Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 359 of 438
Found at i:112081663 original size:14 final size:13
Alignment explanation
Indices: 112081644--112081690 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
112081634 GCTCAATCAA
*
112081644 TTTTTTTCCTTTC
1 TTTTTTTTCTTTC
112081657 TTTTTTTTTCTTTC
1 -TTTTTTTTCTTTC
*
112081671 TTGTTCTTTC-TTC
1 TT-TTTTTTCTTTC
112081684 TTTTTTT
1 TTTTTTT
112081691 AGAACAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 4 0.14
13 7 0.24
14 18 0.62
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:112084273 original size:21 final size:21
Alignment explanation
Indices: 112084260--112084300 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
112084250 TAATAATGAG
112084260 AATAACAACACTAATAAAAAC
1 AATAACAACACTAATAAAAAC
*
112084281 AGTAACAACACTAATAAAAA
1 AATAACAACACTAATAAAAA
112084301 AAAGTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.66, C:0.17, G:0.02, T:0.15
Consensus pattern (21 bp):
AATAACAACACTAATAAAAAC
Found at i:112087308 original size:213 final size:213
Alignment explanation
Indices: 112086936--112087364 Score: 655
Period size: 213 Copynumber: 2.0 Consensus size: 213
112086926 TAGTTATTGC
* * * *
112086936 TATAGGGGTTATTTTGAGGTCTAGAATTATTATCCATAAAGTTGACTTGTTCATACTCCATGTTA
1 TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
* * *
112087001 GAACTGAAGGGTAAACCTTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTATTGG
66 GAACTGAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTGG
* * * *
112087066 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTCTTTAGTACCTT-TACCTGACTTGCC
131 ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAAT-CCTTCTACCTGACATGCC
112087130 AACATAACAACTACATCCA
195 AACATAACAACTACATCCA
* *
112087149 TATAAGGGTTATTTTGCGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATGCTCCATGTTA
1 TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
* *
112087214 GAA-TCGAAGGGAAAACATTCTGGATTGATCATCCCTGCTCCAGTTGCATCACATTGCATTACTG
66 GAACT-GAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTG
*
112087278 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATGCTTCTACCTGACATGCC
130 GATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATCCTTCTACCTGACATGCC
* * *
112087343 AACATAGCAACTGCTTCCA
195 AACATAACAACTACATCCA
112087362 TAT
1 TAT
112087365 TAAAAACACC
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
212 4 0.02
213 191 0.98
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (213 bp):
TATAAGGGTTATTTTGAGATCTAGAATTATTACCCATAAAGTTGACTTGCTCATACTCCATGTTA
GAACTGAAGGGAAAACATTCGGGATTGATCATCCCCGCTCCAGTTGCATCACATTGCATTACTGG
ATTCATCGTATTATTGCAACTCAAACCATCAATTTTTTTATTCAATCCTTCTACCTGACATGCCA
ACATAACAACTACATCCA
Found at i:112088290 original size:14 final size:14
Alignment explanation
Indices: 112088259--112088319 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 14
112088249 TCAAACAAAC
*
112088259 AAAAAATTAAAATG
1 AAAAAATTAAAATA
*
112088273 AAAAAATTAAATTA
1 AAAAAATTAAAATA
*
112088287 AAAACA--AAAATA
1 AAAAAATTAAAATA
** *
112088299 TGAAAATAAAAATA
1 AAAAAATTAAAATA
112088313 AAAAAAT
1 AAAAAAT
112088320 GGCTAAATTA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
12 8 0.22
14 28 0.78
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAAAATTAAAATA
Found at i:112088296 original size:20 final size:20
Alignment explanation
Indices: 112088273--112088320 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
112088263 AATTAAAATG
* *
112088273 AAAAAATTAAATTAAAAACA
1 AAAAAATGAAAATAAAAACA
* *
112088293 AAAATATGAAAATAAAAATA
1 AAAAAATGAAAATAAAAACA
112088313 AAAAAATG
1 AAAAAATG
112088321 GCTAAATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAAAATGAAAATAAAAACA
Found at i:112089218 original size:18 final size:19
Alignment explanation
Indices: 112089180--112089220 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
112089170 TGGTTCATGT
112089180 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
112089199 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
112089217 TTTC
1 TTTC
112089221 TCATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:112089988 original size:38 final size:35
Alignment explanation
Indices: 112089929--112090029 Score: 129
Period size: 31 Copynumber: 2.9 Consensus size: 35
112089919 TCAATCATGC
*
112089929 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
112089968 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
112089999 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
112090030 ACTGGCCGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
31 27 0.47
33 3 0.05
34 1 0.02
36 1 0.02
38 14 0.25
39 11 0.19
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:112089990 original size:31 final size:31
Alignment explanation
Indices: 112089952--112090045 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
112089942 CCTTTTCATA
*
112089952 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
112089983 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
112090014 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
112090044 TT
1 TT
112090046 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 13 0.21
31 49 0.79
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:112090289 original size:24 final size:24
Alignment explanation
Indices: 112090238--112090403 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
112090228 GCTTTATCAT
*
112090238 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
112090263 ATAACTGGGTCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
112090287 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
112090310 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
112090334 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
112090358 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
112090381 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
112090404 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 45 0.34
24 74 0.56
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:112090338 original size:71 final size:71
Alignment explanation
Indices: 112090238--112090404 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
112090228 GCTTTATCAT
* * *
112090238 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGTCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
112090302 GCCCTTTA
64 GCCCTTTA
* *
112090310 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
112090375 CCTTTA
66 CCTTTA
112090381 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
112090405 CACTTCCTCC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.87
72 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:112090404 original size:47 final size:48
Alignment explanation
Indices: 112090238--112090403 Score: 248
Period size: 47 Copynumber: 3.5 Consensus size: 48
112090228 GCTTTATCAT
* * *
112090238 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGTCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
112090287 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
112090334 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
112090381 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
112090404 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
47 70 0.64
48 27 0.25
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:112090475 original size:9 final size:9
Alignment explanation
Indices: 112090461--112090517 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
112090451 ATCTCATGTG
112090461 CATATCATA
1 CATATCATA
*
112090470 CATATCATGTG
1 CATATCA--TA
112090481 CATATCATA
1 CATATCATA
* *
112090490 CATGTCATGTG
1 CATATCA--TA
112090501 CATATCATA
1 CATATCATA
112090510 CATATCAT
1 CATATCAT
112090518 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:112090477 original size:20 final size:20
Alignment explanation
Indices: 112090449--112090519 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
112090439 GCATTTATAA
*
112090449 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
112090469 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
112090489 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
112090509 ACATATCATGT
1 ACATATCATGT
112090520 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:112090484 original size:11 final size:11
Alignment explanation
Indices: 112090454--112090508 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
112090444 TATAAACATC
112090454 TCATGTGCATA
1 TCATGTGCATA
*
112090465 TCA--TACATA
1 TCATGTGCATA
112090474 TCATGTGCATA
1 TCATGTGCATA
* *
112090485 TCA--TACATG
1 TCATGTGCATA
112090494 TCATGTGCATA
1 TCATGTGCATA
112090505 TCAT
1 TCAT
112090509 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:112090584 original size:25 final size:25
Alignment explanation
Indices: 112090556--112090603 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112090546 ATACATAAAC
* * *
112090556 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
112090581 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
112090604 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:112092387 original size:27 final size:27
Alignment explanation
Indices: 112091842--112092370 Score: 715
Period size: 27 Copynumber: 19.6 Consensus size: 27
112091832 GGGTATTTTA
* *
112091842 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
112091869 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
112091896 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
112091923 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
112091950 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
112091977 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
112092004 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
112092031 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
112092058 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
112092085 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
112092112 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
112092139 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
112092166 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
112092193 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
112092220 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
112092247 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
112092274 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
112092301 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
112092328 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
112092355 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
112092371 GGAGTACTTT
Statistics
Matches: 440, Mismatches: 54, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.01
27 433 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:112093927 original size:18 final size:19
Alignment explanation
Indices: 112093896--112093934 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
112093886 ATTTCAATCA
112093896 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
112093915 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
112093933 AT
1 AT
112093935 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:112099788 original size:18 final size:19
Alignment explanation
Indices: 112099750--112099790 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
112099740 TGGTTCATGT
112099750 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
112099769 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
112099787 TTTC
1 TTTC
112099791 TCATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:112100317 original size:18 final size:19
Alignment explanation
Indices: 112100286--112100324 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
112100276 ATTTCAATCA
112100286 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
112100305 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
112100323 AT
1 AT
112100325 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:112102822 original size:120 final size:120
Alignment explanation
Indices: 112102605--112102844 Score: 453
Period size: 120 Copynumber: 2.0 Consensus size: 120
112102595 AAGGACAAAA
*
112102605 TCGTAAAAAGTGTAAAAGTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
1 TCGTAAAAAGTGTAAAACTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
112102670 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
66 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
*
112102725 TCGTAAAAAGTTTAAAACTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
1 TCGTAAAAAGTGTAAAACTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
*
112102790 TGAATGGACTTAGATGGTAATTAGACCGTTTTAATAGTTAGTGGATATTCATGGC
66 TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
112102845 AAGGTTTTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (120 bp):
TCGTAAAAAGTGTAAAACTAGGTTTCCATTAGTTAAAAAAGTCAAATGGCTATGAAACTTTAAAG
TGAATGGACTTAGATGGTAATTAGACCATTTTAATAGTTAGTGGATATTCATGGC
Found at i:112106543 original size:83 final size:83
Alignment explanation
Indices: 112106420--112106572 Score: 195
Period size: 83 Copynumber: 1.8 Consensus size: 83
112106410 AAGCAGAGCT
* * * *
112106420 GAAGCTATTATAATCTCGCACACTAAGTGTCTTTCGTAGCCGAAGCTGTCTC-AGTCTCGCACAC
1 GAAGCTATTACAATCTCGCACACTAAGTGTCTTTCATAGCCGAAGCTATCTCGA-T-ACGCACAC
112106484 TAAGTGCCATATATATAGCC
64 TAAGTGCCATATATATAGCC
* * *
112106504 GAAGCTATTCCAAT-TCGCGCACTAAGTG-CTTTATATAGCCGAAGCTATCTCGATACGCACACT
1 GAAGCTATTACAATCTCGCACACTAAGTGTCTTT-CATAGCCGAAGCTATCTCGATACGCACACT
112106567 AAGTGC
65 AAGTGC
112106573 AAAACATATC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
82 18 0.30
83 29 0.48
84 13 0.22
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (83 bp):
GAAGCTATTACAATCTCGCACACTAAGTGTCTTTCATAGCCGAAGCTATCTCGATACGCACACTA
AGTGCCATATATATAGCC
Found at i:112106567 original size:40 final size:40
Alignment explanation
Indices: 112106435--112106572 Score: 138
Period size: 40 Copynumber: 3.4 Consensus size: 40
112106425 TATTATAATC
* ** *
112106435 TCGCACACTAAGTGTCTTT-CGTAGCCGAAGCTGTCTCAGT
1 TCGCACACTAAGTGCCTTTATATAGCCGAAGCTATCTCA-T
*
112106475 CTCGCACACTAAGTGCCATATATATAGCCGAAGCTAT-TCCAAT
1 -TCGCACACTAAGTGCC-TTTATATAGCCGAAGCTATCT-C-AT
*
112106518 TCGCGCACTAAGTG-CTTTATATAGCCGAAGCTATCTCGAT
1 TCGCACACTAAGTGCCTTTATATAGCCGAAGCTATCTC-AT
*
112106558 ACGCACACTAAGTGC
1 TCGCACACTAAGTGC
112106573 AAAACATATC
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
40 33 0.41
41 17 0.21
42 16 0.20
43 14 0.17
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (40 bp):
TCGCACACTAAGTGCCTTTATATAGCCGAAGCTATCTCAT
Found at i:112111557 original size:13 final size:15
Alignment explanation
Indices: 112111539--112111570 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
112111529 TTAACTTATC
112111539 AATCTCTT-CCTC-G
1 AATCTCTTACCTCTG
112111552 AATCTCTTACCTCTG
1 AATCTCTTACCTCTG
112111567 AATC
1 AATC
112111571 AACCTTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
AATCTCTTACCTCTG
Found at i:112114142 original size:83 final size:83
Alignment explanation
Indices: 112114011--112114198 Score: 188
Period size: 83 Copynumber: 2.3 Consensus size: 83
112114001 ATACTCGATA
* *
112114011 TCTCACACACTAAGTGCCAAAACATAGCTGAAGCTACTATAATCTCGCACACTAAGAGCCTTT-C
1 TCTCACACACTAAGTGCCAAAACATAGCCGAAGCTACTACAATCTCGCACACTAAGAG-CTTTAC
112114075 ATAGCCAAAGCTATCTCAG
65 ATAGCCAAAGCTATCTCAG
* * * * * * * * *
112114094 TCTCACACATTAAGTGTCATATATATAGCCGAAGCTATTCCAAT-TCGCACATTAAGTGCTTTAT
1 TCTCACACACTAAGTGCCA-AAACATAGCCGAAGCTACTACAATCTCGCACACTAAGAGCTTTAC
*
112114158 ATAGCCGAAGCTATCTC-G
65 ATAGCCAAAGCTATCTCAG
* *
112114176 AT-ACGCACACTAAGTG-CAAAACA
1 -TCTCACACACTAAGTGCCAAAACA
112114199 GATCTGATTC
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
80 3 0.04
81 2 0.02
82 16 0.19
83 46 0.54
84 18 0.21
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (83 bp):
TCTCACACACTAAGTGCCAAAACATAGCCGAAGCTACTACAATCTCGCACACTAAGAGCTTTACA
TAGCCAAAGCTATCTCAG
Found at i:112114183 original size:40 final size:41
Alignment explanation
Indices: 112114099--112114193 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 41
112114089 CTCAGTCTCA
*
112114099 CACATTAAGTGTCATATATATAGCCGAAGCTATTCCAATTCG
1 CACATTAAGTG-CATATATATAGCCGAAGCTATTCCAATACG
* *
112114141 CACATTAAGTGC-TTTATATAGCCGAAGCTA-TCTCGATACG
1 CACATTAAGTGCATATATATAGCCGAAGCTATTC-CAATACG
*
112114181 CACACTAAGTGCA
1 CACATTAAGTGCA
112114194 AAACAGATCT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 2 0.04
40 33 0.70
41 1 0.02
42 11 0.23
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (41 bp):
CACATTAAGTGCATATATATAGCCGAAGCTATTCCAATACG
Found at i:112123077 original size:2 final size:2
Alignment explanation
Indices: 112123070--112123097 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
112123060 TATTTTCTTC
112123070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112123098 AATGCACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112124634 original size:153 final size:153
Alignment explanation
Indices: 112124356--112124663 Score: 607
Period size: 153 Copynumber: 2.0 Consensus size: 153
112124346 AATGGCAGAA
112124356 TTTAATTTACTTCTGGATACTATTGCTTATAATGTGGTTATCAGGCTGCTTTGTGAGAAAGGGGA
1 TTTAATTTACTTCTGGATACTATTGCTTATAATGTGGTTATCAGGCTGCTTTGTGAGAAAGGGGA
112124421 TATGGATATGGCTCATAAATTGATGATAAAGATTGGCTTGATTGATCTTTATCCCAATATGATGA
66 TATGGATATGGCTCATAAATTGATGATAAAGATTGGCTTGATTGATCTTTATCCCAATATGATGA
112124486 CTTATTTTGCAATGATCAAGGGG
131 CTTATTTTGCAATGATCAAGGGG
112124509 TTTAATTTACTTCTGGATACTATTGCTTATAATGTGGTTATCAGGCTGCTTTGTGAGAAAGGGGA
1 TTTAATTTACTTCTGGATACTATTGCTTATAATGTGGTTATCAGGCTGCTTTGTGAGAAAGGGGA
*
112124574 TATGGATATGGCTCATAAATTGATGATAAAGATTGGCTTGATTGATCTTTATCCCGATATGATGA
66 TATGGATATGGCTCATAAATTGATGATAAAGATTGGCTTGATTGATCTTTATCCCAATATGATGA
112124639 CTTATTTTGCAATGATCAAGGGG
131 CTTATTTTGCAATGATCAAGGGG
112124662 TT
1 TT
112124664 CTGTAATGCT
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (153 bp):
TTTAATTTACTTCTGGATACTATTGCTTATAATGTGGTTATCAGGCTGCTTTGTGAGAAAGGGGA
TATGGATATGGCTCATAAATTGATGATAAAGATTGGCTTGATTGATCTTTATCCCAATATGATGA
CTTATTTTGCAATGATCAAGGGG
Found at i:112126213 original size:29 final size:29
Alignment explanation
Indices: 112126181--112126311 Score: 212
Period size: 29 Copynumber: 4.5 Consensus size: 29
112126171 ATAGTGAATC
112126181 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
112126210 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
112126240 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
112126269 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
112126297 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
112126312 GTACAATTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.02
28 18 0.18
29 49 0.50
30 29 0.30
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:112126273 original size:59 final size:57
Alignment explanation
Indices: 112126181--112126311 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
112126171 ATAGTGAATC
*
112126181 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
112126240 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
112126297 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
112126312 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 50 0.71
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:112126332 original size:59 final size:57
Alignment explanation
Indices: 112126181--112126341 Score: 180
Period size: 59 Copynumber: 2.8 Consensus size: 57
112126171 ATAGTGAATC
* * * * *
112126181 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAA--TTCAACT
* * * *
112126240 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTC-AACT
*
112126297 CGCACACTTAGTGCTGTACAATTTTAAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTT-AAACCCGCACACTTAGTGC
112126342 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 5 0.05
59 66 0.71
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTCAACT
Found at i:112126332 original size:88 final size:87
Alignment explanation
Indices: 112126181--112126341 Score: 225
Period size: 88 Copynumber: 1.8 Consensus size: 87
112126171 ATAGTGAATC
* * * * * *
112126181 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACA
1 CGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
112126246 CTTAGTGCTATATATTTTCAGCT
65 CTTAGTGCTATATATTTTCAGCT
*
112126269 CGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAACCCGCAC
1 CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTT-AAACCCGCAC
112126333 ACTTAGTGC
64 ACTTAGTGC
112126342 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
86 2 0.03
87 26 0.41
88 36 0.56
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (87 bp):
CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGCT
Found at i:112128961 original size:37 final size:37
Alignment explanation
Indices: 112128911--112129025 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
112128901 ACCTTTAGCT
* * *
112128911 CGGACGTAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
112128948 CGGACATACTCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
112128985 CGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
112129022 CGGA
1 CGGA
112129026 ATATATTTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:112129235 original size:47 final size:47
Alignment explanation
Indices: 112129184--112129886 Score: 992
Period size: 47 Copynumber: 15.0 Consensus size: 47
112129174 TTTCACACTA
* * ** * * *
112129184 GCCATTCGGCTTTACCACATATATGCATTTTCATATTCACCATATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
112129231 GCCATTCGGCCTTATCACACATATGCACGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112129278 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112129325 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
112129372 GCCATTCAGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112129419 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112129466 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112129513 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112129560 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112129607 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCATATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112129654 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112129701 GCCATTCGGTCTTATCACACATATGCATGCTCACAATCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112129748 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112129795 GCCATTCGGTCTTATCACACATATGCATGCTCACAATCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
112129842 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
112129887 AAAATCCTAA
Statistics
Matches: 577, Mismatches: 79, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 577 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:112134315 original size:40 final size:40
Alignment explanation
Indices: 112133924--112134306 Score: 570
Period size: 40 Copynumber: 9.6 Consensus size: 40
112133914 CCAGCATGAT
** * * *
112133924 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* *
112133964 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * * *
112134004 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
*
112134044 TGCTCTTCGAGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* * * *
112134084 TTCTCTTCGGGACTTAGCCCGGATACATCACTAGTACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
112134124 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
* *
112134164 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
112134204 TGCTCTTCGGCG-TTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGG-GATTTAGCCCGGATATATCACTAGCACGAA
* *
112134244 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
112134284 TGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGGATTTAGCCCGGA
112134307 CGTTTCACTC
Statistics
Matches: 307, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.00
40 305 0.99
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
Found at i:112134315 original size:80 final size:80
Alignment explanation
Indices: 112133924--112134306 Score: 642
Period size: 80 Copynumber: 4.8 Consensus size: 80
112133914 CCAGCATGAT
* * * * * * *
112133924 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
112133989 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* * *
112134004 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGATTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
112134069 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* *
112134084 TTCTCTTCGGGACTTAGCCCGGATACATCACTAGTACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
112134149 TATCACTAGCACGAA
66 TATCACTAGCACGAA
112134164 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGCG-TTTAGCCCGGAT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG-GATTTAGCCCGGAT
112134228 ATATCACTAGCACGAA
65 ATATCACTAGCACGAA
112134244 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGA
112134307 CGTTTCACTC
Statistics
Matches: 284, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
79 1 0.00
80 282 0.99
81 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
TATCACTAGCACGAA
Found at i:112135624 original size:37 final size:37
Alignment explanation
Indices: 112135581--112135762 Score: 301
Period size: 37 Copynumber: 4.9 Consensus size: 37
112135571 GCTCGGACGT
* *
112135581 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
112135618 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
112135655 AATCTCCACACGTAGTCATCGGGTCTTACTCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
112135692 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
112135729 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
112135763 ATATATTTCC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 137 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:112135992 original size:47 final size:47
Alignment explanation
Indices: 112135921--112136621 Score: 992
Period size: 47 Copynumber: 15.0 Consensus size: 47
112135911 TTACACACTA
* * * ** * *
112135921 GCCATTCGGCTTTACCATATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
112135968 GCCATTTGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112136015 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112136062 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112136109 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112136156 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112136203 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112136250 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
112136297 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112136344 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112136391 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112136438 GCCATTCGGTCTTATCACACATATGCATGCTCACAATCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
112136485 GCCATTCGGCCTTAT--CATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
112136530 GCCATTCGGTCTTATCACACATATGCATGCTCACAATCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
112136577 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
112136622 AAAATCCTAA
Statistics
Matches: 577, Mismatches: 75, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 37 0.06
47 540 0.94
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:112140042 original size:17 final size:17
Alignment explanation
Indices: 112140022--112140082 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
112140012 TATTTGAAAT
112140022 TGAAATATAACATCAAA
1 TGAAATATAACATCAAA
* *
112140039 TGAAATTAAAATATCAAATGA
1 TGAAA-TATAACATC-AA--A
112140060 TGAAATATAACATCAAA
1 TGAAATATAACATCAAA
*
112140077 TAAAAT
1 TGAAAT
112140083 TGAAAACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 11 0.31
18 7 0.20
19 4 0.11
20 7 0.20
21 6 0.17
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.26
Consensus pattern (17 bp):
TGAAATATAACATCAAA
Found at i:112140073 original size:38 final size:36
Alignment explanation
Indices: 112140022--112140095 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 36
112140012 TATTTGAAAT
*
112140022 TGAAATATAACATCAAATGAAATTAAAATATCAAATGA
1 TGAAATATAACATCAAATAAAATTAAAA-A-CAAATGA
*
112140060 TGAAATATAACATCAAATAAAATTGAAAACAAATGA
1 TGAAATATAACATCAAATAAAATTAAAAACAAATGA
112140096 GGCTATATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 7 0.21
37 1 0.03
38 26 0.76
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (36 bp):
TGAAATATAACATCAAATAAAATTAAAAACAAATGA
Found at i:112148374 original size:20 final size:20
Alignment explanation
Indices: 112148349--112148388 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
112148339 TAACAGTTCA
112148349 ATTAGATTTTAAGTACCAAC
1 ATTAGATTTTAAGTACCAAC
*
112148369 ATTAGATTTTAAGTGCCAAC
1 ATTAGATTTTAAGTACCAAC
112148389 TTGAATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (20 bp):
ATTAGATTTTAAGTACCAAC
Found at i:112149119 original size:17 final size:17
Alignment explanation
Indices: 112149099--112149132 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
112149089 AGGTTTAGGT
112149099 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
112149116 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
112149133 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:112150117 original size:18 final size:19
Alignment explanation
Indices: 112150077--112150119 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
112150067 ATTATTAATC
*
112150077 AAATTTTTTTATGTATTTT
1 AAATTTTTATATGTATTTT
*
112150096 -AATTTTTATAT-TTTTTT
1 AAATTTTTATATGTATTTT
112150113 AAATTTT
1 AAATTTT
112150120 AATTTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
AAATTTTTATATGTATTTT
Found at i:112150685 original size:10 final size:10
Alignment explanation
Indices: 112150670--112150699 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
112150660 TCGGCTGTGG
*
112150670 GCTGTGCTTT
1 GCTGTGCCTT
112150680 GCTGTGCCTT
1 GCTGTGCCTT
112150690 GCTGTGCCTT
1 GCTGTGCCTT
112150700 ATCTCCTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.30, T:0.43
Consensus pattern (10 bp):
GCTGTGCCTT
Found at i:112157309 original size:31 final size:30
Alignment explanation
Indices: 112157270--112157343 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 30
112157260 AATAGAACAA
112157270 AAGAAAAAAAAGCTTGTTTAACAAAACGAG
1 AAGAAAAAAAAGCTTGTTTAACAAAACGAG
* * *
112157300 ATAGAAAAAAGAGTTTGTTTAACAAAATGAG
1 A-AGAAAAAAAAGCTTGTTTAACAAAACGAG
112157331 AA-AAAAAAAAGCT
1 AAGAAAAAAAAGCT
112157344 GTTAGAAATC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
29 9 0.24
30 2 0.05
31 27 0.71
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (30 bp):
AAGAAAAAAAAGCTTGTTTAACAAAACGAG
Found at i:112157552 original size:2 final size:2
Alignment explanation
Indices: 112157545--112157578 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
112157535 ATAGGAACTA
*
112157545 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112157579 TAATTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:112163159 original size:4 final size:4
Alignment explanation
Indices: 112163152--112163183 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
112163142 ATGATTTTTC
112163152 AATT AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
112163184 GAAGTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:112167350 original size:21 final size:21
Alignment explanation
Indices: 112167324--112167367 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
112167314 AGTATATTTA
112167324 AAGTTTACTTCGAGTTACACG
1 AAGTTTACTTCGAGTTACACG
112167345 AAGTTTACTTCGAGTTACACG
1 AAGTTTACTTCGAGTTACACG
112167366 AA
1 AA
112167368 CTTATTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (21 bp):
AAGTTTACTTCGAGTTACACG
Found at i:112169862 original size:47 final size:48
Alignment explanation
Indices: 112169793--112170011 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 48
112169783 AATGCTGATT
* *
112169793 CCATGTCTCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGTCAATG
* * *
112169840 CCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAG-CTAAT-
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGTC-AATG
* * * ** *
112169885 ACATGTCCTA-AGCAT-GTCTTACACTGGCTTACGTCTCGAAGCCAATG
1 CCATGTCCCAGA-CATGGTCTTACACTGGCTCATATCTCGAAGTCAATG
* * * *
112169932 -CATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCTC-AATGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAA-GTCAATG
*
112169978 CCATGTCCTAGACATGGTCTTACACTGGCTCATA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATA
112170012 ATAACCCATA
Statistics
Matches: 139, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.08
45 22 0.16
46 51 0.37
47 40 0.29
48 15 0.11
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAAGTCAATG
Found at i:112185352 original size:19 final size:19
Alignment explanation
Indices: 112185328--112185367 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
112185318 TAACACATAC
112185328 ATTAAAACTATCATAATCT
1 ATTAAAACTATCATAATCT
112185347 ATTAAAACTATCATAATCT
1 ATTAAAACTATCATAATCT
112185366 AT
1 AT
112185368 CTCTAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAACTATCATAATCT
Found at i:112185439 original size:19 final size:19
Alignment explanation
Indices: 112185424--112185460 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
112185414 TCTTAAATAT
112185424 TAAATCTAAAA-ATAAACAA
1 TAAAT-TAAAATATAAACAA
112185443 TAAATTAAAATATAAACA
1 TAAATTAAAATATAAACA
112185461 TACATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAATTAAAATATAAACAA
Found at i:112199753 original size:22 final size:26
Alignment explanation
Indices: 112199715--112199776 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 26
112199705 ATCTCAATTC
*
112199715 ATCAATCAATTCATACCAAAAC-T-TA
1 ATCAAT-AAATCATACCAAAACGTATA
*
112199740 A-CAA-AAATCATACCTAAACGTATA
1 ATCAATAAATCATACCAAAACGTATA
112199764 ATCAATAAATCAT
1 ATCAATAAATCAT
112199777 GTAATCTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 13 0.42
23 1 0.03
24 6 0.19
25 4 0.13
26 7 0.23
ACGTcount: A:0.52, C:0.21, G:0.02, T:0.26
Consensus pattern (26 bp):
ATCAATAAATCATACCAAAACGTATA
Found at i:112205823 original size:42 final size:42
Alignment explanation
Indices: 112205766--112205885 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 42
112205756 AGGGTTTTTG
*
112205766 AGATTACATGTAAGACCATATCTGGGATATGGCATCGATA-T
1 AGATTACATGTAAGACCATATCTGGGATATGGCATAGATACT
* * * *
112205807 GAGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATAGATACT
1 -AGA-TTACATGTAAGACCATATCTGGGATA-TGGCATAGATACT
112205851 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACATGTAAGACCATATCTGGGATATGGCAT
112205886 TAGTATGGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATATCTGGGATATGGCATAGATACT
Found at i:112220931 original size:28 final size:28
Alignment explanation
Indices: 112220893--112220960 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
112220883 TACTCTCGCA
* *
112220893 CACTTAAGGGTTCGCACAAGTAGGGGTAG
1 CACTT-AGGGTTCACACAAGTAAGGGTAG
* *
112220922 CACTTAGGGTTCACGCAAGTAAGGGTTG
1 CACTTAGGGTTCACACAAGTAAGGGTAG
*
112220950 CACCTAGGGTT
1 CACTTAGGGTT
112220961 TGCATGTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (28 bp):
CACTTAGGGTTCACACAAGTAAGGGTAG
Found at i:112221130 original size:35 final size:35
Alignment explanation
Indices: 112221086--112221165 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
112221076 TAGTTGATTT
* *
112221086 GCATAATTTGACTCGCATGTAATATTAATAGGCTC
1 GCATAATTTGACTCGCATATAATATTAACAGGCTC
*
112221121 GCATAATTTGACTCGCATATGATATTAACAGGCTC
1 GCATAATTTGACTCGCATATAATATTAACAGGCTC
*
112221156 ACATAATTTG
1 GCATAATTTG
112221166 GCCTGCATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (35 bp):
GCATAATTTGACTCGCATATAATATTAACAGGCTC
Found at i:112223952 original size:22 final size:22
Alignment explanation
Indices: 112223900--112223953 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
112223890 ACTGCCATGG
*
112223900 ATGTATTATGCCAATATAATTGA
1 ATGT-TTATGCCAATATAATCGA
* * * *
112223923 TTGATTATGCCAGTATGATCGA
1 ATGTTTATGCCAATATAATCGA
112223945 ATGTTTATG
1 ATGTTTATG
112223954 TGTTAAAAGA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (22 bp):
ATGTTTATGCCAATATAATCGA
Found at i:112224324 original size:13 final size:13
Alignment explanation
Indices: 112224306--112224333 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
112224296 GTAATGGGCA
112224306 TTGGACATTAAAT
1 TTGGACATTAAAT
112224319 TTGGACATTAAAT
1 TTGGACATTAAAT
112224332 TT
1 TT
112224334 TGGTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGGACATTAAAT
Found at i:112227918 original size:41 final size:41
Alignment explanation
Indices: 112227873--112227990 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
112227863 TGAAAGATAA
112227873 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
112227914 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
112227944 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
112227985 ATGTAG
1 ATGTAG
112227991 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:112227929 original size:71 final size:71
Alignment explanation
Indices: 112227841--112228004 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
112227831 GAGATGTATC
112227841 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
112227906 AGGACA
66 AGGACA
112227912 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
112227977 AGGACA
66 AGGACA
112227983 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
112228005 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:112235491 original size:41 final size:41
Alignment explanation
Indices: 112235446--112235563 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
112235436 TGAAAGATAA
112235446 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
112235487 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
112235517 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
112235558 ATGTAG
1 ATGTAG
112235564 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:112235502 original size:71 final size:71
Alignment explanation
Indices: 112235414--112235577 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
112235404 GAGATGTATC
112235414 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
112235479 AGGACA
66 AGGACA
112235485 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
112235550 AGGACA
66 AGGACA
112235556 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
112235578 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:112239534 original size:48 final size:46
Alignment explanation
Indices: 112239377--112239655 Score: 167
Period size: 48 Copynumber: 5.8 Consensus size: 46
112239367 TTTGGGTGAT
* * * *
112239377 ATGTGTGC-TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATT
1 ATGTGTGCGCAGTGTAAGACCATGT-TTGGACATGGCATC-GACAT-TG
* * * * ** *
112239425 ATGAGAGC-CAGTGCAAGATCATGTTTGGAACATGAAATC-AGCAATGTA
1 ATGTGTGCGCAGTGTAAGACCATGTTTGG-ACATGGCATCGA-C-AT-TG
* *
112239473 ATGAGAGC-CAGTGTAAGACCATGTCTTGGACATGGCATCGACATTG
1 ATGTGTGCGCAGTGTAAGACCATGT-TTGGACATGGCATCGACATTG
* * *
112239519 ATGTGTGCGCTAGTGTAAGACCATGTCTGGGACACGACATCGGCCACATT-
1 ATGTGTGCGC-AGTGTAAGACCATGT-TTGGACATGGCATC-G--ACATTG
* * * *
112239569 ATGAGAGC-CAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTG
1 ATGTGTGCGCAGTGTAAGACCATGTTT-GGACATGGCATCGACATTG
*
112239615 ACATGTGAGC-CAGTGTAAGACCATGTTTGGAACATGGCATC
1 --ATGTGTGCGCAGTGTAAGACCATGTTTGG-ACATGGCATC
112239656 AACAATTCAC
Statistics
Matches: 187, Mismatches: 29, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 7 0.04
47 11 0.06
48 148 0.79
49 7 0.04
50 6 0.03
51 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
ATGTGTGCGCAGTGTAAGACCATGTTTGGACATGGCATCGACATTG
Found at i:112239573 original size:96 final size:95
Alignment explanation
Indices: 112239386--112239648 Score: 275
Period size: 96 Copynumber: 2.7 Consensus size: 95
112239376 TATGTGTGCT
* * * * * * * *
112239386 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGC-CAGTGCAAGATCATGTT
1 AGTGTAAGACCATGTCTTGGACATGGCATC-GACAT-TGATGTGTGCGCAGTGTAAGACCATGTC
*
112239450 TGGAACATGAAATCAGCAATGTAATGAGAGCC
64 TGGAACACGAAATCAGCAATGTAATGAGAGCC
112239482 AGTGTAAGACCATGTCTTGGACATGGCATCGACATTGATGTGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTTGGACATGGCATCGACATTGATGTGTGCGC-AGTGTAAGACCATGTCT
* * *
112239547 GGGACACGACATCGGCCACAT-T-ATGAGAGCC
65 GGAACACGAAATCAG-CA-ATGTAATGAGAGCC
* * *
112239578 AGTGTAAGACCATGT-TTGGGACATGGCATCGGCCTTGACATGTGAGC-CAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTT-GGACATGGCATCGACATTG--ATGTGTGCGCAGTGTAAGACCATGT
*
112239641 TTGGAACA
63 CTGGAACA
112239649 TGGCATCAAC
Statistics
Matches: 143, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
94 7 0.05
95 7 0.05
96 116 0.81
97 4 0.03
98 9 0.06
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
AGTGTAAGACCATGTCTTGGACATGGCATCGACATTGATGTGTGCGCAGTGTAAGACCATGTCTG
GAACACGAAATCAGCAATGTAATGAGAGCC
Found at i:112239650 original size:144 final size:144
Alignment explanation
Indices: 112239373--112239655 Score: 408
Period size: 144 Copynumber: 2.0 Consensus size: 144
112239363 GACATTTGGG
* * * *
112239373 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACACGACATCGGCCACATTATGAGAGCCAGTG
*
112239438 CAAGATCATGTTTGGAACATGAAATCAGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTTGGA
66 CAAGACCATGTTTGGAACATGAAATCAGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTTGGA
112239503 CATGGCATCGACAT
131 CATGGCATCGACAT
*
112239517 TGATGTGTGCGCTAGTGTAAGACCATGTCTGGGACACGACATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACACGACATCGGCCACATTATGAGAGCCAGTG
* * ** * ** *
112239582 TAAGACCATGTTTGGGACATGGCATCGGCCTTG-ACATGTGAGCCAGTGTAAGACCATGT-TTGG
66 CAAGACCATGTTTGGAACATGAAATCAGCAATGTA-ATGAGAGCCAGTGTAAGACCATGTCTTGG
112239645 AACATGGCATC
130 -ACATGGCATC
112239656 AACAATTCAC
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
143 5 0.04
144 118 0.96
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (144 bp):
TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACACGACATCGGCCACATTATGAGAGCCAGTG
CAAGACCATGTTTGGAACATGAAATCAGCAATGTAATGAGAGCCAGTGTAAGACCATGTCTTGGA
CATGGCATCGACAT
Found at i:112243107 original size:42 final size:43
Alignment explanation
Indices: 112242998--112243146 Score: 112
Period size: 42 Copynumber: 3.5 Consensus size: 43
112242988 AGATCCCAGA
** * *
112242998 TATGGTCTTACATGGGAGCACATATCGATGCCGATAGCCCAAC
1 TATGGTCTTACATGAAATCACATATCGATGCCGATAGCCAAAC
* ** *
112243041 TATGGTCTTACACGATGTCTCATATCGATGCC-AT-GTCTCAAAC
1 TATGGTCTTACATGAAATCACATATCGATGCCGATAG-C-CAAAC
* * * *
112243084 -ATGGTCTTACATGAAATCACATATCAATTCC-ATACCCCAGA-
1 TATGGTCTTACATGAAATCACATATCGATGCCGATA-GCCAAAC
112243125 TATGGTCTTACACT-AAATCACA
1 TATGGTCTTACA-TGAAATCACA
112243147 CATAACCCTA
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 52 0.61
43 32 0.38
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
TATGGTCTTACATGAAATCACATATCGATGCCGATAGCCAAAC
Found at i:112244388 original size:42 final size:42
Alignment explanation
Indices: 112244341--112244491 Score: 160
Period size: 42 Copynumber: 3.6 Consensus size: 42
112244331 GGCTGTTACA
*
112244341 AAGACCATATCTGAGATATGGCTTC-AGTATGAGACTACGTGT
1 AAGACCATATCTGAGATATGGCATCGA-TATGAGACTACGTGT
* * * *
112244383 AAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTGC
1 AAGACCATATCTGAGATATGGCATCGATATGAGACTACGTGT
* * * * * * *
112244425 AAGACCATACCTGGGCTATTGGCAACGATACGAGATTACATGT
1 AAGACCATATCTGAGATA-TGGCATCGATATGAGACTACGTGT
*
112244468 AAGACTATATCTGAGATATGGCAT
1 AAGACCATATCTGAGATATGGCAT
112244492 TGGTACGGTA
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 56 0.64
43 32 0.36
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (42 bp):
AAGACCATATCTGAGATATGGCATCGATATGAGACTACGTGT
Found at i:112244472 original size:43 final size:42
Alignment explanation
Indices: 112244371--112244490 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
112244361 GCTTCAGTAT
* * * *
112244371 GAGACTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATACCTGGGATATGGCAACGATAC
* * *
112244413 AAGACTT-CGTGCAAGACCATACCTGGGCTATTGGCAACGATAC
1 GAGA-TTACGTGTAAGACCATACCTGGGATA-TGGCAACGATAC
* * * *
112244456 GAGATTACATGTAAGACTATATCTGAGATATGGCA
1 GAGATTACGTGTAAGACCATACCTGGGATATGGCA
112244491 TTGGTACGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATACCTGGGATATGGCAACGATAC
Found at i:112251961 original size:42 final size:42
Alignment explanation
Indices: 112251902--112252062 Score: 189
Period size: 42 Copynumber: 3.8 Consensus size: 42
112251892 ATTAGGGTTA
* *
112251902 ATGAGACTACGTGTAAGACCATATCTAGGATATGGCATCAAT
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGACATCGAT
* *
112251944 ATGAGACTACGTGTAAGACCATATTTGGGATATGACATCGAT
1 ATGAGACTACGTGTAAGACCATATCTAGGATATGACATCGAT
* * * * *
112251986 ATAAGACTTCGTATAAGACCATAGCT-GAGCTATTGACATCGAT
1 ATGAGACTACGTGTAAGACCATATCTAG-GATA-TGACATCGAT
* * *
112252029 ACGAGATTACATGTAAGACCATATCTAGGATATG
1 ATGAGACTACGTGTAAGACCATATCTAGGATATG
112252063 GCATTGGTAC
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 64 0.65
43 32 0.33
44 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTAGGATATGACATCGAT
Found at i:112260502 original size:13 final size:13
Alignment explanation
Indices: 112260484--112260532 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
112260474 ATTTTTGGTA
112260484 CCACACAGCCTGG
1 CCACACAGCCTGG
*
112260497 CCACACAGGCATGTG
1 CCACACA-GCCTG-G
112260512 TCCCACACAGCCTGG
1 --CCACACAGCCTGG
112260527 CCACAC
1 CCACAC
112260533 GGTCGTGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 13 0.43
14 4 0.13
15 2 0.07
16 4 0.13
17 7 0.23
ACGTcount: A:0.24, C:0.45, G:0.20, T:0.10
Consensus pattern (13 bp):
CCACACAGCCTGG
Found at i:112260627 original size:21 final size:21
Alignment explanation
Indices: 112260603--112260648 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
112260593 TCACACATGT
112260603 GTGTGCCACCTCCACATAGGC
1 GTGTGCCACCTCCACATAGGC
** * *
112260624 GTGTGTGACCTCCATATGGGC
1 GTGTGCCACCTCCACATAGGC
112260645 GTGT
1 GTGT
112260649 AGAGCCCTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.26
Consensus pattern (21 bp):
GTGTGCCACCTCCACATAGGC
Found at i:112269866 original size:17 final size:17
Alignment explanation
Indices: 112269844--112269878 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
112269834 AGTCCTTTTG
112269844 ACCAAATTAAGTGCCTA
1 ACCAAATTAAGTGCCTA
112269861 ACCAAATTAAGTGCCTA
1 ACCAAATTAAGTGCCTA
112269878 A
1 A
112269879 ACGTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (17 bp):
ACCAAATTAAGTGCCTA
Found at i:112271609 original size:27 final size:27
Alignment explanation
Indices: 112271591--112271722 Score: 194
Period size: 27 Copynumber: 4.9 Consensus size: 27
112271581 CTCTATTTGT
* *
112271591 AGAATTACCATTTTACCCTCTATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
112271618 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
112271645 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
112271672 AAAATTACCATTTTACCCTCAGA-TTAC
1 AGAATTACCATTTTACCCTC-GATTTAC
* *
112271699 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
112271723 GTGAAATTAC
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
26 2 0.02
27 93 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:112271784 original size:27 final size:27
Alignment explanation
Indices: 112271754--112271879 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
112271744 TGTAGGATAG
112271754 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
112271781 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
112271808 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
112271835 AATTATCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
112271862 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
112271880 GATTTACAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.03
27 79 0.92
28 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:112271795 original size:54 final size:54
Alignment explanation
Indices: 112271721--112271876 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
112271711 TTACCCTCGA
* * *
112271721 TTGTGAAATTACTGAAATACCCAT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCATAGTAGG-TAAAATTACCAAAATACCACTAGT
* * * ** * *
112271775 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCATAGTAGGTAAAATTACCAAAATACCACTAGT
* * **
112271829 TTGTGAAATTATCGAAATACCC-TCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCAT-AGTAGGTAAAATTACCAAAATACC
112271877 CCTGATTTAC
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 81 0.95
55 3 0.04
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCATAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:112271900 original size:54 final size:56
Alignment explanation
Indices: 112271754--112271905 Score: 172
Period size: 54 Copynumber: 2.8 Consensus size: 56
112271744 TGTAGGATAG
*
112271754 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACCAGAAATACCCTCTAATTTGTAA
* * * * *
112271808 AATTACCGAAATACCACTGGTTTGTGAAATTATC-GAAATACCCTC-AATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAGAAATACCCTCTAATTTGTAA
** *
112271862 AATTACCAAAATACCCCTGATTTACAAAACTA-CAGAAATACCCT
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAGAAATACCCT
112271906 TGACTTTCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.01
54 79 0.98
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (56 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAGAAATACCCTCTAATTTGTAA
Found at i:112271954 original size:27 final size:27
Alignment explanation
Indices: 112271860--112271967 Score: 101
Period size: 27 Copynumber: 3.9 Consensus size: 27
112271850 CTCAATTTGT
** * *
112271860 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* * *
112271887 AAAACTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
112271914 TAGAAATTATTGAAATACCATTGGTTTAC
1 -A-AAATTACTGAAATACCCTTGGTTTAC
112271943 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
112271968 GTAGATTTAC
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
27 40 0.62
28 8 0.12
29 17 0.26
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:112271977 original size:27 final size:27
Alignment explanation
Indices: 112271727--112271977 Score: 78
Period size: 27 Copynumber: 9.2 Consensus size: 27
112271717 TCGATTGTGA
* **
112271727 AATTACTGAAATACCCAT-GTAGGATAG
1 AATTACTGAAATACCCTTGGT-TTATAG
** * * * *
112271754 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTGAAATACCCTTGGTTTATAG
** * * * *
112271781 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTGAAATACCCTTGGTTTATAG
* *
112271808 AATTACCGAAATACCAC-TGGTTTGT-G
1 AATTACTGAAATACC-CTTGGTTTATAG
*** * *
112271834 AAATTA-TCGAAATACCCTCAATTTGTAA
1 -AATTACT-GAAATACCCTTGGTTTATAG
** * * * *
112271862 AATTACCAAAATACCCCTGATTTACAA
1 AATTACTGAAATACCCTTGGTTTATAG
* * * *
112271889 AACTACAGAAATACCCTTGACTTTCTAG
1 AATTACTGAAATACCCTTG-GTTTATAG
* * * *
112271917 AAATTATTGAAATACCATTGGTTTACAA
1 -AATTACTGAAATACCCTTGGTTTATAG
*
112271945 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACTGAAATACCCTTGGTTTATAG
*
112271972 ATTTAC
1 AATTAC
112271978 CAAAACACCC
Statistics
Matches: 171, Mismatches: 44, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.01
27 144 0.84
28 11 0.06
29 15 0.09
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGGTTTATAG
Found at i:112272085 original size:27 final size:27
Alignment explanation
Indices: 112272021--112272085 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
112272011 ACCCCGAATA
*
112272021 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
112272048 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
112272075 GGTAAAATGAC
1 GGTAAAATGAC
112272086 GAATATGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:112272738 original size:25 final size:25
Alignment explanation
Indices: 112272710--112272757 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
112272700 TTATAGTATG
* * *
112272710 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
112272735 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
112272758 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:112272816 original size:20 final size:20
Alignment explanation
Indices: 112272791--112272841 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
112272781 GGGATATGAT
112272791 ATGCACATGATATGTATAAA
1 ATGCACATGATATGTATAAA
*
112272811 ATGCACATGATATGTATGAA
1 ATGCACATGATATGTATAAA
112272831 ATGCACATGAT
1 ATGCACATGAT
112272842 GTATTCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:112272984 original size:25 final size:26
Alignment explanation
Indices: 112272890--112273020 Score: 180
Period size: 26 Copynumber: 5.2 Consensus size: 26
112272880 GAGGAAGTGC
**
112272890 AAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTTTGCCCCAGTTTATTG
* *
112272916 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTTTGCCCCAGTTTATTG
112272942 AAAAGGGCTTTTGCCCCAGTTTATTG
1 AAAAGGGCTTTTGCCCCAGTTTATTG
**
112272968 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATTG
112272993 AAAAGGGC-TTTGCCCCAG-TTATT-
1 AAAAGGGCTTTTGCCCCAGTTTATTG
112273016 AAAAG
1 AAAAG
112273021 AGTCTAGGCC
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.05
24 3 0.03
25 33 0.34
26 55 0.57
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATTG
Found at i:112273217 original size:42 final size:42
Alignment explanation
Indices: 112273158--112273245 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
112273148 TAGTCTCCCC
* ** *
112273158 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
112273200 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
112273242 AAAT
1 AAAT
112273246 AGGCCTATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:112273308 original size:31 final size:31
Alignment explanation
Indices: 112273273--112273382 Score: 184
Period size: 31 Copynumber: 3.5 Consensus size: 31
112273263 CGTTTATAGT
* *
112273273 AAAGGCTTTGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
112273304 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
112273335 AAAGGCTTCAGCCCAGTGATATGATTTAGGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
112273366 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
112273383 AACCTTTAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:112275078 original size:59 final size:59
Alignment explanation
Indices: 112275001--112275120 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
112274991 ATAAATCGCA
112275001 AACCCAACTTCTATTTATGGCTAAATTGAGTAATGCTATATCCACAACAATACTTTCTC
1 AACCCAACTTCTATTTATGGCTAAATTGAGTAATGCTATATCCACAACAATACTTTCTC
* *
112275060 AACCTAACTTCTATTTATGGCTAAATTGAGTAATGCTATATCCACAACCATACTTTCTC
1 AACCCAACTTCTATTTATGGCTAAATTGAGTAATGCTATATCCACAACAATACTTTCTC
112275119 AA
1 AA
112275121 AGACTTATTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (59 bp):
AACCCAACTTCTATTTATGGCTAAATTGAGTAATGCTATATCCACAACAATACTTTCTC
Found at i:112280503 original size:40 final size:40
Alignment explanation
Indices: 112280458--112280625 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
112280448 CGGAATATAA
112280458 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
112280498 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
112280538 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
112280578 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
112280618 CCGGATAT
1 CCGGATAT
112280626 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:112288529 original size:40 final size:40
Alignment explanation
Indices: 112288484--112288650 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
112288474 CGGAATATAA
112288484 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
112288524 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
112288564 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
112288604 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
112288643 CCGGATAT
1 CCGGATAT
112288651 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:112291604 original size:43 final size:43
Alignment explanation
Indices: 112291556--112291673 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
112291546 ATACAATGTC
* * * *
112291556 ATATCCCAAATATGGTCTTACATATTATCTCATATCGATGCCA
1 ATATCCCAGACATGGTCTTACATATAATCTCATAACGATGCCA
112291599 ATATCCCAGACATGGTCTTACATGA-AATCAT-ATAACGATGCCA
1 ATATCCCAGACATGGTCTTACAT-ATAATC-TCATAACGATGCCA
* *
112291642 ATGTCCCAGACATGGTCTTACATGTAATCTCA
1 ATATCCCAGACATGGTCTTACATATAATCTCA
112291674 CCTCGGTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 62 0.95
44 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.31
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACATATAATCTCATAACGATGCCA
Found at i:112293545 original size:61 final size:61
Alignment explanation
Indices: 112293450--112293570 Score: 242
Period size: 61 Copynumber: 2.0 Consensus size: 61
112293440 ATATAATTTA
112293450 AGCAAACATTGAGTTTCACATTTAAGTCTCTTCACATTCAACCTTAATACACACACCTAGC
1 AGCAAACATTGAGTTTCACATTTAAGTCTCTTCACATTCAACCTTAATACACACACCTAGC
112293511 AGCAAACATTGAGTTTCACATTTAAGTCTCTTCACATTCAACCTTAATACACACACCTAG
1 AGCAAACATTGAGTTTCACATTTAAGTCTCTTCACATTCAACCTTAATACACACACCTAG
112293571 GCACATGCTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (61 bp):
AGCAAACATTGAGTTTCACATTTAAGTCTCTTCACATTCAACCTTAATACACACACCTAGC
Found at i:112295785 original size:36 final size:36
Alignment explanation
Indices: 112295738--112295809 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
112295728 GTGAGAACAC
112295738 AATAGCTGATGGCTTTTTATAGCCATTCCATCCTTT
1 AATAGCTGATGGCTTTTTATAGCCATTCCATCCTTT
112295774 AATAGCTGATGGCTTTTTATAGCCATTCCATCCTTT
1 AATAGCTGATGGCTTTTTATAGCCATTCCATCCTTT
112295810 CTCTCTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (36 bp):
AATAGCTGATGGCTTTTTATAGCCATTCCATCCTTT
Found at i:112298831 original size:16 final size:16
Alignment explanation
Indices: 112298800--112298829 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
112298790 TCAAGTCTCT
112298800 TTTTTAAAAATATTTA
1 TTTTTAAAAATATTTA
112298816 TTTTT-AAAATATTT
1 TTTTTAAAAATATTT
112298830 TACTAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTAAAAATATTTA
Found at i:112299813 original size:172 final size:173
Alignment explanation
Indices: 112299526--112299873 Score: 619
Period size: 172 Copynumber: 2.0 Consensus size: 173
112299516 TTTTTAACTC
112299526 ATTTTTTTATGTGTTTCAGCGCATTTTTGATTAATATTGGTTTACATAATTGTATCATATTTGTT
1 ATTTTTTTATGTGTTTCAGCGCATTTTTGATTAATATTGGTTTACATAATTGTATCATATTTGTT
*
112299591 GATACGTGATTTTGATATTTTAAATTAATTTTTAATAATTTGTGTCTTAAAAATTTTTATTTTAT
66 GATACGTGATTTTAATATTTTAAATTAATTTTTAATAATTTGTGTCTTAAAAATTTTTATTTTAT
112299656 TTTTAATAATTTTAAAAATAAAATATAATAAATAAATTAAATT
131 TTTTAATAATTTTAAAAATAAAATATAATAAATAAATTAAATT
* *
112299699 ATTTTTTATGTGTGTTTCAGCGGA-TTTTGATTAAT-TTGGTTTACATAATTGTATCATATTTGT
1 ATTTTTT-TATGTGTTTCAGCGCATTTTTGATTAATATTGGTTTACATAATTGTATCATATTTGT
* * *
112299762 TGATGCGTGATTTTAATATTTTAAATTAATTTTTAATAATTTGTTTCTTAAATATTTTTATTTTA
65 TGATACGTGATTTTAATATTTTAAATTAATTTTTAATAATTTGTGTCTTAAAAATTTTTATTTTA
112299827 TTTTTAATAATTTTAAAAATAAAATATAATAAATAAATTAAATT
130 TTTTTAATAATTTTAAAAATAAAATATAATAAATAAATTAAATT
112299871 ATT
1 ATT
112299874 GATAAATATA
Statistics
Matches: 168, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
172 136 0.81
173 18 0.11
174 14 0.08
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (173 bp):
ATTTTTTTATGTGTTTCAGCGCATTTTTGATTAATATTGGTTTACATAATTGTATCATATTTGTT
GATACGTGATTTTAATATTTTAAATTAATTTTTAATAATTTGTGTCTTAAAAATTTTTATTTTAT
TTTTAATAATTTTAAAAATAAAATATAATAAATAAATTAAATT
Found at i:112301201 original size:24 final size:25
Alignment explanation
Indices: 112301173--112301221 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
112301163 CTTTTTTTAT
*
112301173 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
112301197 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
112301222 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:112301214 original size:25 final size:23
Alignment explanation
Indices: 112301185--112301249 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
112301175 AATAAAAAAC
*
112301185 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
112301210 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
112301231 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
112301250 AAAAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:112301248 original size:19 final size:20
Alignment explanation
Indices: 112301211--112301249 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
112301201 TCAAATACAT
112301211 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
112301231 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
112301250 AAAAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:112301486 original size:17 final size:17
Alignment explanation
Indices: 112301441--112301488 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
112301431 TACTAAAGTT
*
112301441 ATTTAAAATTAAAAATA
1 ATTTAATATTAAAAATA
*** *
112301458 AAAAAATTTTAAAAATA
1 ATTTAATATTAAAAATA
112301475 ATTTAATATTAAAA
1 ATTTAATATTAAAA
112301489 TCAGGCCGGG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAATATTAAAAATA
Found at i:112303661 original size:26 final size:27
Alignment explanation
Indices: 112303613--112303663 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
112303603 CTTCCTTTTG
112303613 ATTTTAAATGATATATAGAAAATGAAA
1 ATTTTAAATGATATATAGAAAATGAAA
*
112303640 ATTTTGAAATGCTATA-A-AAAATGA
1 ATTTT-AAATGATATATAGAAAATGA
112303664 TATGTCACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 6 0.27
28 9 0.41
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (27 bp):
ATTTTAAATGATATATAGAAAATGAAA
Found at i:112304220 original size:30 final size:31
Alignment explanation
Indices: 112304177--112304241 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 31
112304167 GCTTTCTTTC
*
112304177 TTTCCTCTTTTTTT-TTTTCCAAAATACAACT
1 TTTCCTCTTTTTTTCCTTT-CAAAATACAACT
112304208 TTTCCT-TTTTTTTCCTTTCAAAATACAACT
1 TTTCCTCTTTTTTTCCTTTCAAAATACAACT
112304238 TTTC
1 TTTC
112304242 ATTAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.22, C:0.23, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTCCTCTTTTTTTCCTTTCAAAATACAACT
Found at i:112306364 original size:46 final size:46
Alignment explanation
Indices: 112306314--112306486 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
112306304 TGGTTGAGCA
112306314 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
112306360 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
112306405 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
112306453 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
112306487 GGGGCAGGTT
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 56 0.52
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:112306470 original size:93 final size:93
Alignment explanation
Indices: 112306311--112306481 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
112306301 GGATGGTTGA
* *
112306311 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
*
112306376 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
112306404 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
112306468 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
112306482 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:112308799 original size:111 final size:111
Alignment explanation
Indices: 112308646--112308866 Score: 343
Period size: 111 Copynumber: 2.0 Consensus size: 111
112308636 GGTAAATTTC
**
112308646 TTTTTGAATAATTACTCCCATTAATAAAAGTCATTTTGAATTTAAGGCCAAAATAAAAAGATGGA
1 TTTTTGAATAATTACTCCCATTAATAAAAGTCATTTCAAATTTAAGGCCAAAATAAAAAGATGGA
*
112308711 CATATAATTGACATTCATTTTTACTTCAAGAAAAATGGTCACATAG
66 CATACAATTGACATTCATTTTTACTTCAAGAAAAATGGTCACATAG
* * * * * *
112308757 TTTTTGAATAATTGCTCCCCTTAATAAAAGTTATTTCAAATTTGAGGCCAAAATAAAAAGTTTGA
1 TTTTTGAATAATTACTCCCATTAATAAAAGTCATTTCAAATTTAAGGCCAAAATAAAAAGATGGA
* *
112308822 CATACAATTGACATTCATTTTTACTTTAAGGAAAATGGTCACATA
66 CATACAATTGACATTCATTTTTACTTCAAGAAAAATGGTCACATA
112308867 ATTTGCATAA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
111 99 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (111 bp):
TTTTTGAATAATTACTCCCATTAATAAAAGTCATTTCAAATTTAAGGCCAAAATAAAAAGATGGA
CATACAATTGACATTCATTTTTACTTCAAGAAAAATGGTCACATAG
Found at i:112309266 original size:17 final size:18
Alignment explanation
Indices: 112309227--112309267 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
112309217 TTAAAAAATC
* *
112309227 ATACAATTTTCATATCCA
1 ATACAATTATCATATCAA
112309245 A-ACAATTATCAT-TCAA
1 ATACAATTATCATATCAA
112309261 ATACAAT
1 ATACAAT
112309268 CATACAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 15 0.75
18 1 0.05
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
ATACAATTATCATATCAA
Found at i:112311698 original size:40 final size:40
Alignment explanation
Indices: 112311653--112311782 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
112311643 CGGAATACAA
112311653 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
112311693 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
112311733 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
112311773 CCGGATATAA
1 CCGGATATAA
112311783 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:112319678 original size:40 final size:40
Alignment explanation
Indices: 112319633--112319800 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
112319623 CGGAATACAA
112319633 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
112319673 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
112319713 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
112319753 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
112319793 CCGGATAT
1 CCGGATAT
112319801 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:112323393 original size:55 final size:55
Alignment explanation
Indices: 112323321--112323426 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
112323311 TTAAAATTTT
* * *
112323321 AAGTTAGTATAGGACACGGGTAGGTCACACGGGCGTGTGCCATAGCCATGTACCA
1 AAGTTAGTATAGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTACCA
* * *
112323376 AAGTTAGTATTGAACACGGGCAGGCCATACGGGCGTGTGCCATGGCCATGT
1 AAGTTAGTATAGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGT
112323427 TTAAAAGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (55 bp):
AAGTTAGTATAGAACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTACCA
Found at i:112323449 original size:55 final size:55
Alignment explanation
Indices: 112323334--112323438 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
112323324 TTAGTATAGG
* * * *
112323334 ACACGGGTAGGTCACACGGGCGTGTGCCATAGCCATGTACCAAAGTTAGTATTGA
1 ACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTACAAAAGTCAGTATTGA
* * **
112323389 ACACGGGCAGGCCATACGGGCGTGTGCCATGGCCATGTTTAAAAGTCAGT
1 ACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTACAAAAGTCAGT
112323439 GTTGCCCACG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (55 bp):
ACACGGGCAGGCCACACGGGCGTGTGCCATAGCCATGTACAAAAGTCAGTATTGA
Found at i:112329117 original size:37 final size:37
Alignment explanation
Indices: 112329070--112329148 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
112329060 ACCACTAACT
*
112329070 CCCACACCCTACTAAACCATCCACTACTTCCATCACC
1 CCCACACCCTACTAAACCATCCACTACCTCCATCACC
112329107 CCCACACCCTACTAAACCATCCACTACCTCCATCACC
1 CCCACACCCTACTAAACCATCCACTACCTCCATCACC
112329144 CCCAC
1 CCCAC
112329149 TAACTCCATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.16
Consensus pattern (37 bp):
CCCACACCCTACTAAACCATCCACTACCTCCATCACC
Found at i:112329150 original size:18 final size:18
Alignment explanation
Indices: 112329127--112329162 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
112329117 ACTAAACCAT
*
112329127 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
112329145 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
112329163 TACTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:112329558 original size:64 final size:63
Alignment explanation
Indices: 112329434--112329568 Score: 161
Period size: 63 Copynumber: 2.2 Consensus size: 63
112329424 CCCTTTTTTA
*
112329434 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTT
1 TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTGTT
* * * * *
112329498 TTTTTTTTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA-TTATT
1 TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATATTTGTT
*
112329558 TATTTGTTATT
1 TTTTTGTTATT
112329569 ATATATTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
60 13 0.21
61 13 0.21
62 4 0.06
63 20 0.32
64 12 0.19
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.64
Consensus pattern (63 bp):
TTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTGTT
Found at i:112329590 original size:19 final size:18
Alignment explanation
Indices: 112329549--112329593 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
112329539 TTCATATTAT
* *
112329549 TATATTATTTATTTGTTAT
1 TATA-TATTTATTTGTAAA
112329568 TATATATTTATTATGTAAA
1 TATATATTTATT-TGTAAA
112329587 TATATAT
1 TATATAT
112329594 ATTTTTAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TATATATTTATTTGTAAA
Found at i:112329592 original size:21 final size:19
Alignment explanation
Indices: 112329549--112329597 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
112329539 TTCATATTAT
*
112329549 TATAT-TATTTATTTGTTA
1 TATATATATTTATTTGTAA
112329567 T-TATATATTTATTATGTAAA
1 TATATATATTTATT-TGT-AA
112329587 TATATATATTT
1 TATATATATTT
112329598 TTAAGCAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 9 0.35
19 3 0.12
20 2 0.08
21 9 0.35
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TATATATATTTATTTGTAA
Found at i:112333301 original size:21 final size:21
Alignment explanation
Indices: 112333275--112333318 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
112333265 AGGGATCAAT
*
112333275 TGCTGGAGTCCCAGAAAAACA
1 TGCTGGAGTCACAGAAAAACA
*
112333296 TGCTGGAGTCACAGAACAACA
1 TGCTGGAGTCACAGAAAAACA
112333317 TG
1 TG
112333319 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (21 bp):
TGCTGGAGTCACAGAAAAACA
Found at i:112336655 original size:29 final size:29
Alignment explanation
Indices: 112336622--112336698 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
112336612 TGACGAGATC
* *
112336622 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGAGCTGGAAAAATAT
*
112336651 GGCACTAAGTGTGCAAGCTGGAAAAATAT
1 GGCACTAAGTGTGCGAGCTGGAAAAATAT
**
112336680 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
112336699 CGGAGGGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.34, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAT
Found at i:112344293 original size:29 final size:29
Alignment explanation
Indices: 112344260--112344337 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
112344250 GTGACGAGAT
* *
112344260 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
*
112344289 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAAAATA
* **
112344318 CGGCACTGGGTGTGCGAGCT
1 TGGCACTAAGTGTGCGAGCT
112344338 CGGAGGGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:112346607 original size:13 final size:12
Alignment explanation
Indices: 112346583--112346661 Score: 79
Period size: 13 Copynumber: 6.3 Consensus size: 12
112346573 TTCACTTTCA
*
112346583 AAAACAAGAAGAG
1 AAAA-AAGAAAAG
112346596 AAAAAAGAAAGAG
1 AAAAAAGAAA-AG
112346609 AAAAAAGGAAAAG
1 AAAAAA-GAAAAG
*
112346622 TAAAAAGAAAAG
1 AAAAAAGAAAAG
*
112346634 AAAAACAAAAAAG
1 AAAAA-AGAAAAG
*
112346647 -AGAAAGAAAAG
1 AAAAAAGAAAAG
112346658 AAAA
1 AAAA
112346662 GCAAAGGAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
11 6 0.11
12 20 0.36
13 25 0.45
14 4 0.07
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.01
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:112346638 original size:6 final size:6
Alignment explanation
Indices: 112346597--112346661 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
112346587 CAAGAAGAGA
* * *
112346597 AAAAAG AAAGAG AAAAAAG GAAAAG TAAAAAG -AAAAG AAAAACA AAAAAG
1 AAAAAG AAAAAG -AAAAAG AAAAAG -AAAAAG AAAAAG AAAAA-G AAAAAG
*
112346647 AGAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAA
112346662 GCAAAGGAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
5 9 0.20
6 22 0.48
7 15 0.33
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:112346672 original size:24 final size:24
Alignment explanation
Indices: 112346599--112346666 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
112346589 AGAAGAGAAA
* *
112346599 AAAGAAAGAGAAAAA-AGGAAAAGTAA
1 AAAGAAA-AGAAAAACA-AAAAAG-AG
112346625 AAAGAAAAGAAAAACAAAAAAGAG
1 AAAGAAAAGAAAAACAAAAAAGAG
*
112346649 AAAGAAAAGAAAAGCAAA
1 AAAGAAAAGAAAAACAAA
112346667 GGAGAGGCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 18 0.47
25 12 0.32
26 8 0.21
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.01
Consensus pattern (24 bp):
AAAGAAAAGAAAAACAAAAAAGAG
Found at i:112348312 original size:133 final size:135
Alignment explanation
Indices: 112347934--112348936 Score: 1386
Period size: 133 Copynumber: 7.5 Consensus size: 135
112347924 TATCCCATTA
* *
112347934 AGCAGGAGTGGAGTAGGCTAAACATACCAAATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * *
112347999 AATTTTGGCAAGTCTTATCTCCATGTATCAGCAAT-GAGCAAATTTCAGCCACTAGCCTTATCTT
66 AATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTT
112348063 CACTG
131 CACTG
112348068 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * *
112348133 AATTTTAGCAAGTCTTATCTCCATGTATAGGCAATGGAGCAAATTTCAGCCACCAGCCTTATCTT
66 AATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTT
112348198 CACTG
131 CACTG
* ** * * *
112348203 AGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTTGCTGAACAGGAGCGGAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * * * *
112348266 AATTTTGGTGAA-TCTTACCTCTATGTTTAGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCT
66 AATTTTGG-CAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCT
112348330 TCACTG
130 TCACTG
* *
112348336 AGCAGGAGTGGAGCAGGCTAAACATACCATATATTATCTTCACTGAGCAGGAGTGAAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
**
112348401 AATTTTGGCAAGTC--ATCTCCATGTATCGGCAATGGAATAGATTTCAGCCACCAGCCTTATCTT
66 AATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTT
112348464 CACTG
131 CACTG
* * * * *
112348469 AGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTCGCTGAGTAGGAGCGGAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * * *
112348532 AATTTTGGTGAA-TCTTATCTCTATGTATCGACAATGGAGCAGATTTTAGCCACCAGCCTTATCT
66 AATTTTGG-CAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCT
112348596 TCACTG
130 TCACTG
* * * * * *
112348602 AGCAGGAGTGGAGTAGGCT-AA-ATACTAGATCTTATCGTCGCTGAGCAGGAGCGGAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * * * *
112348665 GATTTTGGTGAA-TCTTATCTCTATGTATCGGCAATGGAGCAGATTTCTGCCACCATCCTTATCT
66 AATTTTGG-CAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCT
112348729 TCACTG
130 TCACTG
* *
112348735 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGTAGGAGTGAAGCAAATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* ** *
112348800 AATTTTGGCAAGTC--ATCTCCATGTATCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTT
66 AATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTT
112348863 CACTG
131 CACTG
* * * * * *
112348868 AGCAGGAGTGGAGTAGGCTAAACATACCAGATCTTATCTTTATTAAGCAGGAGTAAAGTAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
112348933 AATT
66 AATT
112348937 ACAGCAGATC
Statistics
Matches: 779, Mismatches: 79, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
131 45 0.06
132 4 0.01
133 483 0.62
134 107 0.14
135 140 0.18
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (135 bp):
AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
AATTTTGGCAAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTT
CACTG
Found at i:112348659 original size:399 final size:400
Alignment explanation
Indices: 112347934--112348936 Score: 1537
Period size: 399 Copynumber: 2.5 Consensus size: 400
112347924 TATCCCATTA
*
112347934 AGCAGGAGTGGAGTAGGCTAAACATACCAAATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAAATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * *
112347999 AATTTTGGCAAGTCTTATCTCCATGTATCAGCAATGAGCAA-ATTTCAGCCACTAGCCTTATCTT
66 AATTTTGGCAAGTC--ATCTCCATGTATCGGCAATG-GAAAGATTTCAGCCACCAGCCTTATCTT
*
112348063 CACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCA
128 CACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGCGAAGCA
*
112348128 GATCAAATTTTAGCAAGTCTTATCTCCATGTATAGGCAATGGAGCAAATTTCAGCCACCAGCCTT
193 GATCAAATTTTAGCAAGTCTTATCTCCATGTATAGACAATGGAGCAAATTTCAGCCACCAGCCTT
* *
112348193 ATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTTGCTGAACAGGAGCGGA
258 ATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCGTCGCTGAACAGGAGCGGA
*
112348258 GCAGATCAAATTTTGGTGAATCTTACCTCTATGTTTAGGCAATGGAGCAGATTTCAGCCACCAGC
323 GCAGATCAAATTTTGGTGAATCTTACCTCTATGTATAGGCAATGGAGCAGATTTCAGCCACCAGC
112348323 CTTATCTTCACTG
388 CTTATCTTCACTG
* *
112348336 AGCAGGAGTGGAGCAGGCTAAACATACCATATATTATCTTCACTGAGCAGGAGTGAAGCAGATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAAATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
112348401 AATTTTGGCAAGTCATCTCCATGTATCGGCAATGGAATAGATTTCAGCCACCAGCCTTATCTTCA
66 AATTTTGGCAAGTCATCTCCATGTATCGGCAATGGAA-AGATTTCAGCCACCAGCCTTATCTTCA
* * * *
112348466 CTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTTATCTTCGCTGAGTAGGAGCGGAGCAGA
130 CTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGA
* * * * * *
112348529 TCAAATTTTGGTGAA-TCTTATCTCTATGTATCGACAATGGAGCAGATTTTAGCCACCAGCCTTA
195 TCAAATTTTAG-CAAGTCTTATCTCCATGTATAGACAATGGAGCAAATTTCAGCCACCAGCCTTA
* *
112348593 TCTTCACTGAGCAGGAGTGGAGTAGGCTAAATACTAGATCTTATCGTCGCTGAGCAGGAGCGGAG
259 TCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCGTCGCTGAACAGGAGCGGAG
* * * * *
112348658 CAGATCAGATTTTGGTGAATCTTATCTCTATGTATCGGCAATGGAGCAGATTTCTGCCACCATCC
324 CAGATCAAATTTTGGTGAATCTTACCTCTATGTATAGGCAATGGAGCAGATTTCAGCCACCAGCC
112348723 TTATCTTCACTG
389 TTATCTTCACTG
* * *
112348735 AGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGTAGGAGTGAAGCAAATCA
1 AGCAGGAGTGGAGCAGGCTAAACATACCAAATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
* * ** *
112348800 AATTTTGGCAAGTCATCTCCATGTATCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCA
66 AATTTTGGCAAGTCATCTCCATGTATCGGCAATGGA-AAGATTTCAGCCACCAGCCTTATCTTCA
* * * * ** *
112348865 CTGAGCAGGAGTGGAGTAGGCTAAACATACCAGATCTTATCTTTATTAAGCAGGAGTAAAGTAGA
130 CTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGA
112348930 TCAAATT
195 TCAAATT
112348937 ACAGCAGATC
Statistics
Matches: 547, Mismatches: 48, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
399 363 0.66
400 26 0.05
401 82 0.15
402 76 0.14
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (400 bp):
AGCAGGAGTGGAGCAGGCTAAACATACCAAATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCA
AATTTTGGCAAGTCATCTCCATGTATCGGCAATGGAAAGATTTCAGCCACCAGCCTTATCTTCAC
TGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGAT
CAAATTTTAGCAAGTCTTATCTCCATGTATAGACAATGGAGCAAATTTCAGCCACCAGCCTTATC
TTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCGTCGCTGAACAGGAGCGGAGCA
GATCAAATTTTGGTGAATCTTACCTCTATGTATAGGCAATGGAGCAGATTTCAGCCACCAGCCTT
ATCTTCACTG
Found at i:112349190 original size:29 final size:28
Alignment explanation
Indices: 112349149--112349210 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
112349139 CCAAATTAAA
112349149 CACCCACTAAACCGA-CCACTAACTCCAT
1 CACCCACTAAACC-ATCCACTAACTCCAT
*
112349177 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCC-ACTAAACCATCCACTAACTCCAT
112349206 CACCC
1 CACCC
112349211 CCGCACCCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.32, C:0.50, G:0.02, T:0.16
Consensus pattern (28 bp):
CACCCACTAAACCATCCACTAACTCCAT
Found at i:112349219 original size:37 final size:37
Alignment explanation
Indices: 112349177--112349249 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
112349167 CTAACTCCAT
112349177 CACCCTACTAAACCATCCACTACCTCCATCACCCCCG
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCG
112349214 CACCCTACTAAACCATCCACTACCTCCATCACCCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCC
112349250 ACTAACTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.55, G:0.01, T:0.16
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCG
Found at i:112349253 original size:18 final size:18
Alignment explanation
Indices: 112349230--112349265 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
112349220 ACTAAACCAT
*
112349230 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
112349248 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
112349266 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Done.