079 original size:5 final size:5
Alignment explanation
Indices: 44997065--44997093 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
44997055 ACATAAGTGC
44997065 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
44997094 ATTGTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:45003050 original size:15 final size:16
Alignment explanation
Indices: 45003020--45003052 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45003010 TATCTTTATT
*
45003020 TTGAAAATTAATAATA
1 TTGAAAAATAATAATA
45003036 TTGAAAAAT-ATAATA
1 TTGAAAAATAATAATA
45003051 TT
1 TT
45003053 TTAATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TTGAAAAATAATAATA
Found at i:45003453 original size:25 final size:26
Alignment explanation
Indices: 45003399--45003454 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
45003389 AATTCGTTCA
45003399 TTTTTACTTTCCTATTTCTTGTTCTC
1 TTTTTACTTTCCTATTTCTTGTTCTC
* *
45003425 -TTTTGCTTTTCTATTT-TT-TTACTC
1 TTTTTACTTTCCTATTTCTTGTT-CTC
45003449 TTTTTA
1 TTTTTA
45003455 TTATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.08
24 5 0.20
25 18 0.72
ACGTcount: A:0.09, C:0.18, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTTTACTTTCCTATTTCTTGTTCTC
Found at i:45004367 original size:125 final size:125
Alignment explanation
Indices: 45004198--45004429 Score: 358
Period size: 125 Copynumber: 1.9 Consensus size: 125
45004188 TCAAAGGTAA
* * * * *
45004198 TTTTTTTAATTATCATTTATTTGTTTAGGATTTAGGGTTATTTTGTGGTGTTATAAGTGATAGT-
1 TTTTTTTAACTATCATTTATTTGTTTAGGATTTAAGATTATTTTGTGGTGTTATAACTAATA-TC
*
45004262 TTTGTTATATTTTGTGGCTTAGGGTTTAGAGGAGGCAGCAATATATTTGAGTTTGGTAAAC
65 TTTGTTATATTTTGTGGCTTAGGGTTTAGAGGAGGCAACAATATATTTGAGTTTGGTAAAC
*
45004323 TTTTTTTAACTATCATTTATTTGTTTAGGGTTTAAGATTATTTTGTGGTGTTATAACTAATATCT
1 TTTTTTTAACTATCATTTATTTGTTTAGGATTTAAGATTATTTTGTGGTGTTATAACTAATATCT
* * *
45004388 TTGTTATGTTTTGTGGTTTAGGGTTTATAGGAGGCAACAATA
66 TTGTTATATTTTGTGGCTTAGGGTTTAGAGGAGGCAACAATA
45004430 GATTAAGCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
124 1 0.01
125 95 0.99
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.50
Consensus pattern (125 bp):
TTTTTTTAACTATCATTTATTTGTTTAGGATTTAAGATTATTTTGTGGTGTTATAACTAATATCT
TTGTTATATTTTGTGGCTTAGGGTTTAGAGGAGGCAACAATATATTTGAGTTTGGTAAAC
Found at i:45009227 original size:29 final size:29
Alignment explanation
Indices: 45009184--45009239 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
45009174 AATAGGGCCC
* * *
45009184 AGTGTCGCTTGACACATCTCGTCCACCTG
1 AGTGTCGCCTAACACATCTCCTCCACCTG
45009213 AGTGTCGCCTAACACATCTCCTCCACC
1 AGTGTCGCCTAACACATCTCCTCCACC
45009240 CCTTTAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (29 bp):
AGTGTCGCCTAACACATCTCCTCCACCTG
Found at i:45010077 original size:23 final size:23
Alignment explanation
Indices: 45010028--45010077 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
45010018 ATTTAAAGTT
* *
45010028 TCAATACTTAATTTTGTTTTTTT
1 TCAATACTTAATTTTGTTATTTA
45010051 TCAATACTTAATTTT-TTAATTTA
1 TCAATACTTAATTTTGTT-ATTTA
45010074 TCAA
1 TCAA
45010078 AAATATCCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.58
Consensus pattern (23 bp):
TCAATACTTAATTTTGTTATTTA
Found at i:45015904 original size:15 final size:15
Alignment explanation
Indices: 45015884--45015917 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45015874 GATGTCAATT
*
45015884 TTTTTAAAAAATAAC
1 TTTTTAAAAAATAAA
*
45015899 TTTTTAATAAATAAA
1 TTTTTAAAAAATAAA
45015914 TTTT
1 TTTT
45015918 ATATATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTTAAAAAATAAA
Found at i:45016051 original size:24 final size:25
Alignment explanation
Indices: 45016024--45016071 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
45016014 TACCAATAAA
* *
45016024 CTAAAATTCTTAA-ATTTTTTTCAT
1 CTAAAATTATTAATAATTTTTTCAT
45016048 CTAAAATTATTAATAATTTTTTCA
1 CTAAAATTATTAATAATTTTTTCA
45016072 AAAGTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (25 bp):
CTAAAATTATTAATAATTTTTTCAT
Found at i:45026253 original size:21 final size:19
Alignment explanation
Indices: 45026236--45026272 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
45026226 CCACATATAG
45026236 GAGCAACTGTTCCTCATAA
1 GAGCAACTGTTCCTCATAA
*
45026255 TAG-AACTGTTCCTCATAA
1 GAGCAACTGTTCCTCATAA
45026273 TAGAGTTCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (19 bp):
GAGCAACTGTTCCTCATAA
Found at i:45026263 original size:18 final size:18
Alignment explanation
Indices: 45026240--45026276 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45026230 ATATAGGAGC
45026240 AACTGTTCCTCATAATAG
1 AACTGTTCCTCATAATAG
45026258 AACTGTTCCTCATAATAG
1 AACTGTTCCTCATAATAG
45026276 A
1 A
45026277 GTTCGACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (18 bp):
AACTGTTCCTCATAATAG
Found at i:45028739 original size:15 final size:14
Alignment explanation
Indices: 45028719--45028749 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
45028709 TAAATAATAA
45028719 ATTATATTAATTATT
1 ATTATATT-ATTATT
45028734 ATTATATTATTATT
1 ATTATATTATTATT
45028748 AT
1 AT
45028750 GAAATAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATATTATTATT
Found at i:45029214 original size:41 final size:41
Alignment explanation
Indices: 45029157--45029476 Score: 317
Period size: 41 Copynumber: 7.8 Consensus size: 41
45029147 TTTTTTAAAC
* *
45029157 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
45029198 CTTTAGCGGCGTTTTTGTCT-AGACGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTCTAAG-CGCCGCTAATGCTCGGA-T
* * * * *
45029239 CTTTAGCAGAGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
45029280 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTTGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
45029321 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * * *
45029362 CTTTAGCGGTGTTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GGAT
* * * ** *
45029403 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG-TATTGAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
** *
45029444 CTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
45029477 AGTAACAAAA
Statistics
Matches: 235, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
40 8 0.03
41 222 0.94
42 5 0.02
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.34
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:45029376 original size:123 final size:121
Alignment explanation
Indices: 45029157--45029477 Score: 355
Period size: 123 Copynumber: 2.6 Consensus size: 121
45029147 TTTTTTAAAC
* * * *
45029157 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGTCTAGAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTTAGATCTTTAGCGGCGTTTTTATCAAG-C
* *
45029222 GCCGCTAATGCTCGAGTCTTTAGCAGAG-TTTT-CGTGTAGGCGCCGCTAATGCTC-GGAT
65 GCCGCTAATACTCGAGTCTTTAGCAGAGTTTTTAC-TG-A-GCGCCACTAATGCTCTGG-T
* *
45029280 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTTGGATCTTTAGCGGCGTTTTTATACAAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTTAGATCTTTAGCGGCGTTTTTAT-CAAGC
* * * *
45029345 GCCGCTAATACTCG-GATCTTTAGCGGTGTTTTTAACTGAGCGCCACTAATTCTCTTGT
65 GCCGCTAATACTCGAG-TCTTTAGCAGAGTTTTT-ACTGAGCGCCACTAATGCTCTGGT
* * * * * *
45029403 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG-TATTGACCTTTAGCGGCGTTTTTACCGAAG
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-TAGATCTTTAGCGGCGTTTTTATC-AAG
45029467 CGCCGCTAATA
64 CGCCGCTAATA
45029478 GTAACAAAAA
Statistics
Matches: 171, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
122 3 0.02
123 156 0.91
124 9 0.05
125 2 0.01
126 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.34
Consensus pattern (121 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTTAGATCTTTAGCGGCGTTTTTATCAAGCG
CCGCTAATACTCGAGTCTTTAGCAGAGTTTTTACTGAGCGCCACTAATGCTCTGGT
Found at i:45034323 original size:31 final size:30
Alignment explanation
Indices: 45034282--45034677 Score: 286
Period size: 31 Copynumber: 13.0 Consensus size: 30
45034272 CATTTTTTTA
* *
45034282 ATTATTCATAAATTACATAACATACATTAAT
1 ATTATACATAAATTACATAACTTA-ATTAAT
45034313 ATTATACATAAATTACATAACTTAATTAATTAATTAAT
1 ATTATACATAAATTACATAAC--------TTAATTAAT
*
45034351 ATTATACATAAATTACATAACTTAATT-TT
1 ATTATACATAAATTACATAACTTAATTAAT
*
45034380 ATGT-T--AT-TA-TACATAACTTACATTAAT
1 AT-TATACATAAATTACATAACTTA-ATTAAT
45034407 ATTATACATAAATTACATAACTTAATTAATT
1 ATTATACATAAATTACATAACTTAATTAA-T
* *
45034438 AATATACATAAGTTACATAACTTACATTAAT
1 ATTATACATAAATTACATAACTTA-ATTAAT
*
45034469 ATGATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAAC----TTAATTAAT
**
45034503 ATTATACATATGTTACATAACTTACATTAAT
1 ATTATACATAAATTACATAACTTA-ATTAAT
*
45034534 ATGATACATAAATTACATAACTTAGTTAATTAAT
1 ATTATACATAAATTACATAAC----TTAATTAAT
* *
45034568 ATTATACATAACTTAC--AACTT-A--CA-
1 ATTATACATAAATTACATAACTTAATTAAT
* * ** *
45034592 ACT-TACATAACTTACAT---TTTTTTTA-
1 ATTATACATAAATTACATAACTTAATTAAT
* *
45034617 ATTATTCATAAATTACATAACTTAATTAGTT
1 ATTATACATAAATTACATAACTTAATTA-AT
*
45034648 AATATACATAAATTACATAACTTAATTAAT
1 ATTATACATAAATTACATAACTTAATTAAT
45034678 TAATTAATAT
Statistics
Matches: 294, Mismatches: 33, Indels: 77
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.01
23 12 0.04
24 2 0.01
25 15 0.05
26 17 0.06
27 7 0.02
28 2 0.01
29 10 0.03
30 17 0.06
31 123 0.42
32 8 0.03
34 44 0.15
35 6 0.02
38 27 0.09
39 2 0.01
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (30 bp):
ATTATACATAAATTACATAACTTAATTAAT
Found at i:45034327 original size:17 final size:17
Alignment explanation
Indices: 45034301--45034365 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
45034291 AAATTACATA
*
45034301 ACATACATTAATATTAT
1 ACATAAATTAATATTAT
45034318 ACATAAATTACATAACTTAATT
1 ACATAAATTA-AT-A-TT-A-T
*
45034340 A-ATTAATTAATATTAT
1 ACATAAATTAATATTAT
45034356 ACATAAATTA
1 ACATAAATTA
45034366 CATAACTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
16 2 0.05
17 17 0.44
18 4 0.10
19 2 0.05
20 4 0.10
21 8 0.21
22 2 0.05
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (17 bp):
ACATAAATTAATATTAT
Found at i:45034411 original size:25 final size:25
Alignment explanation
Indices: 45034364--45034411 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
45034354 ATACATAAAT
* *
45034364 TACATAACTTAATTTTATGTTATTA
1 TACATAACTTAATTTAATATTATTA
45034389 TACATAACTTACA-TTAATATTAT
1 TACATAACTTA-ATTTAATATTAT
45034412 ACATAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (25 bp):
TACATAACTTAATTTAATATTATTA
Done.